SMTL ID : 4xh4.1

Crystal structure of Salmonella typhimurium propionate kinase A88V mutant, in complex with AMPPNP and propionate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

2 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER(Non-covalent)

ANP.1: 15 residues within 4Å: Chain A: H.189, H.217, G.219, N.220, G.221, S.291, D.292, L.293, R.294, E.297, G.340, I.341, N.344, S.345 Ligands: PPI.4 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:H.189, A:H.189, A:N.220, A:G.221, A:S.291, A:D.292, A:L.293, A:R.294, A:R.294, A:G.340, A:I.341, A:N.344, A:N.344 pi-Cation interactions: A:R.294 ANP.5: 15 residues within 4Å: Chain B: H.189, H.217, G.219, N.220, G.221, S.291, D.292, L.293, R.294, E.297, G.340, I.341, N.344, S.345 Ligands: PPI.8 14 PLIP interactions: 14 interactions with chain B Hydrogen bonds: B:H.189, B:H.189, B:N.220, B:G.221, B:S.291, B:D.292, B:L.293, B:R.294, B:R.294, B:G.340, B:I.341, B:N.344, B:N.344 pi-Cation interactions: B:R.294

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 8 residues within 4Å: Chain A: D.253, R.320, H.321, G.324 Chain B: R.320, H.321, G.324 Ligands: GOL.6 6 PLIP interactions: 3 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:D.253, A:R.320, A:H.321, B:R.320, B:R.320 Water bridges: B:H.321 GOL.6: 8 residues within 4Å: Chain A: R.320, H.321, G.324 Chain B: D.253, R.320, H.321, G.324 Ligands: GOL.2 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:R.320, B:H.321, A:R.320, A:R.320

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 5 residues within 4Å: Chain A: T.269, L.270 Chain B: T.269, L.270 Ligands: SO4.7 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:L.270, A:L.270 SO4.7: 5 residues within 4Å: Chain A: T.269, L.270 Chain B: T.269, L.270 Ligands: SO4.3 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:L.270, A:L.270

2 x PPI: PROPANOIC ACID(Non-covalent)

PPI.4: 8 residues within 4Å: Chain A: D.157, F.188, H.189, G.221, M.237, P.241, R.250 Ligands: ANP.1 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:H.189, A:R.250 PPI.8: 8 residues within 4Å: Chain B: D.157, F.188, H.189, G.221, M.237, P.241, R.250 Ligands: ANP.5 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:H.189, B:R.250

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Murthy, A.M.V. et al., Structures of substrate- and nucleotide-bound propionate kinase from Salmonella typhimurium: substrate specificity and phosphate-transfer mechanism. Acta Crystallogr.,Sect.D (2015)

Release Date

2015-08-19

Peptides

Propionate kinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Propionate kinase