Structure of PDB 3nf9 Chain A

Receptor sequence

>3nf9A (length=149) Species: 11676 (Human immunodeficiency virus 1) [Search protein sequence]

SPGIWQLDCTHLEGKVILVAVHVASGYIEAEVIPAETGQETAYFLLKLAG
RWPVKTVHTDNGSNFTSTTVKAACWWAGIKQEDGIPYNPQSQGVIESMNK
ELKKIIGQVRDQAEHLKTAVQMAVFIHNHKRKGYSAGERIVDIIATDIQ

3D structure

PDB

3nf9 Structural basis for a new mechanism of inhibition of HIV-1 integrase identified by fragment screening and structure-based design

Chain

Resolution

1.95 Å

3D
structure

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Enzymatic activity

Enzyme Commision number

2.7.7.-
2.7.7.49: RNA-directed DNA polymerase.
2.7.7.7: DNA-directed DNA polymerase.
3.1.-.-
3.1.13.2: exoribonuclease H.
3.1.26.13: retroviral ribonuclease H.
3.4.23.16: HIV-1 retropepsin.

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	CD9	A	V79 G82 V150 S153 M154 H183	V23 G26 V94 S97 M98 H127	MOAD: ic50=290uM PDBbind-CN: -logKd/Ki=3.54,IC50=290uM

Gene Ontology

	Molecular Function
GO:0003676	nucleic acid binding

	Biological Process
GO:0015074	DNA integration

View graph for
Molecular Function

View graph for
Biological Process

External links

PDB	RCSB:3nf9, PDBe:3nf9, PDBj:3nf9
PDBsum	3nf9
PubMed	21602613
UniProt	P12497\|POL_HV1N5 Gag-Pol polyprotein (Gene Name=gag-pol)

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