| SCOP superfamily ID |
superfamiily description |
corresponding fold description |
| c.1.10 | Aldolase Common fold covers whole protein structure ! | 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 |
| c.37.1 | P-loop containing nucleoside triphosphate hydrolases division into families based on beta-sheet topologies ! | P-loop containing nucleoside triphosphate hydrolases 3 layers: a/b/a, parallel or mixed beta-sheets of variable sizes |
| c.84.1 | Phosphoglucomutase, first 3 domains | Phosphoglucomutase, first 3 domains consists of three similar domains with 3 layers (a/b/a) each; duplication ! core: mixed beta-sheet of 4 strands, order 2134, strand 4 is antiparallel to the rest |
| c.1.14 | RuBisCo, C-terminal domain | 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 |
| c.2.1 | NAD(P)-binding Rossmann-fold domains | NAD(P)-binding Rossmann-fold domains core: 3 layers, a/b/a; parallel beta-sheet of 6 strands, order 321456 ! The nucleotide-binding modes of this and the next two folds/superfamilies are similar |
| c.1.12 | Phosphoenolpyruvate/pyruvate domain | 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 |
| c.1.21 | Dihydropteroate synthetase-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 |
| c.108.1 | HAD-like usually contains an insertion (sub)domain after strand 1 ! | HAD-like 3 layers: a/b/a; parallel beta-sheet of 6 strands, order 321456 |
| c.88.1 | Glutaminase/Asparaginase | Glutaminase/Asparaginase consists of two non-similar alpha/beta domains, 3 layers (a/b/a) each ! Domain 1 has mixed beta-sheet of 6 strands, order 213456, strand 6 is antiparallel to the rest; left-handed crossover connection between strands 4 and 5 ! Domain 2 has parallel beta-sheet of 4 strands, order 1234 |
| d.79.3 | L30e-like | Bacillus chorismate mutase-like core: beta-alpha-beta-alpha-beta(2); mixed beta-sheet: order: 1423, strand 4 is antiparallel to the rest |
| c.120.1 | PIN domain-like | PIN domain-like 3 layers, a/b/a; core: parallel beta-sheet of 5 strands, order 32145 |
| c.82.1 | ALDH-like binds NAD differently from other NAD(P)-dependent oxidoreductases ! | ALDH-like consists of two similar domains with 3 layers (a/b/a) each; duplication ! core: parallel beta-sheet of 5 strands, order 32145 |
| c.1.11 | Enolase C-terminal domain-like binds metal ion (magnesium or manganese) in conserved site inside barrel ! N-terminal alpha+beta domain is common to this superfamily ! | 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 |
| c.1.2 | Ribulose-phoshate binding barrel | 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 |
| c.98.2 | HprK N-terminal domain-like probable phosphatase ! | MurF and HprK N-domain-like core: 3 layers, a/b/a; parallel beta-sheet of 4 strands, order 1234; structural similarity of the MurF and HprK extends beyond the core. |
| c.93.1 | Periplasmic binding protein-like I Similar in architecture to the superfamily II but partly differs in topology ! | Periplasmic binding protein-like I consists of two similar intertwined domain with 3 layers (a/b/a) each: duplication ! parallel beta-sheet of 6 strands, order 213456 |
| c.1.9 | Metallo-dependent hydrolases the beta-sheet barrel is similarly distorted and capped by a C-terminal helix ! has transition metal ions bound inside the barrel ! | 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 |
| c.41.1 | Subtilisin-like | Subtilisin-like 3 layers: a/b/a, parallel beta-sheet of 7 strands, order 2314567; left-handed crossover connection between strands 2 & 3 |
| c.23.1 | CheY-like | Flavodoxin-like 3 layers, a/b/a; parallel beta-sheet of 5 strand, order 21345 |
| 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 |
| c.1.17 | Nicotinate/Quinolinate PRTase C-terminal domain-like incomplete beta/alpha barrel with parallel beta-sheet of 7 strands ! | 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 |
| c.1.8 | (Trans)glycosidases | 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 |
| c.97.1 | Cytidine deaminase-like contains extra C-terminal strand 5, order 21345 ! | Cytidine deaminase-like core: alpha-beta(2)-(alpha-beta)2; 3 layers (a/b/a); mixed beta-sheet of 4 strands, order 2134; strand 1 is antiparallel to the rest |
| d.68.2 | EPT/RTPC-like | IF3-like beta-alpha-beta-alpha-beta(2); 2 layers; mixed sheet 1243, strand 4 is antiparallel to the rest |
| c.135.1 | NIF3 (NGG1p interacting factor 3)-like di-iron binding protein ! | NIF3 (NGG1p interacting factor 3)-like consist of two intertwined domains; duplication: contains two structural repeats of alpha-beta-(beta-alpha)3 motif with mixed beta-sheet, order: 1432, strand 1 is antiparallel to the rest |
| c.72.2 | MurD-like peptide ligases, catalytic domain has extra strand located between strands 1 and 2 ! | Ribokinase-like core: 3 layers: a/b/a; mixed beta-sheet of 8 strands, order 21345678, strand 7 is antiparallel to the rest ! potential superfamily: members of this fold have similar functions but different ATP-binding sites |
| c.79.1 | Tryptophan synthase beta subunit-like PLP-dependent enzymes | Tryptophan synthase beta subunit-like PLP-dependent enzymes consists of two similar domains related by pseudo dyad; duplication ! core: 3 layers, a/b/a; parallel beta-sheet of 4 strands, order 3214 |
| c.73.1 | Carbamate kinase-like the sheet topology is similar to those of undecaprenyl diphosphate synthase and the N-terminal domain of phosphoglycerate kinase ! | Carbamate kinase-like 3 layers: a/b/a; mixed (mainly parallel) beta-sheet of 8 strands, order 34215786; strand 8 is antiparallel to the rest |
| e.23.1 | Acetyl-CoA synthetase-like | Acetyl-CoA synthetase-like 4 domains: (1&2) duplication: share the same alpha/beta fold; (3) beta-barrel; (4) alpha+beta |
| d.360.1 | PG1857-like | PG1857-like alpha-beta-alpha-beta(2)-alpha(3); 3 layers, a/b/a; antiparallel beta-sheet, order: 132 |
| c.23.13 | Type II 3-dehydroquinate dehydratase | Flavodoxin-like 3 layers, a/b/a; parallel beta-sheet of 5 strand, order 21345 |
| 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 |
| c.1.31 | ThiG-like shares the common phosphate-binding site with other superfamilies ! | 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 |
| 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 |
| c.68.1 | Nucleotide-diphospho-sugar transferases | Nucleotide-diphospho-sugar transferases 3 layers: a/b/a; mixed beta-sheet of 7 strands, order 3214657; strand 6 is antiparallel to the rest |
| 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 |
