Research workbench
Crystal structure of a putative oligo-nucleotide binding protein (ATU3699, AGR_L_2275) from agrobacterium tumefaciens str. C58 at 1.60 a resolution
Analyse Crystal structure of a putative oligo-nucleotide binding protein (ATU3699… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1VKI
- Type
- protein
- Length
- 331 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Hypothetical protein ATU3699
- UniProt
- Q8U9M7
- Ligands
- SO4
- Pockets
- 2 · best druggability 0.83
Structure
x-ray diffraction · 2 distinct chains · 31% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Hypothetical protein ATU3699 | protein | 165 | 31% helix, 26% strand | Q8U9M7 |
| B | Hypothetical protein ATU3699 | protein | 166 | 31% helix, 26% strand | Q8U9M7 |
Ligands and binding sites
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 | 905 | 0.83 | 0.85 | 75 | SO4, GOL |
| 2 | 58 | 0.26 | 0.73 | 13 | empty |
Interfaces
1 interface between chains.
- A–B · 990 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 1VKI · Crystal structure of a putative oligo-nucleotide binding protein (atu3699, agr_l_2275)… · 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 Q8U9M7
- Elsewhere: RCSB PDB 1VKI · PDBe 1VKI · UniProt Q8U9M7
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