Constrain the specific types of proteins returned. Either by structured domain or disorder content. Additionally domain centric Gene Ontology annotation (from dcGO ) is available to select the Superfamilies you might be interested in automatically.
Superfamily:
All superfamilies PDB ECOD CATH Globin-like alpha-helical ferredoxin GreA transcript cleavage protein, N-terminal domain Ribosomal protein L29 (L29p) Chaperone J-domain DNA polymerase III theta subunit-like Prefoldin HR1 repeat tRNA-binding arm Eukaryotic DNA topoisomerase I, dispensable insert domain C-terminal UvrC-binding domain of UvrB Epsilon subunit of F1F0-ATP synthase C-terminal domain Fe,Mn superoxide dismutase (SOD), N-terminal domain Cytochrome c Homeodomain-like Methylated DNA-protein cysteine methyltransferase, C-terminal domain ARID-like "Winged helix" DNA-binding domain C-terminal effector domain of the bipartite response regulators Ribosomal protein L11, C-terminal domain Ribosomal protein S18 Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 N-terminal Zn binding domain of HIV integrase RNA polymerase subunit RPB10 DNA helicase RuvA subunit, C-terminal domain UBA-like CRAL/TRIO N-terminal domain Elongation factor TFIIS domain 2 S13-like H2TH domain Double-stranded DNA-binding domain Putative DNA-binding domain Spectrin repeat Enzyme IIa from lactose specific PTS, IIa-lac Succinate dehydrogenase/fumarate reductase flavoprotein C-terminal domain Smac/diablo Tubulin chaperone cofactor A Ribosomal protein S20 Bacterial immunoglobulin/albumin-binding domains Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex Protozoan pheromone proteins Acyl-CoA binding protein Second domain of FERM Kix domain of CBP (creb binding protein) RAP domain-like VHP, Villin headpiece domain TAF(II)230 TBP-binding fragment S15/NS1 RNA-binding domain Cysteine alpha-hairpin motif T4 endonuclease V Fertilization protein PGBD-like HMG-box Histone-fold HSC20 (HSCB), C-terminal oligomerisation domain Diol dehydratase, gamma subunit Methane monooxygenase hydrolase, gamma subunit Mitochondrial import receptor subunit Tom20 Apolipoprotein Aspartate receptor, ligand-binding domain Cytochromes Hemerythrin-like TMV-like viral coat proteins Acyl-CoA dehydrogenase C-terminal domain-like FKBP12-rapamycin-binding domain of FKBP-rapamycin-associated protein (FRAP) Proteasome activator alpha-catenin/vinculin-like Histidine-containing phosphotransfer domain, HPT domain Bacterial GAP domain Ferritin-like 4-helical cytokines Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases ACP-like Colicin E immunity proteins Retrovirus capsid dimerization domain-like Domain of the SRP/SRP receptor G-proteins Bromodomain ROP protein Homodimeric domain of signal transducing histidine kinase Dimerization-anchoring domain of cAMP-dependent PK regulatory subunit Transcription factor IIA (TFIIA), alpha-helical domain Ectatomin subunits SinR repressor dimerisation domain-like lambda repressor-like DNA-binding domains Signal peptide-binding domain A DNA-binding domain in eukaryotic transcription factors HLH, helix-loop-helix DNA-binding domain EF-hand Insect pheromone/odorant-binding proteins Cloroperoxidase Calponin-homology domain, CH-domain Domain of poly(ADP-ribose) polymerase SWIB/MDM2 domain Ribbon-helix-helix GST C-terminal domain-like Methionine synthase domain Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain STAT t-snare proteins N-terminal domain of cbl (N-cbl) Transferrin receptor-like dimerisation domain Conserved domain common to transcription factors TFIIS, elongin A, CRSP70 C-terminal domain of B transposition protein Anaphylotoxins (complement system) Cytochrome c oxidase subunit h Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin p53 tetramerization domain Domain of early E2A DNA-binding protein, ADDBP IHF-like DNA-binding proteins CO dehydrogenase ISP C-domain like Protein HNS-dependent expression A; HdeA Chemotaxis receptor methyltransferase CheR, N-terminal domain PAH2 domain SAM/Pointed domain RuvA domain 2-like C-terminal domain of RNA polymerase alpha subunit Rad51 N-terminal domain-like Barrier-to-autointegration factor, BAF DNA polymerase beta, N-terminal domain-like 5' to 3' exonuclease, C-terminal subdomain HRDC-like lambda integrase-like, N-terminal domain Enzyme I of the PEP:sugar phosphotransferase system HPr-binding (sub)domain Retroviral matrix proteins Hepatitis B viral capsid (hbcag) Apolipophorin-III Saposin Bacteriocin AS-48 Annexin Transducin (alpha subunit), insertion domain Wiscott-Aldrich syndrome protein, WASP, C-terminal domain C-terminal domain of alpha and beta subunits of F1 ATP synthase Ypt/Rab-GAP domain of gyp1p N-terminal domain of the delta subunit of the F1F0-ATP synthase ERP29 C domain-like Functional domain of the splicing factor Prp18 Retrovirus capsid protein, N-terminal core domain Cyclin-like Ribosomal protein S7 Iron-dependent repressor protein, dimerization domain DEATH domain GntR ligand-binding domain-like NusB-like post-AAA+ oligomerization domain-like N-terminal domain of DnaB helicase FliG Guanido kinase N-terminal domain Scaffolding protein gpD of bacteriophage procapsid Hemocyanin, N-terminal domain Di-copper centre-containing domain DBL homology domain (DH-domain) LigA subunit of an aromatic-ring-opening dioxygenase LigAB Methyl-coenzyme M reductase alpha and beta chain C-terminal domain Transcription factor STAT-4 N-domain Regulator of G-protein signaling, RGS Carbamoyl phosphate synthetase, large subunit connection domain Heme-dependent peroxidases Ribosomal protein L19 (L19e) Influenza virus matrix protein M1 DNA-glycosylase An anticodon-binding domain of class I aminoacyl-tRNA synthetases R1 subunit of ribonucleotide reductase, N-terminal domain Cryptochrome/photolyase FAD-binding domain 6-phosphogluconate dehydrogenase C-terminal domain-like Uteroglobin-like Six-hairpin glycosidases Seven-hairpin glycosidases Chondroitin AC/alginate lyase Terpenoid cyclases/Protein prenyltransferases Citrate synthase Cytochrome P450 TrpR-like Ribosomal protein L7/12, oligomerisation (N-terminal) domain Class II MHC-associated invariant chain ectoplasmic trimerization domain Aldehyde ferredoxin oxidoreductase, C-terminal domains Acid phosphatase/Vanadium-dependent haloperoxidase DNA repair protein MutS, domain III Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain A virus capsid protein alpha-helical domain GTPase activation domain, GAP Ras GEF ARM repeat Ankyrin repeat Sec7 domain Lipovitellin-phosvitin complex, superhelical domain Bacterial muramidases Protein prenylyltransferase 14-3-3 protein TPR-like ENTH/VHS domain Cytochrome c oxidase subunit E Lipoxigenase gene 59 helicase assembly protein Tetracyclin repressor-like, C-terminal domain Nuclear receptor ligand-binding domain Phospholipase C/P1 nuclease Serum albumin-like L-aspartase-like Terpenoid synthases GroEL equatorial domain-like Chorismate mutase II Peridinin-chlorophyll protein Heme oxygenase-like Phospholipase A2, PLA2 Fungal elicitin Tetraspanin FinO-like Ribosomal protein L39e Methanol dehydrogenase subunit Transducin (heterotrimeric G protein), gamma chain Fe-only hydrogenase smaller subunit Moesin tail domain Nuclear receptor coactivator Src-1 Proteinase A inhibitor IA3 Epsilon subunit of mitochondrial F1F0-ATP synthase Multiheme cytochromes Immunoglobulin Fibronectin type III PKD domain beta-Galactosidase/glucuronidase domain Transglutaminase, two C-terminal domains Cadherin-like Actinoxanthin-like Cu,Zn superoxide dismutase-like CBD9-like Clathrin adaptor appendage domain PapD-like Purple acid phosphatase, N-terminal domain Superoxide reductase-like Invasin/intimin cell-adhesion fragments Diphtheria toxin, C-terminal domain Carbohydrate-binding domain Bacterial adhesins Alpha-macroglobulin receptor domain p53-like transcription factors Cytochrome f, large domain Second domain of Mu2 adaptin subunit (ap50) of ap2 adaptor Starch-binding domain-like Carboxypeptidase regulatory domain-like VHL Transthyretin (synonym: prealbumin) Cna protein B-type domain Aromatic compound dioxygenase HSP40/DnaJ peptide-binding domain alpha-Amylase inhibitor tendamistat Cupredoxins C2 domain (Calcium/lipid-binding domain, CaLB) Periplasmic chaperone C-domain PHL pollen allergen Rab geranylgeranyltransferase alpha-subunit, insert domain TRAF domain-like Neurophysin II gamma-Crystallin-like Lipase/lipooxygenase domain (PLAT/LH2 domain) PHM/PNGase F Group II dsDNA viruses VP Calpain large subunit, middle domain (domain III) HSP20-like chaperones Ecotin, trypsin inhibitor PEBP-like Galactose-binding domain-like Viral protein domain ENV polyprotein, receptor-binding domain Virus attachment protein globular domain TNF-like Spermadhesin, CUB domain Hyaluronate lyase-like, C-terminal domain Osmotin, thaumatin-like protein SMAD/FHA domain Soluble secreted chemokine inhibitor, VCCI Baculovirus p35 protein Concanavalin A-like lectins/glucanases Amine oxidase catalytic domain EV matrix protein gp9 ISP domain C-terminal domain of transcriptional repressors SH3-domain Myosin S1 fragment, N-terminal domain Electron transport accessory proteins Translation proteins SH3-like domain Cell growth inhibitor/plasmid maintenance toxic component DNA-binding domain of retroviral integrase GroES-like SacY-like RNA-binding domain PDZ domain-like N-terminal domains of the minor coat protein g3p Sm-like ribonucleoproteins Ribosomal protein L14 Staphylococcal nuclease Bacterial enterotoxins TIMP-like Nucleic acid-binding proteins Inorganic pyrophosphatase MOP-like CheW-like PRC-barrel domain Cytokine Ricin B-like lectins Agglutinin STI-like Actin-crosslinking proteins FucI/AraA C-terminal domain-like Translation proteins EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain FMN-binding split barrel FMT C-terminal domain-like Trypsin-like serine proteases mu transposase, C-terminal domain N-terminal domain of alpha and beta subunits of F1 ATP synthase Alanine racemase C-terminal domain-like Acid proteases ValRS/IleRS/LeuRS editing domain Barwin-like endoglucanases ADC-like Ribosomal protein L25-like Core binding factor beta, CBF PH domain-like Transcription factor IIA (TFIIA), beta-barrel domain Herpes virus serine proteinase, assemblin PK beta-barrel domain-like XRCC4, N-terminal domain Lipocalins Avidin/streptavidin beta-Barrel protease inhibitors D-aminopeptidase, middle and C-terminal domains Cyclophilin-like Oncogene products Mannose 6-phosphate receptor domain Rap30/74 interaction domains Hemopexin-like domain Tachylectin-2 Sialidases Soluble quinoprotein glucose dehydrogenase Thermostable phytase (3-phytase) TolB, C-terminal domain Galactose oxidase, central domain YVTN repeat-like/Quinoprotein amine dehydrogenase Nitrous oxide reductase, N-terminal domain WD40 repeat-like RCC1/BLIP-II Clathrin heavy-chain terminal domain Peptidase/esterase 'gauge' domain Quinoprotein alcohol dehydrogenase-like C-terminal (heme d1) domain of cytochrome cd1-nitrite reductase Glycosyl hydrolase domain WW domain Carbohydrate binding domain Head domain of nucleotide exchange factor GrpE Carbonic anhydrase Bacteriochlorophyll A protein Outer surface protein Vitelline membrane outer protein-I (VMO-I) delta-Endotoxin (insectocide), middle domain Mannose-binding lectins alpha-D-mannose-specific plant lectins beta-Roll Pectin lyase-like Insect cysteine-rich antifreeze protein Trimeric LpxA-like enzymes An insect antifreeze protein RmlC-like cupins Clavaminate synthase-like cAMP-binding domain-like Regulatory protein AraC TRAP-like Fibre shaft of virus attachment proteins Single hybrid motif Rudiment single hybrid motif Duplicated hybrid motif AFP III-like domain Head decoration protein D (gpD, major capsid protein D) Urease, beta-subunit dUTPase-like Tlp20, baculovirus telokin-like protein Hedgehog/intein (Hint) domain LexA/Signal peptidase Mss4-like Cyanovirin-N Head-binding domain of phage P22 tailspike protein E2 regulatory, transactivation domain Composite domain of metallo-dependent hydrolases Epsilon subunit of F1F0-ATP synthase N-terminal domain Triosephosphate isomerase (TIM) Ribulose-phoshate binding barrel Thiamin phosphate synthase FMN-linked oxidoreductases Inosine monophosphate dehydrogenase (IMPDH) PLP-binding barrel NAD(P)-linked oxidoreductase (Trans)glycosidases Metallo-dependent hydrolases Aldolase Enolase C-terminal domain-like Phosphoenolpyruvate/pyruvate domain Malate synthase G RuBisCo, C-terminal domain Xylose isomerase-like Bacterial luciferase-like Nicotinate/Quinolinate PRTase C-terminal domain-like PLC-like phosphodiesterases Cobalamin (vitamin B12)-dependent enzymes tRNA-guanine transglycosylase Dihydropteroate synthetase-like UROD/MetE-like FAD-linked oxidoreductase NAD(P)-binding Rossmann-fold domains FAD/NAD(P)-binding domain Nucleotide-binding domain MurCD N-terminal domain Glycosyl hydrolases family 6, cellulases PFL-like glycyl radical enzymes Phosphohistidine domain LeuD/IlvD-like Carbamoyl phosphate synthetase, small subunit N-terminal domain PA domain GroEL apical domain-like Barstar-related Ribosomal protein L32e RNI-like L domain-like Outer arm dynein light chain 1 Ribosomal proteins L15p and L18e CRAL/TRIO domain SpoIIaa-like ClpP/crotonase BRCT domain Lumazine synthase Caspase-like Uracil-DNA glycosylase-like FabD/lysophospholipase-like Initiation factor IF2/eIF5b, domain 3 Ribosomal protein L13 Ribosomal protein L4 CheY-like Toll/Interleukin receptor TIR domain Hypothetical protein MTH538 Succinyl-CoA synthetase domains Flavoproteins Cobalamin (vitamin B12)-binding domain N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE) SGNH hydrolase Beta-D-glucan exohydrolase, C-terminal domain Formate/glycerate dehydrogenase catalytic domain-like Type II 3-dehydroquinate dehydratase N-(deoxy)ribosyltransferase-like Ribosomal protein S2 Class I glutamine amidotransferase-like Methylglyoxal synthase-like Ferredoxin reductase-like, C-terminal NADP-linked domain Nucleotidylyl transferase Adenine nucleotide alpha hydrolases-like UDP-glucose/GDP-mannose dehydrogenase C-terminal domain Nucleoside phosphorylase/phosphoribosyltransferase catalytic domain Cryptochrome/photolyase, N-terminal domain PreATP-grasp domain DHS-like NAD/FAD-binding domain Tubulin nucleotide-binding domain-like Isochorismatase-like hydrolases Homo-oligomeric flavin-containing Cys decarboxylases, HFCD Thiamin diphosphate-binding fold (THDP-binding) P-loop containing nucleoside triphosphate hydrolases PTS IIb component Nicotinate mononucleotide:5,6-dimethylbenzimidazole phosphoribosyltransferase (CobT) Methylesterase CheB, C-terminal domain Subtilisin-like Arginase/deacetylase CoA-dependent acyltransferases Phosphotyrosine protein phosphatases I PTS system IIB component-like (Phosphotyrosine protein) phosphatases II Rhodanese/Cell cycle control phosphatase Thioredoxin-like RNA 3'-terminal phosphate cyclase, RPTC, insert domain TK C-terminal domain-like PK C-terminal domain-like ATP synthase (F1-ATPase), gamma subunit Macro domain-like Class II aaRS ABD-related TolB, N-terminal domain B12-dependent dehydatase associated subunit ITPase-like Restriction endonuclease-like tRNA-intron endonuclease catalytic domain-like Eukaryotic RPB5 N-terminal domain Resolvase-like beta-carbonic anhydrase, cab PTS system fructose IIA component-like Actin-like ATPase domain Creatinase/prolidase N-terminal domain Ribonuclease H-like Translational machinery components Nitrogenase accessory factor-like DNA repair protein MutS, domain II Methylated DNA-protein cysteine methyltransferase domain HybD-like Purine and uridine phosphorylases Peptidyl-tRNA hydrolase-like Pyrrolidone carboxyl peptidase (pyroglutamate aminopeptidase) Zn-dependent exopeptidases LigB-like Molybdenum cofactor biosynthesis proteins Aminoacid dehydrogenase-like, N-terminal domain MurD-like peptide ligases, peptide-binding domain Phosphoglycerate mutase-like PRTase-like vWA-like Pyruvate-ferredoxin oxidoreductase, PFOR, domain III Formyltransferase S-adenosyl-L-methionine-dependent methyltransferases PLP-dependent transferases Nucleotide-diphospho-sugar transferases alpha/beta-Hydrolases Nucleoside hydrolase Dihydrofolate reductase-like Ribokinase-like MurD-like peptide ligases, catalytic domain Carbamate kinase-like AraD/HMP-PK domain-like Alkaline phosphatase-like Isocitrate/Isopropylmalate dehydrogenase-like Aspartate/ornithine