| c.65.1 | Formyltransferase | Formyltransferase 3 layers: a/b/a; mixed beta-sheet of 7 strands, order 3214567; strand 6 is antiparallel to the rest |
| c.1.25 | Monomethylamine methyltransferase MtmB | 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 |
| c.1.24 | Pyridoxine 5'-phosphate synthase | 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 |
| c.23.17 | Precorrin-8X methylmutase CbiC/CobH fold elaborated with additional structures ! | Flavodoxin-like 3 layers, a/b/a; parallel beta-sheet of 5 strand, order 21345 |
| c.86.1 | Phosphoglycerate kinase | Phosphoglycerate kinase consists of two non-similar domains, 3 layers (a/b/a) each ! Domain 1 has parallel beta-sheet of 6 strands, order 342156 ! Domain 2 has parallel beta-sheet of 6 strands, order 321456 |
| c.67.1 | PLP-dependent transferases | PLP-dependent transferase-like main domain: 3 layers: a/b/a, mixed beta-sheet of 7 strands, order 3245671; strand 7 is antiparallel to the rest |
| c.31.1 | DHS-like NAD/FAD-binding domain binds cofactor molecules in the opposite direction than classical Rossmann fold ! | DHS-like NAD/FAD-binding domain 3 layers: a/b/a; parallel beta-sheet of 6 strands, order 321456; Rossmann-like |
| c.1.23 | FAD-linked oxidoreductase distinct cofactor-binding mode from both FMN- and NAD(P)-linked TIM-barrel oxidoreductases; families are related by a circular permutation ! | 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 |
| c.69.1 | alpha/beta-Hydrolases many members have left-handed crossover connection between strand 8 and additional strand 9 ! | alpha/beta-Hydrolases core: 3 layers, a/b/a; mixed beta-sheet of 8 strands, order 12435678, strand 2 is antiparallel to the rest |
| c.1.16 | Bacterial luciferase-like consists of clearly related families of somewhat different folds ! | 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 |
| c.34.1 | Homo-oligomeric flavin-containing Cys decarboxylases, HFCD | Homo-oligomeric flavin-containing Cys decarboxylases, HFCD 3 layers: a/b/a; parallel beta-sheet of 6 strands, order 321456 |
| c.9.2 | Ribosomal protein L32e | Barstar-like 2 layers, a/b; parallel beta-sheet of 3 strands, order 123 |
| c.6.2 | Glycoside hydrolase/deacetylase in the different families beta-barrels are similarly distorted but may vary in the number of strands ! | 7-stranded beta/alpha barrel variant of beta/alpha barrel; parallel beta-sheet barrel, closed, n=7, S=8; strand order 1234567; some members may have fewer strands |
| c.1.4 | FMN-linked oxidoreductases | 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 |
| c.55.3 | Ribonuclease H-like consists of one domain of this fold ! | Ribonuclease H-like motif 3 layers: a/b/a; mixed beta-sheet of 5 strands, order 32145; strand 2 is antiparallel to the rest |
| c.54.1 | PTS system fructose IIA component-like active dimer is formed by strand 5 swapping ! | PTS system fructose IIA component-like 3 layers: a/b/a; mixed beta-sheet of 5 strands, order 21345; strand 5 is antiparallel to the rest |
| c.36.1 | Thiamin diphosphate-binding fold (THDP-binding) there are two different functional modules of this fold: pyridine-binding (Pyr) and pyrophosphate-binding (PP) modules ! two Pyr and two PP modules assemble together in a conserved heterotetrameric core that binds two THDP coenzyme molecules ! | Thiamin diphosphate-binding fold (THDP-binding) 3 layers: a/b/a; parallel beta-sheet of 6 strands, order 213465 |
| c.49.1 | PK C-terminal domain-like | Pyruvate kinase C-terminal domain-like 3 layers: a/b/a; mixed beta-sheet of 5 strands, order 32145, strand 5 is antiparallel to the rest |
| c.127.1 | F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD) the sheet topology is similar to those of the Periplasmic binding protein-like I domains ! | F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD) 3 layers: a/b/a; parallel beta-sheet of 6 strands, order 213456 |
| c.1.3 | Thiamin phosphate synthase | 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 |
| c.23.11 | Beta-D-glucan exohydrolase, C-terminal domain | Flavodoxin-like 3 layers, a/b/a; parallel beta-sheet of 5 strand, order 21345 |
| c.23.4 | Succinyl-CoA synthetase domains | Flavodoxin-like 3 layers, a/b/a; parallel beta-sheet of 5 strand, order 21345 |
| e.54.1 | CbiD-like | CbiD-like 2 domains; (1) alpha+beta (res 1-192), a circularly permuted rS5 domain 2-like fold (scop_cf 54210); (2) alpha/beta with parallel beta-sheet of 4 strands, order 2134 |
| c.129.1 | MCP/YpsA-like | MCP/YpsA-like 3 layers: a/b/a, parallel beta-sheet of 7 strands, order 4321567 |
| c.94.1 | Periplasmic binding protein-like II Similar in architecture to the superfamily I but partly differs in topology ! | Periplasmic binding protein-like II consists of two similar intertwined domain with 3 layers (a/b/a) each: duplication ! mixed beta-sheet of 5 strands, order 21354; strand 5 is antiparallel to the rest |
| c.92.2 | "Helical backbone" metal receptor contains a long alpha helical insertion in the interdomain linker ! | Chelatase-like duplication: tandem repeat of two domains; 3 layers (a/b/a); parallel beta-sheet of 4 strands, order 2134 |
| 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 |
| c.58.1 | Aminoacid dehydrogenase-like, N-terminal domain | Aminoacid dehydrogenase-like, N-terminal domain core: 3 layers: a/b/a; parallel beta-sheet of 4 strands; 2134 |
| c.80.1 | SIS domain | SIS domain 3 layers: a/b/a; parallel beta-sheet of 5 strands, order 21345 |
| c.8.2 | LeuD/IlvD-like contains mixed beta-sheet barrel, closed n=7, S=10 ! | 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 |
| c.3.1 | FAD/NAD(P)-binding domain | FAD/NAD(P)-binding domain core: 3 layers, b/b/a; central parallel beta-sheet of 5 strands, order 32145; top antiparallel beta-sheet of 3 strands, meander |
| c.78.1 | Aspartate/ornithine carbamoyltransferase | ATC-like consists of two similar domains related by pseudo dyad; duplication ! core: 3 layers, a/b/a, parallel beta-sheet of 4 strands, order 2134 |
| c.30.1 | PreATP-grasp domain precedes the ATP-grasp domain common to all superfamily members, can contain a substrate-binding function ! | PreATP-grasp domain 3 layers: a/b/a; parallel or mixed beta-sheet of 4 to 6 strands ! possible rudiment form of Rossmann-fold domain |
| c.77.1 | Isocitrate/Isopropylmalate dehydrogenase-like the constituent families form similar dimers ! | Isocitrate/Isopropylmalate dehydrogenase-like consists of two intertwined (sub)domains related by pseudo dyad; duplication ! 3 layers: a/b/a; single mixed beta-sheet of 10 strands, order 213A945867 (A=10); strands from 5 to 9 are antiparallel to the rest |
