MolNFT v1 · #183004 · protein
Crystal structure of ligand free open conformation of sulfoquinovosyl binding protein (sqbp) from agrobacterium tumefaciens
7NBZ: “Crystal structure of ligand free open conformation of sulfoquinovosyl binding protein (sqbp) from…”. X-ray diffraction, 8 pockets (best druggability 0.77). MolNFT v1 #183004 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 7NBZ
- Type
- protein
- Length
- 1,152 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Sulfoquinovosyl binding protein
- UniProt
- A0A083ZKV5
- Pockets
- 8 · best druggability 0.77
Structure
x-ray diffraction · 3 distinct chains · 46% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Sulfoquinovosyl binding protein | protein | 377 | 45% helix, 16% strand | A0A083ZKV5 |
| B | Sulfoquinovosyl binding protein | protein | 385 | 47% helix, 17% strand | A0A083ZKV5 |
| C | Sulfoquinovosyl binding protein | protein | 390 | 46% helix, 18% strand | A0A083ZKV5 |
Ligands and binding sites
- ACT · Acetate ion · additive · 3 copies · chains A, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 762 | 0.77 | 0.81 | 95 | empty |
| 2 | 440 | 0.61 | 0.75 | 47 | ACT |
| 3 | 431 | 0.60 | 0.75 | 46 | empty |
| 4 | 247 | 0.50 | 0.74 | 31 | empty |
| 5 | 134 | 0.46 | 0.77 | 23 | empty |
Interfaces
3 interfaces between chains.
- A–C · 351 Ų buried · 3 hydrogen bonds · protein-protein
- A–B · 325 Ų buried · 4 hydrogen bonds · protein-protein
- B–C · 162 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 7NBZ · Crystal structure of ligand free open conformation of sulfoquinovosyl binding 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 A0A083ZKV5
- Elsewhere: RCSB PDB 7NBZ · PDBe 7NBZ · UniProt A0A083ZKV5
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.