SMTL ID : 3ghv.1

Human dihydrofolate reductase Q35K/N64F double mutant inhibitor complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.30 Å

Oligo State

monomer

Ligands

1 x GHC: N-({4-[(2-amino-6-ethyl-4-oxo-3,4-dihydrothieno[2,3-d]pyrimidin-5-yl)sulfanyl]phenyl}carbonyl)-L-glutamic acid(Non-covalent)

GHC.1: 16 residues within 4Å: Chain A: I.7, V.8, A.9, L.22, E.30, F.31, F.34, K.35, T.56, I.60, F.64, L.67, R.70, V.115, T.136 Ligands: NDP.2 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:F.31, A:F.31, A:F.34, A:T.56, A:F.64, A:V.115 Hydrogen bonds: A:T.136, A:T.136 Water bridges: A:K.35, A:K.68 Salt bridges: A:E.30, A:K.35, A:R.70 pi-Stacking: A:F.34

1 x NDP: NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NDP.2: 27 residues within 4Å: Chain A: V.8, A.9, I.16, G.17, K.18, G.20, D.21, L.22, W.24, G.53, K.54, K.55, T.56, S.59, L.75, S.76, R.77, E.78, R.91, S.92, V.115, G.117, S.118, Y.121, E.123, T.146 Ligands: GHC.1 31 PLIP interactions: 31 interactions with chain A Hydrophobic interactions: A:T.56 Hydrogen bonds: A:A.9, A:I.16, A:K.18, A:G.20, A:G.20, A:G.53, A:K.54, A:K.55, A:T.56, A:T.56, A:S.59, A:R.77, A:E.78, A:E.78, A:L.93, A:G.117, A:S.118, A:Y.121, A:E.123, A:T.146 Water bridges: A:K.55, A:K.55, A:R.77, A:G.117, A:S.119, A:S.119, A:S.119, A:S.119, A:S.119 Salt bridges: A:K.54

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 3 residues within 4Å: Chain A: P.61, E.62, R.65 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.62 Water bridges: A:R.65, A:R.65

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

SO4.4: 2 residues within 4Å: Chain A: K.63, F.64 3 PLIP interactions: 3 interactions with chain A Water bridges: A:K.63, A:K.63 Salt bridges: A:K.63 SO4.5: 3 residues within 4Å: Chain A: K.122, P.149, E.150 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.150 Salt bridges: A:K.122 SO4.6: 9 residues within 4Å: Chain A: L.158, L.159, P.160, E.161, Y.162, V.165, F.179, E.180, V.181 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:V.181, A:V.181 Water bridges: A:Y.162, A:Y.162 SO4.7: 3 residues within 4Å: Chain A: P.25, P.26, K.173 2 PLIP interactions: 2 interactions with chain A Water bridges: A:K.173 Salt bridges: A:K.173 SO4.8: 4 residues within 4Å: Chain A: L.22, P.23, W.24, P.25 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.22, A:L.22 Water bridges: A:K.18 SO4.9: 3 residues within 4Å: Chain A: V.165, L.166, S.167 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.167, A:S.167 Water bridges: A:V.165, A:S.167

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gangjee, A. et al., Design, synthesis, and X-ray crystal structure of classical and nonclassical 2-amino-4-oxo-5-substituted-6-ethylthieno[2,3-d]pyrimidines as dual thymidylate synthase and dihydrofolate reductase inhibitors and as potential antitumor agents. J.Med.Chem. (2009)

Release Date

2009-09-22

Peptides

Dihydrofolate reductase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Dihydrofolate reductase

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