SMTL ID : 2vf0.1

CRYSTAL STRUCTURE OF THE THYMIDYLATE SYNTHASE K48Q COMPLEXED WITH 5NO2DUMP AND BW1843U89

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

homo-dimer

Ligands

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

NDU.1: 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: F89.2 12 PLIP interactions: 9 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:H.147, A:Q.165, A:S.167, A:D.169, A:N.177, A:N.177, A:Y.209 Salt bridges: A:R.21, A:R.166, B:R.126, B:R.127 Water bridges: B:R.126 NDU.3: 17 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, N.177, H.207, Y.209 Ligands: F89.4 11 PLIP interactions: 9 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:Q.165, B:S.167, B:D.169, B:N.177, B:N.177, B:Y.209, B:Y.209 Salt bridges: B:R.21, B:R.166, A:R.126, A:R.127

2 x F89: S)-2-(5(((1,2-DIHYDRO-3-METHYL-1-OXOBENZO(F)QUINAZOLIN-9-YL)METHYL)AMINO)1-OXO-2-ISOINDOLINYL)GLUTARIC ACID(Non-covalent)

F89.2: 16 residues within 4Å: Chain A: S.54, E.58, T.78, I.79, W.80, W.83, L.143, D.169, L.172, G.173, F.176, N.177, Y.209, V.262, A.263 Ligands: NDU.1 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:I.79, A:I.79, A:I.79, A:W.80, A:W.83, A:W.83, A:L.143, A:Y.209, A:A.263 Hydrogen bonds: A:S.54, A:E.58, A:T.78, A:T.78, A:D.169 pi-Stacking: A:F.176 F89.4: 15 residues within 4Å: Chain B: R.49, C.50, H.51, S.54, E.58, I.79, W.80, W.83, D.169, L.172, G.173, F.176, Y.209, A.263 Ligands: NDU.3 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:I.79, B:I.79, B:I.79, B:W.80, B:W.83, B:F.176, B:Y.209 Hydrogen bonds: B:H.51, B:E.58, B:D.169 pi-Stacking: B:F.176

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

SO4.5: 2 residues within 4Å: Chain B: R.107, H.108 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:H.108, B:H.108 Salt bridges: B:H.108

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Arvizu-Flores, A.A. et al., Role of an Invariant Lysine Residue in Folate Binding on Escherichia Coli Thymidylate Synthase: Calorimetric and Crystallographic Analysis of the K48Q Mutant. Int.J.Biochem.Cell Biol. (2008)

Release Date

2007-12-04

Peptides

THYMIDYLATE SYNTHASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

THYMIDYLATE SYNTHASE

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