| SCOP superfamily ID |
superfamiily description |
corresponding fold description |
| a.118.1 | ARM repeat | alpha-alpha superhelix multihelical; 2 (curved) layers: alpha/alpha; right-handed superhelix |
| a.118.8 | TPR-like | alpha-alpha superhelix multihelical; 2 (curved) layers: alpha/alpha; right-handed superhelix |
| a.118.9 | ENTH/VHS domain | alpha-alpha superhelix multihelical; 2 (curved) layers: alpha/alpha; right-handed superhelix |
| a.118.6 | Protein prenylyltransferase | alpha-alpha superhelix multihelical; 2 (curved) layers: alpha/alpha; right-handed superhelix |
| a.56.1 | CO dehydrogenase ISP C-domain like contains 2Fe-2S cluster ! | CO dehydrogenase ISP C-domain like core: 4 helices, bundle |
| a.253.1 | AF0941-like | AF0941-like 6 helices, arranged into two interconnected 3-helical bundles; can also be described as a 'kinked' four-helical bundle; right-handed superhelix |
| e.25.1 | Sec1/munc18-like (SM) proteins | Sec1/munc18-like (SM) proteins 3 domains: (1 and 2) alpha+beta; (3) mostly alpha, inserted in domain 2 |
| a.175.1 | Orange carotenoid protein, N-terminal domain duplication: contains four structural repeats arranged into two intertwined 4-helical subdomains ! | Orange carotenoid protein, N-terminal domain multihelical; array |
| f.1.4 | Bcl-2 inhibitors of programmed cell death PROVISIONAL CLASSIFICATION, based on structural similarity to the diphtheria toxin domain ! | Toxins' membrane translocation domains multi-helical domains of various folds which is thought to unfold in the membrane |
| c.8.5 | GroEL apical domain-like | The "swivelling" beta/beta/alpha domain 3 layers: b/b/a; the central sheet is parallel, and the other one is antiparallel; there are some variations in topology ! this domain is thought to be mobile in most multi-domain proteins known to contain it |
| a.118.20 | Hypothetical protein ST1625 | alpha-alpha superhelix multihelical; 2 (curved) layers: alpha/alpha; right-handed superhelix |
| a.95.1 | Influenza virus matrix protein M1 superficially similar to membrane translocation domains ! | Influenza virus matrix protein M1 multihelical; consists of two different all-alpha subdomains, 4 helices each |
| a.102.6 | LanC-like comprises seven hairpins | alpha/alpha toroid multihelical; up to seven alpha-hairpins are arranged in closed circular array; there may be sequence similarities between different superfamilies |
| a.118.19 | C-terminal domain of Ku80 | alpha-alpha superhelix multihelical; 2 (curved) layers: alpha/alpha; right-handed superhelix |
| a.208.1 | DhaL-like | DhaL-like multihelical; bundle |
| e.8.1 | DNA/RNA polymerases "palm" domain has a ferredoxin-like fold, related to that of an adenylyl cyclase domain ! | DNA/RNA polymerases divided into morphological domains including "palm", "thumb" and "fingers"; the catalytic "palm" domain is conserved to all members |
| a.118.4 | Lipovitellin-phosvitin complex, superhelical domain | alpha-alpha superhelix multihelical; 2 (curved) layers: alpha/alpha; right-handed superhelix |
| d.379.1 | Taf5 N-terminal domain-like | Taf5 N-terminal domain-like multihelical cluster with a C-terminal beta-alpha(2)-beta motif; one central buried helix; parallel beta-ribbon |
| d.110.2 | GAF domain-like alpha(2)-beta(3)-alpha-beta(3)-alpha; antiparallel beta-sheet: order 321654 ! | Profilin-like core: 2 alpha-helices and 5-stranded antiparallel sheet: order 21543; 3 layers: alpha/beta/alpha |
| a.261.1 | GUN4-like | GUN4-like multihelical; open array, trapping inside an extended region before the C-terminal helix |
| a.196.1 | Invasion protein A (SipA) , C-terminal actin binding domain | Invasion protein A (SipA) , C-terminal actin binding domain 6 helices: orthogonal array |
| d.110.5 | Pheromone-binding domain of LuxR-like quorum-sensing transcription factors alpha(2)-beta(2)-alpha(2)-beta(3)-alpha; possibly related to the PAS domain ! | Profilin-like core: 2 alpha-helices and 5-stranded antiparallel sheet: order 21543; 3 layers: alpha/beta/alpha |
| a.118.11 | Cytochrome c oxidase subunit E | alpha-alpha superhelix multihelical; 2 (curved) layers: alpha/alpha; right-handed superhelix |
| a.287.1 | TerB-like members of this superfamily probably related to the tellurite resistance protein TerB (Pfam 05099) of yet undetermined structure | TerB-like multihelical; contains two central helices; duplication: there are two three-helical repeats related by pseudo twofold symmetry |
| c.45.1 | (Phosphotyrosine protein) phosphatases II share with the family I the common active site structure with a circularly permuted topology ! | (Phosphotyrosine protein) phosphatases II core: 3 layers, a/b/a; parallel beta-sheet of 4 strands, order 1423 |
| a.7.17 | Efb C-domain-like | Spectrin repeat-like 3 helices; bundle, closed, left-handed twist; up-and-down |
| a.118.25 | TROVE domain-like consist of two superhelical sections arranged like a horse-shoe ! | alpha-alpha superhelix multihelical; 2 (curved) layers: alpha/alpha; right-handed superhelix |
| d.54.1 | Enolase N-terminal domain-like | Enolase N-terminal domain-like beta(3)-alpha(3); meander and up-and-down bundle |
| a.102.1 | Six-hairpin glycosidases | alpha/alpha toroid multihelical; up to seven alpha-hairpins are arranged in closed circular array; there may be sequence similarities between different superfamilies |
| a.80.1 | post-AAA+ oligomerization domain-like associated with N-terminal domain from the AAA+ family of P-loop hydrolases ! | post-AAA+ oligomerization domain-like core: 5 helices: bundle |
| a.65.1 | Annexin duplication: consists of four domains of the same fold ! | Annexin 5 helices; folded leaf, closed |
| a.211.1 | HD-domain/PDEase-like | HD-domain/PDEase-like multihelical; consists of two different alpha-helical bundles |
| a.23.3 | Methane monooxygenase hydrolase, gamma subunit duplication: consists of two domains of this fold ! | Open three-helical up-and-down bundle core: 3 helices; bundle, open |
| a.7.15 | PPK N-terminal domain-like | Spectrin repeat-like 3 helices; bundle, closed, left-handed twist; up-and-down |
| a.79.1 | NusB-like | NusB-like 6 helices: bundle; one central helix is surrounded by 5 others |
| a.102.3 | Chondroitin AC/alginate lyase incomplete toroid ! | alpha/alpha toroid multihelical; up to seven alpha-hairpins are arranged in closed circular array; there may be sequence similarities between different superfamilies |
| a.86.1 | Di-copper centre-containing domain duplication: contains two structural repeats ! | Di-copper centre-containing domain multihelical |
| a.71.1 | ERP29 C domain-like | ERP29 C domain-like 5 helices; bundle |
| d.144.1 | Protein kinase-like (PK-like) shares functional and structural similarities with the ATP-grasp fold and PIPK ! | Protein kinase-like (PK-like) consists of two alpha+beta domains, C-terminal domain is mostly alpha helical |
| a.24.20 | Colicin D immunity protein | Four-helical up-and-down bundle core: 4 helices; bundle, closed or partly opened, left-handed twist; up-and-down |
| a.71.2 | Helical domain of Sec23/24 | ERP29 C domain-like 5 helices; bundle |
| a.152.1 | AhpD-like probable biological unit contains six domains of this fold arranged with 32 symmetry ! | AhpD-like multihelical; contains 4-helical bundle and 2-helical arm |
| a.102.2 | Seven-hairpin glycosidases | alpha/alpha toroid multihelical; up to seven alpha-hairpins are arranged in closed circular array; there may be sequence similarities between different superfamilies |
| a.104.1 | Cytochrome P450 | Cytochrome P450 multihelical |
| a.103.1 | Citrate synthase | Citrate synthase multihelical; consists of two all-alpha domains |
| a.118.24 | Pseudo ankyrin repeat-like contains three helices per turn of the superhelix ! | alpha-alpha superhelix multihelical; 2 (curved) layers: alpha/alpha; right-handed superhelix |
| a.209.1 | ADP-ribosylglycohydrolase | ADP-ribosylglycohydrolase multihelical; bundle |
| a.204.1 | all-alpha NTP pyrophosphatases basic module consist of 5 active site-forming helices; four from one subunit/structural repeat; the fifth from the other subunit/repeat ! | all-alpha NTP pyrophosphatases multihelical: dimeric 4-helical bundle surrounded by other helices; oligomerizes further in a tetramer |