carbamoyltransferase Aspartate/glutamate racemase Tryptophan synthase beta subunit-like PLP-dependent enzymes SIS domain Formate dehydrogenase/DMSO reductase, domains 1-3 ALDH-like Aconitase iron-sulfur domain Phosphoglucomutase, first 3 domains FucI/AraA N-terminal and middle domains Phosphoglycerate kinase UDP-Glycosyltransferase/glycogen phosphorylase Glutaminase/Asparaginase Phosphofructokinase Tetrapyrrole methylase PEP carboxykinase-like Chelatase "Helical backbone" metal receptor Periplasmic binding protein-like I Periplasmic binding protein-like II Thiolase-like Fe-only hydrogenase Cytidine deaminase-like Microbial ribonucleases Lysozyme-like Cysteine proteinases His-Me finger endonucleases RNase A-like Prion-like LysM domain Urease, gamma-subunit Interleukin 8-like chemokines Chromo domain-like DNA-binding domain Penicillin-binding protein 2x (pbp-2x), c-terminal domain Ribosomal proteins S24e, L23 and L15e HIT-like Ribosomal protein S5 domain 2-like Ubiquitin-like CAD & PB1 domains MoaD/ThiS 2Fe-2S ferredoxin-like Staphylokinase/streptokinase Superantigen toxins, C-terminal domain Immunoglobulin-binding domains Translation initiation factor IF3, N-terminal domain Glutamine synthetase, N-terminal domain FAD-linked reductases, C-terminal domain Cystatin/monellin Amine oxidase N-terminal region DsbC/DsbG N-terminal domain-like NTF2-like Uracil-DNA glycosylase inhibitor protein ssDNA-binding transcriptional regulator domain MHC antigen-recognition domain UBC-like Diaminopimelate epimerase-like GFP-like Tubby C-terminal domain-like Pili subunits Mitochondrial glycoprotein MAM33-like FKBP-like Colicin E3 immunity protein Chitinase insertion domain Ribosomal protein S16 Ribosomal protein S19 Ribosomal protein L31e Allophycocyanin linker chain (domain) Cdc48 domain 2-like Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase SecB-like DNA-binding domain of Mlu1-box binding protein MBP1 Heme-binding protein A (HasA) Chalcone isomerase CBS-domain pair Thioesterase/thiol ester dehydrase-isomerase DLC CI-2 family of serine protease inhibitors CO dehydrogenase molybdoprotein N-domain-like Nicotinate/Quinolinate PRTase N-terminal domain-like Pyrimidine nucleoside phosphorylase C-terminal domain Ribosomal protein L16p/L10e Molybdopterin synthase subunit MoaE POZ domain Elongation factor Ts (EF-Ts), dimerisation domain Fe,Mn superoxide dismutase (SOD), C-terminal domain ClpS-like Ribosomal L11/L12e N-terminal domain RecA protein, C-terminal domain Anti-lipopolysaccharide factor Signal recognition particle alu RNA binding heterodimer, SRP9/14 dsRNA-binding domain-like Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain YcfA/nrd intein domain Eukaryotic type KH-domain (KH-domain type I) Alpha-lytic protease prodomain GMP synthetase C-terminal dimerisation domain Prokaryotic type KH domain (KH-domain type II) Ribosomal protein S3 C-terminal domain Enolase N-terminal domain-like Ribosomal protein L22 GroEL-intermediate domain like DNA damage-inducible protein DinI 4Fe-4S ferredoxins Aspartate carbamoyltransferase, Regulatory-chain, N-terminal domain Protease propeptides/inhibitors Dimeric alpha+beta barrel GlnB-like Nucleoside diphosphate kinase, NDK RNA-binding domain, RBD Viral DNA-binding domain RuBisCO, large subunit, small (N-terminal) domain Acylphosphatase/BLUF domain-like EF-G C-terminal domain-like eEF-1beta-like Anticodon-binding domain of PheRS Ribosomal protein S6 Ribosomal protein S10 PAP/Archaeal CCA-adding enzyme, C-terminal domain HMA, heavy metal-associated domain ACT-like Bacterial exopeptidase dimerisation domain NAD-binding domain of HMG-CoA reductase Molybdenum cofactor biosynthesis protein C, MoaC TRADD, N-terminal domain Probable ACP-binding domain of malonyl-CoA ACP transacylase CheY-binding domain of CheA Killer toxin KP6 alpha-subunit GHMP Kinase, C-terminal domain Translational regulator protein regA Peptide methionine sulfoxide reductase Nucleotide cyclase 6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase, HPPK Methyl-coenzyme M reductase subunits FAD-linked oxidases, C-terminal domain Formylmethanofuran:tetrahydromethanopterin formyltransferase Formiminotransferase domain of formiminotransferase-cyclodeaminase. Pseudouridine synthase Nitrite/Sulfite reductase N-terminal domain-like Ribosomal protein L30p/L7e Probable bacterial effector-binding domain LigT-like Pepsin inhibitor-3 CYTH-like phosphatases eIF1-like Hedgehog/DD-peptidase Alpha-L RNA-binding motif ThrRS/AlaRS common domain Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain Ribosome recycling factor, RRF Translation initiation factor IF3, C-terminal domain EPT/RTPC-like Yeast killer toxins Cell division protein MinE topological specificity domain Cyanase C-terminal domain RuBisCO, small subunit PCD-like C-terminal domain of arginine repressor RBP11-like subunits of RNA polymerase GAD domain-like tRNA-intron endonuclease N-terminal domain-like DNA repair protein MutS, domain I GYF domain RL5-like RPB5-like RNA polymerase subunit YjgF-like Tubulin C-terminal domain-like L30e-like PurM N-terminal domain-like Tautomerase/MIF Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain Copper amine oxidase, domain N Frataxin/Nqo15-like Bactericidal permeability-increasing protein, BPI Subtilisin inhibitor RNA bacteriophage capsid protein eIF4e-like FAD/NAD-linked reductases, dimerisation (C-terminal) domain CO dehydrogenase flavoprotein C-terminal domain-like SRF-like Origin of replication-binding domain, RBD-like FMN-dependent nitroreductase-like N-terminal domain of eukaryotic peptide chain release factor subunit 1, ERF1 Metalloproteases ("zincins"), catalytic domain beta-N-acetylhexosaminidase-like domain SH2 domain HPr-like Glucose permease domain IIB Homing endonucleases Tetrahydrobiopterin biosynthesis enzymes-like Cell cycle regulatory proteins beta-lactamase-inhibitor protein, BLIP Ribosomal protein L9 C-domain L9 N-domain-like Ribonuclease PH domain 2-like Regulatory factor Nef CytB endotoxin-like Class II aaRS and biotin synthetases Subdomain of clathrin and coatomer appendage domain SCP-like Mog1p/PsbP-like Acyl-CoA N-acyltransferases (Nat) Actin depolymerizing proteins Profilin (actin-binding protein) GAF domain-like PYP-like sensor domain (PAS domain) PR-1-like Phoshotransferase/anion transport protein Nudix 5'-nucleotidase (syn. UDP-sugar hydrolase), C-terminal domain YrdC/RibB YbaK/ProRS associated domain Thymidylate synthase/dCMP hydroxymethylase N-acetylmuramoyl-L-alanine amidase-like Cytochrome b5-like heme/steroid binding domain DNA topoisomerase I domain ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase Sporulation response regulatory protein Spo0B Ribonuclease Rh-like Ornithine decarboxylase C-terminal domain Pentein Creatinase/aminopeptidase Glutamine synthetase/guanido kinase TATA-box binding protein-like Phosphoglucomutase, C-terminal domain Bet v1-like S-adenosylmethionine synthetase DNA clamp Molybdenum cofactor-binding domain Nitrite and sulphite reductase 4Fe-4S domain-like The spindle assembly checkpoint protein mad2 Phospholipase D/nuclease Monooxygenase (hydroxylase) regulatory protein PheT/TilS domain PurM C-terminal domain-like Ribosomal protein S8 Ribosomal protein L6 Glutathione synthetase ATP-binding domain-like DNA ligase/mRNA capping enzyme, catalytic domain SAICAR synthase-like Protein kinase-like (PK-like) FAD-binding/transporter-associated domain-like Uridine diphospho-N-Acetylenolpyruvylglucosamine reductase, MurB, C-terminal domain Methenyltetrahydromethanopterin cyclohydrolase Hect, E3 ligase catalytic domain Nitrile hydratase alpha chain 4'-phosphopantetheinyl transferase DNase I-like Aldehyde ferredoxin oxidoreductase, N-terminal domain N-terminal nucleophile aminohydrolases (Ntn hydrolases) DmpA/ArgJ-like Pyruvoyl-dependent histidine and arginine decarboxylases S-adenosylmethionine decarboxylase Metallo-hydrolase/oxidoreductase Metallo-dependent phosphatases Carbon-nitrogen hydrolase ADC synthase LDH C-terminal domain-like DNA breaking-rejoining enzymes SMAD MH1 domain Ribosome inactivating proteins (RIP) ADP-ribosylation Peptide deformylase Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain C-type