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HIV integrase core domain in complex with inhibitor (5-methyl-1- benzofuran-3-YL)ACETIC acid

Analyse HIV integrase core domain in complex with inhibitor (5-methyl-1… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6VX2
Type: protein
Length: 141 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Integrase
EC: 2.7.7.-
UniProt: F2WR39
Ligands: RQG, IOD, SO4
Pockets: 1 · best druggability 0.32

Structure

x-ray diffraction · 1 distinct chain · 48% helix, 23% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Integrase (EC 2.7.7.-)	protein	141	48% helix, 23% strand	F2WR39

Ligands and binding sites

RQG · (5-methyl-1-benzofuran-3-yl)acetic acid · ligand · chains A
IOD · Iodide ion · ion · 7 copies · chains A
SO4 · Sulfate ion · ion · 2 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	62	0.32	0.76	17	IOD

Modifications

Observed in the structure: 2 modified (oxidation).

Compared structures

6VX2 · HIV Integrase core domain in complex with inhibitor (5-methyl-1-benzofuran-3-yl)acetic… · 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 F2WR39
Elsewhere: RCSB PDB 6VX2 · PDBe 6VX2 · UniProt F2WR39

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