| e.50.1 | AF1104-like | AF1104-like 2 domains; d1: [all-alpha; 3-helical bundle, similar to the immunoglobulin/albumin-binding domain-like fold (scop_cf 46996)]; d2: [alpha/beta; 3 layers, a/b/a; 6-stranded mixed beta-sheet, order: 321456, strand 6 is antiparallel to the rest] |
| e.43.1 | Subunits of heterodimeric actin filament capping protein Capz | Subunits of heterodimeric actin filament capping protein Capz 3 domains: (1) protozoan pheromone-like alpha-helical bundle; (2) rubredoxin-like domain lacking metal-binding site; (3) alpha+beta heterodimerisation domain: alpha-beta(5)-alpha |
| a.118.15 | Aconitase B, N-terminal domain | alpha-alpha superhelix multihelical; 2 (curved) layers: alpha/alpha; right-handed superhelix |
| a.190.1 | Flavivirus capsid protein C | Flavivirus capsid protein C core: 5 helices; right-handed superhelix; swapped dimer with the two long C-terminal helices |
| a.118.18 | HCP-like | alpha-alpha superhelix multihelical; 2 (curved) layers: alpha/alpha; right-handed superhelix |
| a.146.1 | Telomeric repeat binding factor (TRF) dimerisation domain | Telomeric repeat binding factor (TRF) dimerisation domain multihelical; can be divided into an alpha-alpha superhelix domain and a long alpha-hairpin dimerization domain |
| f.58.1 | MetI-like | MetI-like core: 5 transmembrane helices; flattened bundle |
| a.87.1 | DBL homology domain (DH-domain) | DBL homology domain (DH-domain) multihelical; core: 5-helical bundle |
| a.24.21 | RecG, N-terminal domain | Four-helical up-and-down bundle core: 4 helices; bundle, closed or partly opened, left-handed twist; up-and-down |
| d.17.4 | NTF2-like has a beta-alpha(2)-beta insertion after the main helix ! | Cystatin-like Core: alpha-beta(4); helix packs against coiled antiparallel beta-sheet |
| a.101.1 | Uteroglobin-like disulfide-linked dimer of two identical chains, 4 helices in each ! | Uteroglobin-like multihelical |
| a.7.6 | Ribosomal protein S20 | Spectrin repeat-like 3 helices; bundle, closed, left-handed twist; up-and-down |
| a.25.1 | Ferritin-like contains bimetal-ion centre in the middle of the bundle ! | Ferritin-like core: 4 helices; bundle, closed, left-handed twist; 1 crossover connection |
| a.29.14 | Ta0600-like | Bromodomain-like 4 helices; bundle; minor mirror variant of up-and-down topology |
| a.118.13 | Arp2/3 complex 16 kDa subunit ARPC5 | alpha-alpha superhelix multihelical; 2 (curved) layers: alpha/alpha; right-handed superhelix |
| a.159.4 | DEK C-terminal domain | Another 3-helical bundle topologically similar to the DNA/RNA-binding bundles; distinct packing |
| d.224.1 | SufE/NifU iron-sulfur cluster assembly proteins ! | SufE/NifU alpha(2)-beta(3)-alpha(3); 2 layers alpha/beta, 3-stranded antiparallel beta-sheet; order 123 |
| a.118.12 | Ran-GTPase activating protein 1 (RanGAP1), C-terminal domain | alpha-alpha superhelix multihelical; 2 (curved) layers: alpha/alpha; right-handed superhelix |
| a.118.5 | Bacterial muramidases | alpha-alpha superhelix multihelical; 2 (curved) layers: alpha/alpha; right-handed superhelix |
| a.296.1 | PMT central region-like | PMT central region-like multihelical; comprises two four-helical bundles of different topologies and an irregular helical array packed against a small beta-sheet |
| a.99.1 | Cryptochrome/photolyase FAD-binding domain | Cryptochrome/photolyase FAD-binding domain multihelical; consists of two all-alpha subdomains |
| a.121.1 | Tetracyclin repressor-like, C-terminal domain | Tetracyclin repressor-like, C-terminal domain multihelical; interlocked (homo)dimer |
| d.228.1 | Replication modulator SeqA, C-terminal DNA-binding domain | Replication modulator SeqA, C-terminal DNA-binding domain consists of seven alpha-helices and three-stranded beta-sheet |
| a.235.1 | ATP-dependent DNA ligase DNA-binding domain | ATP-dependent DNA ligase DNA-binding domain multihelical; duplication: contains two intertwined structural repeats related by pseudo twofold symmetry |
| a.226.1 | Her-1 | Her-1 multihelical; consists of two topologically similar alpha-helical bundles |
| a.118.7 | 14-3-3 protein | alpha-alpha superhelix multihelical; 2 (curved) layers: alpha/alpha; right-handed superhelix |
| c.87.1 | UDP-Glycosyltransferase/glycogen phosphorylase | UDP-Glycosyltransferase/glycogen phosphorylase consists of two non-similar domains with 3 layers (a/b/a) each ! domain 1: parallel beta-sheet of 7 strands, order 3214567 ! domain 2: parallel beta-sheet of 6 strands, order 321456 |
| a.123.1 | Nuclear receptor ligand-binding domain | Nuclear receptor ligand-binding domain multihelical; 3 layers or orthogonally packed helices |
| a.102.4 | Terpenoid cyclases/Protein prenyltransferases | alpha/alpha toroid multihelical; up to seven alpha-hairpins are arranged in closed circular array; there may be sequence similarities between different superfamilies |
| c.70.1 | Nucleoside hydrolase | Nucleoside hydrolase core: 3 layers, a/b/a ; mixed beta-sheet of 8 strands, order 32145687; strand 7 is antiparallel to the rest |
| a.72.1 | Functional domain of the splicing factor Prp18 | Functional domain of the splicing factor Prp18 core: 5 helices; bundle |
| a.4.5 | "Winged helix" DNA-binding domain contains a small beta-sheet (wing) ! | DNA/RNA-binding 3-helical bundle core: 3-helices; bundle, closed or partly opened, right-handed twist; up-and down |
| a.92.1 | Carbamoyl phosphate synthetase, large subunit connection domain | Carbamoyl phosphate synthetase, large subunit connection domain multihelical; consists of two all-alpha subdomains ! possible duplication: subdomains have similar topologies |
| a.246.2 | TTHA0068-like | Hyaluronidase domain-like 5 helices; bundle, closed, left-handed twist; up-and-down (meander) topology |
| a.276.1 | BH2638-like | BH2638-like 4 helices, folded leaf, right-handed superhelix; some similarity to the DFF-C domain fold (scop_cf 81782) |
| a.93.1 | Heme-dependent peroxidases | Heme-dependent peroxidases multihelical; consists of two all-alpha domains |
| e.39.1 | YebC-like | YebC-like 3 domains: (1) 3-helical bundle; (2 and 3 ) alpha+beta of different folds: domain 3 has a ferredoxin-like fold and is inserted in domain 2 |
| a.266.1 | Indolic compounds 2,3-dioxygenase-like contains heme-dependent enzymes ! | Indolic compounds 2,3-dioxygenase-like multihelical; bundle, contains interrupted helices |
| d.363.1 | NMB0513-like | NMB0513-like alpha(3)-beta(2)-alpha-beta(2); some similarity to the "winged helix" DNA-binding domain fold |
| f.1.3 | delta-Endotoxin (insectocide), N-terminal domain | Toxins' membrane translocation domains multi-helical domains of various folds which is thought to unfold in the membrane |
| a.118.3 | Sec7 domain | alpha-alpha superhelix multihelical; 2 (curved) layers: alpha/alpha; right-handed superhelix |
| a.2.2 | Ribosomal protein L29 (L29p) | Long alpha-hairpin 2 helices; antiparallel hairpin, left-handed twist |
| a.173.1 | Poly A polymerase C-terminal region-like the neck subdomain is an alpha-alpha superhelix; the tail subdomain is similar to the RuvA C-terminal domain-like ! | Poly A polymerase C-terminal region-like multihelical; can be divided into three subdomains (neck, body and tail) |
| a.89.1 | Methyl-coenzyme M reductase alpha and beta chain C-terminal domain | Methyl-coenzyme M reductase alpha and beta chain C-terminal domain multihelical bundle; contains buried central helix |
| a.192.1 | N-terminal domain of adenylylcyclase associated protein, CAP | N-terminal domain of adenylylcyclase associated protein, CAP 6 helices: bundle; left-handed twist, up-and-down topology |
| d.55.1 | Ribosomal protein L22 some topological similarity to prokaryotic ribosomal protein L17 ! | Ribosomal protein L22 beta-alpha(3)-beta(2); 2 layers: alpha/beta; related to the enolase/MLE N-domain fold by a circular permutation |
| a.116.1 | GTPase activation domain, GAP | GTPase activation domain, GAP multihelical |
| a.60.7 | 5' to 3' exonuclease, C-terminal subdomain | SAM domain-like 4-5 helices; bundle of two orthogonally packed alpha-hairpins; involved in the interactions with DNA and proteins |
| a.29.12 | Nqo1C-terminal domain-like contains extra C-terminal helix that caps the bundle at one end and Fe4-S4 cluster at the other end ! | Bromodomain-like 4 helices; bundle; minor mirror variant of up-and-down topology |
