SMTL ID : 1axw.1

E. COLI THYMIDYLATE SYNTHASE IN COMPLEX WITH METHOTREXATE (MTX) AND 2'-DEOXYURIDINE 5'-MONOPHOSPHATE (DUMP)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-dimer

Ligands

2 x UMP: 2'-DEOXYURIDINE 5'-MONOPHOSPHATE(Non-covalent)

UMP.1: 15 residues within 4Å: Chain A: R.22, C.147, H.148, Q.166, R.167, S.168, C.169, D.170, G.174, N.178, H.208, Y.210 Chain B: R.127, R.128 Ligands: MTX.2 11 PLIP interactions: 2 interactions with chain B, 9 interactions with chain A Salt bridges: B:R.127, B:R.128, A:R.22, A:R.167 Hydrogen bonds: A:Q.166, A:S.168, A:S.168, A:D.170, A:N.178, A:N.178, A:H.208 UMP.3: 15 residues within 4Å: Chain A: R.127, R.128 Chain B: R.22, C.147, H.148, Q.166, R.167, S.168, C.169, D.170, G.174, N.178, H.208, Y.210 Ligands: MTX.4 12 PLIP interactions: 10 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:Q.166, B:S.168, B:S.168, B:D.170, B:N.178, B:N.178, B:H.208, B:Y.210 Salt bridges: B:R.22, B:R.167, A:R.127, A:R.128

2 x MTX: METHOTREXATE(Non-covalent)

MTX.2: 13 residues within 4Å: Chain A: K.49, H.52, I.80, W.84, L.144, D.170, L.173, G.174, F.177, Y.210, V.263, A.264 Ligands: UMP.1 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:I.80, A:F.177 Hydrogen bonds: A:D.170, A:A.264, A:A.264 Water bridges: A:K.49, A:K.49, A:S.55, A:I.80, A:K.260 Salt bridges: A:K.49, A:H.52, A:D.170, A:K.260 MTX.4: 15 residues within 4Å: Chain B: K.49, H.52, I.80, W.81, W.84, D.170, F.172, L.173, G.174, F.177, Y.210, I.259, V.263, A.264 Ligands: UMP.3 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:I.80, B:I.80, B:L.173, B:F.177, B:F.177 Hydrogen bonds: B:D.170, B:Y.210, B:I.259, B:A.264 Water bridges: B:A.264, B:A.264 Salt bridges: B:K.49, B:H.52, B:D.170

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Welch, W. et al., Discovery of Thymidylate Synthase Inhibitors Using Flexible Docking and an Empirically Tuned Scoring Function. To be Published

Release Date

1998-10-28

Peptides

THYMIDYLATE SYNTHASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

THYMIDYLATE SYNTHASE

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