| d.159.1 | Metallo-dependent phosphatases different families of this superfamily are groupped in a single Pfam family, | Metallo-dependent phosphatases 4 layers: alpha/beta/beta/alpha; mixed beta sheets; contains duplication |
| c.52.3 | Eukaryotic RPB5 N-terminal domain | Restriction endonuclease-like core: 3 layers, a/b/a; mixed beta-sheet of 5 strands, order 12345; strands 2 &, in some families, 5 are antiparallel to the rest |
| c.1.5 | Inosine monophosphate dehydrogenase (IMPDH) The phosphate moiety of substrate binds in the 'common' phosphate-binding site ! | 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 |
| c.116.1 | alpha/beta knot known or predicted SAM-dependent methytransferases including the SPOUT 'sequence' superfamily ! all known members have dimeric structures ! | alpha/beta knot core: 3 layers: a/b/a, parallel beta-sheet of 5 strands, order 21435; contains a deep trefoil knot |
| c.66.1 | S-adenosyl-L-methionine-dependent methyltransferases | S-adenosyl-L-methionine-dependent methyltransferases core: 3 layers, a/b/a; mixed beta-sheet of 7 strands, order 3214576; strand 7 is antiparallel to the rest |
| d.68.7 | R3H domain possibly lacks the N-terminal strand of the common fold ! | IF3-like beta-alpha-beta-alpha-beta(2); 2 layers; mixed sheet 1243, strand 4 is antiparallel to the rest |
| c.10.1 | RNI-like regular structure consisting of similar repeats ! | Leucine-rich repeat, LRR (right-handed beta-alpha superhelix) 2 curved layers, a/b; parallel beta-sheet; order 1234...N; there are sequence similarities between different superfamilies |
| c.103.1 | MTH938-like | MTH938-like core: 3 layers, b+a/b/a ; the central mixed sheet of 5 strands: order 21534; strand 2 is antiparallel to the rest |
| c.23.6 | Cobalamin (vitamin B12)-binding domain | Flavodoxin-like 3 layers, a/b/a; parallel beta-sheet of 5 strand, order 21345 |
| c.78.2 | Aspartate/glutamate racemase | ATC-like consists of two similar domains related by pseudo dyad; duplication ! core: 3 layers, a/b/a, parallel beta-sheet of 4 strands, order 2134 |
| c.8.1 | Phosphohistidine domain contains barrel, closed, n=7, S=10 ! | 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 |
| c.42.1 | Arginase/deacetylase | Arginase/deacetylase 3 layers: a/b/a, parallel beta-sheet of 8 strands, order 21387456 |
| c.8.6 | Swiveling domain of dehydratase reactivase alpha subunit | 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 |
| c.1.28 | Radical SAM enzymes common Fe-S cluster and SAM binding sites are embedded into complete or incomplete beta/alpha-barrel ! | 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 |
| c.24.1 | Methylglyoxal synthase-like contains a common phosphate-binding site ! | Methylglyoxal synthase-like 3 layers, a/b/a; parallel beta-sheet of 5 strands, order 32145 |
| 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 |
| c.1.7 | NAD(P)-linked oxidoreductase | 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 |
| c.14.1 | ClpP/crotonase | ClpP/crotonase core: 4 turns of (beta-beta-alpha)n superhelix |
| c.13.2 | SpoIIaa-like | SpoIIaa-like core: 4 turns of a (beta-alpha)n superhelix |
| c.81.1 | Formate dehydrogenase/DMSO reductase, domains 1-3 molybdopterine enzyme ! | Formate dehydrogenase/DMSO reductase, domains 1-3 contains of two similar intertwined domains related by pseudo dyad; duplication ! core: 3 layers: a/b/a; parallel beta-sheet of 5 strands, order 32451 |
| c.23.16 | Class I glutamine amidotransferase-like conserved positions of the oxyanion hole and catalytic nucleophile; different constituent families contain different additional structures ! | Flavodoxin-like 3 layers, a/b/a; parallel beta-sheet of 5 strand, order 21345 |
| c.130.1 | Alpha-2,3/8-sialyltransferase CstII | Alpha-2,3/8-sialyltransferase CstII 3 layers: a/b/a; parallel beta-sheet of 8 strands, order 54321678 |
| c.55.5 | Nitrogenase accessory factor-like | Ribonuclease H-like motif 3 layers: a/b/a; mixed beta-sheet of 5 strands, order 32145; strand 2 is antiparallel to the rest |
| c.5.1 | MurCD N-terminal domain | MurCD N-terminal domain 3 layers: a/b/a; parallel beta-sheet of 5 strands, order 32145; incomplete Rossmann-like fold; binds UDP group |
| d.160.1 | Carbon-nitrogen hydrolase | Carbon-nitrogen hydrolase 4 layers: alpha/beta/beta/alpha; mixed beta sheets; contains duplication |
| e.19.1 | HydA/Nqo6-like | HydA/Nqo6-like 2 domains: (1) alpa/beta; (2) Fe-S cluster-bound |
| c.92.3 | PrpR receptor domain-like recent PDB entry 2q5c belongs to this superfamily | Chelatase-like duplication: tandem repeat of two domains; 3 layers (a/b/a); parallel beta-sheet of 4 strands, order 2134 |
| c.1.15 | Xylose isomerase-like different families share similar but non-identical metal-binding sites ! | 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 |
| c.76.1 | Alkaline phosphatase-like | Alkaline phosphatase-like core:3 layers: a/b/a; mixed beta-sheet of 8 strands, order 43516728, strand 7 is antiparallel to the rest |
| c.62.1 | vWA-like | vWA-like core: 3 layers, a/b/a; mixed beta-sheet of 6 strands, order 321456; strand 3 is antiparallel to the rest |
| c.25.1 | Ferredoxin reductase-like, C-terminal NADP-linked domain binds NADP differently than classical Rossmann-fold ! N-terminal FAD-linked domain contains (6,10) barrel ! | Ferredoxin reductase-like, C-terminal NADP-linked domain 3 layers, a/b/a; parallel beta-sheet of 5 strands, order 32145 |
| c.114.1 | DsrEFH-like | DsrEFH-like 3 layers: a/b/a, core: parallel beta-sheet of 5 strands, order 43215 |
| a.133.1 | Phospholipase A2, PLA2 | Phospholipase A2, PLA2 common core: 2 helices, disulfide-linked, and a calcium-binding loop |
| 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 |
| c.1.26 | Homocysteine S-methyltransferase | 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 |
| d.157.1 | Metallo-hydrolase/oxidoreductase | Metallo-hydrolase/oxidoreductase duplication of beta(4)-alpha-beta-alpha motif; 4 layers a/b/b/a; mixed beta-sheets |
| c.1.27 | (2r)-phospho-3-sulfolactate synthase ComA | 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 |
| c.124.1 | NagB/RpiA/CoA transferase-like | NagB/RpiA/CoA transferase-like core: 3 layers: a/b/a; parallel or mixed beta-sheet of 6 strands, order 321456 |
| c.53.1 | Resolvase-like | Resolvase-like Core: 3 layers: a/b/a; mixed beta-sheet of 5 strands, order 21345; strand 5 is antiparallel to the rest |