| a.45.1 | GST C-terminal domain-like this domains follows the thioredoxin-like N-terminal domain ! | GST C-terminal domain-like core: 4 helices; bundle, closed, left-handed twist; right-handed superhelix |
| e.28.1 | Reovirus inner layer core protein p3 | Reovirus inner layer core protein p3 large protein without apparent domain division; has a number of all-alpha regions and one all beta domain near the C-end |
| a.52.1 | Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin can be classified as disulfide-rich ! | Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin 4 helices; folded leaf; right-handed superhelix |
| a.24.10 | Histidine-containing phosphotransfer domain, HPT domain contains additional, fifth helix at the N-terminus ! | Four-helical up-and-down bundle core: 4 helices; bundle, closed or partly opened, left-handed twist; up-and-down |
| a.74.1 | Cyclin-like duplication: consists of two domains of this fold ! | Cyclin-like core: 5 helices; one helix is surrounded by the others |
| a.128.1 | Terpenoid synthases duplication: two metal-binding sites are related by a pseudo dyad that also relates helices C-F to helices G-J ! | Terpenoid synthases multihelical; core: 8 helices (C-J) are arranged in 2 parallel layers |
| e.40.1 | Cullin homology domain | Cullin homology domain 3 domains: (1) 4-helical bundle; (2) alpha+beta; (3) "winged helix"-like |
| a.102.5 | Family 10 polysaccharide lyase | alpha/alpha toroid multihelical; up to seven alpha-hairpins are arranged in closed circular array; there may be sequence similarities between different superfamilies |
| e.69.1 | Poly(A) polymerase catalytic subunit-like Central domain d2 is distantly related to the nucleotidyltransferase superfamily (scop_sf 81301) | Poly(A) polymerase catalytic subunit-like 3 domains; d1: all-alpha, contains HhH motif; d2: alpha+beta of nucleotidyltransferase fold (scop_cf 81302); d3: [alpha+beta; beta(3)-alpha-beta(3)-alpha(2); 3 layers: a/b/a; mixed beta-sheet of 6 strands, order 123654, strands 2 and 5 are antiparallel to the rest |
| a.118.22 | IP3 receptor type 1 binding core, domain 2 | alpha-alpha superhelix multihelical; 2 (curved) layers: alpha/alpha; right-handed superhelix |
| e.64.1 | FlhC-like | FlhC-like 3 domains; d1 & d2 are similar three-helical bundles, with d1 containing an HTH motif; d3: zinc finger of a rubredoxin-like fold |
| a.73.1 | Retrovirus capsid protein, N-terminal core domain | Retrovirus capsid protein, N-terminal core domain core: 5 helices; bundle |
| a.254.1 | PA2201 C-terminal domain-like | PA2201 C-terminal domain-like multihelical; seven-helical bundle with buried central helix |
| a.96.1 | DNA-glycosylase | DNA-glycosylase multihelical; consists of two all-alpha domains |
| a.64.1 | Saposin Lipid-binding can promote conformational changes and oligomerisation in some members ! | Saposin-like 5 helices; folded leaf, closed |
| e.5.1 | Heme-dependent catalase-like | Heme-dependent catalase-like contains an (8,10) beta-barrel and an all-alpha domain |
| c.64.1 | Pyruvate-ferredoxin oxidoreductase, PFOR, domain III | Pyruvate-ferredoxin oxidoreductase, PFOR, domain III 3 layers: a/b/a; mixed beta-sheet of 6 strands, order 231456; strand 3 is antiparallel to the rest |
| d.185.1 | LuxS/MPP-like metallohydrolase Share the same "active site motif" HxxEH located in the first core helix, but differ in one of the zinc-binding residues ! | LuxS/MPP-like metallohydrolase core: beta-alpha-beta(2)-alpha(2); 2 layers: alpha/beta |
| e.45.1 | Antivirulence factor | Antivirulence factor contains a helical bundle with a buried helix and an alpha+beta insert domain |
| d.87.1 | FAD/NAD-linked reductases, dimerisation (C-terminal) domain both first two domains are of same beta/beta/alpha fold ! | CO dehydrogenase flavoprotein C-domain-like core: beta(3,4)-alpha(3); alpha+beta sandwich |
| d.207.1 | Thymidylate synthase-complementing protein Thy1 | Thymidylate synthase-complementing protein Thy1 complex alpha+beta fold; contains antiparallel 5-stranded beta-sheet: order 12354 |
| f.1.2 | Diphtheria toxin, middle domain | Toxins' membrane translocation domains multi-helical domains of various folds which is thought to unfold in the membrane |
| f.40.1 | V-type ATP synthase subunit C duplication: consists of three similar structural parts ! | V-type ATP synthase subunit C 9 transmembrane helices |
| a.48.4 | HIV integrase-binding domain | N-cbl like 4 helices; bundle, left-handed twist; left-handed superhelix |
| a.27.1 | Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases | Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases core: 4 helices; bundle; one loop crosses over one side of the bundle |
| a.243.1 | Type III secretion system domain | Type III secretion system domain core: 4 helices, orthogonal array; right-handed superhelix |
| a.199.1 | YgfB-like | YgfB-like multihelical; consists of two tightly associated 3-helical bundles with different twists |
| a.186.1 | KaiA/RbsU domain | KaiA/RbsU domain 4 helices; bundle, right-handed twist; right-handed superhelix |
| e.29.1 | beta and beta-prime subunits of DNA dependent RNA-polymerase The catalytic site is formed by the association of two double-psi beta-barrel domains, one from each subunit ! | beta and beta-prime subunits of DNA dependent RNA-polymerase Multidomain subunits of complex domain organization |
| a.118.26 | MgtE N-terminal domain-like made of short helices; approximately 2.5 helices per turn of superhelix | alpha-alpha superhelix multihelical; 2 (curved) layers: alpha/alpha; right-handed superhelix |
| a.24.9 | alpha-catenin/vinculin-like | Four-helical up-and-down bundle core: 4 helices; bundle, closed or partly opened, left-handed twist; up-and-down |
| c.27.1 | Nucleoside phosphorylase/phosphoribosyltransferase catalytic domain | Nucleoside phosphorylase/phosphoribosyltransferase catalytic domain 3 layers: a/b/a; parallel beta-sheet of 5 strands, order 32145; Rossmann-like |
| d.163.1 | DNA breaking-rejoining enzymes | DNA breaking-rejoining enzymes core: alpha3-beta3-alpha4; one side of beta-sheet is exposed |
| d.106.1 | SCP-like | SCP-like alpha-beta(3)-(crossover)-beta-(alpha)-beta; 3 layers: a/b/a; antiparallel beta-sheet of 5 strands; order: 32145 |
| a.126.1 | Serum albumin-like | Serum albumin-like multihelical; one domain consists of two similar disulfide-linked subdomains |
| e.61.1 | ImpE-like | ImpE-like consists of two domains; d1: right-handed superhelix of five helices; d2: pseudo beta-barrel containing structurally similar part to the "Histone-like" proteins from archaea (scop_fa 54161) |
| a.4.14 | KorB DNA-binding domain-like contains HTH motif in the common core; also contains extra N-terminal helix and C-terminal subdomain of 4 helices (left-handed superhelix) ! | DNA/RNA-binding 3-helical bundle core: 3-helices; bundle, closed or partly opened, right-handed twist; up-and down |
| d.188.1 | Prokaryotic ribosomal protein L17 some topological similarity to ribosomal protein L22 ! | Prokaryotic ribosomal protein L17 alpha-beta-alpha(3)-beta(2); 2 layers: alpha/beta; |
| a.132.1 | Heme oxygenase-like duplication: contains two structural repeats of 3-helical motif ! | Heme oxygenase-like multihelical; bundle |
| a.100.1 | 6-phosphogluconate dehydrogenase C-terminal domain-like N-terminal domain is Rossmann-fold with a family-specific C-terminal extension ! | 6-phosphogluconate dehydrogenase C-terminal domain-like multihelical; common core is formed around two long antiparallel helices related by (pseudo) twofold symmetry |
| a.118.14 | FliG fragmented superhelix; consist of 3/4-helical motifs and connecting helices ! | alpha-alpha superhelix multihelical; 2 (curved) layers: alpha/alpha; right-handed superhelix |
| a.85.1 | Hemocyanin, N-terminal domain | Hemocyanin, N-terminal domain 6 helices; bundle; one central helix is surrounded by 5 others |
| c.107.1 | DHH phosphoesterases constituent families have similar domain organization with variable interdomain linker and spatial arrangement of the domains ! | DHH phosphoesterases consists of two non-similar domains ! Domain 1 has parallel sheet of 6 strands, order 321456 ! Domain 2 has mixed sheet of 5 strands, order 12345; strands 1 & 4 are antiparallel to the rest |