lectin-like SRCR-like A heparin-binding domain Fibrinogen C-terminal domain-like gp120 core Methionine synthase activation domain-like Nitric oxide (NO) synthase oxygenase domain Penicillin binding protein dimerisation domain Oxidoreductase molybdopterin-binding domain FAH Aromatic aminoacid monoxygenases, catalytic and oligomerization domains Substrate-binding domain of HMG-CoA reductase Conserved core of transcriptional regulatory protein vp16 Insert subdomain of RNA polymerase alpha subunit Baseplate structural protein gp11 Major capsid protein gp5 Non-globular alpha+beta subunits of globular proteins Serpins Replication terminator protein (Tus) beta-lactamase/transpeptidase-like Heme-dependent catalase-like Acyl-CoA dehydrogenase NM domain-like Carbohydrate phosphatase DNA/RNA polymerases Prokaryotic type I DNA topoisomerase Type II DNA topoisomerase DNA topoisomerase IV, alpha subunit DNA primase core Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment Prim-pol domain D-aminoacid aminotransferase-like PLP-dependent enzymes HydB/Nqo4-like HydA/Nqo6-like HAD-like Dehydroquinate synthase-like Acetyl-CoA synthetase-like Ribosomal protein L1 Sec1/munc18-like (SM) proteins Prismane protein-like Upper collar protein gp10 (connector protein) Reovirus inner layer core protein p3 Colicin Diphtheria toxin, middle domain delta-Endotoxin (insectocide), N-terminal domain Bcl-2 inhibitors of programmed cell death Exotoxin A, middle domain Light-harvesting complex subunits OMPA-like Outer membrane phospholipase A (OMPLA) Porins Outer membrane efflux proteins (OEP) Leukocidin-like Lipovitellin-phosvitin complex; beta-sheet shell regions Aerolisin/ETX pore-forming domain Perfringolysin Viral glycoprotein, central and dimerisation domains Anthrax protective antigen Insulin-like Heat-stable enterotoxin B Neurotoxin B-IV Plant lectins/antimicrobial peptides Plant inhibitors of proteinases and amylases Cyclotides Gurmarin-like Agouti-related protein omega toxin-like Scorpion toxin-like Cellulose-binding domain Growth factor receptor domain Colipase-like EGF/Laminin Bromelain inhibitor VI (cysteine protease inhibitor) Bowman-Birk inhibitor, BBI Elafin-like Leech antihemostatic proteins Granulin repeat PMP inhibitors Midkine Amb V allergen Snake toxin-like BPTI-like Defensin-like Hairpin loop containing domain-like Neurotoxin III (ATX III) LDL receptor-like module Crambin-like Kringle-like Trefoil Cystine-knot cytokines Complement control module/SCR domain Crisp domain-like Blood coagulation inhibitor (disintegrin) Methylamine dehydrogenase, L chain Serine protease inhibitors TB module/8-cys domain TNF receptor-like Heparin-binding domain from vascular endothelial growth factor Antifungal protein (AGAFP) FnI-like domain Thyroglobulin type-1 domain Type X cellulose binding domain, CBDX Carboxypeptidase inhibitor Invertebrate chitin-binding proteins GLA-domain Cholecystokinin A receptor, N-domain HIV-1 VPU cytoplasmic domain HIPIP (high potential iron protein) Ferredoxin thioredoxin reductase (FTR), catalytic beta chain beta-beta-alpha zinc fingers Zn2/Cys6 DNA-binding domain Glucocorticoid receptor-like (DNA-binding domain) Retrovirus zinc finger-like domains Methionyl-tRNA synthetase (MetRS), Zn-domain Microbial and mitochondrial ADK, insert "zinc finger" domain Zinc beta-ribbon Casein kinase II beta subunit Rubredoxin-like Hypothetical protein MTH1184 Aspartate carbamoyltransferase, Regulatory-chain, C-terminal domain Zn-binding ribosomal proteins Ribosomal protein L36 B-box zinc-binding domain RING/U-box ArfGap/RecO-like zinc finger Metallothionein Zinc domain conserved in yeast copper-regulated transcription factors Ada DNA repair protein, N-terminal domain (N-Ada 10) Cysteine-rich domain FYVE/PHD zinc finger Zn-binding domains of ADDBP Inhibitor of apoptosis (IAP) repeat TAZ domain DnaJ/Hsp40 cysteine-rich domain Triple coiled coil domain of C-type lectins Trimerization domain of TRAF Leucine zipper domain Inovirus (filamentous phage) major coat protein Tropomyosin Chicken cartilage matrix protein Assembly domain of cartilage oligomeric matrix protein Fibrinogen coiled-coil and central regions Coiled-coil domain of nucleotide exchange factor GrpE Coiled-coil dimerization domain from cortexillin I XRCC4, C-terminal oligomerization domain Delta-sleep-inducing peptide immunoreactive peptide Rotavirus nonstructural proteins Multimerization domain of the phosphoprotein from sendai virus SNARE fusion complex Outer membrane lipoprotein Fibritin N-terminal coiled coil domain from apc Tetrabrachion Tetramerization domain of the Mnt repressor Influenza hemagglutinin (stalk) Virus ectodomain Variant surface glycoprotein (N-terminal domain) Clostridium neurotoxins, "coiled-coil" domain Colicin Ia, N-terminal domain Bacterial hemolysins Methyl-accepting chemotaxis protein (MCP) signaling domain Oligomerization domain of hepatitis delta antigen Apolipoprotein A-I Ribosome and ribosomal fragments Helicase ATP synthase Electron transport chains Photosystems Viruses and virus-receptor complexes Reovirus components RNA polymerase Blood clotting Microtubule complexes Computational models partly based on experimental data Proteins of incorrect, partial and unknown sequence Membrane ion channel-forming peptide antibiotics containing D-aminoacids Lantibiotic peptides Antimicrobial beta-hairpin Antimicrobial helix Macrocyclic bacteriocins Peptide hormones delta-Toxin PSP1-like 30S ribosomal protein THX HIV-1 REV fragments RSG-1.2 peptide TAT peptides Box B RNA-binding N peptide HTLV-1 peptide DNA-binding domains of HMG-I(Y) VPR protein fragments Inactivation gate of potassium and sodium channels Coagulation factor VIII, membrane-binding peptide Phosphocholine cytidylyltransferase membrane-binding peptides Parathyroid hormone fragments (residues between 1 and 39) Corticotropin releasing hormone Liposaccharide-binding protein CAP18 (residues 106-137) Polymorphic antigen SPAM-H1 (residues 90-127) Insect toxins Tertiapin Antifreeze polypeptide HPLC-6 Troponin I fragments Pilin fragments RP71935 Atrial natriuretic peptide Compstatin Membrane-bound antimicrobial peptides Endothelin-like Heat-stable enterotoxin (HSE) Conotoxins Conantokin Contryphan-R Immunodominant region of protein G of BRSV Bradykinin Transmembrane helical fragments Ferredoxin chloroplastic transit peptide Vacuolar targeting peptide from NA-PROPI (residues 29-54) Microcin leader peptide Phospholamban fragments Fragments of bowman-birk inhibitor Fragments of apolipoproteins Transactivation protein TAT Proline pipe Amyloid peptides Gelsolin fragment (residues 150-169) Acetylcholine receptor fragment (residues alpha 67-76) Thrombomodulin EGF domain fragment (residues 409-426) Capsid protein major homology region peptide analog CD4 and CD8 receptor regions Heparin binding site of non collagenous domain I (nc1) of collagen facit xiv GroES fragments cAMP and cGMP phosphodiesterase (PDE) fragments HIV-1 Nef protein fragments HIV-1 envelope gp120 protein fragments Hepatitis C virus N-terminal capsid protein fragment 2-45 P27(KIP1) fragment 22-106 Transducin alpha-1 subunit rhodopsin binding domain (res. 340-350) alpha-lactalbumin peptide model Coat protein-binding domain of bacteriophage P22 scaffolding protein Immunoreceptor tyrosine kinase activation motif, ITAM Integrin fragments Human glutathione reductase (HGR) inhibitor Small subunit C-terminal inhibitory peptide of ribonucleotide reductase Histone H3 C-terminal fragment 130-135 Smad-binding domain of Sara Peptide derived from p-21 activated kinase pak1 autoregulatory domain Translocated intimin receptor (tir) intimin-binding domain Fragments of the L-type calcium channel alpha subunit Cav.1 (dihydropyridine receptor) Tumor suppressor p53 fragments FxFG nucleoporin repeats beta-Catenine bound non-globular protein regions Synaptobrevin-II fragments VMIP-II fragment Papillomavirus e6-interacting peptide of e6ap Isolated insulin B-chain N-terminal hairpin of ubiquitin (residues 1-17) alpha-helical hairpin of p8mtcp1 Hybrid and chimeric proteins Amphiphilic (amphipathic) alpha helix Collagen-like peptides Coiled serine Designed heterodimeric coiled-coil