Crystal structure of a glycoside hydrolase family 5 (BVU_2644) from Bacteroides vulgatus ATCC 8482 at 1.90 A resolution
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
| Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
|---|---|---|---|---|---|
| D | SCOP2 Family | BVU_2644 C-terminal domain-like | 8048077 | 4005945 | SCOP2 (2022-06-29) |
| D | SCOP2 Family | GH5 catalytic domain-like | 8048376 | 4006076 | SCOP2 (2022-06-29) |
| D | SCOP2 Superfamily | Glycosyl hydrolase domain-like | 8092271 | 3001528 | SCOP2 (2022-06-29) |
| D | SCOP2 Superfamily | (Trans)glycosidases | 8092272 | 3000313 | SCOP2 (2022-06-29) |
| E | SCOP2B Superfamily | (Trans)glycosidases | 8092272 | 3000313 | SCOP2B (2022-06-29) |
| E | SCOP2B Superfamily | Glycosyl hydrolase domain-like | 8092271 | 3001528 | SCOP2B (2022-06-29) |
| L | SCOP2B Superfamily | Glycosyl hydrolase domain-like | 8092271 | 3001528 | SCOP2B (2022-06-29) |
| L | SCOP2B Superfamily | (Trans)glycosidases | 8092272 | 3000313 | SCOP2B (2022-06-29) |
| K | SCOP2B Superfamily | (Trans)glycosidases | 8092272 | 3000313 | SCOP2B (2022-06-29) |
| K | SCOP2B Superfamily | Glycosyl hydrolase domain-like | 8092271 | 3001528 | SCOP2B (2022-06-29) |
| J | SCOP2B Superfamily | (Trans)glycosidases | 8092272 | 3000313 | SCOP2B (2022-06-29) |
| J | SCOP2B Superfamily | Glycosyl hydrolase domain-like | 8092271 | 3001528 | SCOP2B (2022-06-29) |
| I | SCOP2B Superfamily | (Trans)glycosidases | 8092272 | 3000313 | SCOP2B (2022-06-29) |
| I | SCOP2B Superfamily | Glycosyl hydrolase domain-like | 8092271 | 3001528 | SCOP2B (2022-06-29) |
| H | SCOP2B Superfamily | Glycosyl hydrolase domain-like | 8092271 | 3001528 | SCOP2B (2022-06-29) |
| H | SCOP2B Superfamily | (Trans)glycosidases | 8092272 | 3000313 | SCOP2B (2022-06-29) |
| G | SCOP2B Superfamily | Glycosyl hydrolase domain-like | 8092271 | 3001528 | SCOP2B (2022-06-29) |
| G | SCOP2B Superfamily | (Trans)glycosidases | 8092272 | 3000313 | SCOP2B (2022-06-29) |
| F | SCOP2B Superfamily | Glycosyl hydrolase domain-like | 8092271 | 3001528 | SCOP2B (2022-06-29) |
| F | SCOP2B Superfamily | (Trans)glycosidases | 8092272 | 3000313 | SCOP2B (2022-06-29) |
| C | SCOP2B Superfamily | (Trans)glycosidases | 8092272 | 3000313 | SCOP2B (2022-06-29) |
| C | SCOP2B Superfamily | Glycosyl hydrolase domain-like | 8092271 | 3001528 | SCOP2B (2022-06-29) |
| B | SCOP2B Superfamily | (Trans)glycosidases | 8092272 | 3000313 | SCOP2B (2022-06-29) |
| B | SCOP2B Superfamily | Glycosyl hydrolase domain-like | 8092271 | 3001528 | SCOP2B (2022-06-29) |
| A | SCOP2B Superfamily | Glycosyl hydrolase domain-like | 8092271 | 3001528 | SCOP2B (2022-06-29) |
| A | SCOP2B Superfamily | (Trans)glycosidases | 8092272 | 3000313 | SCOP2B (2022-06-29) |
Domain Annotation: ECOD Classification ECOD Database Homepage
| Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
|---|---|---|---|---|---|---|---|---|
| D | Collagen_bind_2 | e4qfuD1 | A: beta sandwiches | X: Glycosyl hydrolase domain-like | H: Glycosyl hydrolase domain (From Topology) | T: Glycosyl hydrolase domain | F: Collagen_bind_2 | ECOD (1.6) |
