SMTL ID : 6cni.1

Crystal structure of H105A PGAM5 dimer

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-dimer

Ligands

6 x NA: SODIUM ION(Non-functional Binders)

NA.1: 7 residues within 4Å: Chain A: Y.26, A.28, A.30, R.32, I.198, R.199, P.200 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.26, A:R.32, A:R.199 NA.2: 3 residues within 4Å: Chain A: R.52, T.85, R.86 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.52, A:R.86, A:R.86 Water bridges: A:T.85 NA.3: 5 residues within 4Å: Chain A: S.187, L.188, N.189, G.210 Chain B: R.207 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:S.187, A:N.189, B:R.207 NA.5: 7 residues within 4Å: Chain B: Q.61, N.189, N.190, T.212, M.215, I.220, T.221 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:T.221, B:T.221 NA.6: 3 residues within 4Å: Chain B: R.52, T.85, R.86 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.52, B:R.86, B:R.86 Water bridges: B:T.85 NA.7: 5 residues within 4Å: Chain A: R.207 Chain B: S.187, L.188, N.189, G.210 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.187, B:N.189

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.4: 6 residues within 4Å: Chain A: R.38, A.39, R.86, E.111, H.164, A.165 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:E.111, A:A.165 Water bridges: A:R.38, A:R.38, A:R.38, A:R.38, A:R.38, A:R.86, A:N.190, A:N.190 Salt bridges: A:R.38, A:R.86, A:H.164 PO4.8: 6 residues within 4Å: Chain B: R.38, A.39, R.86, E.111, H.164, A.165 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:E.111, B:E.111, B:A.165 Water bridges: B:R.38, B:R.38, B:R.38, B:A.39, B:N.190, B:N.190 Salt bridges: B:R.38, B:R.86, B:H.164

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ruiz, K. et al., Functional role of PGAM5 multimeric assemblies and their polymerization into filaments. Nat Commun (2019)

Release Date

2019-02-13

Peptides

Serine/threonine-protein phosphatase PGAM5, mitochondrial: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Serine/threonine-protein phosphatase PGAM5, mitochondrial

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