SMTL ID : 3qlh.1

HIV-1 Reverse Transcriptase in Complex with Manicol at the RNase H Active Site and TMC278 (Rilpivirine) at the NNRTI Binding Pocket

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

hetero-1-1-mer

Ligands

1 x MNK: (2S)-5,7-dihydroxy-9-methyl-2-(prop-1-en-2-yl)-1,2,3,4-tetrahydro-6H-benzo[7]annulen-6-one(Non-covalent)

MNK.1: 6 residues within 4Å: Chain A: D.444, D.499, H.540, D.550 Ligands: MN.3, MN.4 No protein-ligand interaction detected (PLIP)

1 x T27: 4-{[4-({4-[(E)-2-cyanoethenyl]-2,6-dimethylphenyl}amino)pyrimidin-2-yl]amino}benzonitrile(Non-covalent)

T27.2: 14 residues within 4Å: Chain A: P.96, L.101, K.102, K.104, V.180, Y.182, Y.189, P.226, F.228, W.230, L.235, H.236, P.237, Y.319 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:P.96, A:K.104, A:V.180, A:V.180, A:Y.182, A:Y.182, A:Y.182, A:Y.189, A:Y.189, A:W.230, A:Y.319 Hydrogen bonds: A:K.102, A:K.102

2 x MN: MANGANESE (II) ION(Non-covalent)

MN.3: 4 residues within 4Å: Chain A: D.444, D.550 Ligands: MNK.1, MN.4 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.444, A:D.550 MN.4: 5 residues within 4Å: Chain A: D.444, E.479, D.499 Ligands: MNK.1, MN.3 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.444, A:E.479, A:D.499, A:D.499

1 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.5: 7 residues within 4Å: Chain B: W.332, Y.349, R.351, R.353, Q.362, A.366, K.369 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.353

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.6: 3 residues within 4Å: Chain B: W.19, E.394, W.397 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.394 Water bridges: B:T.398, B:T.398

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chung, S. et al., Synthesis, activity, and structural analysis of novel alpha-hydroxytropolone inhibitors of human immunodeficiency virus reverse transcriptase-associated ribonuclease H. J.Med.Chem. (2011)

Release Date

2011-12-21

Peptides

reverse transcriptase/ribonuclease H: A
reverse transcriptase/ribonuclease H: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

reverse transcriptase/ribonuclease H

reverse transcriptase/ribonuclease H

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