SMTL ID : 1lh0.1

Crystal Structure of Salmonella typhimurium OMP Synthase in Complex with MGPRPP and Orotate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

2 x ORO: OROTIC ACID(Non-covalent)

ORO.1: 7 residues within 4Å: Chain A: L.25, K.26, F.34, F.35, V.126, T.128, R.156 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.25 Hydrogen bonds: A:K.26, A:F.35, A:F.35, A:R.156 pi-Stacking: A:F.34 ORO.3: 9 residues within 4Å: Chain B: L.25, K.26, F.34, F.35, D.125, V.126, T.128, R.156 Ligands: PRP.4 15 PLIP interactions: 11 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:L.25, B:V.126 Hydrogen bonds: B:K.26, B:F.35, B:F.35, B:T.128, B:T.128, B:R.156 Water bridges: B:S.27, B:K.73, A:K.103, A:K.103, A:K.103, A:K.103 pi-Stacking: B:F.34

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 2 residues within 4Å: Chain B: A.71 Ligands: PRP.4 No protein-ligand interaction detected (PLIP)

1 x PRP: 1-O-pyrophosphono-5-O-phosphono-alpha-D-ribofuranose(Non-covalent)

PRP.4: 19 residues within 4Å: Chain A: R.99, K.103, H.105 Chain B: K.26, A.71, Y.72, K.73, K.100, D.124, D.125, V.126, I.127, T.128, A.129, G.130, T.131, A.132 Ligands: MG.2, ORO.3 29 PLIP interactions: 21 interactions with chain B, 8 interactions with chain A Hydrogen bonds: B:Y.72, B:K.73, B:D.124, B:T.128, B:A.129, B:G.130, B:T.131, B:A.132 Water bridges: B:K.26, B:K.26, B:K.26, B:G.74, B:T.128, B:T.128, B:G.130, B:I.133, A:K.103, A:K.103, A:K.103 Salt bridges: B:K.26, B:K.26, B:K.73, B:K.100, B:K.100, A:R.99, A:K.103, A:K.103, A:K.103, A:H.105

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Grubmeyer, C. et al., Structure of Salmonella typhimurium OMP Synthase in a Complete Substrate Complex. Biochemistry (2012)

Release Date

2002-05-08

Peptides

OMP synthase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

OMP synthase

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