SMTL ID : 3nzb.1

Structural Analysis of Pneumocystis carinii and Human DHFR Complexes with NADPH and a Series of Potent 5-(omega-carboxyl(alkyloxy)pyrido[2,-d]pyrimidine Derivatives

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.45 Å

Oligo State

monomer

Ligands

2 x D2N: ethyl 6-{3-[(2,4-diamino-5-methylpyrido[2,3-d]pyrimidin-6-yl)methyl]-4-methoxyphenoxy}hexanoate(Non-covalent)

D2N.1: 16 residues within 4Å: Chain A: I.10, V.11, A.12, S.24, L.25, E.32, I.33, F.36, I.65, P.66, L.72, I.123, Y.129, T.144 Ligands: NDP.2, D2N.3 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:L.25, A:I.33, A:I.65 Hydrogen bonds: A:I.10, A:V.11, A:A.12, A:Y.129, A:T.144 Salt bridges: A:E.32 pi-Stacking: A:F.36, A:F.36 D2N.3: 19 residues within 4Å: Chain A: I.10, V.11, A.12, L.25, E.32, I.33, F.36, K.37, I.65, P.66, Q.68, F.69, L.72, K.73, I.123, Y.129, T.144 Ligands: D2N.1, NDP.2 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:I.33, A:I.33, A:F.36, A:F.36, A:I.65, A:F.69 Hydrogen bonds: A:I.10, A:V.11, A:A.12, A:Y.129, A:T.144 Salt bridges: A:E.32, A:K.37, A:K.73 pi-Stacking: A:F.36, A:F.36

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

NDP.2: 29 residues within 4Å: Chain A: V.11, A.12, I.19, G.20, R.21, N.23, S.24, L.25, W.27, G.58, R.59, K.60, T.61, S.64, I.80, T.81, R.82, K.96, I.123, G.124, G.125, A.126, Q.127, L.128, Y.129, A.131, V.154 Ligands: D2N.1, D2N.3 21 PLIP interactions: 21 interactions with chain A Hydrophobic interactions: A:L.25, A:T.61 Hydrogen bonds: A:A.12, A:I.19, A:R.21, A:G.58, A:R.59, A:K.60, A:T.61, A:S.64, A:S.64, A:T.81, A:R.82, A:G.125, A:A.126, A:Q.127, A:L.128 Water bridges: A:L.98, A:Q.127, A:A.131 Salt bridges: A:R.59

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cody, V. et al., Structural analysis of Pneumocystis carinii and human DHFR complexes with NADPH and a series of five potent 6-[5'-([omega]-carboxyalkoxy)benzyl]pyrido[2,3-d]pyrimidine derivatives. Acta Crystallogr.,Sect.D (2011)

Release Date

2010-12-29

Peptides

Dihydrofolate reductase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
X

Dihydrofolate reductase

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