SMTL ID : 1trg.1

E. COLI THYMIDYLATE SYNTHASE IN SYMMETRIC COMPLEX WITH CB3717 AND 2'-DEOXYURIDINE 5'-MONOPHOSPHATE (DUMP)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

2 x UMP: 2'-DEOXYURIDINE 5'-MONOPHOSPHATE(Covalent)

UMP.1: 16 residues within 4Å: Chain A: R.22, Y.95, 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: CB3.2 11 PLIP interactions: 9 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:Q.166, A:S.168, A:S.168, A:D.170, A:N.178, A:N.178, A:H.208 Salt bridges: A:R.22, A:R.167, B:R.127, B:R.128 UMP.3: 16 residues within 4Å: Chain A: R.127, R.128 Chain B: R.22, Y.95, C.147, H.148, Q.166, R.167, S.168, C.169, D.170, G.174, N.178, H.208, Y.210 Ligands: CB3.4 13 PLIP interactions: 11 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:Y.95, 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 CB3: 10-PROPARGYL-5,8-DIDEAZAFOLIC ACID(Non-covalent)

CB3.2: 16 residues within 4Å: Chain A: H.52, E.59, T.79, I.80, W.81, W.84, L.144, D.170, L.173, G.174, F.177, N.178, Y.210, V.263, A.264 Ligands: UMP.1 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:I.80, A:W.84, A:W.84, A:L.144, A:F.177, A:F.177, A:F.177 Hydrogen bonds: A:S.55, A:T.79, A:A.264, A:A.264, A:A.264 Water bridges: A:T.79, A:I.259 Salt bridges: A:K.49, A:H.52, A:D.170 pi-Stacking: A:W.81 CB3.4: 16 residues within 4Å: Chain B: H.52, E.59, T.79, I.80, W.81, W.84, L.144, D.170, L.173, G.174, F.177, N.178, Y.210, V.263, A.264 Ligands: UMP.3 20 PLIP interactions: 20 interactions with chain B Hydrophobic interactions: B:I.80, B:W.84, B:W.84, B:L.144, B:F.177, B:F.177, B:F.177 Hydrogen bonds: B:S.55, B:D.170, B:Y.210, B:A.264, B:A.264, B:A.264 Water bridges: B:H.52, B:T.79, B:I.259 Salt bridges: B:K.49, B:H.52, B:D.170 pi-Stacking: B:W.81

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Stout, T.J. et al., The additivity of substrate fragments in enzyme-ligand binding. Structure (1998)

Release Date

1998-08-12

Peptides

THYMIDYLATE SYNTHASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

THYMIDYLATE SYNTHASE

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