| c.92.1 | Chelatase interdomain linker is short; swapping of C-terminal helices between the two domains ! | Chelatase-like duplication: tandem repeat of two domains; 3 layers (a/b/a); parallel beta-sheet of 4 strands, order 2134 |
| c.59.1 | MurD-like peptide ligases, peptide-binding domain | MurD-like peptide ligases, peptide-binding domain 3 layers: a/b/a; mixed beta-sheet of 6 strands, order 126345; strand 1 is antiparallel to the rest |
| c.1.1 | Triosephosphate isomerase (TIM) | 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 |
| c.1.18 | PLC-like phosphodiesterases | 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 |
| c.1.30 | CutC-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 |
| d.140.1 | Ribosomal protein S8 | Ribosomal protein S8 consists of 2 different alpha+beta subdomains arranged in a 4-layer structure: b/a/b/a |
| 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 |
| c.17.1 | Caspase-like mature protein may be composed of two chains folded in a single domain ! | Caspase-like 3 layers, a/b/a; core: mixed beta-sheet of 6 strands, order 213456, strand 6 is antiparallel to the rest |
| c.72.1 | Ribokinase-like has extra strand located between strands 2 and 3 ! | Ribokinase-like core: 3 layers: a/b/a; mixed beta-sheet of 8 strands, order 21345678, strand 7 is antiparallel to the rest ! potential superfamily: members of this fold have similar functions but different ATP-binding sites |
| e.7.1 | Carbohydrate phosphatase | Carbohydrate phosphatase N-terminal domain is an alpha+beta, C-terminal domain is an alpha/beta with mixed beta-sheet |
| c.1.20 | tRNA-guanine transglycosylase | 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 |
| d.81.1 | Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain N-terminal domain is the classic Rossmann-fold ! | FwdE/GAPDH domain-like core: alpha-beta-alpha-beta(3); mixed sheet: 2134, strand 2 is parallel to strand 1 |
| c.23.14 | N-(deoxy)ribosyltransferase-like there are similar active site architectures as well as the catalytic mechanisms of functionally characterised members ! | Flavodoxin-like 3 layers, a/b/a; parallel beta-sheet of 5 strand, order 21345 |
| c.26.1 | Nucleotidylyl transferase | Adenine nucleotide alpha hydrolase-like core: 3 layers, a/b/a ; parallel beta-sheet of 5 strands, order 32145 |
| c.32.1 | Tubulin nucleotide-binding domain-like | Tubulin nucleotide-binding domain-like 3 layers: a/b/a; parallel beta-sheet of 6 strands, order 321456 |
| c.40.1 | Methylesterase CheB, C-terminal domain | Methylesterase CheB, C-terminal domain 3 layers: a/b/a, parallel beta-sheet of 7 strands, order 3421567 |
| c.46.1 | Rhodanese/Cell cycle control phosphatase | Rhodanese/Cell cycle control phosphatase 3 layers: a/b/a; parallel beta-sheet of 5 strands, order 32451 |
| c.1.6 | PLP-binding barrel circular permutation of the canonical fold: begins with an alpha helix and ends with a beta-strand ! | 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 |
| c.56.5 | Zn-dependent exopeptidases core: mixed beta-sheet of 8 strands, order 12435867; strands 2, 6 & 7 are antiparallel to the rest ! | 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 |
| c.145.1 | NadA-like | NadA-like duplication; consists of three similar domains related by pseudo threefold symmetry; 3 layers, a/b/a; parallel beta sheet, order: 2134 |
| c.26.2 | Adenine nucleotide alpha hydrolases-like share similar mode of ligand (Adenosine group) binding ! can be subdivided into two group with closer relationships within each group than between the groups; the first three families form one group whereas the last two families form the other group ! | Adenine nucleotide alpha hydrolase-like core: 3 layers, a/b/a ; parallel beta-sheet of 5 strands, order 32145 |
| 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] |
| c.8.7 | RraA-like structural similarity and possible distant homology to the phosphohistidine domain of pyruvate phosphate dikinase ! | 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 |
| 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 |
| d.79.8 | YueI-like | Bacillus chorismate mutase-like core: beta-alpha-beta-alpha-beta(2); mixed beta-sheet: order: 1423, strand 4 is antiparallel to the rest |
| d.108.1 | Acyl-CoA N-acyltransferases (Nat) | Acyl-CoA N-acyltransferases (Nat) 3 layers: a/b/a; contains mixed beta-sheet |
| e.26.1 | Prismane protein-like | Prismane protein-like 3 domains: (1) spectrin repeat-like 3-helical bundle; (2 and 3) alpha/beta: Rossmann-fold topology |
| c.90.1 | Tetrapyrrole methylase | Tetrapyrrole methylase consists of two non-similar domains ! Domain 1 has parallel sheet of 5 strands, order 32415 ! Domain 2 has mixed sheet of 5 strands, order 12534; strands 4 & 5 are antiparallel to the rest |
| c.83.1 | Aconitase iron-sulfur domain | Aconitase iron-sulfur domain consists of three similar domains with 3 layers (a/b/a) each; duplication ! core: parallel beta-sheet of 5 strands, order 32145 |
| c.57.1 | Molybdenum cofactor biosynthesis proteins | Molybdenum cofactor biosynthesis proteins 3 layers: a/b/a; mixed beta-sheet of 5 strands; order: 21354, strand 5 is antiparallel to the rest; permutation of the Phosphorylase/hydrolase-like fold |
| c.23.10 | SGNH hydrolase | Flavodoxin-like 3 layers, a/b/a; parallel beta-sheet of 5 strand, order 21345 |
| c.89.1 | Phosphofructokinase | Phosphofructokinase consists of two non-similar domains, 3 layers (a/b/a) each ! Domain 1 has mixed sheet of 7 strands, order 3214567; strands 3 & 7 are antiparallel to the rest ! Domain 2 has parallel sheet of 4 strands, order 2314 |
| c.104.1 | YjeF N-terminal domain-like possible circular permutation of the ribokinase-like fold (of the YjeF C-terminal domain) ! | YjeF N-terminal domain-like 3 layers: a/b/a; mixed (mainly parallel) beta-sheet of 8 strands, order 32145678; strand 8 is antiparallel to the rest |
| c.1.32 | TM1631-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 |
| d.115.1 | YrdC/RibB | YrdC/RibB core: alpha-beta(2)-alpha-beta-alpha(2)-beta(2)-alpha-beta-alpha-beta; 3 layers; mixed twisted sheet of 7 strands; order 7126354; strands 7 and 1 are parallel to each other |
| c.23.12 | Formate/glycerate dehydrogenase catalytic domain-like | Flavodoxin-like 3 layers, a/b/a; parallel beta-sheet of 5 strand, order 21345 |
| 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 |
| d.79.4 | PurM N-terminal domain-like | Bacillus chorismate mutase-like core: beta-alpha-beta-alpha-beta(2); mixed beta-sheet: order: 1423, strand 4 is antiparallel to the rest |
