Research workbench
Crystal structure of trigonal form of D90E mutant of escherichia COLI asparaginase II
Analyse Crystal structure of trigonal form of D90E mutant of escherichia COLI… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1IHD
- Type
- protein
- Length
- 615 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- L-asparaginase II
- EC
- 3.5.1.1
- UniProt
- P00805
- Pockets
- 5 · best druggability 0.70
Structure
x-ray diffraction · 2 distinct chains · 33% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | L-asparaginase II (EC 3.5.1.1) | protein | 307 | 32% helix, 22% strand | P00805 |
| C | L-asparaginase II (EC 3.5.1.1) | protein | 308 | 33% helix, 22% strand | P00805 |
Pockets
5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 124 | 0.70 | 0.91 | 30 | empty |
| 2 | 112 | 0.47 | 0.80 | 29 | empty |
| 3 | 162 | 0.46 | 0.76 | 25 | empty |
| 4 | 165 | 0.45 | 0.76 | 27 | empty |
| 5 | 79 | 0.42 | 0.80 | 23 | empty |
Interfaces
1 interface between chains.
- A–C · 2090 Ų buried · 40 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 1IHD · Crystal Structure of Trigonal Form of D90E Mutant of Escherichia coli Asparaginase II · the same entry in another collection · chain A against A, TM-score 1.00
- P00805 · AlphaFold monomer V2.0 prediction for L-asparaginase 2 (P00805) · 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 P00805
- Elsewhere: RCSB PDB 1IHD · PDBe 1IHD · UniProt P00805
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