SMTL ID : 1dna.1

D221(169)N MUTANT DOES NOT PROMOTE OPENING OF THE COFACTOR IMIDAZOLIDINE RING

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

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

UMP.1: 15 residues within 4Å: Chain A: R.21, Y.94, C.146, H.147, Q.165, R.166, S.167, C.168, N.169, N.177, H.207, Y.209 Chain B: R.126, R.127 Ligands: CB3.2 12 PLIP interactions: 10 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:Q.165, A:S.167, A:N.169, A:N.177, A:N.177, A:H.207 Water bridges: A:R.21, A:R.21 Salt bridges: A:R.21, A:R.166, B:R.126, B:R.127 UMP.3: 15 residues within 4Å: Chain A: R.126, R.127 Chain B: R.21, L.143, C.146, H.147, Q.165, R.166, S.167, C.168, N.169, N.177, H.207, Y.209 Ligands: CB3.4 13 PLIP interactions: 10 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:Q.165, B:S.167, B:N.169, B:N.169, B:N.177, B:N.177, B:H.207 Water bridges: B:R.21, A:R.126 Salt bridges: B:R.21, B:R.166, A:R.126, A:R.127

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

CB3.2: 16 residues within 4Å: Chain A: R.53, E.58, T.78, I.79, W.80, W.83, L.143, N.169, L.172, G.173, F.176, N.177, Y.209, V.262, A.263 Ligands: UMP.1 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:I.79, A:W.80, A:W.83, A:W.83, A:L.143, A:F.176, A:F.176 Hydrogen bonds: A:N.169, A:A.263, A:A.263, A:A.263 Water bridges: A:K.48, A:S.54, A:T.78, A:A.260, A:A.260 Salt bridges: A:K.48, A:R.53 CB3.4: 16 residues within 4Å: Chain B: H.51, S.54, E.58, I.79, W.80, W.83, L.143, N.169, L.172, G.173, F.176, N.177, Y.209, V.262, A.263 Ligands: UMP.3 16 PLIP interactions: 16 interactions with chain B Hydrophobic interactions: B:I.79, B:I.79, B:W.80, B:W.83, B:L.143, B:F.176, B:F.176 Hydrogen bonds: B:S.54, B:N.169, B:A.263, B:A.263, B:A.263 Water bridges: B:R.21, B:K.48 Salt bridges: B:K.48, B:H.51

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sage, C.R. et al., D221 in thymidylate synthase controls conformation change, and thereby opening of the imidazolidine. Biochemistry (1998)

Release Date

1998-11-04

Peptides

THYMIDYLATE SYNTHASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

THYMIDYLATE SYNTHASE

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