SMTL ID : 5d1f.1

Crystal structure of maize PDRP bound with AMP and Hg2+

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.40 Å

Oligo State

homo-dimer

Ligands

2 x AMP: ADENOSINE MONOPHOSPHATE(Non-covalent)

AMP.1: 17 residues within 4Å: Chain A: S.131, D.132, G.133, T.134, G.135, W.136, T.137, T.191, A.193, I.234, P.235, R.236 Chain B: A.144, G.147, Q.148, E.150 Ligands: MG.3 16 PLIP interactions: 14 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:S.131, A:D.132, A:T.134, A:T.134, A:T.134, A:G.135, A:W.136, A:T.137, A:T.137, A:T.191, A:T.191, A:A.193, A:R.236, B:Q.148, B:E.150 Salt bridges: A:R.236 AMP.4: 17 residues within 4Å: Chain A: A.144, G.147, Q.148, E.150 Chain B: S.131, D.132, G.133, T.134, G.135, W.136, T.137, T.191, A.193, I.234, P.235, R.236 Ligands: MG.6 16 PLIP interactions: 14 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:S.131, B:D.132, B:T.134, B:T.134, B:T.134, B:G.135, B:W.136, B:T.137, B:T.137, B:T.191, B:T.191, B:A.193, B:R.236, A:Q.148, A:E.150 Salt bridges: B:R.236

2 x HG: MERCURY (II) ION(Non-covalent)

HG.2: 4 residues within 4Å: Chain A: K.202, C.205, V.210, C.212 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:C.212 HG.5: 4 residues within 4Å: Chain B: K.202, C.205, V.210, C.212 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:C.212

2 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 7 residues within 4Å: Chain A: S.131, G.135, W.136, T.137, A.138, T.191 Ligands: AMP.1 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:T.191 MG.6: 7 residues within 4Å: Chain B: S.131, G.135, W.136, T.137, A.138, T.191 Ligands: AMP.4 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:T.191

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jiang, L. et al., Structural Basis of Reversible Phosphorylation by Maize Pyruvate Orthophosphate Dikinase Regulatory Protein. Plant Physiol. (2016)

Release Date

2016-02-24

Peptides

Pyruvate, phosphate dikinase regulatory protein, chloroplastic: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Pyruvate, phosphate dikinase regulatory protein, chloroplastic

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