| c.143.1 | CofD-like | CofD-like 3 layers: a/b/a, parallel beta-sheet of 7 strands, order 3214567; topological similarity to the CobT-like fold (scop_cf 52732) |
| c.119.1 | DAK1/DegV-like domain folds and architecture show some similarity to the tubulin-like GTPases; the nucleotide-binding sites of the Dihydroxyacetone kinase and tubulin families are different ! | DAK1/DegV-like 2 different domains; d1: [core: 3 layers, a/b/a; parallel sheet of 5 strands, order: 2134]; D2: [2 layers, a/b; mixed sheet of 6 strands, order 321645; strands 2 and 6 are antiparallel to the rest] |
| c.95.1 | Thiolase-like | Thiolase-like consists of two similar domains related by pseudo dyad; duplication ! 3 layers: a/b/a; mixed beta-sheet of 5 strands, order 32451; strand 5 is antiparallel to the rest |
| d.58.28 | Peptide methionine sulfoxide reductase common fold is elaborated with additional secondary structures ! | Ferredoxin-like alpha+beta sandwich with antiparallel beta-sheet; (beta-alpha-beta)x2 |
| d.79.2 | Tubulin C-terminal domain-like | Bacillus chorismate mutase-like core: beta-alpha-beta-alpha-beta(2); mixed beta-sheet: order: 1423, strand 4 is antiparallel to the rest |
| c.44.2 | PTS system IIB component-like | Phosphotyrosine protein phosphatases I-like 3 layers: a/b/a; parallel beta-sheet of 4 strands, order 2134 |
| c.1.29 | GlpP-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 |
| 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 |
| 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 |
| 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 |
| c.18.1 | Uracil-DNA glycosylase-like | Uracil-DNA glycosylase-like 3 layers, a/b/a; core: parallel beta-sheet of 4 strands, order 2134 |
| c.134.1 | LmbE-like | LmbE-like 3 layers, a/b/a; mixed beta-sheet of 7 strands, order 3214576; strand 7 is antiparallel to the rest; topological similarity to SAM-dependent methyltransferases |
| d.56.1 | GroEL-intermediate domain like | GroEL-intermediate domain like 3-helical bundle packed against 3-stranded mixed beta-sheet |
| c.6.3 | PHP domain-like | 7-stranded beta/alpha barrel variant of beta/alpha barrel; parallel beta-sheet barrel, closed, n=7, S=8; strand order 1234567; some members may have fewer strands |
| c.56.4 | Pyrrolidone carboxyl peptidase (pyroglutamate aminopeptidase) | 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 |
| c.121.1 | Ribose/Galactose isomerase RpiB/AlsB | Ribose/Galactose isomerase RpiB/AlsB 3 layers: a/b/a, core: parallel beta-sheet of 5 strands, order 21354; topological similarity to a part of the arginase/deacetylase fold |
| c.101.1 | Undecaprenyl diphosphate synthase the sheet topology is similar to those of the N-terminal domain of phosphoglycerate kinase and carbamate kinase ! | Undecaprenyl diphosphate synthase 3 layers: a/b/a; parallel beta-sheet of 6 strands, order 342156 |
| c.146.1 | YgbK-like | YgbK-like consists of two domains with partial topological similarity to the P-loop kinases but without the P-loop motif; the domain association results in the formation of a single mixed beta-sheet of 15 strands |
| c.10.2 | L domain-like less regular structure consisting of variable repeats ! | Leucine-rich repeat, LRR (right-handed beta-alpha superhelix) 2 curved layers, a/b; parallel beta-sheet; order 1234...N; there are sequence similarities between different superfamilies |
| c.8.10 | LD-carboxypeptidase A C-terminal 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 |
| c.72.3 | CoaB-like combination of the Rossmann-like and Ribokinase-like topologies; mixed beta-sheet of 8 strands, order 32145678, strand 7 is antiparallel to the rest ! | Ribokinase-like core: 3 layers: a/b/a; mixed beta-sheet of 8 strands, order 21345678, strand 7 is antiparallel to the rest ! potential superfamily: members of this fold have similar functions but different ATP-binding sites |
| c.50.1 | Macro domain-like | Macro domain-like 3 layers: a/b/a; mixed beta-sheet of 6 strands, order 165243, strand 3 is antiparallel to the rest |
| 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 |
| c.61.1 | PRTase-like | PRTase-like core: 3 layers, a/b/a; mixed beta-sheet of 6 strands, order 321456; strand 3 is antiparallel to the rest |
| c.23.15 | Ribosomal protein S2 fold elaborated with additional structures ! | Flavodoxin-like 3 layers, a/b/a; parallel beta-sheet of 5 strand, order 21345 |
| c.141.1 | Glycerate kinase I | Glycerate kinase I consists of two different alpha/beta domains; (1) of the Flavodoxin-like fold (scop_cf 52171); (2) similar to the Restriction endonuclease-like fold (scop_cf 52979), inserted into domain 1 |
| c.56.2 | Purine and uridine phosphorylases complex architecture; contains mixed beta-sheet of 8 strands, order 23415867, strands 3, 6 & 7 are antiparallel to the rest; and barrel, closed; n=5, S=8 ! | 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 |
| c.21.1 | Ribosomal protein L13 | Ribosomal protein L13 3 layers, a/b/a; core: parallel beta-sheet of 4 strands, order 3214 |
| e.49.1 | Recombination protein RecR | Recombination protein RecR consists of three domains: alpha-helical dimerisation domain (res. 1-53) with HhH motif; 'treble cleft' C4 zinc-finger domain (54-76); and Toprim domain (76-199; segment-swapped dimer) |
| c.55.1 | Actin-like ATPase domain duplication contains two domains of this fold ! | Ribonuclease H-like motif 3 layers: a/b/a; mixed beta-sheet of 5 strands, order 32145; strand 2 is antiparallel to the rest |
| c.28.1 | Cryptochrome/photolyase, N-terminal domain | Cryptochrome/photolyase, N-terminal domain 3 layers: a/b/a; parallel beta-sheet of 5 strands, order 32145; Rossmann-like |
| 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; |
| c.48.1 | TK C-terminal domain-like | TK C-terminal domain-like 3 layers: a/b/a; mixed beta-sheet of 5 strands, order 13245, strand 1 is antiparallel to the rest |
| c.9.1 | Barstar-related | Barstar-like 2 layers, a/b; parallel beta-sheet of 3 strands, order 123 |
| e.22.1 | Dehydroquinate synthase-like | Dehydroquinate synthase-like 2 domains: (1) alpha/beta of a Rossmann-fold topology, binds NAD (2) multihelical array |
| 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 |
| 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 |
| e.24.1 | Ribosomal protein L1 | Ribosomal protein L1 2 domains: (1) alpha+beta; (2) alpha/beta (interrupts domain 1) |
| 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 |
