Research workbench
Crystal structure of human lysophosphatidic acid phosphatase type 6 complexed with L-(+)-tartrate
Analyse Crystal structure of human lysophosphatidic acid phosphatase type 6 complexed… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4JOB
- Type
- protein
- Length
- 369 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Lysophosphatidic acid phosphatase type 6
- EC
- 3.1.3.2
- UniProt
- Q9NPH0
- Pockets
- 2 · best druggability 0.67
Structure
x-ray diffraction · 1 distinct chain · 41% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Lysophosphatidic acid phosphatase type 6 (EC 3.1.3.2) | protein | 369 | 41% helix, 15% strand | Q9NPH0 |
Ligands and binding sites
- TLA · L(+)-tartaric acid · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
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 | 534 | 0.67 | 0.77 | 52 | TLA |
| 2 | 112 | 0.36 | 0.73 | 24 | empty |
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 4JOB · Crystal structure of human lysophosphatidic acid phosphatase type 6 complexed with… · the same entry in another collection · chain A against A, TM-score 1.00
- Q9NPH0 · AlphaFold monomer V2.0 prediction for lysophosphatidic acid phosphatase type 6 (Q9NPH0) · a predicted model of the same protein · 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 Q9NPH0
- Elsewhere: RCSB PDB 4JOB · PDBe 4JOB · UniProt Q9NPH0
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