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Crystal structure of a putative hydrolase (BVU_4111) from bacteroides vulgatus atcc 8482 at 1.90 a resolution
Analyse Crystal structure of a putative hydrolase (BVU_4111) from bacteroides vulgatus… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3G8Y
- Type
- protein
- Length
- 391 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- SUSD/RAGB-associated esterase-like protein
- UniProt
- A6L7P9
- Pockets
- 6 · best druggability 0.58
Structure
x-ray diffraction · 1 distinct chain · 39% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | SUSD/RAGB-associated esterase-like protein | protein | 391 | 39% helix, 15% strand | A6L7P9 |
Ligands and binding sites
- EDO · 1,2-ethanediol · additive · 12 copies · chains A
- PEG · Di(hydroxyethyl)ether · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 243 | 0.58 | 0.79 | 41 | EDO |
| 2 | 116 | 0.56 | 0.83 | 26 | EDO |
| 3 | 168 | 0.45 | 0.75 | 25 | EDO |
| 4 | 106 | 0.43 | 0.78 | 26 | empty |
| 5 | 75 | 0.36 | 0.77 | 15 | empty |
Modifications
Observed in the structure: 11 modified (engineered).
Compared structures
- 3G8Y · Crystal structure of a putative hydrolase (BVU_4111) from bacteroides vulgatus atcc 8482… · the same entry in another collection · chain A against A, TM-score 1.00
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt A6L7P9
- Elsewhere: RCSB PDB 3G8Y · PDBe 3G8Y · UniProt A6L7P9
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