| e.22.1 | Dehydroquinate synthase-like | Dehydroquinate synthase-like 2 domains: (1) alpha/beta of a Rossmann-fold topology, binds NAD (2) multihelical array |
| d.334.1 | IlvD/EDD N-terminal domain-like | IlvD/EDD N-terminal domain-like contains a large cluster of helices and a mixed beta-sheet of 4 strands; order 2134, strands 3 and 4 are parallel |
| a.260.1 | Rhabdovirus nucleoprotein-like | Rhabdovirus nucleoprotein-like multihelical, consist of two helical domains; each domain contains a buried helix |
| a.7.3 | Succinate dehydrogenase/fumarate reductase flavoprotein C-terminal domain | Spectrin repeat-like 3 helices; bundle, closed, left-handed twist; up-and-down |
| a.264.1 | Duffy binding domain-like | Duffy binding domain-like consist of two subdomains, each containing a three-helical bundle |
| c.1.19 | Cobalamin (vitamin B12)-dependent enzymes | TIM beta/alpha-barrel contains parallel beta-sheet barrel, closed; n=8, S=8; strand order 12345678 ! the first seven superfamilies have similar phosphate-binding sites |
| a.118.17 | Cullin repeat-like | alpha-alpha superhelix multihelical; 2 (curved) layers: alpha/alpha; right-handed superhelix |
| a.64.2 | Bacteriocin AS-48 | Saposin-like 5 helices; folded leaf, closed |
| a.137.15 | Lipase chaperone-like open single layer scaffold of 11 helices, which engulfs the substrate protein | Non-globular all-alpha subunits of globular proteins not a true fold |
| a.278.1 | GINS helical bundle-like common to all subunits of the GINS complex | GINS helical bundle-like 5 helices, staggered bundle; |
| g.81.1 | HSP33 redox switch-like | HSP33 redox switch-like alpha+beta zinc-binding domain; alpha(2)-beta(2)-alpha |
| a.203.1 | Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS) | Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS) multihelical; consists of two all-alpha subdomains |
| a.23.2 | Diol dehydratase, gamma subunit contains irregular N-terminal subdomain ! | Open three-helical up-and-down bundle core: 3 helices; bundle, open |
| a.222.1 | VPS9 domain | VPS9 domain multihelical; consist of two subdomains |
| a.81.1 | N-terminal domain of DnaB helicase | N-terminal domain of DnaB helicase 6 helices: array |
| a.97.1 | An anticodon-binding domain of class I aminoacyl-tRNA synthetases | An anticodon-binding domain of class I aminoacyl-tRNA synthetases multihelical; consists of two all-alpha domains |
| a.110.1 | Aldehyde ferredoxin oxidoreductase, C-terminal domains | Aldehyde ferredoxin oxidoreductase, C-terminal domains multihelical; consists of two all-alpha domains |
| c.1.13 | Malate synthase G | TIM beta/alpha-barrel contains parallel beta-sheet barrel, closed; n=8, S=8; strand order 12345678 ! the first seven superfamilies have similar phosphate-binding sites |
| a.117.1 | Ras GEF | Ras GEF multihelical |
| a.234.1 | Hypothetical protein MPN330 | Hypothetical protein MPN330 multihelical; consists of three different 4-helical bundles |
| e.44.1 | 2-methylcitrate dehydratase PrpD | 2-methylcitrate dehydratase PrpD consists of an all-alpha and alpha+beta domains |
| a.158.1 | F-box domain | F-box domain multihelical; interlocked heterodimer with the Skp1 dimerisation domain |
| a.23.5 | Hemolysin expression modulating protein HHA | Open three-helical up-and-down bundle core: 3 helices; bundle, open |
| a.4.7 | Ribosomal protein L11, C-terminal domain | DNA/RNA-binding 3-helical bundle core: 3-helices; bundle, closed or partly opened, right-handed twist; up-and down |
| a.4.9 | Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 | DNA/RNA-binding 3-helical bundle core: 3-helices; bundle, closed or partly opened, right-handed twist; up-and down |
| a.51.1 | Cytochrome c oxidase subunit h | Cytochrome c oxidase subunit h 4 helices; irregular array, disulfide-linked |
| d.122.1 | ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase | ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase 8-stranded mixed beta-sheet; 2 layers: alpha/beta |
| a.168.1 | SopE-like GEF domain | SopE-like GEF domain multihelical; consists of two all-alpha subdomains each containing a 3-helical bundle with right-handed twist |
| c.19.1 | FabD/lysophospholipase-like | FabD/lysophospholipase-like core: 3 layers, a/b/a; mixed beta-sheet of 6 strands, order 432156; strand 4 is antiparallel to the rest |
| e.6.1 | Acyl-CoA dehydrogenase NM domain-like flavoprotein: binds FAD; constituent families differ in the numbers of C-terminal domains (four-helical bundles) ! | Acyl-CoA dehydrogenase NM domain-like 2 domains: (1) all-alpha: 5 helices; (2) contains an open beta-sheet barrel: n*=5, S*=8; complex topology |
| f.1.1 | Colicin | Toxins' membrane translocation domains multi-helical domains of various folds which is thought to unfold in the membrane |
| a.157.1 | Skp1 dimerisation domain-like | Skp1 dimerisation domain-like multihelical; interlocked heterodimer with F-box proteins |
| g.32.1 | GLA-domain gamma-carboxy-glutamic acid-rich domain ! | GLA-domain Calcium ion-bound |
| d.315.1 | TRCF domain-like | TRCF domain-like beta-alpha(3)-beta(2)-alpha-beta(2)-alpha; 2 layers: alpha/beta; mixed beta sheet, order 12354, strands 1 and 2 are parallel; some topological similarity to the DCoH-like fold (scop_cf 55247) |
| a.4.11 | RNA polymerase subunit RPB10 | DNA/RNA-binding 3-helical bundle core: 3-helices; bundle, closed or partly opened, right-handed twist; up-and down |
| f.59.1 | Cation efflux protein transmembrane domain-like | Cation efflux protein transmembrane domain-like 6 transmembrane helices, bundle |
| a.140.5 | DNA-binding domain of EIN3-like decorated with additional structures ! | LEM/SAP HeH motif helix-extended loop-helix; parallel helices |
| a.46.2 | Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain | Methionine synthase domain-like 4 helices; bundle, left-handed twist; right-handed superhelix |
| e.75.1 | flu NP-like | Flu NP-like consists of alpha+beta and all-alpha domains; biological unit is a trimer |
| a.289.1 | Sec63 N-terminal domain-like | Sec63 N-terminal domain-like multihelical; consists of two helical subdomains |
| e.42.1 | L-A virus major coat protein | L-A virus major coat protein large protein without apparent domain division |
| a.84.1 | Scaffolding protein gpD of bacteriophage procapsid | Scaffolding protein gpD of bacteriophage procapsid core: 6 helices; one central helix is surrounded by 5 others |
| a.59.1 | PAH2 domain | PAH2 domain 4 helices; open up-and-down bundle; binds alpha-helical peptides |
| a.217.1 | Surp module (SWAP domain) | Surp module (SWAP domain) 5 helices: irregular array |
| d.117.1 | Thymidylate synthase/dCMP hydroxymethylase | Thymidylate synthase/dCMP hydroxymethylase contains large mixed beta-sheet |
| a.246.3 | FLJ32549 domain-like | Hyaluronidase domain-like 5 helices; bundle, closed, left-handed twist; up-and-down (meander) topology |
| a.60.9 | lambda integrase-like, N-terminal domain | SAM domain-like 4-5 helices; bundle of two orthogonally packed alpha-hairpins; involved in the interactions with DNA and proteins |
| a.4.10 | N-terminal Zn binding domain of HIV integrase | DNA/RNA-binding 3-helical bundle core: 3-helices; bundle, closed or partly opened, right-handed twist; up-and down |
| d.87.2 | CO dehydrogenase flavoprotein C-terminal domain-like | CO dehydrogenase flavoprotein C-domain-like core: beta(3,4)-alpha(3); alpha+beta sandwich |
| d.179.1 | Substrate-binding domain of HMG-CoA reductase | Substrate-binding domain of HMG-CoA reductase unusual fold |
| a.237.1 | DNA polymerase III theta subunit-like | DNA polymerase III theta subunit-like 3 helices; irregular array |
| f.38.1 | MFS general substrate transporter | MFS general substrate transporter 12 transmembrane helices; duplication: the N- and C-terminal halves are structurally similar |
| a.98.1 | R1 subunit of ribonucleotide reductase, N-terminal domain | R1 subunit of ribonucleotide reductase, N-terminal domain multihelical consists of two all-alpha subdomains ! subdomain 1 (residues 10-100) is a 4-helical bundle |
| a.23.4 | Mitochondrial import receptor subunit Tom20 | Open three-helical up-and-down bundle core: 3 helices; bundle, open |
