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Crystal structure of M. acetivorans periplasmic binding protein MODA/WTPA with bound tungstate
Analyse Crystal structure of M. acetivorans periplasmic binding protein MODA/WTPA with… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3CFX
- Type
- protein
- Length
- 586 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- UPF0100 protein MA_0280
- UniProt
- Q8TTZ5
- Ligands
- MG, WO4
- Pockets
- 2 · best druggability 0.75
Structure
x-ray diffraction · 1 distinct chain · 37% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | UPF0100 protein MA_0280 | protein | 293 | 37% helix, 22% strand | Q8TTZ5 |
Ligands and binding sites
- MG · Magnesium ion · metal · 4 copies · chains A, B
- WO4 · Tungstate(vi)ion · ion · 2 copies · chains A, B
- GOL · Glycerol · additive · 4 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 973 | 0.75 | 0.78 | 78 | empty |
| 2 | 289 | 0.61 | 0.79 | 42 | empty |
Interfaces
1 interface between chains.
- A–B · 727 Ų buried · 5 hydrogen bonds · protein-protein
Compared structures
- 3CFX · Crystal structure of M. acetivorans periplasmic binding protein ModA/WtpA with bound… · the same entry in another collection · chain A against A, TM-score 1.00
- Q8TTZ5 · AlphaFold monomer V2.0 prediction for uncharacterized solute-binding protein MA_0280… · 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 Q8TTZ5
- Elsewhere: RCSB PDB 3CFX · PDBe 3CFX · UniProt Q8TTZ5
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