Research workbench
Chloroacetic acid complex bound L-haloacid dehalogenase from a rhodobacteraceae family bacterium
Analyse Chloroacetic acid complex bound L-haloacid dehalogenase from a rhodobacteraceae… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2YMP
- Type
- protein
- Length
- 450 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- L-haloacid dehalogenase
- Pockets
- 3 · best druggability 0.57
Structure
x-ray diffraction · 1 distinct chain · 48% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | L-haloacid dehalogenase | protein | 225 | 48% helix, 13% strand | — |
Pockets
3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 217 | 0.57 | 0.79 | 31 | empty |
| 2 | 194 | 0.56 | 0.80 | 32 | empty |
| 3 | 97 | 0.47 | 0.81 | 22 | empty |
Interfaces
1 interface between chains.
- A–B · 1919 Ų buried · 27 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 modified (nonstandard).
Compared structures
- 2YMP · Chloroacetic acid complex bound L-haloacid dehalogenase from a Rhodobacteraceae family… · 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
- Elsewhere: RCSB PDB 2YMP · PDBe 2YMP
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