| a.29.10 | MAST3 pre-PK domain-like this domain precedes the Protein Kinase domain in Microtubule-associated serine/threonine-protein kinase 3 (MAST3) ! | Bromodomain-like 4 helices; bundle; minor mirror variant of up-and-down topology |
| a.50.1 | Anaphylotoxins (complement system) | Anaphylotoxins (complement system) 4 helices; irregular array, disulfide-linked |
| c.39.1 | Nicotinate mononucleotide:5,6-dimethylbenzimidazole phosphoribosyltransferase (CobT) | Nicotinate mononucleotide:5,6-dimethylbenzimidazole phosphoribosyltransferase (CobT) 3 layers: a/b/a, parallel beta-sheet of 7 strands, order 3214567 |
| a.268.1 | PTPA-like | PTPA-like multihelical |
| a.129.1 | GroEL equatorial domain-like duplication: two 4-helical subdomains are related by a pseudo dyad passing through the ATP-binding site ! | GroEL equatorial domain-like multihelical; 8 helices arranged in 2 parallel layers |
| a.118.21 | Chemosensory protein Csp2 | alpha-alpha superhelix multihelical; 2 (curved) layers: alpha/alpha; right-handed superhelix |
| d.213.1 | VSV matrix protein | VSV matrix protein beta-alpha(2)-beta(4)-alpha-beta(2); two layers: alpha/beta; bifurcated coiled beta-sheet: order of the first 5 strands: 23154 |
| c.150.1 | EreA/ChaN-like there are four conserved residues in the putative active site: two His and two Glu | EreA/ChaN-like Core: 3 layers: a/b/a; parallel beta-sheet of 5 strands, order:51423; |
| a.24.7 | FKBP12-rapamycin-binding domain of FKBP-rapamycin-associated protein (FRAP) | Four-helical up-and-down bundle core: 4 helices; bundle, closed or partly opened, left-handed twist; up-and-down |
| f.19.1 | Aquaporin-like | Aquaporin-like core: 8 helices, 2 short helices are surrounded by 6 long transmembrane helices |
| f.49.1 | Proton glutamate symport protein | Proton glutamate symport protein multihelical membrane protein; partial structural duplication in the C-terminal region; oligomeric state: trimer |
| b.3.3 | VHL | Prealbumin-like sandwich; 7 strands in 2 sheets, greek-key ! variations: some members have additional 1-2 strands to common fold |
| d.58.39 | Glutamyl tRNA-reductase catalytic, N-terminal domain common fold is elaborated with additional secondary structures ! | Ferredoxin-like alpha+beta sandwich with antiparallel beta-sheet; (beta-alpha-beta)x2 |
| a.246.1 | Hyaluronidase post-catalytic domain-like | Hyaluronidase domain-like 5 helices; bundle, closed, left-handed twist; up-and-down (meander) topology |
| c.56.6 | LigB-like circular permutation of the common fold, most similar to the PNP fold ! | Phosphorylase/hydrolase-like core: 3 layers, a/b/a ; mixed sheet of 5 strands: order 21354; strand 4 is antiparallel to the rest; contains crossover loops |
| d.377.1 | Rv2827c C-terminal domain-like | Rv2827c C-terminal domain-like multihelical array flanked by two three-stranded mixed beta-sheets |
| c.142.1 | Nqo1 FMN-binding domain-like | Nqo1 FMN-binding domain-like 3 layers, a/b/a; parallel beta-sheet of 4 strands, order 3214 |
| a.188.1 | PWI domain | PWI domain 4 helices; up-and-down bundle; topological similarity to the bromodomain-like and SAM domain-like folds |
| a.114.1 | Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain | Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain multihelical; bundle of longer and shorter helices |
| e.72.1 | SSO1389-like | SSO1389-like 2 domains; d1: [alpha/beta, central parallel beta-sheet of 6 strands, order 321456, Rossmann-like]; d2: [alpha+beta, cluster of helices and a small 4-stranded beta-sheet] |
| d.128.1 | Glutamine synthetase/guanido kinase | Glutamine synthetase/guanido kinase duplication: common core consists of two beta-alpha-beta2-alpha repeats |
| f.20.1 | Clc chloride channel | Clc chloride channel core: 18 transmembrane helices |
| a.88.1 | LigA subunit of an aromatic-ring-opening dioxygenase LigAB | LigA subunit of an aromatic-ring-opening dioxygenase LigAB multihelical; contains compact array of 6 short helices |
| a.256.1 | RUN domain-like | RUN domain-like multihelical; 3-helical bundle similar to one half of the DEATH domain fold is flanked by two alpha-hairpins forming a four-helical bundle; the axes of the three-helical and four-helical bundles are aproximately orthogonal to each other |
| a.70.1 | N-terminal domain of the delta subunit of the F1F0-ATP synthase | ATPD N-terminal domain-like core: 5 helices; bundle |
| a.255.1 | Rv1873-like | Rv1873-like multihelical; contains unusually short buried central helix |
| f.51.1 | Rhomboid-like | Rhomboid-like 6 transmembrane helices |
| d.211.1 | Ankyrin repeat repeats organized in elongated structures ! | beta-hairpin-alpha-hairpin repeat multiple repeats of beta(2)-alpha(2) motif |
| a.159.1 | Protein serine/threonine phosphatase 2C, C-terminal domain | Another 3-helical bundle topologically similar to the DNA/RNA-binding bundles; distinct packing |
| a.4.12 | TrpR-like contains an extra shared helix after the HTH motif ! | DNA/RNA-binding 3-helical bundle core: 3-helices; bundle, closed or partly opened, right-handed twist; up-and down |
| a.1.2 | alpha-helical ferredoxin contains two Fe4-S4 clusters ! | Globin-like core: 6 helices; folded leaf, partly opened |
| a.269.1 | FtsH protease domain-like contains zincin-like ( | FtsH protease domain-like array of 6 helices and a 2-stranded beta-ribbon |
| c.111.1 | Activating enzymes of the ubiquitin-like proteins transfer adenylyl group to the C-terminal carboxyl group of the ubiquitin and MoaD/ThiS-related proteins ! the ATP nucleotide-binding site is similar to that of the NAD-binding Rossmann-folds ! | Activating enzymes of the ubiquitin-like proteins 3 layers: a/b/a; mixed beta-sheet of 8 strands, order 32145678; strands 6 and 8 are antiparallel to the rest |
| d.314.1 | PUG domain-like | PUG domain-like alpha(2)-beta-alpha(2)-beta(2)-alpha; cluster of helices with a small antiparallel beta-sheet on one side; order 132; topological similarity to the fold of an extended R3H domain (PDB 1whr) |
| d.381.1 | ATP12-like | ATP12-like contains an N-terminal beta-sheet that forms a beta-triangle structure; the remainder is a multihelical array of long and short helices |
| a.174.1 | Double Clp-N motif duplication: contains two structural repeats of 4-helical motif ! | Double Clp-N motif multihelical; array |
| b.34.15 | Hypothetical protein YfhH contains extra N-terminal all-alpha subdomain ! | SH3-like barrel barrel, partly opened; n*=4, S*=8; meander ! the last strand is interrupted by a turn of 3-10 helix |
| a.247.1 | YoaC-like | YoaC-like 5 helices; bundle, one crossover connection, the arrangement of the first four helices is similar to the KaiA/RbsU domain fold (scop_cf 101214) |
| a.283.1 | ENT-like | ENT-like 5 helices, irregular array, right-handed superhelix |
| a.180.1 | N-terminal, cytoplasmic domain of anti-sigmaE factor RseA | N-terminal, cytoplasmic domain of anti-sigmaE factor RseA 4 helices; irregular array |
| a.60.13 | Putative methyltransferase TM0872, insert domain | SAM domain-like 4-5 helices; bundle of two orthogonally packed alpha-hairpins; involved in the interactions with DNA and proteins |
| c.7.1 | PFL-like glycyl radical enzymes duplication: the N- and C-terminal halves have similar topologies ! | PFL-like glycyl radical enzymes contains: barrel, closed; n=10, S=10; accommodates a hairpin loop inside the barrel |
| a.124.1 | Phospholipase C/P1 nuclease duplication: all chain but the N-terminal helix forms two structural repeats ! | Phospholipase C/P1 nuclease multihelical |
| a.78.1 | GntR ligand-binding domain-like | GntR ligand-binding domain-like core: 6 helices: closed bundle; greek-key; internal pseudo twofold symmetry |
| a.257.1 | SipA N-terminal domain-like | SipA N-terminal domain-like multihelical; bundle; the last helix is buried inside the bundle |
| f.36.1 | Neurotransmitter-gated ion-channel transmembrane pore | Neurotransmitter-gated ion-channel transmembrane pore heteropentameric transmembrane alpha-helical protein; 4 transmembrane helices per subunit |
| a.24.26 | YppE-like flattened bundle at one end with helices 2 and coming in contact and separating helices 1 and 3 ! | Four-helical up-and-down bundle core: 4 helices; bundle, closed or partly opened, left-handed twist; up-and-down |
| a.277.1 | TAFH domain-like | TAFH domain-like 5 helices; folded leaf, closed |