| D | DUF4038 | e4qfuD2 | A: a/b barrels | X: TIM beta/alpha-barrel | H: TIM barrels (From Topology) | T: TIM barrels | F: DUF4038 | ECOD (1.6) |
| E | Collagen_bind_2 | e4qfuE2 | A: beta sandwiches | X: Glycosyl hydrolase domain-like | H: Glycosyl hydrolase domain (From Topology) | T: Glycosyl hydrolase domain | F: Collagen_bind_2 | ECOD (1.6) |
| E | DUF4038 | e4qfuE1 | A: a/b barrels | X: TIM beta/alpha-barrel | H: TIM barrels (From Topology) | T: TIM barrels | F: DUF4038 | ECOD (1.6) |
| L | Collagen_bind_2 | e4qfuL2 | A: beta sandwiches | X: Glycosyl hydrolase domain-like | H: Glycosyl hydrolase domain (From Topology) | T: Glycosyl hydrolase domain | F: Collagen_bind_2 | ECOD (1.6) |
| L | DUF4038 | e4qfuL1 | A: a/b barrels | X: TIM beta/alpha-barrel | H: TIM barrels (From Topology) | T: TIM barrels | F: DUF4038 | ECOD (1.6) |
| K | Collagen_bind_2 | e4qfuK2 | A: beta sandwiches | X: Glycosyl hydrolase domain-like | H: Glycosyl hydrolase domain (From Topology) | T: Glycosyl hydrolase domain | F: Collagen_bind_2 | ECOD (1.6) |
| K | DUF4038 | e4qfuK1 | A: a/b barrels | X: TIM beta/alpha-barrel | H: TIM barrels (From Topology) | T: TIM barrels | F: DUF4038 | ECOD (1.6) |
| J | Collagen_bind_2 | e4qfuJ2 | A: beta sandwiches | X: Glycosyl hydrolase domain-like | H: Glycosyl hydrolase domain (From Topology) | T: Glycosyl hydrolase domain | F: Collagen_bind_2 | ECOD (1.6) |
| J | DUF4038 | e4qfuJ1 | A: a/b barrels | X: TIM beta/alpha-barrel | H: TIM barrels (From Topology) | T: TIM barrels | F: DUF4038 | ECOD (1.6) |
| I | Collagen_bind_2 | e4qfuI1 | A: beta sandwiches | X: Glycosyl hydrolase domain-like | H: Glycosyl hydrolase domain (From Topology) | T: Glycosyl hydrolase domain | F: Collagen_bind_2 | ECOD (1.6) |
| I | DUF4038 | e4qfuI2 | A: a/b barrels | X: TIM beta/alpha-barrel | H: TIM barrels (From Topology) | T: TIM barrels | F: DUF4038 | ECOD (1.6) |
| H | Collagen_bind_2 | e4qfuH2 | A: beta sandwiches | X: Glycosyl hydrolase domain-like | H: Glycosyl hydrolase domain (From Topology) | T: Glycosyl hydrolase domain | F: Collagen_bind_2 | ECOD (1.6) |
| H | DUF4038 | e4qfuH1 | A: a/b barrels | X: TIM beta/alpha-barrel | H: TIM barrels (From Topology) | T: TIM barrels | F: DUF4038 | ECOD (1.6) |
| G | Collagen_bind_2 | e4qfuG1 | A: beta sandwiches | X: Glycosyl hydrolase domain-like | H: Glycosyl hydrolase domain (From Topology) | T: Glycosyl hydrolase domain | F: Collagen_bind_2 | ECOD (1.6) |
| G | DUF4038 | e4qfuG2 | A: a/b barrels | X: TIM beta/alpha-barrel | H: TIM barrels (From Topology) | T: TIM barrels | F: DUF4038 | ECOD (1.6) |
| F | Collagen_bind_2 | e4qfuF2 | A: beta sandwiches | X: Glycosyl hydrolase domain-like | H: Glycosyl hydrolase domain (From Topology) | T: Glycosyl hydrolase domain | F: Collagen_bind_2 | ECOD (1.6) |
| F | DUF4038 | e4qfuF1 | A: a/b barrels | X: TIM beta/alpha-barrel | H: TIM barrels (From Topology) | T: TIM barrels | F: DUF4038 | ECOD (1.6) |
| C | Collagen_bind_2 | e4qfuC2 | A: beta sandwiches | X: Glycosyl hydrolase domain-like | H: Glycosyl hydrolase domain (From Topology) | T: Glycosyl hydrolase domain | F: Collagen_bind_2 | ECOD (1.6) |
