Research workbench
Crystal structure of a DUF4783 family protein (BACUNI_04292) from bacteroides uniformis atcc 8492 at 1.27 a resolution
Analyse Crystal structure of a DUF4783 family protein (BACUNI_04292) from bacteroides… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4Q53
- Type
- protein
- Length
- 217 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Uncharacterized protein
- UniProt
- A7V9L7
- Ligands
- 7PG, NA, IOD, CL
- Pockets
- 2 · best druggability 0.57
Structure
x-ray diffraction · 2 distinct chains · 25% helix, 55% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Uncharacterized protein | protein | 108 | 25% helix, 55% strand | A7V9L7 |
| B | Uncharacterized protein | protein | 109 | 26% helix, 55% strand | A7V9L7 |
Ligands and binding sites
- 7PG · 2,5,8,11,14,17,20,23-octaoxapentacosan-25-ol · ligand · chains B
- NA · Sodium ion · metal · chains B
- IOD · Iodide ion · ion · 9 copies · chains A, B
- CL · Chloride ion · ion · 9 copies · chains A, B
- PGE · Triethylene glycol · additive · 2 copies · chains A, B
- EDO · 1,2-ethanediol · additive · chains A, B
- PG4 · Tetraethylene glycol · additive · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 353 | 0.57 | 0.75 | 27 | IOD, PGE |
| 2 | 73 | 0.38 | 0.78 | 19 | empty |
Interfaces
1 interface between chains.
- A–B · 392 Ų buried · 8 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 modified (engineered, oxidation).
Compared structures
- 4Q53 · Crystal structure of a DUF4783 family protein (BACUNI_04292) from Bacteroides uniformis… · 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 A7V9L7
- Elsewhere: RCSB PDB 4Q53 · PDBe 4Q53 · UniProt A7V9L7
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