Research workbench
X-ray crystal structure of protein CV0518 from chromobacterium violaceum, northeast structural genomics consortium target CVR5.
Analyse X-ray crystal structure of protein CV0518 from chromobacterium violaceum… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2ID1
- Type
- protein
- Length
- 240 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Hypothetical protein
- UniProt
- Q7P0P8
- Ligands
- IOD
- Pockets
- 2 · best druggability 0.59
Structure
x-ray diffraction · 1 distinct chain · 38% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Hypothetical protein | protein | 120 | 38% helix, 22% strand | Q7P0P8 |
Ligands and binding sites
- IOD · Iodide ion · ion · 2 copies · 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 | 89 | 0.59 | 0.87 | 19 | IOD |
| 2 | 74 | 0.34 | 0.76 | 14 | empty |
Interfaces
1 interface between chains.
- A–B · 742 Ų buried · 6 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 modified (engineered).
Compared structures
- 2ID1 · X-Ray Crystal Structure of Protein CV0518 from Chromobacterium violaceum, Northeast… · the same entry in another collection · chain A against A, TM-score 1.00
- Q7P0P8 · AlphaFold monomer V2.0 prediction for ribosomal silencing factor rsfs (Q7P0P8) · a predicted model of the same protein · chain A against A, TM-score 0.96
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 Q7P0P8
- Elsewhere: RCSB PDB 2ID1 · PDBe 2ID1 · UniProt Q7P0P8
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