SMTL ID : 6cdz.1

E. coli thymidylate synthase mutant I264Am

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-dimer

Ligands

2 x CB3: 10-PROPARGYL-5,8-DIDEAZAFOLIC ACID(Non-covalent)

CB3.1: 14 residues within 4Å: Chain A: H.51, I.79, W.83, D.169, L.172, G.173, F.176, N.177, Y.209, K.259, A.260, V.262, A.263 Ligands: UMP.2 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:I.79, A:L.172, A:F.176, A:F.176, A:F.176 Hydrogen bonds: A:Y.209, A:Y.209 Water bridges: A:K.48, A:A.263, A:A.263, A:A.263 Salt bridges: A:K.48, A:H.51, A:D.169 CB3.3: 16 residues within 4Å: Chain B: K.48, S.54, E.58, 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: UMC.4 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:I.79, B:I.79, B:W.83, B:W.83, B:F.176 Hydrogen bonds: B:Y.209, B:A.263, B:A.263, B:A.263, B:A.263 Water bridges: B:K.48 Salt bridges: B:K.48, B:D.169 pi-Stacking: B:F.176

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

UMP.2: 16 residues within 4Å: Chain A: R.21, 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 Ligands: CB3.1 15 PLIP interactions: 13 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:D.169 Hydrogen bonds: A:Q.165, A:S.167, A:S.167, A:D.169, A:N.177, A:N.177, A:Y.209, A:Y.209 Water bridges: A:H.147, A:R.166, B:R.126 Salt bridges: A:R.21, A:R.166, B:R.126

1 x UMC: 2'-deoxy-5'-uridylic acid(Non-covalent)

UMC.4: 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: CB3.3 17 PLIP interactions: 13 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:D.169 Hydrogen bonds: B:Y.94, B:Q.165, B:S.167, B:S.167, B:D.169, B:N.177, B:N.177, B:H.207, B:Y.209 Water bridges: B:R.21, A:R.126, A:R.126 Salt bridges: B:R.21, B:R.166, A:R.126, A:R.127

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Finer-Moore, J.S. et al., A Single Mutation Traps a Half-Sites Reactive Enzyme in Midstream, Explaining Asymmetry in Hydride Transfer. Biochemistry (2018)

Release Date

2018-05-16

Peptides

Thymidylate synthase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Thymidylate synthase