| c.55.4 | Translational machinery components | Ribonuclease H-like motif 3 layers: a/b/a; mixed beta-sheet of 5 strands, order 32145; strand 2 is antiparallel to the rest |
| c.147.1 | CAC2185-like | CAC2185-like consists of two non-similar domains, 3 layers (a/b/a) each; d1 has parallel sheet of 4 strands, order 2134; d2 has parallel sheet of 5 strands, order 21345, and antiparallel meander sheet of 3 strands |
| b.40.3 | TIMP-like | OB-fold barrel, closed or partly opened n=5, S=10 or S=8; greek-key |
| c.67.2 | PhnH-like single domain protein of similar topology to the core domain of PLP-transferases | PLP-dependent transferase-like main domain: 3 layers: a/b/a, mixed beta-sheet of 7 strands, order 3245671; strand 7 is antiparallel to the rest |
| c.60.1 | Phosphoglycerate mutase-like | Phosphoglycerate mutase-like core: 3 layers, a/b/a; mixed beta-sheet of 6 strands, order 324156; strand 5 is antiparallel to the rest |
| c.4.1 | Nucleotide-binding domain this superfamily shares the common nucleotide-binding site with and provides a link between the Rossmann-fold NAD(P)-binding and FAD/NAD(P)-binding domains ! | Nucleotide-binding domain 3 layers: a/b/a; parallel beta-sheet of 5 strands, order 32145; Rossmann-like |
| c.26.3 | UDP-glucose/GDP-mannose dehydrogenase C-terminal domain | Adenine nucleotide alpha hydrolase-like core: 3 layers, a/b/a ; parallel beta-sheet of 5 strands, order 32145 |
| c.8.8 | Putative cyclase contains mixed beta-sheet barrel, closed n=7, S=10 ! | 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 |
| d.68.3 | SirA-like | IF3-like beta-alpha-beta-alpha-beta(2); 2 layers; mixed sheet 1243, strand 4 is antiparallel to the rest |
| c.38.1 | PTS IIb component | PTS IIb component 3 layers: a/b/a, parallel beta-sheet of 6 strands, order 324156 |
| c.12.1 | Ribosomal proteins L15p and L18e | Ribosomal proteins L15p and L18e core: three turns of irregular (beta-beta-alpha)n superhelix |
| c.132.1 | Bacterial fluorinating enzyme, N-terminal domain | Bacterial fluorinating enzyme, N-terminal domain 3 layers: a/b/a; mixed beta-sheet of 6 strands; order: 213546, strand 5 is antiparallel to the rest; topological similarity to the MogA-like family fold |
| c.113.1 | HemD-like | HemD-like duplication: consists of two similar 'swapped' domain with 3 layers (a/b/a) each; parallel beta-sheet of 5 strands, order 21345 |
| c.133.1 | RbsD-like | RbsD-like 3 layers: a/b/a; mixed beta-sheet of 6 strands, order 251634; strand 6 is antiparallel to the rest |
| c.23.3 | Hypothetical protein MTH538 | Flavodoxin-like 3 layers, a/b/a; parallel beta-sheet of 5 strand, order 21345 |
| c.23.8 | N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE) | Flavodoxin-like 3 layers, a/b/a; parallel beta-sheet of 5 strand, order 21345 |
| d.68.1 | Translation initiation factor IF3, C-terminal domain | IF3-like beta-alpha-beta-alpha-beta(2); 2 layers; mixed sheet 1243, strand 4 is antiparallel to the rest |
| c.33.1 | Isochorismatase-like hydrolases | Isochorismatase-like hydrolases 3 layers: a/b/a; parallel beta-sheet of 6 strands, order 321456 |
| c.128.1 | DNA polymerase III chi subunit structural similarity and possible evolutionary relationship to the AAA domain; lacks the P-loop motif ! | DNA polymerase III chi subunit 3 layers, a/b/a; parallel beta-sheet of 7 strands, order 7165243 |
| d.35.1 | Heme-binding protein A (HasA) | Heme-binding protein A (HasA) beta-alpha-beta(6)-alpha(2); antiparallel sheet: order 165432 |
| 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 |
| 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 |
| c.56.7 | AF0625-like contains extra C-terminal alpha/beta domain: 3 layers, a/b/a; parallel beta-sheet of 4 strands, order 2134 ! | 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 |
| c.115.1 | Hypothetical protein MTH777 (MT0777) | Hypothetical protein MTH777 (MT0777) 3 layers: a/b/a; parallel beta-sheet of 6 strands, order 321456 |
| c.6.1 | Glycosyl hydrolases family 6, cellulases | 7-stranded beta/alpha barrel variant of beta/alpha barrel; parallel beta-sheet barrel, closed, n=7, S=8; strand order 1234567; some members may have fewer strands |
| c.151.1 | CobE/GbiG C-terminal domain-like probably involved in deacylation steps in both anaerobic and aerobic pathways of cobalamin biosynthesis | CobE/GbiG C-terminal domain-like 3 layers: a/b/a; mixed beta-sheet of 5 strands, order 32154; strand 5 is antiparallel to the rest |
| c.106.1 | SurE-like some topological similarity to the N-terminal domain of Glutaminase/Asparaginase family ! | SurE-like 3 layers: a/b/a; mixed beta-sheet of 9 strands, order 342156798; strands 3, 8 and 9 are antiparallel to the rest; left-handed crossover connection between strands 6 and 7 |
| c.136.1 | Toprim domain this domain is also present in several multidomain proteins that are not split in scop yet: | Toprim domain 3 layers, a/b/a; parallel beta-sheet of 4 strands, order 2134 |
| c.153.1 | YerB-like | YerB-like 3 layers: b/b/a; central mixed beta-sheet of 9 strands, order 541329678; strands 3 and 7 are antiparallel to the rest; an unusual "over the other end" connection between strands 3 and 4 |
| c.91.1 | PEP carboxykinase-like | PEP carboxykinase-like contains a P-loop NTP-binding motif; mixed beta-sheet folds into a barrel-like structure with helices packed on one side |
| c.8.4 | PA domain | 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 |
| 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 |
| c.16.1 | Lumazine synthase | Lumazine synthase 3 layers, a/b/a; core: parallel beta-sheet of 4 strands, order 2134 |
| c.8.3 | Carbamoyl phosphate synthetase, small subunit N-terminal domain | 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 |
| b.120.1 | Tp47 lipoprotein, N-terminal domain | Tp47 lipoprotein, N-terminal domain complex fold; consists of two intertwined subdomains |
| d.49.1 | Signal recognition particle alu RNA binding heterodimer, SRP9/14 | Signal recognition particle alu RNA binding heterodimer, SRP9/14 (beta)-alpha-beta(3)-alpha; 2 layers, alpha/beta |
| 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.68.4 | YhbY-like | IF3-like beta-alpha-beta-alpha-beta(2); 2 layers; mixed sheet 1243, strand 4 is antiparallel to the rest |
| d.81.3 | FwdE-like contains extra N-terminal and C-terminal structures ! | FwdE/GAPDH domain-like core: alpha-beta-alpha-beta(3); mixed sheet: 2134, strand 2 is parallel to strand 1 |
| c.8.9 | FumA C-terminal 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 |
