MolNFT v1 · #172047 · protein
Cyanophage S-2L hd phosphohydrolase (datz) bound to da and two catalytic CO2+ ions
6ZPB: “Cyanophage S-2L hd phosphohydrolase (datz) bound to da and two catalytic CO2+ ions”. X-ray diffraction, 2 ligands (3D1, CO), 1 pocket (best druggability 0.72). MolNFT v1 #172047 on GenesisL1: 3D structure, binding sites and pockets…
- PDB
- 6ZPB
- Type
- protein
- Length
- 173 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Datz
- Ligands
- 3D1, CO
- Pockets
- 1 · best druggability 0.72
Structure
x-ray diffraction · 1 distinct chain · 72% helix, 2% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Datz | protein | 173 | 72% helix, 2% strand | — |
Ligands and binding sites
- 3D1 · (2R,3S,5R)-5-(6-amino-9H-purin-9-yl)-tetrahydro-2-(hydroxymethyl)furan-3-ol · ligand · chains A
- CO · Cobalt (II) ion · metal · 3 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 481 | 0.72 | 0.81 | 44 | 3D1, CO |
Compared structures
- 6ZPB · Cyanophage S-2L HD phosphohydrolase (DatZ) bound to dA and two catalytic Co2+ ions · 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 6ZPB · PDBe 6ZPB
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