SMTL ID : 5j9a.1

Ambient temperature transition state structure of arginine kinase - crystal 11/Form II

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

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

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

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

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

1 x ARG: ARGININE(Non-covalent)

ARG.3: 13 residues within 4Å: Chain A: S.63, G.64, V.65, G.66, Y.68, F.194, E.225, C.271, T.273, N.274, E.314, H.315 Ligands: NO3.1 18 PLIP interactions: 17 interactions with chain A, 1 Ligand-Ligand interactions Hydrogen bonds: A:G.64, A:V.65, A:G.66, A:Y.68, A:T.273, A:N.274 Water bridges: A:I.67, A:Y.68, A:Y.68, A:D.192, A:R.309, A:R.309, A:E.314, A:H.315, R.3 Salt bridges: A:E.225, A:E.314, A:H.315

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

ADP.4: 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: NO3.1, MG.2 21 PLIP interactions: 21 interactions with chain A Hydrogen bonds: A:S.122, A:R.280, A:S.282, A:H.284, A:R.312, A:E.314 Water bridges: A:R.124, A:R.124, A:L.187, A:R.229, A:R.229, A:R.312, A:G.313 Salt bridges: A:R.124, A:R.126, A:R.229, A:R.280, A:R.280, A:R.309, A:R.309 pi-Stacking: A:H.284

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Godsey, M.H. et al., The Sampling of Conformational Dynamics in Ambient-Temperature Crystal Structures of Arginine Kinase. Structure (2016)

Release Date

2016-08-17

Peptides

Arginine kinase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Arginine kinase

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