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Crystal structure of grouper iridovirus GIV66

Analyse Crystal structure of grouper iridovirus GIV66 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 5VMN
Type: protein
Length: 125 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Bak protein
UniProt: Q5GAF0
Ligands: NO3
Pockets: 1 · best druggability 0.40

Structure

x-ray diffraction · 1 distinct chain · 67% helix, 0% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Bak protein	protein	125	67% helix, 0% strand	Q5GAF0

Ligands and binding sites

NO3 · Nitrate ion · ion · 8 copies · chains A
EDO · 1,2-ethanediol · additive · 6 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, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	68	0.40	0.79	12	NO3

Compared structures

5VMN · Crystal structure of grouper iridovirus GIV66 · 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 Q5GAF0
Elsewhere: RCSB PDB 5VMN · PDBe 5VMN · UniProt Q5GAF0

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