SMTL ID : 3siz.1

Crystal structure of the mutant S127A of orotidine 5'-monophosphate decarboxylase from Methanobacterium thermoautotrophicum complexed with the inhibitor BMP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.32 Å

Oligo State

homo-dimer

Ligands

2 x BMP: 6-HYDROXYURIDINE-5'-PHOSPHATE(Non-covalent)

BMP.1: 16 residues within 4Å: Chain A: A.18, D.20, K.42, D.70, K.72, M.126, A.127, P.180, V.182, Q.185, V.201, G.202, R.203 Chain B: D.75, I.76, T.79 17 PLIP interactions: 16 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:P.180 Hydrogen bonds: A:D.20, A:K.42, A:D.70, A:K.72, A:A.127, A:V.182, A:Q.185, A:G.202, A:R.203, B:T.79 Water bridges: A:G.181, A:G.181, A:G.181, A:G.181, A:S.204 Salt bridges: A:R.203 BMP.2: 16 residues within 4Å: Chain A: D.75, I.76, T.79 Chain B: A.18, D.20, K.42, D.70, K.72, M.126, A.127, P.180, V.182, Q.185, V.201, G.202, R.203 20 PLIP interactions: 18 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:P.180 Hydrogen bonds: B:D.20, B:K.42, B:D.70, B:K.72, B:A.127, B:V.182, B:Q.185, B:G.202, B:R.203, A:T.79, A:T.79 Water bridges: B:D.70, B:D.70, B:G.181, B:G.181, B:G.181, B:G.181, B:S.204 Salt bridges: B:R.203

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 4 residues within 4Å: Chain B: T.159, P.161, G.186, G.187 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:G.186 Water bridges: B:D.188 GOL.4: 4 residues within 4Å: Chain B: A.103, D.104, R.107, L.149 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.107, B:R.107

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fedorov, A.A. et al., Crystal structure of the mutant S127A of orotidine 5'-monophosphate decarboxylase from Methanobacterium thermoautotrophicum complexed with the inhibitor BMP. To be Published

Release Date

2011-06-29

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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