Research workbench
Crystal structure of ZN(II)-bound E37A,C66A,C67A triple mutant yjia GTPase
Analyse Crystal structure of ZN(II)-bound E37A,C66A,C67A triple mutant yjia GTPase in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4IXN
- Type
- protein
- Length
- 636 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Uncharacterized GTP-binding protein yjia
- UniProt
- P24203
- Ligands
- ZN, SO4
- Pockets
- 11 · best druggability 0.86
Structure
x-ray diffraction · 1 distinct chain · 31% helix, 30% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Uncharacterized GTP-binding protein yjia | protein | 318 | 31% helix, 30% strand | P24203 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
11 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 519 | 0.86 | 0.92 | 58 | empty |
| 2 | 58 | 0.58 | 0.90 | 19 | empty |
| 3 | 266 | 0.54 | 0.76 | 29 | empty |
| 4 | 236 | 0.52 | 0.76 | 40 | empty |
| 5 | 216 | 0.52 | 0.76 | 31 | empty |
Interfaces
1 interface between chains.
- A–B · 1308 Ų buried · 18 hydrogen bonds · protein-protein
Compared structures
- 4IXN · Crystal Structure of Zn(II)-bound E37A,C66A,C67A triple mutant YjiA GTPase · the same entry in another collection · chain A against A, TM-score 1.00
- P24203 · AlphaFold monomer V2.0 prediction for P-loop guanosine triphosphatase yjia (P24203) · a predicted model of the same protein · chain A against A, TM-score 0.98
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 P24203
- Elsewhere: RCSB PDB 4IXN · PDBe 4IXN · UniProt P24203
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