| C | DUF4038 | e4qfuC1 | A: a/b barrels | X: TIM beta/alpha-barrel | H: TIM barrels (From Topology) | T: TIM barrels | F: DUF4038 | ECOD (1.6) |
| B | Collagen_bind_2 | e4qfuB2 | A: beta sandwiches | X: Glycosyl hydrolase domain-like | H: Glycosyl hydrolase domain (From Topology) | T: Glycosyl hydrolase domain | F: Collagen_bind_2 | ECOD (1.6) |
| B | DUF4038 | e4qfuB1 | A: a/b barrels | X: TIM beta/alpha-barrel | H: TIM barrels (From Topology) | T: TIM barrels | F: DUF4038 | ECOD (1.6) |
| A | Collagen_bind_2 | e4qfuA1 | A: beta sandwiches | X: Glycosyl hydrolase domain-like | H: Glycosyl hydrolase domain (From Topology) | T: Glycosyl hydrolase domain | F: Collagen_bind_2 | ECOD (1.6) |
| A | DUF4038 | e4qfuA2 | A: a/b barrels | X: TIM beta/alpha-barrel | H: TIM barrels (From Topology) | T: TIM barrels | F: DUF4038 | ECOD (1.6) |
Domain Annotation: CATH CATH Database Homepage
| Chain | Domain | Class | Architecture | Topology | Homology | Provenance Source (Version) |
|---|---|---|---|---|---|---|
| D | 3.20.20.80 | Alpha Beta | Alpha-Beta Barrel | TIM Barrel | Glycosidases | CATH (4.3.0) |
| E | 3.20.20.80 | Alpha Beta | Alpha-Beta Barrel | TIM Barrel | Glycosidases | CATH (4.3.0) |
| L | 3.20.20.80 | Alpha Beta | Alpha-Beta Barrel | TIM Barrel | Glycosidases | CATH (4.3.0) |
| K | 3.20.20.80 | Alpha Beta | Alpha-Beta Barrel | TIM Barrel | Glycosidases | CATH (4.3.0) |
| J | 3.20.20.80 | Alpha Beta | Alpha-Beta Barrel | TIM Barrel | Glycosidases | CATH (4.3.0) |
| I | 3.20.20.80 | Alpha Beta | Alpha-Beta Barrel | TIM Barrel | Glycosidases | CATH (4.3.0) |
| H | 3.20.20.80 | Alpha Beta | Alpha-Beta Barrel | TIM Barrel | Glycosidases | CATH (4.3.0) |
| G | 3.20.20.80 | Alpha Beta | Alpha-Beta Barrel | TIM Barrel | Glycosidases | CATH (4.3.0) |
| F | 3.20.20.80 | Alpha Beta | Alpha-Beta Barrel | TIM Barrel | Glycosidases | CATH (4.3.0) |
| C | 3.20.20.80 | Alpha Beta | Alpha-Beta Barrel | TIM Barrel | Glycosidases | CATH (4.3.0) |
| B | 3.20.20.80 | Alpha Beta | Alpha-Beta Barrel | TIM Barrel | Glycosidases | CATH (4.3.0) |
| A | 3.20.20.80 | Alpha Beta | Alpha-Beta Barrel | TIM Barrel | Glycosidases | CATH (4.3.0) |
Protein Family Annotation Pfam Database Homepage
| Chains | Accession | Name | Description | Comments | Source |
|---|---|---|---|---|---|
| PF12904 | Putative collagen-binding domain of a collagenase (Collagen_bind_2) | Putative collagen-binding domain of a collagenase | This domain is likely to be the collagen-binding domain of a family of bacterial collagenase enzymes. It is the C-terminal part of the PDB:3kzs structure determined from Swiss:Q8A905 (information derived from TOPSAN). | Domain | |
| PF13204 | Apiosidase-like, catalytic domain (Apiosidase) | Apiosidase-like, catalytic domain | This entry represents the catalytic domain of endo-apiosidase (Swiss:Q8A905) and related proteins, some of which form part of the rhamnogalacturonan-II (RG-II) degradome. This domain adopts an (alpha-beta)8-barrel that harbours the aspartate and glut ... | Domain |
