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Crystal structure of putative cobalamin (vitamin B12) biosynthesis cbix protein (YP_958415.1) from marinobacter aquaeolei VT8 at 1.60 a resolution
Analyse Crystal structure of putative cobalamin (vitamin B12) biosynthesis cbix protein… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3LYH
- Type
- protein
- Length
- 242 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cobalamin (vitamin B12) biosynthesis cbix protein
- UniProt
- A1TZQ9
- Pockets
- 3 · best druggability 0.58
Structure
x-ray diffraction · 2 distinct chains · 54% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Cobalamin (vitamin B12) biosynthesis cbix protein | protein | 120 | 54% helix, 18% strand | A1TZQ9 |
| B | Cobalamin (vitamin B12) biosynthesis cbix protein | protein | 122 | 53% helix, 19% strand | A1TZQ9 |
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 204 | 0.58 | 0.80 | 25 | empty |
| 2 | 59 | 0.44 | 0.82 | 15 | empty |
| 3 | 58 | 0.37 | 0.79 | 16 | empty |
Interfaces
1 interface between chains.
- A–B · 2138 Ų buried · 27 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 modified (engineered).
Compared structures
- 3LYH · Crystal structure of Putative cobalamin (vitamin B12) biosynthesis CbiX protein… · 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 A1TZQ9
- Elsewhere: RCSB PDB 3LYH · PDBe 3LYH · UniProt A1TZQ9
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