MolNFT v1 · #55708 · protein
Structure of the complex between btub and colicin E2 receptor binding domain
2YSU · Vitamin B12 transporter btub: “Structure of the complex between btub and colicin E2 receptor binding domain”. X-ray diffraction, 9 pockets (best druggability 0.86). MolNFT v1 #55708 on GenesisL1: 3D structure, binding sites and…
- PDB
- 2YSU
- Type
- protein
- Length
- 699 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Vitamin B12 transporter btub; Colicin-E2
- EC
- 3.1.-.-
- UniProt
- P06129, P04419
- Pockets
- 9 · best druggability 0.86
Structure
x-ray diffraction · 2 distinct chains · 20% helix, 48% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Vitamin B12 transporter btub | protein | 576 | 6% helix, 58% strand | P06129 |
| B | Colicin-E2 (EC 3.1.-.-) | protein | 123 | 85% helix, 0% strand | P04419 |
Pockets
9 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 875 | 0.86 | 0.89 | 115 | empty |
| 2 | 1079 | 0.84 | 0.85 | 87 | empty |
| 3 | 176 | 0.81 | 0.97 | 47 | empty |
| 4 | 400 | 0.75 | 0.85 | 49 | empty |
| 5 | 422 | 0.68 | 0.80 | 53 | empty |
Interfaces
1 interface between chains.
- A–B · 1337 Ų buried · 18 hydrogen bonds · protein-protein
Compared structures
- 2YSU · Structure of the complex between BtuB and Colicin E2 receptor binding domain · the same entry in another collection · chain A against A, TM-score 1.00
- P06129 · AlphaFold monomer V2.0 prediction for vitamin B12 transporter btub (P06129) · a predicted model of the same protein · chain A against A, TM-score 0.99
- P04419 · AlphaFold monomer V2.0 prediction for colicin-E2 (P04419) · a predicted model of the same protein · chain B against A, TM-score 0.95
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 P06129
- Every structure of UniProt P04419
- Elsewhere: RCSB PDB 2YSU · PDBe 2YSU · UniProt P06129 · UniProt P04419
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