SMTL ID : 3gdl.1

Crystal structure of the orotidine 5'-monophosphate decarboxylase from Saccharomyces cerevisiae complexed with 6-azauridine 5'-monophosphate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

homo-dimer

Ligands

2 x UP6: 6-AZA URIDINE 5'-MONOPHOSPHATE(Non-covalent)

UP6.1: 16 residues within 4Å: Chain A: S.35, D.37, K.59, H.61, D.91, K.93, L.153, S.154, P.202, Q.215, Y.217, G.234, R.235 Chain B: D.96, I.97, T.100 17 PLIP interactions: 15 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:S.35, A:D.37, A:K.59, A:D.91, A:K.93, A:S.154, A:Q.215, A:G.234, A:R.235, B:D.96, B:T.100 Water bridges: A:E.152, A:Q.185, A:G.203, A:V.204, A:G.236 Salt bridges: A:R.235 UP6.2: 16 residues within 4Å: Chain A: D.96, I.97, T.100 Chain B: S.35, D.37, K.59, H.61, D.91, K.93, L.153, S.154, P.202, Q.215, Y.217, G.234, R.235 17 PLIP interactions: 14 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:S.35, B:K.59, B:K.93, B:S.154, B:Q.215, B:Y.217, B:G.234, B:R.235, A:D.96, A:T.100, A:T.100 Water bridges: B:D.37, B:Q.185, B:G.203, B:V.204, B:G.236 Salt bridges: B:R.235

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chan, K.K. et al., Mechanism of the orotidine 5'-monophosphate decarboxylase-catalyzed reaction: evidence for substrate destabilization. Biochemistry (2009)

Release Date

2009-06-23

Peptides

Orotidine 5'-phosphate decarboxylase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Orotidine 5'-phosphate decarboxylase

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