Thermostable heterotrimeric coiled coil Designed four-helix bundle protein Designed single chain three-helix bundle Peptide f (amphiphilic octadecapeptide) Retro-GCN4 leucine zipper Zinc finger design Protein A Ig(Fc)-binding domain mimics Zinc finger based beta-beta-alpha motif helix-turn-helix motif alpha2d Right-handed coiled coil Erythropoietin (EPO) mimetic peptides IL-1 receptor type 1 antagonist peptide AF10847 Octreotide (Sandostatine), a somatostatine analogue Calmodulin WW domain-based designs Scorpion toxin-based designs Inhibitor of mammalian ribonucleotide reductase Riboflavin synthase domain-like C-terminal fragment of thermolysin RNA polymerase subunits LuxS/MPP-like metallohydrolase MurE/MurF N-terminal domain Fumarylacetoacetate hydrolase, FAH, N-terminal domain Type I dockerin domain LEM domain BAG domain Frizzled cysteine-rich domain Outer surface protein C (OspC) PTS-regulatory domain, PRD RPB6/omega subunit-like PABC (PABP) domain Flagellar transcriptional activator FlhD Telomeric repeat binding factor (TRF) dimerisation domain Olfactory marker protein Ganglioside M2 (gm2) activator Nicotinic receptor ligand binding domain-like Cytolysin/lectin Leukotriene A4 hydrolase N-terminal domain Tudor/PWWP/MBT SAND domain-like Sortase YWTD domain Calcium-dependent phosphotriesterase Ribonuclease domain of colicin E3 Cell-division inhibitor MinC, C-terminal domain Thiamin pyrophosphokinase, substrate-binding domain MoeA C-terminal domain-like Methuselah ectodomain MoeA N-terminal region -like P-domain of calnexin/calreticulin Pyridoxine 5'-phosphate synthase Precorrin-8X methylmutase CbiC/CobH Dipeptide transport protein Thiamin pyrophosphokinase, catalytic domain Undecaprenyl diphosphate synthase Cell-division inhibitor MinC, N-terminal domain MTH938-like YjeF N-terminal domain-like 2,3-Bisphosphoglycerate-independent phosphoglycerate mutase, substrate-binding domain SurE-like DHH phosphoesterases Head-to-tail joining protein W, gpW Photosystem I subunit PsaD Prokaryotic ribosomal protein L17 PX domain Chorismate lyase-like SirA-like SNARE-like YlxR-like Cell-division protein ZipA, C-terminal domain Hsp33 domain CNF1/YfiH-like putative cysteine hydrolases YopH tyrosine phosphatase N-terminal domain Outer capsid protein sigma 3 beta and beta-prime subunits of DNA dependent RNA-polymerase DNA-binding domain of intron-encoded endonucleases Phase 1 flagellin Satiety factor CART (cocaine and amphetamine regulated transcript) Cellulose docking domain, dockering C-terminal domain of ProRS Intermediate filament protein, coiled coil region F1 ATPase inhibitor, IF1, C-terminal domain Multidrug resistance ABC transporter Bacteriophage HK97 procapsid (prohead II) Muscle protein complexes Influenza hemagglutinin fragments Syndecan-4 cytoplasmic domain Pituitary adenylate cyclase activating polypeptide, pacap21 Cholecystokinin receptor fragments Trypsin inhibitor SFTIf-1 Ribosomal protein L10 TH (toxin hand)-motif beta-sheet mini-protein designs Integrin-binding RGD peptide Peptide antagonists of IGF-1 beta-hairpin design Synthetic high affinity IgE receptor antagonists SAP domain Rho N-terminal domain-like Recombination endonuclease VII, C-terminal and dimerization domains PEP carboxykinase N-terminal domain Protein-L-isoaspartyl O-methyltransferase, C-terminal domain Hemolysin expression modulating protein HHA FAT domain of focal adhesion kinase FAD-dependent thiol oxidase RecG, N-terminal domain alpha-ketoacid dehydrogenase kinase, N-terminal domain Hypothetical protein MTH865 Bcr-Abl oncoprotein oligomerization domain Hypothetical protein YjbJ 1-deoxy-D-xylulose-5-phosphate reductoisomerase, C-terminal domain Arp2/3 complex 21 kDa subunit ARPC3 RNase III domain-like Anti-sigma factor AsiA Glutamyl tRNA-reductase dimerization domain Ran-GTPase activating protein 1 (RanGAP1), C-terminal domain Arp2/3 complex 16 kDa subunit ARPC5 AhpD-like Nuclear receptor coactivator interlocking domain Quinohemoprotein amine dehydrogenase C chain Integrin domains Penicillin-binding protein associated domain Nucleoplasmin-like core domain gp5 N-terminal domain-like Phage tail proteins Urease metallochaperone UreE, N-terminal domain Quinohemoprotein amine dehydrogenase A chain, domain 3 Tricorn protease N-terminal domain Integrin alpha N-terminal domain Tricorn protease domain 2 Alpha subunit of glutamate synthase, C-terminal domain C-terminal domain of adenylylcyclase associated protein Phage fibre proteins Cell wall binding repeat Cloacin translocation domain DTD-like Activating enzymes of the ubiquitin-like proteins Glycerol-3-phosphate (1)-acyltransferase HemD-like Type III secretory system chaperone-like Arp2/3 complex subunits DNA-binding C-terminal domain of the transcription factor MotA Integrin beta tail domain SRP19 Transcription factor NusA, N-terminal domain DsrC, the gamma subunit of dissimilatory sulfite reductase Urease metallochaperone UreE, C-terminal domain Glutamyl tRNA-reductase catalytic, N-terminal domain Ribosome binding protein Y (YfiA homologue) GTP cyclohydrolase I feedback regulatory protein, GFRP IpsF-like YggU-like Thymidylate synthase-complementing protein Thy1 MTH1598-like LCCL domain Argininosuccinate synthetase, C-terminal domain NSP3 homodimer Membrane penetration protein mu1 OMPT-like Head and neck region of the ectodomain of NDV fusion glycoprotein Pheromone ER-23 Eea1 homodimerisation domain Colicin E3 receptor domain C-terminal domain of PLC-beta GroE chaperon HIV-1 gp41 fragments Actin-binding peptides Rack1 interaction site of the CAMP-specific phosphodiesterase pde4d5. Prepeptide of 5-ALAS the cytoplasmic N-terminus of the bk beta-subunit kcnmb2 Prion protein fragments Tumor suppressor protein p19-ARF fragment Antennapedia homeodomain fragments Glytm1bzip Galactose mutarotase-like TolA/TonB C-terminal domain Ribosomal protein L20 Variable surface antigen VlsE Aconitase B, N-terminal domain Translin Cullin repeat-like Transactivation domain Lamin A/C globular tail domain Thiol:disulfide interchange protein DsbD, N-terminal domain (DsbD-alpha) Major surface antigen p30, SAG1 V-region of surface antigen I/II (SA I/II, PAC) Cap-Gly domain YhbC-like, C-terminal domain Small protein B (SmpB) Dipeptidyl peptidase I (cathepsin C), exclusion domain Arabinanase/levansucrase/invertase 3-carboxy-cis,cis-mucoante lactonizing enzyme Monomethylamine methyltransferase MtmB HprK N-terminal domain-like DsrEFH-like Hypothetical protein MTH777 (MT0777) alpha/beta knot Amidase signature (AS) enzymes Rotavirus NSP2 fragment, C-terminal domain Plakin repeat VSV matrix protein Hypothetical protein MTH1880 YhbC-like, N-terminal domain D-ribose-5-phosphate isomerase (RpiA), lid domain YhbY-like Putative transcriptional regulator TM1602, C-terminal domain Pheromone-binding domain of LuxR-like quorum-sensing transcription factors Smc hinge domain Archaeal IMP cyclohydrolase PurO Rotavirus NSP2 fragment, N-terminal domain Siroheme synthase middle domains-like Release factor YebC-like Cullin homology domain Zinc-binding domain of translation initiation factor 2 beta Mitotic arrest deficient-like 1, Mad1 Chemotaxis phosphatase CheZ Rad50 coiled-coil Zn hook Virus envelope proteins Potassium channel toxins Sheep myeloid antimicrobial peptide SMAP29 based peptides alpha-2a adrenergic receptor pepride t3-i2 Catestatin fragment from chromogranin A Trp-cage miniprotein IFN mimetic syr6 TAZ (CH) Zn-binding domain based design Beta-sheet designs PW2, a tryptophan-rich anticocidial peptide TGS-like H-NS histone-like proteins C-terminal domain of mollusc hemocyanin E set domains Adenylylcyclase toxin (the edema factor) Nucleotidyltransferase Family A G protein-coupled receptor-like Voltage-gated potassium channels Small-conductance potassium channel Gated mechanosensitive channel F1F0 ATP synthase subunit C F1F0 ATP synthase subunit A Aquaporin-like Clc chloride channel Transmembrane di-heme cytochromes Fumarate reductase respiratory complex transmembrane subunits ABC transporter involved in vitamin B12 uptake, BtuC Skp1 dimerisation domain-like F-box domain Mitochondrial cytochrome c oxidase subunit IV Mitochondrial cytochrome c oxidase subunit VIa Mitochondrial