SMTL ID : 3bhr.1

E. coli TS complexed with 5-NO2dUMP and tetrahydrofolate at 1.9 A resolution (space group 152)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

4 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.1: 3 residues within 4Å: Chain A: R.49, P.256, G.257 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.49, A:G.257, A:G.257 Salt bridges: A:K.259 PO4.3: 3 residues within 4Å: Chain A: L.52, F.244, F.247 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:F.247 Water bridges: A:F.247, A:I.249 PO4.5: 3 residues within 4Å: Chain B: R.49, P.256, G.257 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.49, B:G.257, B:G.257 Salt bridges: B:K.259 PO4.7: 3 residues within 4Å: Chain B: L.52, F.244, F.247 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:F.247 Water bridges: B:F.247, B:I.249

2 x THG: (6S)-5,6,7,8-TETRAHYDROFOLATE(Non-covalent)

THG.2: 12 residues within 4Å: Chain A: H.51, I.79, W.83, L.143, D.169, L.172, G.173, F.176, Y.209, V.262, A.263 Ligands: NDU.4 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:F.176, A:F.176 Hydrogen bonds: A:S.54, A:D.169, A:Y.209, A:A.263, A:A.263 Water bridges: A:R.21, A:K.48, A:I.79, A:N.177 Salt bridges: A:K.48, A:H.51, A:D.169 THG.6: 12 residues within 4Å: Chain B: H.51, I.79, W.83, L.143, D.169, L.172, G.173, F.176, Y.209, V.262, A.263 Ligands: NDU.8 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:F.176, B:F.176 Hydrogen bonds: B:S.54, B:A.263, B:A.263 Water bridges: B:R.21, B:K.48, B:I.79, B:N.177 Salt bridges: B:K.48, B:H.51, B:D.169

2 x NDU: 2'-DEOXY-5-NITROURIDINE 5'-MONOPHOSPHATE(Non-covalent)

NDU.4: 18 residues within 4Å: Chain A: R.21, W.80, Y.94, L.143, C.146, H.147, Q.165, R.166, S.167, C.168, D.169, G.173, N.177, H.207, Y.209 Chain B: R.126, R.127 Ligands: THG.2 13 PLIP interactions: 9 interactions with chain A, 4 interactions with chain B Hydrogen bonds: A:Q.165, A:S.167, A:D.169, A:N.177, A:N.177, A:Y.209, A:Y.209 Salt bridges: A:R.21, A:R.166, B:R.126, B:R.127 Water bridges: B:R.126, B:R.126 NDU.8: 18 residues within 4Å: Chain A: R.126, R.127 Chain B: R.21, W.80, Y.94, L.143, C.146, H.147, Q.165, R.166, S.167, C.168, D.169, G.173, N.177, H.207, Y.209 Ligands: THG.6 13 PLIP interactions: 9 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:Y.94, B:Q.165, B:S.167, B:D.169, B:N.177, B:N.177, B:Y.209 Salt bridges: B:R.21, B:R.166, A:R.126, A:R.127 Water bridges: A:R.126, A:R.126

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Arendall III, W.B. et al., Structural Studies of Early Events in Catalysis by Thymidylate Synthase. To be Published

Release Date

2008-12-02

Peptides

Thymidylate synthase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Thymidylate synthase

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