SMTL ID : 3wk2.1

Orotidine 5'-monophosphate decarboxylase K72A mutant from M. thermoautotrophicus complexed with orotidine 5'-monophosphate methyl ester

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.69 Å

Oligo State

homo-dimer

Ligands

2 x O7M: 6-(methoxycarbonyl)uridine 5'-(dihydrogen phosphate)(Non-covalent)

O7M.1: 19 residues within 4Å: Chain A: A.21, D.23, K.45, D.73, A.75, I.99, L.126, M.129, S.130, P.183, V.185, Q.188, I.203, V.204, G.205, R.206 Chain B: D.78, I.79, T.82 22 PLIP interactions: 20 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:L.126, A:P.183 Hydrogen bonds: A:D.23, A:K.45, A:S.130, A:S.130, A:S.130, A:Q.188, A:G.205, A:R.206, B:T.82, B:T.82 Water bridges: A:D.23, A:D.73, A:D.73, A:G.184, A:G.184, A:G.184, A:G.184, A:S.207 Salt bridges: A:K.45, A:R.206 O7M.4: 19 residues within 4Å: Chain A: D.78, I.79, T.82 Chain B: A.21, D.23, K.45, D.73, A.75, I.99, L.126, M.129, S.130, P.183, V.185, Q.188, I.203, V.204, G.205, R.206 18 PLIP interactions: 1 interactions with chain A, 17 interactions with chain B Hydrogen bonds: A:T.82, B:D.23, B:K.45, B:S.130, B:S.130, B:S.130, B:Q.188, B:G.205, B:R.206 Hydrophobic interactions: B:L.126, B:P.183 Water bridges: B:G.184, B:G.184, B:G.184, B:G.184, B:S.207 Salt bridges: B:K.45, B:R.206

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 3 residues within 4Å: Chain A: E.36, N.213, A.215 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.213 GOL.3: 5 residues within 4Å: Chain A: A.211, D.212, N.213, A.216, A.217 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.212, A:N.213 GOL.5: 3 residues within 4Å: Chain B: E.36, N.213, A.215 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.213 GOL.6: 5 residues within 4Å: Chain B: A.211, D.212, N.213, A.216, A.217 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.212, B:N.213

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fujihashi, M. et al., Substrate distortion contributes to the catalysis of orotidine 5'-monophosphate decarboxylase. J.Am.Chem.Soc. (2013)

Release Date

2013-12-04

Peptides

Orotidine 5'-phosphate decarboxylase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Orotidine 5'-phosphate decarboxylase

Related Entries With Identical Sequence