SMTL ID : 4gw0.1

Crystal structure of arginine kinase in complex with imino-L-ornithine, MgADP, and nitrate.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.45 Å

Oligo State

monomer

Ligands

1 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.1: 19 residues within 4Å: Chain A: S.122, R.124, R.126, H.185, W.221, R.229, M.233, R.280, S.282, V.283, H.284, R.309, T.311, R.312, G.313, E.314, D.324 Ligands: MG.2, NO3.4 23 PLIP interactions: 23 interactions with chain A Hydrogen bonds: A:S.122, A:R.124, A:R.280, A:S.282, A:H.284, A:R.309, A:R.312, A:E.314 Water bridges: A:R.124, A:H.185, A:H.185, A:R.229, A:R.229, A:R.229, A:S.282, A:R.312 Salt bridges: A:R.124, A:R.126, A:R.229, A:R.280, A:R.280, A:R.309 pi-Stacking: A:H.284

1 x MG: MAGNESIUM ION(Non-functional Binders)

MG.2: 3 residues within 4Å: Ligands: ADP.1, ILO.3, NO3.4 No protein-ligand interaction detected (PLIP)

1 x ILO: N5-IMINOETHYL-L-ORNITHINE(Non-covalent)

ILO.3: 13 residues within 4Å: Chain A: S.63, G.64, V.65, G.66, Y.68, E.225, C.271, T.273, N.274, E.314, H.315 Ligands: MG.2, NO3.4 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:G.64, A:V.65, A:G.66, A:Y.68, A:T.273, A:N.274, A:E.314 Water bridges: A:D.62, A:S.63, A:I.67, A:Y.68, A:R.309, A:R.309, A:H.315 Salt bridges: A:H.315

1 x NO3: NITRATE ION(Non-functional Binders)

NO3.4: 9 residues within 4Å: Chain A: R.126, E.225, R.229, N.274, R.309, E.314 Ligands: ADP.1, MG.2, ILO.3 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:R.126, A:E.225, A:R.229, A:R.229, A:N.274, A:R.309, A:R.309 Water bridges: A:R.330

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Clark, S.A. et al., Crystal structures of arginine kinase in complex with ADP, nitrate, and various phosphagen analogs. Biochem.Biophys.Res.Commun. (2012)

Release Date

2012-10-03

Peptides

Arginine kinase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Arginine kinase

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