MolNFT v1 · #175812 · protein
Lp major histidine acid phosphatase mutant D281A/5'-AMP
7D2F · Major acid phosphatase: “Lp major histidine acid phosphatase mutant D281A/5'-AMP”. X-ray diffraction, 1 ligand (AMP), 7 pockets (best druggability 0.71). MolNFT v1 #175812 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 7D2F
- Type
- protein
- Length
- 654 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Major acid phosphatase
- EC
- 3.1.3.2
- UniProt
- Q5ZWG6
- Ligands
- AMP
- Pockets
- 7 · best druggability 0.71
Structure
x-ray diffraction · 2 distinct chains · 46% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Major acid phosphatase (EC 3.1.3.2) | protein | 328 | 46% helix, 15% strand | Q5ZWG6 |
| B | Major acid phosphatase (EC 3.1.3.2) | protein | 326 | 46% helix, 15% strand | Q5ZWG6 |
Ligands and binding sites
- AMP · Adenosine monophosphate · ligand · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 587 | 0.71 | 0.79 | 47 | AMP |
| 2 | 536 | 0.69 | 0.79 | 48 | AMP |
| 3 | 127 | 0.48 | 0.79 | 21 | empty |
| 4 | 127 | 0.44 | 0.77 | 22 | empty |
| 5 | 79 | 0.35 | 0.75 | 17 | empty |
Interfaces
1 interface between chains.
- A–B · 1831 Ų buried · 6 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 7D2F · Lp major histidine acid phosphatase mutant D281A/5'-AMP · 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 Q5ZWG6
- Elsewhere: RCSB PDB 7D2F · PDBe 7D2F · UniProt Q5ZWG6
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