cytochrome c oxidase subunit VIc Mitochondrial cytochrome c oxidase subunit VIIa Mitochondrial cytochrome c oxidase subunit VIIb Mitochondrial cytochrome c oxidase subunit VIIc (aka VIIIa) Mitochondrial cytochrome c oxidase subunit VIIIb (aka IX) Cytochrome c oxidase subunit I-like Cytochrome c oxidase subunit III-like Cytochrome c oxidase subunit II-like, transmembrane region Bacterial aa3 type cytochrome c oxidase subunit IV Bacterial ba3 type cytochrome c oxidase subunit IIa Bacterial photosystem II reaction centre, L and M subunits Photosystem II reaction centre subunit H, transmembrane region Cytochrome c1 subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase), transmembrane anchor ISP transmembrane anchor Ubiquinone-binding protein QP-C of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Subunit X (non-heme 7 kDa protein) of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Subunit XI (6.4 kDa protein) of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) 14 kDa protein of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Non-heme 11 kDa protein of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Subunit III of photosystem I reaction centre, PsaF Subunit VIII of photosystem I reaction centre, PsaI Subunit IX of photosystem I reaction centre, PsaJ Subunit XII of photosystem I reaction centre, PsaM Subunit PsaX of photosystem I reaction centre Photosystem I subunits PsaA/PsaB Photosystem I reaction center subunit X, PsaK Photosystem I reaction center subunit XI, PsaL F1F0 ATP synthase subunit B, membrane domain PsbU/PolX domain-like Nucleotidyltransferase substrate binding subunit/domain Iron-sulfur subunit of formate dehydrogenase N, transmembrane anchor Protein serine/threonine phosphatase 2C, C-terminal domain PP2C-like N-terminal domain of MutM-like DNA repair proteins PAP/OAS1 substrate-binding domain a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Calcium ATPase, transduction domain A Metal cation-transporting ATPase, ATP-binding domain N Calcium ATPase, transmembrane domain M FF domain Plasmid maintenance system epsilon/zeta, antidote epsilon subunit beta-catenin-interacting protein ICAT Group V grass pollen allergen X-Prolyl dipeptidyl aminopeptidase PepX, N-terminal domain Pre-protein crosslinking domain of SecA Crustacean CHH/MIH/GIH neurohormone C-terminal domain of DFF45/ICAD (DFF-C domain) Myosin phosphatase inhibitor 17kDa protein, CPI-17 Putative methyltransferase TM0872, insert domain Helical domain of Sec23/24 RuBisCo LSMT C-terminal, substrate-binding domain SopE-like GEF domain BEACH domain Family 10 polysaccharide lyase BRCA2 helical domain BRCA2 tower domain Helical scaffold and wing domains of SecA Poly A polymerase C-terminal region-like HCP-like Double Clp-N motif Orange carotenoid protein, N-terminal domain N-terminal domain of bifunctional PutA protein Antigen MPT63/MPB63 (immunoprotective extracellular protein) Tp47 lipoprotein, middle and C-terminal domains beta-sandwich domain of Sec23/24 N-utilization substance G protein NusG, insert domain Calcium-mediated lectin Viral chemokine binding protein m3 Obg GTP-binding protein N-terminal domain Prokaryotic SH3-related domain BAH domain Heme chaperone CcmE MIR domain Riboflavin kinase-like FAS1 domain DPP6 N-terminal domain-like Histone H3 K4-specific methyltransferase SET7/9 N-terminal domain SET domain C-terminal autoproteolytic domain of nucleoporin nup98 Tp47 lipoprotein, N-terminal domain Homocysteine S-methyltransferase Swiveling domain of dehydratase reactivase alpha subunit GckA/TtuD-like DAK1/DegV-like Nuclease A inhibitor (NuiA) YbaB-like Polo-box domain SufE/NifU Probable GTPase Der, C-terminal domain BolA-like SEA domain N-utilization substance G protein NusG, N-terminal domain Mechanosensitive channel protein MscS (YggB), C-terminal domain Multidrug efflux transporter AcrB pore domain; PN1, PN2, PC1 and PC2 subdomains PurS-like AlbA-like R3H domain Multidrug efflux transporter AcrB TolC docking domain; DN and DC subdomains C-terminal, gelsolin-like domain of Sec23/24 GIY-YIG endonuclease OsmC-like Replication modulator SeqA, C-terminal DNA-binding domain MesJ substrate recognition domain-like L-A virus major coat protein Mechanosensitive channel protein MscS (YggB), transmembrane region Multidrug efflux transporter AcrB transmembrane domain TSP-1 type 1 repeat Apical membrane antigen 1 Zn-finger domain of Sec23/24 Cysteine-rich DNA binding domain, (DM domain) Tumor suppressor gene product Apc Apolipoprotein A-II Membrane ion ATPase BRCA2 BRC4 repeat Bhpbr3, the Baff-binding loop of br3 embedded in a beta-hairpin peptide N-terminal fragment of gastric H/K-ATPase Barstar fragment Cannabinoid receptor 1 (CB1) fragment Artificial ankyrin repeat proteins Positive stranded ssRNA viruses ssDNA viruses Group I dsDNA viruses Satellite viruses Sigma3 and sigma4 domains of RNA polymerase sigma factors Families 57/38 glycoside transferase middle domain PUA domain-like Glycoside hydrolase/deacetylase PIN domain-like N-terminal, heterodimerisation domain of RBP7 (RpoE) Pre-PUA domain Receptor-binding domain of short tail fibre protein gp12 Sigma2 domain of RNA polymerase sigma factors post-HMGL domain-like GAT-like domain Cobalamin adenosyltransferase-like Soluble domain of poliovirus core protein 3a Replisome organizer (g39p helicase loader/inhibitor protein) N-terminal, cytoplasmic domain of anti-sigmaE factor RseA Antibiotic binding domain of TipA-like multidrug resistance regulators GatB/YqeY motif Nop domain TorD-like Gametocyte protein Pfg27 Hypothetical protein TM1070 Collagen-binding domain HesB-like domain Fucose-specific lectin Prokaryotic lipoproteins and lipoprotein localization factors Adsorption protein p2 Baseplate structural protein gp8 Hypothetical protein YojF AbrB/MazE/MraZ-like PHP domain-like RraA-like Ribose/Galactose isomerase RpiB/AlsB L-sulfolactate dehydrogenase-like CoA-transferase family III (CaiB/BaiF) Dodecin-like Amyloid beta a4 protein copper binding domain (domain 2) Mago nashi protein Doublecortin (DC) Inhibitor of vertebrate lysozyme, Ivy Proguanylin FYSH domain DNA-binding protein Tfx Ribosome-binding factor A, RbfA eEF1-gamma domain Hypothetical protein VC0424 MTH1187/YkoF-like YajQ-like Hypothetical protein Yml108w Hypothetical protein YjiA, C-terminal domain Hypothetical protein TM0875 GCM domain Subunits of heterodimeric actin filament capping protein Capz Neurotransmitter-gated ion-channel transmembrane pore ABC transporter transmembrane region DPY module Mollusk pheromone Somatomedin B domain Notch domain Ran binding protein zinc finger-like CCCH zinc finger Zinc finger domain of DNA polymerase-alpha Dimerization motif of sir4 Head morphogenesis protein gp7 Troponin coil-coiled subunits Myosin rod fragments Angiotensin Antimicrobial peptide HP(2-20) Transducin gamma-t1 subunit rhodopsin bound fragment (res. 60-71) TBP-binding domain of the transcription factor IIIb Brf1 subunit Ubiquitin interacting motif (UIM) TPR domain-based design Metalloporphyrin-binding designed peptides Lesion bypass DNA polymerase (Y-family), little finger domain Kazal-type serine protease inhibitors Plant proteinase inhibitors Leucocin-like bacteriocin Designed trimeric coiled-coil IP3 receptor type 1 binding core, domain 2 Chemosensory protein Csp2 Heat shock protein 70kD (HSP70), peptide-binding domain Heat shock protein 70kD (HSP70), C-terminal subdomain SPOC domain-like NagB/RpiA/CoA transferase-like Dimerization cofactor of HNF-1 alpha Translation initiation factor 2 beta, aIF2beta, N-terminal domain Sporulation inhibitor Sda B-form DNA mimic Ocr Typo IV secretion system protein TraC Phosphoprotein XD domain Staphylocoagulase Oxygen-evolving enhancer protein 3, Flagellar export chaperone FliS Colicin D immunity protein Plant invertase/pectin methylesterase inhibitor Mob1/phocein Nonstructural protein ns2, Nep, M1-binding domain Dimerisation domain of CENP-B Docking domain A of the erythromycin polyketide synthase (DEBS) Docking domain B of the erythromycin polyketide synthase (DEBS) KaiA/RbsU domain HAND domain of the nucleosome remodeling ATPase ISWI PWI domain XPC-binding domain Flavivirus capsid protein C