| d.211.2 | Plakin repeat repeats associate forming globular subdomains ! | beta-hairpin-alpha-hairpin repeat multiple repeats of beta(2)-alpha(2) motif |
| c.9.1 | Barstar-related | Barstar-like 2 layers, a/b; parallel beta-sheet of 3 strands, order 123 |
| a.1.1 | Globin-like | Globin-like core: 6 helices; folded leaf, partly opened |
| e.15.1 | Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment | Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment 2 domains: alpha+beta and all-beta |
| a.142.1 | PTS-regulatory domain, PRD duplication: consists of two domains of this fold ! | PTS-regulatory domain, PRD core: 4 helices; bundle, closed, right-handed twist; 1 crossover connection |
| a.23.7 | YvfG-like | Open three-helical up-and-down bundle core: 3 helices; bundle, open |
| e.48.1 | Major capsid protein VP5 | Major capsid protein VP5 large protein without apparent domain division |
| a.184.1 | TorD-like | TorD-like multihelical; bundle |
| a.189.1 | XPC-binding domain | XPC-binding domain 4 helices; array |
| d.148.1 | Hect, E3 ligase catalytic domain | Hect, E3 ligase catalytic domain consists of two alpha+beta domains; the N-terminal domain is array of helices and beta-hairpins; the C-terminal domain is an a/b sandwich with one left-handed beta-alpha(n)-beta unit; conformational flexibility of domain orientation |
| a.115.1 | A virus capsid protein alpha-helical domain this domain is interrupted by a jelly-roll beta-sandwich domain ! | A virus capsid protein alpha-helical domain multihelical; three-helical bundle in the core is surrounded by non-conserved helices |
| a.162.1 | Pre-protein crosslinking domain of SecA | Pre-protein crosslinking domain of SecA core: 4 helices: bundle; flanked by two short beta-hairpins ! duplication: consists of two structural repeats |
| a.29.16 | IVS-encoded protein-like IVS: Intervening sequence with conserved ORF in eubacterial 23S rRNA genes; forms a homopentamer with a toroid-shaped structure containing a tapered central channel | Bromodomain-like 4 helices; bundle; minor mirror variant of up-and-down topology |
| a.227.1 | ERO1-like similar active site architecture to | ERO1-like multihelical; consists of 2 four-helical bundles |
| a.159.2 | FF domain | Another 3-helical bundle topologically similar to the DNA/RNA-binding bundles; distinct packing |
| c.148.1 | ComB-like | ComB-like contains of two similar intertwined domains related by pseudo dyad; duplication; core: 3 layers: a/b/a; parallel beta-sheet of 4 strands, order 1423 |
| c.138.1 | Indigoidine synthase A-like | Indigoidine synthase A-like core: 3 layers, a/b/a; parallel beta-sheet of 7 strands, order 2134756 |
| a.134.1 | Fungal elicitin | Fungal elicitin 5 helices: irregular disulfide-linked array; also contains a small beta-hairpin |
| a.183.1 | Nop domain | Nop domain multihelical; array of longer and shorter helices; contains an alpha-hairpin dimerisation subdomain |
| a.60.8 | HRDC-like | SAM domain-like 4-5 helices; bundle of two orthogonally packed alpha-hairpins; involved in the interactions with DNA and proteins |
| a.24.3 | Cytochromes Heme-containing proteins ! | Four-helical up-and-down bundle core: 4 helices; bundle, closed or partly opened, left-handed twist; up-and-down |
| a.288.1 | UraD-Like | UraD-like multihelical; irregular array of long and short helices |
| a.119.1 | Lipoxigenase | Lipoxigenase multihelical ! large nearly all-alpha domain |
| a.29.15 | DsbB-like contains an extra helix in a long loop between helices 3 and 4 | Bromodomain-like 4 helices; bundle; minor mirror variant of up-and-down topology |
| a.29.11 | PA2201 N-terminal domain-like | Bromodomain-like 4 helices; bundle; minor mirror variant of up-and-down topology |
| a.7.8 | GAT-like domain | Spectrin repeat-like 3 helices; bundle, closed, left-handed twist; up-and-down |
| a.24.17 | Group V grass pollen allergen | Four-helical up-and-down bundle core: 4 helices; bundle, closed or partly opened, left-handed twist; up-and-down |
| e.10.1 | Prokaryotic type I DNA topoisomerase duplication: the protein chain passing through the domains 2-4 makes two structural repeats ! The active site is formed by the toprim and "winged helix" domains (domains 1 and 4); these two domains are also found in the type II topoisomerase (DNA gyrase A) and in the alpha subunit of topoisomerase IV ! | Prokaryotic type I DNA topoisomerase 4 domains: (1) Toprim alpha/beta; (2&4) "winged helix"-like; (3) barrel: n=6, S=8 |
| a.16.1 | S15/NS1 RNA-binding domain | S15/NS1 RNA-binding domain 3 helices; irregular array |
| e.11.1 | Type II DNA topoisomerase | Type II DNA topoisomerase 4 domains: (1) toprim alpha/beta; (2) "winged helix"-like; (3) alpha+beta; (4) all-alpha |
| g.86.1 | Coronavirus NSP10-like | Coronavirus NSP10-like binds two zinc ion per subunit; forms a dodecameric shell |
| a.23.1 | HSC20 (HSCB), C-terminal oligomerisation domain | Open three-helical up-and-down bundle core: 3 helices; bundle, open |
| d.75.1 | tRNA-intron endonuclease N-terminal domain-like | MutS N-terminal domain-like beta(2)-alpha-beta(2)-alpha-beta(2); 2 layers, alpha/beta |
| e.58.1 | Viral ssDNA binding protein | Viral ssDNA binding protein 2 domains; d1: [large alpha+beta domain subdivided into the 'head', 'neck' and 'shoulders' regions; in the 'neck', there is an OB-fold interrupted by large insertions]; d2: [all-alpha, 6 helices; orthogonal array] |
| a.154.1 | Variable surface antigen VlsE | Variable surface antigen VlsE multihelical; consists of two all-alpha subdomains; contains a 4-helical bundle with left-handed twist and up-and-down topology |
| a.118.23 | USP8 N-terminal domain-like | alpha-alpha superhelix multihelical; 2 (curved) layers: alpha/alpha; right-handed superhelix |
| a.24.11 | Bacterial GAP domain contains extra helices in the loops at one end of the bundle ! | Four-helical up-and-down bundle core: 4 helices; bundle, closed or partly opened, left-handed twist; up-and-down |
| e.41.1 | Adenylylcyclase toxin (the edema factor) Domain 1 has topological and active site similarity to the Nucleotidyltransferases (eg. 1kny N-domain); domain 3 binds calmodulin ! | Adenylylcyclase toxin (the edema factor) 3 domains: (1&2) alpha+beta, with domain 2 being inserted in domain 1; (3) all-alpha |
| a.29.5 | alpha-ketoacid dehydrogenase kinase, N-terminal domain | Bromodomain-like 4 helices; bundle; minor mirror variant of up-and-down topology |
| a.230.1 | YugE-like | YugE-like 4-helices; bundle; right-handed twist |
| a.206.1 | P40 nucleoprotein | P40 nucleoprotein multihelical; consists of two subdomains |
| f.13.1 | Family A G protein-coupled receptor-like | Family A G protein-coupled receptor-like core: up-and-down bundle of seven transmembrane helices tilted 20 degrees with respect to the plane of the membrane |
| a.120.1 | gene 59 helicase assembly protein | gene 59 helicase assembly protein multihelical; consists of two all-alpha subdomains |
| e.67.1 | PH0156-like | PH0156-like 2 (sub)domains; d1: [alpha/beta with central mixed beta-sheet, order: 23415876, similarity to the G protein but no P-loop]; d2: [all-alpha, 5 helices, provides dimerization interface] |
| a.225.1 | Hypothetical protein MG354 | Hypothetical protein MG354 multihelical bundle; contains buried central helix |
| a.29.6 | Plant invertase/pectin methylesterase inhibitor contains a short alpha-hairpin at the N-terminal extension ! | Bromodomain-like 4 helices; bundle; minor mirror variant of up-and-down topology |
| a.250.1 | IpaD-like | IpaD-like 6 helices; bundle, up-and-down; can be divided into two four-helical bundles sharing two helices (3 and 6), which are twice longer than the rest |
| c.1.33 | EAL domain-like variant of the beta/alpha-barrel fold with strand 1 being antiparallel to the rest ! | TIM beta/alpha-barrel contains parallel beta-sheet barrel, closed; n=8, S=8; strand order 12345678 ! the first seven superfamilies have similar phosphate-binding sites |
| a.40.3 | Hook domain | CH domain-like core: 4 helices: bundle |
| a.294.1 | Tex N-terminal region-like | Tex N-terminal region-like multihelical; irregular array of long and short helices; can be divided into several subdomains |
