MolNFT v1 · #122418 · protein
Crystal structure of nucleoside diphosphate kinase from schistosoma mansoni is space group P6322
5IOM: “Crystal structure of nucleoside diphosphate kinase from schistosoma mansoni is space group P6322”. X-ray diffraction, 2 pockets (best druggability 0.71). MolNFT v1 #122418 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 5IOM
- Type
- protein
- Length
- 299 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Nucleoside diphosphate kinase
- EC
- 2.7.4.6
- UniProt
- G4VJY9
- Pockets
- 2 · best druggability 0.71
Structure
x-ray diffraction · 2 distinct chains · 45% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Nucleoside diphosphate kinase (EC 2.7.4.6) | protein | 150 | 45% helix, 16% strand | G4VJY9 |
| B | Nucleoside diphosphate kinase (EC 2.7.4.6) | protein | 149 | 46% helix, 16% strand | G4VJY9 |
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 803 | 0.71 | 0.77 | 69 | empty |
| 2 | 63 | 0.33 | 0.76 | 17 | empty |
Interfaces
1 interface between chains.
- A–B · 336 Ų buried · 5 hydrogen bonds · protein-protein
Compared structures
- 5IOM · Crystal Structure of Nucleoside Diphosphate Kinase from Schistosoma mansoni is space… · 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 G4VJY9
- Elsewhere: RCSB PDB 5IOM · PDBe 5IOM · UniProt G4VJY9
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