SMTL ID : 5a2w.1

Crystal structure of mtPAP in complex with ATPgammaS

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-dimer

Ligands

3 x AGS: PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER(Non-covalent)

AGS.1: 3 residues within 4Å: Chain A: N.459, L.465 Ligands: AGS.2 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.459 AGS.2: 13 residues within 4Å: Chain A: F.211, G.212, S.213, D.226, A.314, C.317, N.358, F.359, N.459, I.467 Ligands: AGS.1, MG.3, PEG.4 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:S.213, A:S.213, A:N.358, A:N.459, A:I.467 Water bridges: A:S.318 pi-Stacking: A:F.359, A:F.359 AGS.5: 14 residues within 4Å: Chain B: F.211, G.212, S.213, C.223, D.224, D.226, A.314, C.317, N.358, F.359, N.459, I.467 Ligands: MG.6, PEG.7 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:S.213, B:S.213, B:D.224, B:N.358, B:I.467 Water bridges: B:G.212, B:D.224, B:D.224, B:A.314

2 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 3 residues within 4Å: Chain A: S.213, D.226 Ligands: AGS.2 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.226, H2O.1, H2O.1 MG.6: 4 residues within 4Å: Chain B: S.213, D.224, D.226 Ligands: AGS.5 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:S.213, B:D.224, B:D.226

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

PEG.4: 7 residues within 4Å: Chain A: S.213, N.216, F.218, R.339, N.358, T.362 Ligands: AGS.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.216, A:R.339 PEG.7: 6 residues within 4Å: Chain B: N.216, F.218, R.339, N.358, T.362 Ligands: AGS.5 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.216, B:R.339

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lapkouski, M. et al., Structure of Mitochondrial Poly(A) RNA Polymerase Reveals the Structural Basis for Dimerization, ATP Selectivity and the Spax4 Disease Phenotype. Nucleic Acids Res. (2015)

Release Date

2015-09-09

Peptides

MITOCHONDRIAL PROTEIN: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

MITOCHONDRIAL PROTEIN

Related Entries With Identical Sequence