| a.185.1 | Gametocyte protein Pfg27 duplication: contains two structural repeats of four helices each ! | Gametocyte protein Pfg27 multihelical; bundle |
| a.262.1 | PriB N-terminal domain-like | PriB N-terminal domain-like multihelical bundle; contains buried central helix; also includes the PriA interface-forming insert subdomain (alpha+beta) |
| a.24.14 | FAT domain of focal adhesion kinase | Four-helical up-and-down bundle core: 4 helices; bundle, closed or partly opened, left-handed twist; up-and-down |
| a.60.6 | DNA polymerase beta, N-terminal domain-like contains one classic and one pseudo HhH motifs ! | SAM domain-like 4-5 helices; bundle of two orthogonally packed alpha-hairpins; involved in the interactions with DNA and proteins |
| a.24.18 | Oxygen-evolving enhancer protein 3, | Four-helical up-and-down bundle core: 4 helices; bundle, closed or partly opened, left-handed twist; up-and-down |
| a.11.2 | Second domain of FERM | Acyl-CoA binding protein-like core: 3 helices; bundle, closed, left-handed twist; up-and-down |
| d.336.1 | YbiA-like | YbiA-like consists of six alpha-helices and two two-stranded beta-sheets |
| a.177.1 | Sigma2 domain of RNA polymerase sigma factors | Sigma2 domain of RNA polymerase sigma factors multihelical; consists of a conserved 4-helical core and a variable insert subdomain |
| d.276.1 | Hypothetical protein yfbM | Hypothetical protein yfbM beta-alpha(2)-beta-alpha(2)-beta(2)-alpha(n)-beta; 3 layers: a/b/a; antiparallel beta-sheet, order: 21543 |
| a.118.16 | Translin | alpha-alpha superhelix multihelical; 2 (curved) layers: alpha/alpha; right-handed superhelix |
| a.216.1 | I/LWEQ domain | I/LWEQ domain 5 helices; bundle, closed, left-handed twist |
| a.207.1 | Formin homology 2 domain (FH2 domain) | Formin homology 2 domain (FH2 domain) multihelical, consists of three all-alpha domains |
| a.111.1 | Acid phosphatase/Vanadium-dependent haloperoxidase | Acid phosphatase/Vanadium-dependent haloperoxidase multihelical; core: 5-helical bundle; binds cofactor at the beginning of third helix |
| a.265.1 | Fic-like | Fic-like multihelical; one central helix is surrounded by seven helices |
| a.25.2 | Cobalamin adenosyltransferase-like crossover loop goes across a different side of the 4-helical bundle; no internal metal-binding site ! | Ferritin-like core: 4 helices; bundle, closed, left-handed twist; 1 crossover connection |
| a.295.1 | AGR C 984p-like | AGR C 984p-like multihelical, consists of two subdomains; duplication: there are two 5-helical structural repeats, one in each subdomain |
| a.195.1 | YutG-like | YutG-like core: 6 helices; bundle; one central helix is surrounded by 5 others |
| a.148.1 | Arp2/3 complex 21 kDa subunit ARPC3 | Arp2/3 complex 21 kDa subunit ARPC3 5 helices; one helix is surrounded by the others |
| c.85.1 | FucI/AraA N-terminal and middle domains | FucI/AraA N-terminal and middle domains consists of two domains of similar topology, 3 layers (a/b/a) each ! Domain 1 (1-173) has parallel beta-sheet of 5 strands, order 21345 ! Domain 2 (174-355) has parallel beta-sheet of 4 strands, order 2134 |
| a.63.1 | Apolipophorin-III | Apolipophorin-III 5 helices; bundle, closed, left-handed twist |
| a.281.1 | YheA/YmcA-like | YheA-like 5 helices; "kinked" antiparallel coiled coil; forms flexible oligomeric assemblies via two different dimerisation interfaces |
| a.267.1 | Topoisomerase V catalytic domain-like | Topoisomerase V catalytic domain-like multihelical; irregular array; contains small amount of beta-structure and a 3-helical bundle with a variant homeofomain-like fold and HTH motif (scop_cf 46688) |
| d.133.1 | Molybdenum cofactor-binding domain duplication: consists of 4 structural repeats arranged in 2 lobes ! contains one left-hand beta-alpha-beta unit per lobe ! | Molybdenum cofactor-binding domain beta(2)-alpha-beta-alpha-beta; 2 layers: a/b; mixed sheet: order 1243: crossing loops |
| a.47.3 | Cag-Z four-helical bundle without significant twist ! | STAT-like 4 long helices; bundle, left-handed twist (coiled coil); right-handed superhelix |
| a.70.2 | AF1862-like probable biological unit is a hexamer | ATPD N-terminal domain-like core: 5 helices; bundle |
| e.12.1 | DNA topoisomerase IV, alpha subunit | DNA topoisomerase IV, alpha subunit 2 domains: (1) toprim alpha/beta; (2) "winged helix"-like |
| d.29.1 | Ribosomal protein L31e | Ribosomal protein L31e beta-alpha-beta-(alpha)-beta(2); 2 layers: alpha/beta; mixed beta-sheet, order: 1342 |
| a.244.1 | EF2947-like | EF2947-like 4 helices; "diamond" array; duplication: N-terminal and C-terminal pairs of helices are related by pseudo dyad |
| a.24.24 | Domain from hypothetical 2610208m17rik protein | Four-helical up-and-down bundle core: 4 helices; bundle, closed or partly opened, left-handed twist; up-and-down |
| d.174.1 | Nitric oxide (NO) synthase oxygenase domain | Nitric oxide (NO) synthase oxygenase domain unusual fold |
| a.7.16 | MIT domain-like | Spectrin repeat-like 3 helices; bundle, closed, left-handed twist; up-and-down |
| a.46.1 | Methionine synthase domain | Methionine synthase domain-like 4 helices; bundle, left-handed twist; right-handed superhelix |
| f.21.1 | Transmembrane di-heme cytochromes Three of the four heme-ligands are conserved between the two families; both heme groups bind similarly but not identically ! | Heme-binding four-helical bundle core: four transmembrane helices, up-and-down bundle, binds one or two heme groups in between the helices |
| f.35.1 | Multidrug efflux transporter AcrB transmembrane domain | Multidrug efflux transporter AcrB transmembrane domain 12 transmembrane helices; duplication: the N- and C-terminal halves of the whole proteins are structurally similar |
| f.57.1 | MgtE membrane domain-like homodimer, swapped with the N-terminal helices | MgtE membrane domain-like 5 transmembrane helices; bundle, right-handed twist |
| c.1.22 | UROD/MetE-like | TIM beta/alpha-barrel contains parallel beta-sheet barrel, closed; n=8, S=8; strand order 12345678 ! the first seven superfamilies have similar phosphate-binding sites |
| a.280.1 | RbcX-like | RbcX-like 5 helices per subunit; irregular array of short and long helices; swapping of the C-terminal helices in the dimer |
| f.54.1 | SNF-like | SNF-like 12 transmembrane helices; duplication: consists of two structurally similar halves |
| d.287.1 | DNA methylase specificity domain | DNA methylase specificity domain comprises the N-terminal, double beta-helix like structure and C-terminal alpha-hairpin |
| a.166.1 | RuBisCo LSMT C-terminal, substrate-binding domain | RuBisCo LSMT C-terminal, substrate-binding domain multihelical; irregular array of long and short helices |
| c.13.1 | CRAL/TRIO domain | SpoIIaa-like core: 4 turns of a (beta-alpha)n superhelix |
| a.293.1 | SMc04008-like | SMc04008-like multihelcal; intertwined homodimer; there are 4 core helices in each subunits; contains putative metal ion-binding motif MxxxxxCxxC in the conserved surface site |
| a.60.4 | Rad51 N-terminal domain-like contains one classic and one pseudo HhH motifs ! | SAM domain-like 4-5 helices; bundle of two orthogonally packed alpha-hairpins; involved in the interactions with DNA and proteins |
| a.219.1 | Hypothetical protein YhaI oligomerizes via extra N-terminal helix forming trimeric coil-coiled ! | Hypothetical protein YhaI core: 5 helices; orthogonal array; folding similarity to the TipA-S domain (1ny9) |
| d.258.1 | Chorismate synthase, AroC | Chorismate synthase, AroC duplication: consists of two DCoH-like beta(2)-alpha-beta(2)-alpha structural repeats; 3 layers, beta/alpha/beta |
| e.59.1 | FdhE-like | FdhE-like consists on the N-terminal five-helical bundle, a tandem repeat of two rubredoxin-like domains and the C-terminal helix packed together |
| a.224.1 | Glycolipid transfer protein, GLTP | Glycolipid transfer protein, GLTP multihelical; 2 layers or orthogonally packed helices |
| e.2.1 | Replication terminator protein (Tus) | Replication terminator protein (Tus) contains a cluster of helices and a beta-sandwich |
| a.113.1 | DNA repair protein MutS, domain III | DNA repair protein MutS, domain III multihelical; consists of 2 all-alpha subdomains |
| f.24.1 | Cytochrome c oxidase subunit I-like | Cytochrome c oxidase subunit I-like 12 transmembrane helices in an approximate threefold rotational symmetric arrangement |