Methenyltetrahydrofolate cyclohydrolase-like N-terminal domain of adenylylcyclase associated protein, CAP GRIP domain L27 domain YutG-like Invasion protein A (SipA) , C-terminal actin binding domain YcfC-like YgfB-like Hypothetical protein MTH393 Superantigen MAM Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS) all-alpha NTP pyrophosphatases Hsp90 co-chaperone CDC37 P40 nucleoprotein C-terminal domain of Ku80 Hypothetical protein ST1625 Formin homology 2 domain (FH2 domain) DhaL-like ADP-ribosylglycohydrolase Eukaryotic initiation factor 4f subunit eIF4g, eIF4e-binding domain Stathmin Anti-sigma factor FlgM Fungal immunomodulatory protein, FIP ASF1-like Supernatant protein factor (SPF), C-terminal domain Dextranase, N-terminal domain Smp-1-like Superantigen (mitogen) Ypm PAZ domain Hypothetical protein YfhH SspB-like Rof/RNase P subunit-like Hydrophobin II, HfbII Hypothetical protein YgiW Aminomethyltransferase beta-barrel domain Surface presentation of antigens (SPOA) Replicase NSP9 Aminopeptidase/glucanase lid domain Bacterial fluorinating enzyme, C-terminal domain YceI-like Apyrase NHL repeat GyrA/ParC C-terminal domain-like Putative isomerase YbhE Sema domain Pym (Within the bgcn gene intron protein, WIBG), N-terminal domain DNA-binding pseudobarrel domain NAC domain Stabilizer of iron transporter SufD Adhesin YadA, collagen-binding domain Trimeric adhesin AXH domain (2r)-phospho-3-sulfolactate synthase ComA Radical SAM enzymes Putative cyclase Creatininase DNA polymerase III psi subunit F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD) DNA polymerase III chi subunit MCP/YpsA-like Alpha-2,3/8-sialyltransferase CstII Peptidyl-tRNA hydrolase II Bacterial fluorinating enzyme, N-terminal domain RbsD-like LmbE-like CoaB-like NIF3 (NGG1p interacting factor 3)-like JAB1/MPN domain Trigger factor ribosome-binding domain Obg GTP-binding protein C-terminal domain Putative dsDNA mimic Colicin D/E5 nuclease domain Cell division protein ZapA-like NSFL1 (p97 ATPase) cofactor p47, SEP domain mRNA decapping enzyme DcpS N-terminal domain Chromosomal protein MC1 Coproporphyrinogen III oxidase Hypothetical protein Ta1206 Hypothetical protein TT1725 Folate-binding domain Hypothetical protein YwqG CheC-like General secretion pathway protein M, EpsM Hypothetical protein YoaG Nucleocapsid protein dimerization domain Holliday junction resolvase RusA OmpA-like Hypothetical protein c14orf129, hspc210 Activator of Hsp90 ATPase, Aha1 Tombusvirus P19 core protein, VP19 Ta1353-like Sensory domain-like Roadblock/LC7 domain MoaD-related protein, C-terminal domain KA1-like TT1751-like Hypothetical protein TM0160 Chorismate synthase, AroC Hypothetical protein HI1480 Suppressor of Fused, N-terminal domain Hypothetical protein PH1602 NinB 2-methylcitrate dehydratase PrpD Antivirulence factor Virulence-associated V antigen 39 kda initiator binding protein, IBP39, C-terminal domains Major capsid protein VP5 Cytochrome f subunit of the cytochrome b6f complex, transmembrane anchor PetL subunit of the cytochrome b6f complex PetM subunit of the cytochrome b6f complex PetG subunit of the cytochrome b6f complex PetN subunit of the cytochrome b6f complex Preprotein translocase SecE subunit Sec-beta subunit Oligosaccharyltransferase subunit ost4p MFS general substrate transporter Multidrug resistance efflux transporter EmrE V-type ATP synthase subunit C Preprotein translocase SecY subunit Respiratory nitrate reductase 1 gamma chain Mitochondrial carrier Chlorophyll a-b binding protein Autotransporter Bubble protein Plexin repeat Necrosis inducing protein 1, NIP1 Mini-collagen I, C-terminal domain SBT domain Hypothetical protein Ta0289 C-terminal domain CCHHC domain Sec-C motif TSP type-3 repeat G protein-binding domain BAR/IMD domain-like Proline/betaine transporter ProP, C-terminal cytoplasmic domain Bacteriophage T4 3D cryo-EM reconstruction Ep-cadherin Transferrin receptor-transferrin complex Signal recognition particle (SRP) complex Penaeidin-3a ATP synthase beta chain, mitochondrial prepeptide Proto-oncogene tyrosine-protein kinase lck CD4/CD8 interacting region Metal-binding peptide from MerP Marinostatin, MstI Cross-reactive peptides from 60S acidic ribosomal protein p2 New fold designs In vitro evolution products Carboxypeptidase A prodomain-based design HD-domain/PDEase-like Transcriptional repressor TraM DnaK suppressor protein DksA, alpha-hairpin domain KRAB domain (Kruppel-associated box) KorB DNA-binding domain-like DEK C-terminal domain Hypothetical protein AF0491, middle domain HBS1-like domain FGAM synthase PurL, linker domain Glycogen synthesis protein GlgS Alpha-hemoglobin stabilizing protein AHSP PhoU-like Nickel-containing superoxide dismutase, NiSOD Mannose-6-phosphate receptor binding protein 1 (Tip47), C-terminal domain Domain from hypothetical 2610208m17rik protein Bacteriocin immunity protein-like Hypothetical protein D-63 Phenylalanine zipper Cag-Z CAPPD, an extracellular domain of amyloid beta A4 protein DinB/YfiT-like putative metalloenzymes NblA-like A middle domain of Talin 1 I/LWEQ domain Surp module (SWAP domain) YgfY-like Hypothetical protein YhaI Hypothetical protein At3g22680 Lissencephaly-1 protein (Lis-1, PAF-AH alpha) N-terminal domain VPS9 domain Triger factor/SurA peptide-binding domain-like Glycolipid transfer protein, GLTP Hypothetical protein MG354 Her-1 ERO1-like GDNF receptor-like ApaG-like Peptidylarginine deiminase Pad4, middle domain DR1885-like metal-binding protein Ctag/Cox11 BTV NS2-like ssRNA-binding domain DNA-binding protein LAG-1 (CSL) AbfB domain Oligoxyloglucan reducing end-specific cellobiohydrolase Coronavirus RNA-binding domain Ribosomal L27 protein-like GlpP-like CutC-like ThiG-like Toprim domain Indigoidine synthase A-like TTHA0583/YokD-like Glycerate kinase I Hypothetical protein MTH677 TmoB-like Hypothetical protein SAV1430 ParB/Sulfiredoxin Gamma-glutamyl cyclotransferase-like Peptidyl-tRNA hydrolase domain-like 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain HSP90 C-terminal domain eIF-2-alpha, C-terminal domain Sporulation related repeat Dystroglycan, domain 2 YjbQ-like Hypothetical protein PF0899 Hut operon positive regulatory protein HutP Hypothetical protein yfbM Bacillus phage protein Ligand-binding domain in the NO signalling and Golgi transport YggX-like Rbstp2229 protein Sulfolobus fructose-1,6-bisphosphatase-like Hemolytic lectin CEL-III, C-terminal domain SSo0622-like Putative modulator of DNA gyrase, PmbA/TldD Recombination protein RecR AF1104-like Urocanase NAD kinase/diacylglycerol kinase-like QueA-like CbiD-like Rap/Ran-GAP Ammonium transporter Mitochondrial ATP synthase coupling factor 6 Tsx-like channel HlyD-like secretion proteins VP4 membrane interaction domain OmpH-like Pollen allergen ole e 6 Hormone receptor domain Resistin YAP1 redox domain Geminin coiled-coil domain Coronavirus S2 glycoprotein Fzo-like conserved region clathrin assemblies anthrax toxin protective antigen-receptor complex NTR, cyclotide processing element HMG-box transcription factor 1 fragments MAD protein fragments Fragments of TNF receptors Ezrin-radixin-moesin binding phosphoprotein 50 (ebp50) fragments Designed EF-hand type cation-binding loop TrkA C-terminal domain-like DNA methylase specificity domain NADH pyrophosphatase intervening domain eIF2alpha middle domain-like DNA-binding domain of EIN3-like Rps17e-like XseB-like MIT domain Avirulence protein AvrPto Hypothetical membrane protein Ta0354, soluble domain TrmE connector domain Hook domain Hypothetical protein YqbG YugE-like EspA/CesA-like RNA-binding protein She2p YfbU-like Hypothetical protein MPN330 ATP-dependent DNA ligase DNA-binding domain DNA primase DnaG, C-terminal domain Accessory protein X4 (ORF8, ORF7a) LEA14-like Hypothetical protein PA1324 Beta-galactosidase LacA, domain 3 Putative glucosidase YicI, C-terminal domain CsrA-like Flagellar hook protein flgE Kelch motif Nucleoporin domain TM1631-like FumA C-terminal domain-like GTF2I-like repeat D-lysine 5,6-aminomutase beta subunit KamE, N-terminal domain YbjQ-like WWE domain AF0104/ALDC/Ptd012-like Band 7/SPFH domain Fe-S cluster assembly (FSCA) domain-like CRISPR-associated protein