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The crystal structure of malonamidase E2 from bradyrhizobium japonicum
Analyse The crystal structure of malonamidase E2 from bradyrhizobium japonicum in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1OCK
- Type
- protein
- Length
- 824 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Malonamidase E2
- UniProt
- Q9ZIV5
- Pockets
- 7 · best druggability 0.86
Structure
x-ray diffraction · 1 distinct chain · 43% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Malonamidase E2 | protein | 412 | 43% helix, 17% strand | Q9ZIV5 |
Pockets
7 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 444 | 0.86 | 0.94 | 56 | empty |
| 2 | 1045 | 0.76 | 0.78 | 94 | empty |
| 3 | 171 | 0.55 | 0.81 | 25 | empty |
| 4 | 151 | 0.53 | 0.80 | 24 | empty |
| 5 | 86 | 0.33 | 0.74 | 20 | empty |
Interfaces
1 interface between chains.
- A–B · 1573 Ų buried · 20 hydrogen bonds · protein-protein
Compared structures
- 1OCK · The crystal structure of malonamidase E2 from bradyrhizobium japonicum · 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 Q9ZIV5
- Elsewhere: RCSB PDB 1OCK · PDBe 1OCK · UniProt Q9ZIV5
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