SMTL ID : 4xt7.1

Crystal structure of Rv2671 from Mycobacterium tuberculosis in complex with NADP+ and trimethoprim

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

2 x NAP: NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NAP.1: 29 residues within 4Å: Chain A: F.45, I.46, A.53, T.54, G.57, T.58, S.59, G.84, V.85, G.86, T.87, I.90, E.91, V.120, T.121, R.122, S.123, V.173, E.175, E.193, G.194, G.195, P.196, T.197, L.198, T.201, R.225, T.229 Ligands: TOP.2 28 PLIP interactions: 28 interactions with chain A Hydrophobic interactions: A:F.45, A:F.45, A:T.87 Hydrogen bonds: A:I.46, A:I.46, A:S.59, A:S.59, A:G.84, A:V.85, A:G.86, A:T.87, A:T.87, A:E.91, A:T.121, A:T.121, A:R.122, A:S.123, A:E.175, A:E.175, A:G.195, A:T.197, A:L.198, A:R.225 Water bridges: A:R.89, A:R.89, A:R.122, A:R.122, A:S.123 NAP.5: 29 residues within 4Å: Chain B: F.45, I.46, A.53, T.54, G.57, T.58, S.59, G.84, V.85, G.86, T.87, I.90, E.91, V.120, T.121, R.122, S.123, V.173, E.175, E.193, G.194, G.195, P.196, T.197, L.198, T.201, R.225, T.229 Ligands: TOP.6 27 PLIP interactions: 27 interactions with chain B Hydrophobic interactions: B:F.45, B:F.45, B:T.87 Hydrogen bonds: B:I.46, B:I.46, B:S.59, B:S.59, B:G.84, B:V.85, B:G.86, B:T.87, B:T.121, B:R.122, B:S.123, B:E.175, B:G.195, B:T.197, B:T.197, B:L.198, B:T.201, B:R.225, B:T.229 Water bridges: B:R.89, B:R.89, B:R.122, B:R.122, B:S.123

2 x TOP: TRIMETHOPRIM(Non-covalent)

TOP.2: 14 residues within 4Å: Chain A: N.44, F.45, I.46, T.58, S.59, G.60, D.67, R.68, F.71, E.91, E.193, T.214 Ligands: NAP.1, GOL.3 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:F.71 Hydrogen bonds: A:N.44, A:N.44, A:N.44, A:T.214 Salt bridges: A:D.67 pi-Stacking: A:F.71 TOP.6: 14 residues within 4Å: Chain B: N.44, F.45, I.46, T.58, S.59, G.60, D.67, R.68, F.71, E.91, E.193, T.214 Ligands: NAP.5, GOL.7 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:F.71 Hydrogen bonds: B:N.44, B:N.44, B:N.44, B:T.214 Salt bridges: B:D.67 pi-Stacking: B:F.71

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 5 residues within 4Å: Chain A: F.71, R.75, E.91, Y.93 Ligands: TOP.2 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.75, A:E.91 Water bridges: A:G.92, A:S.94 GOL.7: 5 residues within 4Å: Chain B: F.71, R.75, E.91, Y.93 Ligands: TOP.6 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.75, B:E.91, B:E.91 Water bridges: B:G.92, B:S.94

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.4: 5 residues within 4Å: Chain A: D.174, A.176, V.177, S.180, R.205 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.180, A:R.205 PEG.8: 5 residues within 4Å: Chain B: D.174, A.176, V.177, S.180, R.205 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.180, B:R.205

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cheng, Y.S. et al., Structural Insights into Mycobacterium tuberculosis Rv2671 Protein as a Dihydrofolate Reductase Functional Analogue Contributing to para-Aminosalicylic Acid Resistance. Biochemistry (2016)

Release Date

2016-02-24

Peptides

Rv2671: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Rv2671

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