SMTL ID : 3kle.3 (3 other biounits)

Crystal structure of AZT-resistant HIV-1 Reverse Transcriptase crosslinked to a DSDNA with a bound excision product, AZTPPPPA

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.20 Å

Oligo State

hetero-1-1-mer

Ligands

1 x GLC- Z9N: alpha-D-fructofuranose-(2-1)-alpha-D-glucopyranose(Non-covalent)

GLC-Z9N.1: 8 residues within 4Å: Chain B: I.5, S.117, V.118, P.119, S.163, I.167, W.212, L.214 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.117, B:S.163

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: D.112, V.113, D.187 Ligands: ZP4.4 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.112, A:V.113, A:D.187 MG.3: 4 residues within 4Å: Chain A: D.445, G.446, E.480, D.500 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.445, A:D.445, A:D.500, H2O.1

1 x ZP4: [[[[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl]oxy-hydroxy-phosphoryl]oxy-hydroxy-phosphoryl] [(2S,3S,5R)-3-azido-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methyl hydrogen phosphate(Non-covalent)

ZP4.4: 18 residues within 4Å: Chain A: E.46, K.67, R.72, R.74, D.112, V.113, G.114, D.115, A.116, Y.117, F.118, Q.153, D.187, Y.217, P.219 Chain C: A.5 Chain D: A.21 Ligands: MG.2 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:Y.117, A:Q.153 Hydrogen bonds: A:D.115, A:D.115, A:A.116, A:Y.117, A:F.118, A:D.187 Salt bridges: A:K.67, A:K.67, A:K.67, A:R.72, A:R.74, A:R.74 pi-Stacking: A:Y.217, A:Y.217 pi-Cation interactions: A:R.74

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tu, X. et al., Structural basis of HIV-1 resistance to AZT by excision. Nat.Struct.Mol.Biol. (2010)

Release Date

2010-09-22

Peptides

Reverse transcriptase/ribonuclease H: A
p51 RT: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
I

B
J

Reverse transcriptase/ribonuclease H

p51 RT

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