YbeD/HP0495-like YehU-like TM1457-like RalF, C-terminal domain DNA mismatch repair protein MutL Phosphoprotein M1, C-terminal domain YaeB-like Vacuolar ATP synthase subunit C Viral ssDNA binding protein Proton glutamate symport protein Connexin43 Variant surface glycoprotein MITAT 1.2, VSG 221, C-terminal domain WRKY DNA-binding domain AN1-like Zinc finger HSP33 redox switch-like Expressed protein At2g23090/F21P24.15 Vasodilator-stimulated phosphoprotein, VASP, tetramerisation domain Synuclein Anticancer peptides Ilarvirus coat protein N-terminal fragment ISY1 domain-like Calcyclin-binding protein-like Endosomal sorting complex assembly domain SPy1572-like Rabenosyn-5 Rab-binding domain-like MxiH-like IscX-like PPK N-terminal domain-like MIT domain-like Coronavirus NSP7-like Vng1086c-like ChaB-like BSD domain-like EF2458-like YppE-like MW0975(SA0943)-like VPS28 C-terminal domain-like EsxAB dimer-like PE/PPE dimer-like LemA-like MAST3 pre-PK domain-like PA2201 N-terminal domain-like Nqo1C-terminal domain-like HP1531-like BAS1536-like FHV B2 protein-like TM0693-like FlgN-like MukF C-terminal domain-like HIV integrase-binding domain TraM-like Dcp2 domain-like Type III secretion system domain EF2947-like EB1 dimerisation domain-like YozE-like Hyaluronidase post-catalytic domain-like TTHA0068-like YoaC-like SP0561-like YfmB-like IpaD-like Phage replication organizer domain Mediator hinge subcomplex-like AF0941-like PA2201 C-terminal domain-like Rv1873-like RUN domain-like SipA N-terminal domain-like PG0816-like YidB-like Rhabdovirus nucleoprotein-like USP8 N-terminal domain-like Pseudo ankyrin repeat-like TROVE domain-like GUN4-like PriB N-terminal domain-like DNA terminal protein Duffy binding domain-like Fic-like Indolic compounds 2,3-dioxygenase-like Topoisomerase V catalytic domain-like PTPA-like FtsH protease domain-like Hermes dimerisation domain Glu-tRNAGln amidotransferase C subunit RelB-like ICP-like CalX-like Agglutinin HPA-like L21p-like Atu1913-like Acetamidase/Formamidase-like Kinase-associated protein B-like YccV-like CarD-like GatD N-terminal domain-like TM0957-like NfeD domain-like PilZ domain-like PA2021-like Hcp1-like BH3618-like Extracellular hemoglobin linker subunit, receptor domain YdhA-like Allene oxide cyclase-like L,D-transpeptidase catalytic domain-like PTSIIA/GutA-like At5g01610-like Pentapeptide repeat-like Bacteriophage trimeric proteins domain 'SARS ORF9b-like MOSC N-terminal domain-like MAL13P1.257-like AF2212/PG0164-like FimD N-terminal domain-like HisI-like MFPT repeat-like EAL domain-like LD-carboxypeptidase A C-terminal domain-like Nqo1 FMN-binding domain-like CofD-like CinA-like AF0625-like RibA-like NadA-like YgbK-like CAC2185-like ComB-like EndoU-like PhtA domain-like TFB5-like YjbR-like YktB/PF0168-like WGR domain-like Nqo1 middle domain-like RelE-like Ns1 effector domain-like Kinetochore globular domain L35p-like Coronavirus NSP8-like BB1717-like TTHA1013/TTHA0281-like NAP-like YefM-like Rv2632c-like Nqo5-like DOPA-like CcmK-like Transposase IS200-like TTP0101/SSO1404-like THUMP domain-like AMMECR1-like VC0467-like ImmE5-like TM1622-like Prenyltransferase-like PUG domain-like TRCF domain-like Serine metabolism enzymes domain FwdE-like MK0786-like YkuJ-like GAS2 domain-like GK1464-like SARS receptor-binding domain-like TTHA1528-like YojJ-like STIV B116-like ApbE-like PHP14-like YeeU-like GlcG-like Phage tail protein-like DUSP-like L28p-like YwmB-like XisI-like DeoB insert domain-like CorA soluble domain-like PF0523-like ERH-like NE0471 N-terminal domain-like RGC domain-like UbiD C-terminal domain-like IlvD/EDD N-terminal domain-like L,D-transpeptidase pre-catalytic domain-like YbiA-like AF2331-like Oxysterol-binding protein-like ORC1-binding domain CofE-like Peptidoglycan deacetylase N-terminal noncatalytic region FdhE-like Thermophilic metalloprotease-like ImpE-like Heme iron utilization protein-like E2F-DP heterodimerization region Magnesium transport protein CorA, transmembrane region Rhomboid-like Tim10-like Vanabin-like NOB1 zinc finger-like Nop10-like SnoRNP CSL zinc finger HIT/MYND zinc finger-like Coronavirus NSP10-like Viral leader polypeptide zinc finger TSP9-like MPN010-like Eferin C-derminal domain-like Heterotrimerisation domain of extracellular hemoglobin linker subunits Sec2 N-terminal region occludin/ELL-like Collagen fibre Fatty acid synthase Ribosomal protein L34p Retinoblastoma-associated protein RB1 fragments Genome linked protein vpg Programmed cell death protein 5 fragments Ubiquitin Cro lambda fold design Htr2 transmembrane domain-like YnzC-like PRP4-like SOCS box-like Efb C-domain-like AF1782-like YqgQ-like YvfG-like TM1646-like HP0062-like SO2669-like Bacillus cereus metalloprotein-like Ta0600-like DsbB-like IVS-encoded protein-like YqcC-like Orange domain-like HAMP domain-like PG0775 C-terminal domain-like DnaD domain-like BH2638-like GspK insert domain-like FLJ32549 domain-like TAFH domain-like BH3980-like AF1862-like GINS helical bundle-like Jann4075-like RbcX-like YheA/YmcA-like RPA2825-like ENT-like YejL-like MtlR-like Sama2622-like TerB-like UraD-Like Sec63 N-terminal domain-like PSPTO4464-like MG296-like LanC-like HP0242-like SMc04008-like MgtE N-terminal domain-like Tex N-terminal region-like AGR C 984p-like PMT central region-like Lag-3 N-terminal region Lipase chaperone-like NEAT domain-like Smr-associated domain-like WSSV envelope protein-like Trm112p-like YopX-like Mib/herc2 domain-like YorP-like Plus3-like Dom34/Pelota N-terminal domain-like TrmB C-terminal domain-like BC4932-like HupF/HypC-like EutN/CcmL-like HIN-2000 domain-like YkvR-like NifT/FixU-like YopT-like FomD-like SO1590-like AttH-like YmcC-like PA1994-like Guanosine diphospho-D-mannose pyrophosphorylase/mannose-6-phosphate isomerase linker domain AtpF-like EreA/ChaN-like XCC0632-like TBP-interacting protein-like Cgl1923-like CobE/GbiG C-terminal domain-like CbiG N-terminal domain-like PhnH-like Dhaf3308-like YerB-like CdCA1 repeat-like PrpR receptor domain-like XkdW-like YdgH-like YdhG-like YgaC/TfoX-N like PH1570-like NSP3A-like MM3350-like PriA/YqbF domain NRDP1 C-terminal domain-like SARS Nsp1-like Acetoacetate decarboxylase-like YegP-like CPE0013-like YcgL-like NMB0488-like FlaG-like AMPKBI-like Cation efflux protein cytoplasmic domain-like EspE N-terminal domain-like Shew3726-like Rnp2-like Bacterial polysaccharide co-polymerase-like MTH889-like Ribosomal protein L10-like RplX-like SP0830-like NosL/MerB-like YdfO-like BH3703-like SMR domain-like PG1857-like PB2 C-terminal domain-like BLRF2-like PH0987 N-terminal domain-like NMB0513-like PA1123-like BRK domain-like YueI-like BB2672-like V-type ATPase subunit E-like Ava3019-like SpoVG-like EscU C-terminal domain-like YonK-like BT0923-like MbtH-like SMI1/KNR4-like FLJ32549 C-terminal domain-like YNR034W-A-like BTG domain-like YehR-like YqaI-like gpW/gp25-like YugN-like TTHC002-like NE1680-like Lp2179-like Rv2827c C-terminal domain-like Phosphoprotein oligomerization domain-like Taf5 N-terminal domain-like Jann2411-like ATP12-like PSTPO5379-like PG1388-like FlhC-like VPA0735-like Api92-like PH0156-like YacF-like Poly(A) polymerase catalytic subunit-like MalF N-terminal region-like AF1531-like SSO1389-like CV3147-like HI0933 insert domain-like flu NP-like Viral glycoprotein ectodomain-like Photosystem II reaction center protein L, PsbL Photosystem II reaction center protein J, PsbJ Photosystem II 10 kDa phosphoprotein PsbH Photosystem II reaction center protein T, PsbT Photosystem II reaction center protein M, PsbM Photosystem II reaction center protein K, PsbK Photosystem II reaction center protein I, PsbI Cytochrome b559 subunits PsbZ-like ATP synthase B chain-like ATP synthase D chain-like SNF-like Photosystem II antenna protein-like MAPEG domain-like MgtE membrane domain-like MetI-like Cation efflux protein transmembrane domain-like VhTI-like YfgJ-like CHY zinc finger-like E6 C-terminal domain-like E7 C-terminal domain-like T-antigen specific domain-like Zinc hairpin stack RILP dimerisation region Gam-like PspA lactotransferrin-binding region Ribosomal protein S21p Select a structural domain of interest at the superfamily level of SCOP classification.