SMTL ID : 3gyf.1

Human DHFR with Z-isomer in Orthorhombic lattice

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

1 x 51P: 5-[(1Z)-2-(2-methoxyphenyl)prop-1-en-1-yl]furo[2,3-d]pyrimidine-2,4-diamine(Non-covalent)

51P.1: 15 residues within 4Å: Chain A: I.8, V.9, A.10, E.31, F.32, F.35, T.57, S.60, I.61, P.62, L.68, V.116, Y.122, T.137 Ligands: NDP.2 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:F.32, A:F.32, A:F.35, A:F.35, A:T.57, A:I.61, A:L.68 Hydrogen bonds: A:V.9, A:Y.122, A:Y.122, A:T.137 Water bridges: A:S.60 Salt bridges: A:E.31

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

NDP.2: 30 residues within 4Å: Chain A: V.9, A.10, I.17, G.18, K.19, G.21, D.22, L.23, W.25, G.54, K.55, K.56, T.57, S.60, L.76, S.77, R.78, E.79, R.92, S.93, V.116, G.117, G.118, S.119, S.120, V.121, Y.122, E.124, T.147 Ligands: 51P.1 32 PLIP interactions: 32 interactions with chain A Hydrophobic interactions: A:L.23, A:T.57 Hydrogen bonds: A:A.10, A:I.17, A:K.19, A:G.21, A:G.21, A:G.54, A:K.55, A:K.56, A:K.56, A:T.57, A:T.57, A:S.60, A:S.77, A:R.78, A:R.78, A:E.79, A:E.79, A:G.118, A:S.119, A:S.120, A:E.124, A:T.147 Water bridges: A:K.55, A:L.94, A:L.94, A:S.120, A:S.120, A:T.147, A:T.147 Salt bridges: A:K.55

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

SO4.3: 2 residues within 4Å: Chain A: K.69, G.70 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.70 Water bridges: A:Q.48 Salt bridges: A:K.69 SO4.4: 6 residues within 4Å: Chain A: P.67, R.71, I.72, N.73, G.86, H.88 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.73, A:N.73, A:N.73 Water bridges: A:H.88, A:H.88 Salt bridges: A:H.88 SO4.5: 3 residues within 4Å: Chain A: Y.163, P.164, G.165 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.163, A:G.165 Water bridges: A:V.166, A:V.166

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cody, V. et al., The Z isomer of 2,4-diaminofuro[2,3-d]pyrimidine antifolate promotes unusual crystal packing in a human dihydrofolate reductase ternary complex. Acta Crystallogr.,Sect.F (2009)

Release Date

2009-11-03

Peptides

Dihydrofolate reductase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Dihydrofolate reductase

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