| c.51.3 | B12-dependent dehydatase associated subunit | Anticodon-binding domain-like 3 layers: a/b/a; mixed beta-sheet of five strands, order 21345; strand 4 is antiparallel to the rest |
| c.154.1 | CdCA1 repeat-like | CdCA1 repeat-like contains two parallel beta-strands of four strands each; the sheets contact each other with edges at a right angle |
| d.340.1 | CofE-like | CofE-like consists of two different domains; d1: beta-alpha-beta-alpha-beta(2)-alpha-beta, mixed sheet of 5 strands, order:15234, strands 2 and 3 are parralel; d2 is inserted in d1 after strand 2 and comprises a helix-turn-helix motif and two 3-stranded sheets |
| d.36.1 | Chalcone isomerase | Chalcone isomerase beta(3)-alpha(2)-beta-alpha(2)-beta3; 2 layers alpha/beta; antiparallel sheet: order 1234567 |
| 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; |
| c.96.1 | Fe-only hydrogenase | Fe-only hydrogenase consist of two intertwined domains; contains partial duplication |
| c.100.1 | Thiamin pyrophosphokinase, catalytic domain | Thiamin pyrophosphokinase, catalytic domain 3 layers: a/b/a; parallel beta-sheet of 6 strands, order 432156 |
| c.123.1 | CoA-transferase family III (CaiB/BaiF) | CoA-transferase family III (CaiB/BaiF) consist of two different alpha/beta domains; N-terminal domain has a SurE-like topology with a left-handed beta-alpha-beta unit |
| e.51.1 | Urocanase | Urocanase 3 domains; d1: alpha+beta [alpha(2)-beta(3); mixed sheet: 213]; d2: alpha/beta of the NAD(P)-binding Rossmann-fold superfamily (scop_sf 51735, most similar to scop_fa 51883 and scop_fa 51736); d3: alpha+beta of the glutamine synthetase/guanido kinase fold (scop_cf 55930); d1 and d3 form a single beta-sheet |
| d.81.4 | V-type ATPase subunit E-like extra N-terminal helix and extra C-terminal helix form dimerisation subdomain | FwdE/GAPDH domain-like core: alpha-beta-alpha-beta(3); mixed sheet: 2134, strand 2 is parallel to strand 1 |
| 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 |
| e.44.1 | 2-methylcitrate dehydratase PrpD | 2-methylcitrate dehydratase PrpD consists of an all-alpha and alpha+beta domains |
| d.68.8 | SMR domain-like | IF3-like beta-alpha-beta-alpha-beta(2); 2 layers; mixed sheet 1243, strand 4 is antiparallel to the rest |
| c.102.1 | Cell-division inhibitor MinC, N-terminal domain | Cell-division inhibitor MinC, N-terminal domain beta(2)-(alpha-beta)2-beta; 2 layers, a/b; mixed beta-sheet of 5 strands, order 12345; strands 1 & 5 are antiparallel to the rest |
| g.41.4 | Casein kinase II beta subunit | Rubredoxin-like metal(zinc or iron)-bound fold; sequence contains two CX(n)C motifs, in most cases n = 2 |
| e.53.1 | QueA-like | QueA-like 2 domains; d1 (1-64,174-335) [alpha/beta; 3 layers, a/b/a; mixed beta sheet of 9 strands, order: 219863457; strands 1, 5 and 8 are antiparallel to the rest]; d2 (65-142) [all-beta; barrel, closed (n=6, S=10); greek-key; topologically similar to the split barrel fold (scop_cf 50474) |
| c.56.1 | HybD-like the HybD fold coincides with the consensus core structure ! | 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 |
| c.56.8 | Cgl1923-like | 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.151.1 | DNase I-like | DNase I-like contains beta-sandwich; duplication of alpha+beta motif |
| c.125.1 | Creatininase | Creatininase 3 layers, a/b/a; core: parallel beta-sheet of 4 strands, order 2134 |
| c.10.3 | Outer arm dynein light chain 1 (beta-beta-alpha)n superhelix ! | Leucine-rich repeat, LRR (right-handed beta-alpha superhelix) 2 curved layers, a/b; parallel beta-sheet; order 1234...N; there are sequence similarities between different superfamilies |
| 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] |
| c.112.1 | Glycerol-3-phosphate (1)-acyltransferase some topological similarity to the dihydrofolate reductase fold ! | Glycerol-3-phosphate (1)-acyltransferase 3 layers: a/b/a; mixed beta-sheet of 9 strands, order 918736452; strands 1, 2 and 8 are antiparallel to the rest |
| 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 |
| c.149.1 | AtpF-like | AtpF-like 3 layers, a/b/a; core: parallel beta-sheet of 4 strands, order 2134 |
| 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 |
| d.179.1 | Substrate-binding domain of HMG-CoA reductase | Substrate-binding domain of HMG-CoA reductase unusual fold |
| c.117.1 | Amidase signature (AS) enzymes | Amidase signature (AS) enzymes possible duplication: the topologies of N- and C-terminal halves are similar; 3 layers: a/b/a; single mixed beta-sheet of 10 strands, order 213549A867 (A=10); strands from 5 to 9 are antiparallel to the rest |
| d.81.2 | Serine metabolism enzymes domain contains extra C-terminal beta-hairpin ! | FwdE/GAPDH domain-like core: alpha-beta-alpha-beta(3); mixed sheet: 2134, strand 2 is parallel to strand 1 |
| d.68.6 | AlbA-like | IF3-like beta-alpha-beta-alpha-beta(2); 2 layers; mixed sheet 1243, strand 4 is antiparallel to the rest |
| 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 |
| d.117.1 | Thymidylate synthase/dCMP hydroxymethylase | Thymidylate synthase/dCMP hydroxymethylase contains large mixed beta-sheet |
| d.162.1 | LDH C-terminal domain-like | LDH C-terminal domain-like unusual fold, defines family |
| d.79.1 | YjgF-like forms trimers with three closely packed beta-sheets; possibly related to the IspF ( | Bacillus chorismate mutase-like core: beta-alpha-beta-alpha-beta(2); mixed beta-sheet: order: 1423, strand 4 is antiparallel to the rest |
| d.194.1 | CNF1/YfiH-like putative cysteine hydrolases | CNF1/YfiH-like putative cysteine hydrolases 4 layers: alpha/beta/beta/alpha; mixed beta sheets |
| e.60.1 | Thermophilic metalloprotease-like | Thermophilic metalloprotease-like consists of two domains; d1: alpha/beta (3 layers, a/b/a; parralel beta-sheet, order 2134); d2: pseudo beta-barrel capped by helices |
| c.99.1 | Dipeptide transport protein | Dipeptide transport protein 3 layers: a/b/a; parallel beta-sheet of 6 strands, order 321456; also contains a C-terminal alpha+beta subdomain |
| c.55.2 | Creatinase/prolidase N-terminal domain | Ribonuclease H-like motif 3 layers: a/b/a; mixed beta-sheet of 5 strands, order 32145; strand 2 is antiparallel to the rest |
| d.319.1 | TTHA1528-like | TTHA1528-like beta-alpha-beta(3)-alpha-beta-alpha(2)-beta; 3 layers: a/b/a; mixed beta-sheet, order: 143256, parallel strands' pairs are 1-4 and 2-5 |
| a.170.1 | BRCA2 helical domain | BRCA2 helical domain multihelical; contains a 3-helical bundle surrounded by several shorter helices |
| e.13.1 | DNA primase core | DNA primase core 2 domains: (1) alpha+beta; (2) toprim alpha/beta |
