SMTL ID : 3jsm.1

K65R mutant HIV-1 reverse transcriptase cross-linked to DS-DNA and complexed with tenofovir-diphosphate as the incoming nucleotide substrate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

hetero-1-1-mer

Ligands

1 x TNV: [2-(6-AMINO-9H-PURIN-9-YL)-1-METHYLETHOXY]METHYL-TRIPHOSPHATE(Non-covalent)

TNV.1: 16 residues within 4Å: Chain A: T.5, C.6 Chain B: G.21 Chain C: R.65, K.70, R.72, D.110, V.111, G.112, D.113, A.114, Y.115, Q.151, D.185, K.219 Ligands: MG.2 12 PLIP interactions: 12 interactions with chain C Hydrophobic interactions: C:Y.115, C:Q.151 Hydrogen bonds: C:R.72, C:R.72, C:D.113, C:A.114, C:Y.115 Salt bridges: C:R.65, C:R.65, C:K.70, C:R.72, C:K.219

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain C: D.110, V.111, D.185 Ligands: TNV.1 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:D.110, C:V.111, C:D.185 MG.3: 3 residues within 4Å: Chain C: D.443, E.478, D.498 5 PLIP interactions: 4 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:D.443, C:D.443, C:D.498, C:D.498, H2O.1

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.4: 3 residues within 4Å: Chain C: R.65, K.66, R.72 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:K.66 Salt bridges: C:R.72 SO4.5: 7 residues within 4Å: Chain C: K.102, K.103, V.106, Y.188, H.235, P.236, Y.318 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:K.103

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Das, K. et al., Structural basis for the role of the K65r mutation in HIV-1 reverse transcriptase polymerization, excision antagonism, and tenofovir resistance. J.Biol.Chem. (2009)

Release Date

2009-09-29

Peptides

HIV-1 REVERSE TRANSCRIPTASE P66 SUBUNIT: C
HIV-1 REVERSE TRANSCRIPTASE P51 SUBUNIT: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

C
A

D
B

HIV-1 REVERSE TRANSCRIPTASE P66 SUBUNIT

HIV-1 REVERSE TRANSCRIPTASE P51 SUBUNIT

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