| a.131.1 | Peridinin-chlorophyll protein duplication: consists of two 8-helical repeats ! | Peridinin-chlorophyll protein multihelical: forms a boat-shaped protein shell around cofactors |
| a.24.19 | Flagellar export chaperone FliS can form closed, open and helix-swapped bundles ! | Four-helical up-and-down bundle core: 4 helices; bundle, closed or partly opened, left-handed twist; up-and-down |
| e.35.1 | Membrane penetration protein mu1 | Membrane penetration protein mu1 4 domains: three intertwined predominately alpha domains and one jelly-roll beta-sandwich |
| a.24.2 | Aspartate receptor, ligand-binding domain | Four-helical up-and-down bundle core: 4 helices; bundle, closed or partly opened, left-handed twist; up-and-down |
| a.7.5 | Tubulin chaperone cofactor A | Spectrin repeat-like 3 helices; bundle, closed, left-handed twist; up-and-down |
| f.25.1 | Cytochrome c oxidase subunit III-like | Cytochrome c oxidase subunit III-like core: 7 transmembrane helices organized into two bundles, one formed by the first two helices and the other by the rest |
| a.7.1 | Spectrin repeat | Spectrin repeat-like 3 helices; bundle, closed, left-handed twist; up-and-down |
| a.7.2 | Enzyme IIa from lactose specific PTS, IIa-lac | Spectrin repeat-like 3 helices; bundle, closed, left-handed twist; up-and-down |
| d.8.1 | Urease, gamma-subunit | Urease, gamma-subunit alpha(3)-beta(2); antiparallel hairpin |
| d.251.1 | Hypothetical protein YwqG | Hypothetical protein YwqG duplication: contains two similar beta-x-beta(4) motifs swapped with the first strands |
| a.202.1 | Superantigen MAM | Superantigen MAM multihelical; consists of two different alpha-helical bundles |
| f.1.5 | Exotoxin A, middle domain | Toxins' membrane translocation domains multi-helical domains of various folds which is thought to unfold in the membrane |
| a.159.3 | B-form DNA mimic Ocr | Another 3-helical bundle topologically similar to the DNA/RNA-binding bundles; distinct packing |
| a.47.5 | FlgN-like the last helix is shorter than the three others; a short extra helix between helices 2 an 3 fills the gap in the bundle ! | STAT-like 4 long helices; bundle, left-handed twist (coiled coil); right-handed superhelix |
| a.2.13 | Transcriptional repressor TraM similar structure to L29p ( | Long alpha-hairpin 2 helices; antiparallel hairpin, left-handed twist |
| a.215.1 | A middle domain of Talin 1 | A middle domain of Talin 1 5 helices; bundle, closed, left-handed twist; helices 2-5 adopt the Four-helical up-and-down bundle fold (scop_cf 47161) |
| a.46.3 | TM0693-like helix-swapped dimer; in which the two last helices of this fold form a single coiled-coil helix ! | Methionine synthase domain-like 4 helices; bundle, left-handed twist; right-handed superhelix |
| d.67.3 | Ribosome recycling factor, RRF | RRF/tRNA synthetase additional domain-like core: alpha-beta(2)-alpha-beta(2); 2 layers: alpha/beta |
| f.21.3 | Respiratory nitrate reductase 1 gamma chain possible link between the two other superfamilies: this subunit corresponds to the gamma subunit of a functionally related Formate dehydrogenase N complex but is structurally closer to the Fumarate reductase subunit FrdC ! | Heme-binding four-helical bundle core: four transmembrane helices, up-and-down bundle, binds one or two heme groups in between the helices |
| d.261.1 | Hypothetical protein PH1602 | Hypothetical protein PH1602 complex alpha+beta fold; contains a region of similarity to the ferredoxin-like fold |
| a.7.12 | PhoU-like duplication: consists of two sequence each repeats adopting this fold ! | Spectrin repeat-like 3 helices; bundle, closed, left-handed twist; up-and-down |
| a.2.15 | ISY1 domain-like | Long alpha-hairpin 2 helices; antiparallel hairpin, left-handed twist |
| a.47.1 | STAT | STAT-like 4 long helices; bundle, left-handed twist (coiled coil); right-handed superhelix |
| f.41.1 | Preprotein translocase SecY subunit duplication: consists of two similar structural parts ! | Preprotein translocase SecY subunit 10 transmembrane helices forming of a gated channel |
| f.31.1 | Photosystem I reaction center subunit XI, PsaL | Photosystem I reaction center subunit XI, PsaL core: three transmembrane helices, bundle |
| a.24.22 | Nickel-containing superoxide dismutase, NiSOD | Four-helical up-and-down bundle core: 4 helices; bundle, closed or partly opened, left-handed twist; up-and-down |
| a.29.3 | Acyl-CoA dehydrogenase C-terminal domain-like multidomain flavoprotein; N-terminal domain is all-alpha; the middle domain is open (5,8) barrel ! | Bromodomain-like 4 helices; bundle; minor mirror variant of up-and-down topology |
| a.198.1 | YcfC-like | YcfC-like multihelical; contains two buried central helices |
| d.173.1 | Methionine synthase activation domain-like | Methionine synthase activation domain-like unusual fold; core: beta-alpha(2)-beta(2)-alpha(2)-beta-alpha-beta; antiparallel beta-sheet: order 12354 |
| a.47.2 | t-snare proteins | STAT-like 4 long helices; bundle, left-handed twist (coiled coil); right-handed superhelix |
| f.44.1 | Ammonium transporter | Ammonium transporter 11 transmembrane helices; duplication: consist of 2 structural repeats of five helices each plus extra C-terminal helix |
| a.24.25 | TrmE connector domain | Four-helical up-and-down bundle core: 4 helices; bundle, closed or partly opened, left-handed twist; up-and-down |
| a.24.12 | Outer surface protein C (OspC) | Four-helical up-and-down bundle core: 4 helices; bundle, closed or partly opened, left-handed twist; up-and-down |
| f.29.1 | Photosystem I subunits PsaA/PsaB | Photosystem I subunits PsaA/PsaB core:11 transmembrane helices |
| a.228.1 | GDNF receptor-like | GDNF receptor-like 5 helices: irregular disulfide-linked array; topological similarity to the Fungal elicitin fold (scop_cf 48646) |
| a.191.1 | Methenyltetrahydrofolate cyclohydrolase-like | Methenyltetrahydrofolate cyclohydrolase-like 5 helices; bundle, closed, left-handed twist |
| f.22.1 | ABC transporter involved in vitamin B12 uptake, BtuC | ABC transporter involved in vitamin B12 uptake, BtuC multihelical; complex architecture with several transmembrane helices |
| e.65.1 | VPA0735-like | VPA0735-like consists of a cluster of helices and two beta-sandwich domains of similar topology; probable duplication |
| a.172.1 | Helical scaffold and wing domains of SecA | Helical scaffold and wing domains of SecA multihelical; consists of 2 all-alpha subdomains |
| a.47.6 | MukF C-terminal domain-like | STAT-like 4 long helices; bundle, left-handed twist (coiled coil); right-handed superhelix |
| a.24.23 | Mannose-6-phosphate receptor binding protein 1 (Tip47), C-terminal domain contains extra alpha+beta subdomain formed by the N- and C-termini. ! | Four-helical up-and-down bundle core: 4 helices; bundle, closed or partly opened, left-handed twist; up-and-down |
| f.18.1 | F1F0 ATP synthase subunit A | F1F0 ATP synthase subunit A core: up-and-down bundle of four transmembrane helices |
| a.290.1 | PSPTO4464-like | PSPTO4464-like multihelical; consists of two subdomains at the ends of a long connecting helix |
| a.205.1 | Hsp90 co-chaperone CDC37 | Hsp90 co-chaperone CDC37 multihelical; consists of 2 all-alpha subdomains connected by a long helix |
| e.46.1 | Virulence-associated V antigen | Virulence-associated V antigen consists of an all-alpha and alpha+beta domains connected by antiparallel coiled coil |
| d.180.1 | Conserved core of transcriptional regulatory protein vp16 | Conserved core of transcriptional regulatory protein vp16 unusual fold |
| f.37.1 | ABC transporter transmembrane region | ABC transporter transmembrane region multihelical; complex architecture with several transmembrane helices |
| a.24.27 | MW0975(SA0943)-like open bundle; there is a long groove between helices 1 and 4 ! | Four-helical up-and-down bundle core: 4 helices; bundle, closed or partly opened, left-handed twist; up-and-down |
| d.328.1 | CorA soluble domain-like | CorA soluble domain-like beta(2)-alpha-beta-alpha(2)-beta(4)-alpha(3); 3 layers: a/b/a; mixed beta-sheet, order 2137654; strands 3 and 7 are parallel |
| a.7.4 | Smac/diablo | Spectrin repeat-like 3 helices; bundle, closed, left-handed twist; up-and-down |