Research workbench
Crystal structure of the desulfovibro vulgaris urea transporter in the P3(1) space group at 3.86
Analyse Crystal structure of the desulfovibro vulgaris urea transporter in the P3(1)… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3ME1
- Type
- protein
- Length
- 956 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Urea transporter
- UniProt
- Q72CX3
- Pockets
- 11 · best druggability 0.80
Structure
x-ray diffraction · 3 distinct chains · 68% helix, 1% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Urea transporter | protein | 321 | 67% helix, 1% strand | Q72CX3 |
| B | Urea transporter | protein | 323 | 67% helix, 1% strand | Q72CX3 |
| C | Urea transporter | protein | 312 | 69% helix, 1% strand | Q72CX3 |
Pockets
11 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 513 | 0.80 | 0.87 | 82 | empty |
| 2 | 462 | 0.79 | 0.87 | 81 | empty |
| 3 | 322 | 0.75 | 0.87 | 55 | empty |
| 4 | 203 | 0.69 | 0.87 | 45 | empty |
| 5 | 253 | 0.66 | 0.83 | 48 | empty |
Interfaces
3 interfaces between chains.
- B–C · 709 Ų buried · 8 hydrogen bonds · protein-protein
- A–B · 707 Ų buried · 7 hydrogen bonds · protein-protein
- A–C · 703 Ų buried · 6 hydrogen bonds · protein-protein
Compared structures
- 3ME1 · Crystal Structure of the Desulfovibro vulgaris Urea Transporter in the P3(1) Space Group… · the same entry in another collection · chain A against A, TM-score 1.00
- Q72CX3 · AlphaFold monomer V2.0 prediction for urea transporter DVU1160 (Q72CX3) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 Q72CX3
- Elsewhere: RCSB PDB 3ME1 · PDBe 3ME1 · UniProt Q72CX3
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