SMTL ID : 4jhx.1

Crystal structure of anabolic ornithine carbamoyltransferase from Vibrio vulnificus in complex with carbamoylphosphate and arginine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

homo-trimer

Ligands

2 x CP: PHOSPHORIC ACID MONO(FORMAMIDE)ESTER(Non-covalent)(Covalent)

CP.1: 11 residues within 4Å: Chain A: S.81, T.82, R.83, T.84, R.132, H.159, Q.162, C.299, L.300, R.344 Ligands: ARG.3 9 PLIP interactions: 8 interactions with chain A, 1 Ligand-Ligand interactions Hydrogen bonds: A:T.82, A:R.83, A:T.84, A:R.132, A:Q.162, A:R.344 Salt bridges: A:R.83, A:R.132, R.3 CP.8: 9 residues within 4Å: Chain C: S.81, R.83, T.84, R.132, H.159, Q.162, C.299, L.300, R.344 10 PLIP interactions: 10 interactions with chain C Hydrogen bonds: C:R.83, C:T.84, C:T.84, C:R.132, C:R.132, C:H.159, C:R.344, C:R.344 Salt bridges: C:R.83, C:R.132

4 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 5 residues within 4Å: Chain A: K.36, L.37, F.158, P.160, S.197 Ligand excluded by PLIP CL.4: 5 residues within 4Å: Chain B: K.36, L.37, F.158, P.160, S.197 Ligand excluded by PLIP CL.5: 3 residues within 4Å: Chain B: S.81, R.83, T.84 Ligand excluded by PLIP CL.7: 5 residues within 4Å: Chain C: K.36, L.37, F.158, P.160, S.197 Ligand excluded by PLIP

1 x ARG: ARGININE(Non-covalent)

ARG.3: 9 residues within 4Å: Chain A: L.154, N.192, N.193, D.257, S.261, M.262, L.300, P.301 Ligands: CP.1 8 PLIP interactions: 3 Ligand-Ligand interactions, 5 interactions with chain A Hydrogen bonds: R.3, R.3, A:A.80, A:N.193, A:D.257, A:M.262 Salt bridges: R.3 Hydrophobic interactions: A:L.154

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.6: 2 residues within 4Å: Chain B: W.269, V.314 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shabalin, I.G. et al., Crystal structures and kinetic properties of anabolic ornithine carbamoyltransferase from human pathogens Vibrio vulnificus and Bacillus anthracis. To be Published

Release Date

2013-03-20

Peptides

Ornithine carbamoyltransferase: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Ornithine carbamoyltransferase

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