SMTL ID : 3sec.1

Crystal structure of Methanothermobacter thermautotrophicus orotidine 5'-monophosphate decarboxylase complexed with pyrazofurin monophosphate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-dimer

Ligands

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 3 residues within 4Å: Chain A: E.33, N.210, A.212 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.210 Water bridges: A:E.33 GOL.3: 3 residues within 4Å: Chain B: E.33, N.210, A.212 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.210 Water bridges: B:E.33

2 x PFU: (1S)-1,4-anhydro-1-(5-carbamoyl-4-hydroxy-1H-pyrazol-3-yl)-5-O-phosphono-D-ribitol(Non-covalent)

PFU.2: 18 residues within 4Å: Chain A: A.18, D.20, K.42, D.70, K.72, L.123, M.126, S.127, V.155, P.180, V.182, Q.185, V.201, G.202, R.203 Chain B: D.75, I.76, T.79 21 PLIP interactions: 19 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:K.42, A:D.70, A:K.72, A:S.127, A:S.127, A:S.127, A:V.182, A:Q.185, A:G.202, A:R.203, B:D.75, B:T.79 Water bridges: A:E.125, A:E.125, A:V.155, A:G.181, A:G.181, A:G.181, A:G.181, A:S.204 Salt bridges: A:R.203 PFU.4: 18 residues within 4Å: Chain A: D.75, I.76, T.79 Chain B: A.18, D.20, K.42, D.70, K.72, L.123, M.126, S.127, V.155, P.180, V.182, Q.185, V.201, G.202, R.203 23 PLIP interactions: 20 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:K.42, B:D.70, B:K.72, B:S.127, B:S.127, B:S.127, B:V.182, B:Q.185, B:G.202, B:R.203, A:D.75, A:T.79, A:T.79 Water bridges: B:D.20, B:E.125, B:E.125, B:V.155, B:G.181, B:G.181, B:G.181, B:G.181, B:S.204 Salt bridges: B:R.203

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liu, Y. et al., Crystal structure of methanococcus thermolithotrophicus orotidine 5'-monophosphate decarboxylase complexed with pyrazofurin monophosphate. To be Published

Release Date

2012-04-25

Peptides

Orotidine 5'-phosphate decarboxylase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Orotidine 5'-phosphate decarboxylase

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