SMTL ID : 3qin.1

Crystal Structure of HIV-1 RNase H p15 with engineered E. coli loop and pyrimidinol carboxylic acid inhibitor

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

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

MN.1: 5 residues within 4Å: Chain A: D.18, E.53, D.73 Ligands: MN.2, P1Y.4 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.18, A:E.53, A:D.73 MN.2: 5 residues within 4Å: Chain A: D.18, D.138, R.146 Ligands: MN.1, P1Y.4 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.18, A:D.138, H2O.5, H2O.5

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

SO4.3: 2 residues within 4Å: Chain A: G.11, R.36 6 PLIP interactions: 6 interactions with chain A Water bridges: A:G.11, A:E.13, A:G.65, A:L.66, A:E.67 Salt bridges: A:R.36

1 x P1Y: 2-(3-bromo-4-methoxybenzyl)-5,6-dihydroxypyrimidine-4-carboxylic acid(Non-covalent)

P1Y.4: 10 residues within 4Å: Chain A: D.18, E.53, D.73, S.74, A.127, H.128, D.138, R.146 Ligands: MN.1, MN.2 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:A.127 Hydrogen bonds: A:R.146 pi-Cation interactions: A:H.128

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lansdon, E.B. et al., Structural and Binding Analysis of Pyrimidinol Carboxylic Acid and N-Hydroxy Quinazolinedione HIV-1 RNase H Inhibitors. Antimicrob.Agents Chemother. (2011)

Release Date

2011-04-20

Peptides

Fusion protein of HIV-1 RNase H p15 with engineered E. coli loop: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Fusion protein of HIV-1 RNase H p15 with engineered E. coli loop

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