MolNFT v1 · #19914 · protein
Crystal structure of secb from escherichia COLI
1QYN · Protein-export protein secb: “Crystal structure of secb from escherichia COLI”. X-ray diffraction, 7 pockets (best druggability 0.76). MolNFT v1 #19914 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 1QYN
- Type
- protein
- Length
- 535 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein-export protein secb
- UniProt
- P15040
- Pockets
- 7 · best druggability 0.76
Structure
x-ray diffraction · 4 distinct chains · 31% helix, 44% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Protein-export protein secb | protein | 134 | 33% helix, 45% strand | P15040 |
| B | Protein-export protein secb | protein | 133 | 31% helix, 45% strand | P15040 |
| C | Protein-export protein secb | protein | 132 | 30% helix, 44% strand | P15040 |
| D | Protein-export protein secb | protein | 136 | 32% helix, 44% strand | P15040 |
Pockets
7 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 126 | 0.76 | 0.95 | 34 | empty |
| 2 | 382 | 0.74 | 0.85 | 46 | empty |
| 3 | 187 | 0.54 | 0.79 | 26 | empty |
| 4 | 172 | 0.54 | 0.79 | 29 | empty |
| 5 | 70 | 0.36 | 0.77 | 15 | empty |
Interfaces
6 interfaces between chains.
- A–B · 1042 Ų buried · 22 hydrogen bonds · protein-protein
- C–D · 1013 Ų buried · 28 hydrogen bonds · protein-protein
- A–C · 597 Ų buried · 4 hydrogen bonds · protein-protein
- B–D · 596 Ų buried · 3 hydrogen bonds · protein-protein
- B–C · 314 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
- 1QYN · Crystal Structure of SecB from Escherichia coli · 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 P15040
- Elsewhere: RCSB PDB 1QYN · PDBe 1QYN · UniProt P15040
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