SMTL ID : 5v72.1 (1 other biounit)

Crystal structure of NADPH-dependent glyoxylate/hydroxypyruvate reductase SMc04462 (SmGhrB) from Sinorhizobium meliloti in complex with citrate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-dimer

Ligands

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

NA.1: 5 residues within 4Å: Chain A: A.191, E.192, V.194, A.218, L.219 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.192 NA.4: 5 residues within 4Å: Chain B: A.191, E.192, V.194, A.218, L.219 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:V.194 NA.5: 4 residues within 4Å: Chain B: V.228, G.229, V.255 Ligands: CIT.6 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:H.277

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 2 residues within 4Å: Chain A: N.13, R.286 Ligand excluded by PLIP CL.7: 4 residues within 4Å: Chain A: L.135 Chain B: N.13, F.70, R.286 Ligand excluded by PLIP

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 6 residues within 4Å: Chain A: L.96, G.229, R.230, H.277, A.279, S.280 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.280 Water bridges: A:D.254, A:S.280, A:S.280, A:R.286

1 x CIT: CITRIC ACID(Non-functional Binders)

CIT.6: 10 residues within 4Å: Chain B: V.72, L.96, V.100, I.153, V.228, G.229, H.277, A.279, S.280 Ligands: NA.5 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:V.72, B:L.96, B:V.100 Hydrogen bonds: B:G.229, B:S.280, B:S.280 Water bridges: B:V.72, B:V.72, B:G.229, B:H.277, B:R.286 Salt bridges: B:H.277, B:H.277, B:R.286

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kutner, J. et al., Structural, Biochemical, and Evolutionary Characterizations of Glyoxylate/Hydroxypyruvate Reductases Show Their Division into Two Distinct Subfamilies. Biochemistry (2018)

Release Date

2017-03-29

Peptides

NADPH-dependent glyoxylate/hydroxypyruvate reductase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

NADPH-dependent glyoxylate/hydroxypyruvate reductase

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