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Cyanophage S-2L hd phosphohydrolase (datz) bound to da and two catalytic CO2+ ions

Analyse Cyanophage S-2L hd phosphohydrolase (datz) bound to da and two catalytic CO2+… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

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.

Pocket	Volume (Å³)	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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