| c.56.3 | Peptidyl-tRNA hydrolase-like | 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 |
| c.110.1 | DTD-like active form is a dimer ! | DTD-like beta(2)-(alpha-beta)2-beta(3); 3 layers, a/b/b; some topological similarity to the N-terminal domain of MinC |
| 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 |
| c.144.1 | RibA-like | RibA-like 3 layers: a/b/a; mixed beta-sheet of 7 strands, order 1235467, strands 1 and 3 are antiparallel to the rest; partial topological similarity to some alpha/beta hydrolases (scop_cf 53473) |
| d.77.1 | RL5-like | RL5-like beta-alpha-beta(2)-alpha-beta(3)-alpha; 2 layers, alpha/beta; antiparallel beta-sheet: order 231654 |
| 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] |
| b.19.1 | Viral protein domain forms homotrimers ! | Viral protein domain sandwich; 9 strands in 2 sheets; jelly-roll; form trimers |
| c.105.1 | 2,3-Bisphosphoglycerate-independent phosphoglycerate mutase, substrate-binding domain | 2,3-Bisphosphoglycerate-independent phosphoglycerate mutase, substrate-binding domain core:3 layers: a/b/a; mixed beta-sheet of 8 strands, order 45321678, strands 4 and 5 are antiparallel to the rest |
| d.147.1 | Methenyltetrahydromethanopterin cyclohydrolase | Methenyltetrahydromethanopterin cyclohydrolase consists of two alpha+beta subdomains |
| d.58.62 | Ribosomal protein L10-like consists of globular N-terminal domain, structurally similar to NDK, and the L7/L12-binding C-terminal alpha-helical tail | Ferredoxin-like alpha+beta sandwich with antiparallel beta-sheet; (beta-alpha-beta)x2 |
| d.79.5 | IpsF-like forms trimers with three closely packed beta-sheets; possible link between the YjgF-like ( | Bacillus chorismate mutase-like core: beta-alpha-beta-alpha-beta(2); mixed beta-sheet: order: 1423, strand 4 is antiparallel to the rest |
| c.20.1 | Initiation factor IF2/eIF5b, domain 3 | Initiation factor IF2/eIF5b, domain 3 3 layers, a/b/a; core: parallel beta-sheet of 4 strands, order 2134 |
| d.129.9 | RalF, C-terminal domain contains a single copy of this fold decorated with additional structures ! | TBP-like beta-alpha-beta(4)-alpha |
| e.73.1 | CV3147-like | CV3147-like 2 domains; d1: [alpha/beta; 3 layers, a/b/a, mixed beta-sheet of 8 strands, order 12543876, strands 1, 7 and 8 are antiparallel to the rest]; d2: [pseudo beta-barrel of 6 strands, meander] |
| 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 |
| e.12.1 | DNA topoisomerase IV, alpha subunit | DNA topoisomerase IV, alpha subunit 2 domains: (1) toprim alpha/beta; (2) "winged helix"-like |
| c.53.2 | beta-carbonic anhydrase, cab | Resolvase-like Core: 3 layers: a/b/a; mixed beta-sheet of 5 strands, order 21345; strand 5 is antiparallel to the rest |
| d.374.1 | TTHC002-like | TTHC002-like alpha-beta-alpha-beta(3); forms dimer with a single beta-sheet, folded in a barrel-like shape |
| d.344.1 | PriA/YqbF domain associated with known or presumed DNA-binding domains; this superfamily also includes the C-terminal domain of PriA (PDB entry 1zt2) | GINS/PriA/YqbF domain beta(4)-alpha-beta; 3-stranded antiparallel beta-sheet (strands 4,1 and 5) are covered on the same side by the helix and beta hairpin of strands 2 and 3; similarity to the L9 N-domain-like fold (scop_cf 55657) and the PsaD fold (scop_sf 64243) |
| c.118.1 | GckA/TtuD-like | GckA/TtuD-like consists of two non-similar domains ! Domain 1 has parallel sheet of 6 strands, order 321456, Rossmann-like topology ! Domain 2 has mixed sheet of 6 strands, order 126345; strands 5 and 6 are antiparallel to the rest; some similarity to CbiF Domain 2 |
| d.365.1 | Ava3019-like | Ava3019-like alpha(2)-beta-alpha-beta(4); 2 layers, a/b; antiparallel beta-sheet, order: 32145; similarity to the insert domain of Glucose 6-phosphate dehydrogenase-like family (sop_fa 55376) |
| d.156.1 | S-adenosylmethionine decarboxylase | S-adenosylmethionine decarboxylase duplication of beta-alpha-beta(4)-alpha-beta-alpha-beta(2) motif; 4 layers a/b/b/a; antiparallel beta-sheets: order 23451687 |
| d.101.1 | Ribonuclease PH domain 2-like | Ribonuclease PH domain 2-like beta(2)-alpha-beta(2)-alpha; 3 layers: alpha/beta/alpha; antiparallel sheet: order 2134 |
| d.165.1 | Ribosome inactivating proteins (RIP) | Ribosome inactivating proteins (RIP) contains mixed beta-sheet |
| 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 |
| 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 |
| d.257.1 | Hypothetical protein TM0160 | Hypothetical protein TM0160 duplication: consists of two beta(3)-alpha(2) structural repeats; single barrel-like beta-sheet |
| 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.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 |
| 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 |
| d.58.34 | Formiminotransferase domain of formiminotransferase-cyclodeaminase. duplication: contains two subdomains of this fold ! | Ferredoxin-like alpha+beta sandwich with antiparallel beta-sheet; (beta-alpha-beta)x2 |
| d.79.9 | BB2672-like contains extra N-terminal strand and a beta-hairpin insertion between strands 3 and 4 that packs against the main beta-sheet | Bacillus chorismate mutase-like core: beta-alpha-beta-alpha-beta(2); mixed beta-sheet: order: 1423, strand 4 is antiparallel to the rest |
| 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 |
| d.280.1 | Sulfolobus fructose-1,6-bisphosphatase-like | Sulfolobus fructose-1,6-bisphosphatase-like 4 layers: a/b/b/a; antiparallel beta sheets; similarities to ferredoxin-like fold (scop_cf 54861) in the N-terminal part (1-120) and to the Bacterial S-adenosylmethionine decarboxylase subunit (scop_fa 997656) in the C-terminal part (121-340) |
| d.79.7 | OmpA-like | Bacillus chorismate mutase-like core: beta-alpha-beta-alpha-beta(2); mixed beta-sheet: order: 1423, strand 4 is antiparallel to the rest |
| d.248.1 | Coproporphyrinogen III oxidase | Coproporphyrinogen III oxidase alpha-beta(6)-alpha(2)-beta-alpha(n); 3 layers alpha/beta/alpha; antiparallel sheet: order 1234567 |
| a.234.1 | Hypothetical protein MPN330 | Hypothetical protein MPN330 multihelical; consists of three different 4-helical bundles |
| 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.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 |
| d.58.60 | Bacterial polysaccharide co-polymerase-like Decorated common fold with extra helical regions, which facilitate oligomerization | Ferredoxin-like alpha+beta sandwich with antiparallel beta-sheet; (beta-alpha-beta)x2 |