SMTL ID : 1kw1.2 (1 other biounit)

Crystal Structure of 3-Keto-L-Gulonate 6-Phosphate Decarboxylase with bound L-gulonate 6-phosphate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-tetramer

Ligands

4 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 3 residues within 4Å: Chain B: E.33, D.62 Ligands: LG6.3 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:E.33, B:D.62, H2O.191, H2O.192 MG.2: 4 residues within 4Å: Chain A: E.33, D.62, K.64 Ligands: LG6.4 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.33, A:D.62, H2O.79, H2O.80 MG.5: 3 residues within 4Å: Chain D: E.33, D.62 Ligands: LG6.7 4 PLIP interactions: 2 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:E.33, D:D.62, H2O.384, H2O.385 MG.6: 4 residues within 4Å: Chain C: E.33, D.62, K.64 Ligands: LG6.8 4 PLIP interactions: 2 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:E.33, C:D.62, H2O.272, H2O.273

4 x LG6: L-GULURONIC ACID 6-PHOSPHATE(Non-covalent)

LG6.3: 16 residues within 4Å: Chain A: D.67 Chain B: A.9, D.11, E.33, T.36, D.62, K.64, H.136, T.169, G.170, G.171, I.189, A.190, G.191, R.192 Ligands: MG.1 20 PLIP interactions: 19 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:D.11, B:D.11, B:T.36, B:K.64, B:K.64, B:H.136, B:G.171, B:G.191, B:R.192 Water bridges: B:L.172, B:L.172, B:R.192, B:R.192, B:S.193, B:R.195, B:R.195, A:D.67 Salt bridges: B:K.64, B:H.136, B:R.192 LG6.4: 17 residues within 4Å: Chain A: A.9, D.11, E.33, T.36, D.62, K.64, H.136, R.139, T.169, G.170, G.171, I.189, A.190, G.191, R.192 Chain B: D.67 Ligands: MG.2 21 PLIP interactions: 20 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:D.11, A:D.11, A:T.36, A:K.64, A:K.64, A:T.169, A:G.171, A:G.191, A:R.192 Water bridges: A:T.36, A:T.36, A:R.137, A:L.172, A:L.172, A:S.193, A:R.195, A:R.195, B:D.67 Salt bridges: A:K.64, A:H.136, A:R.192 LG6.7: 16 residues within 4Å: Chain C: D.67 Chain D: A.9, D.11, E.33, T.36, D.62, K.64, H.136, T.169, G.170, G.171, I.189, A.190, G.191, R.192 Ligands: MG.5 23 PLIP interactions: 21 interactions with chain D, 2 interactions with chain C Hydrogen bonds: D:D.11, D:D.11, D:D.11, D:K.64, D:K.64, D:H.136, D:T.169, D:G.171, D:G.191, D:R.192, C:D.67 Water bridges: D:T.36, D:L.172, D:L.172, D:R.192, D:R.192, D:S.193, D:R.195, D:R.195, C:D.67 Salt bridges: D:K.64, D:H.136, D:R.192 LG6.8: 17 residues within 4Å: Chain C: A.9, D.11, E.33, T.36, D.62, K.64, H.136, R.139, T.169, G.170, G.171, I.189, A.190, G.191, R.192 Chain D: D.67 Ligands: MG.6 20 PLIP interactions: 2 interactions with chain D, 18 interactions with chain C Hydrogen bonds: D:D.67, C:D.11, C:T.36, C:K.64, C:K.64, C:G.171, C:G.191, C:R.192 Water bridges: D:D.67, C:E.33, C:T.36, C:R.137, C:T.169, C:T.169, C:S.193, C:R.195, C:R.195 Salt bridges: C:K.64, C:H.136, C:R.192

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wise, E. et al., Homologous (beta/alpha)8-barrel enzymes that catalyze unrelated reactions: orotidine 5'-monophosphate decarboxylase and 3-keto-L-gulonate 6-phosphate decarboxylase. Biochemistry (2002)

Release Date

2002-04-15

Peptides

3-Keto-L-Gulonate 6-Phosphate Decarboxylase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

3-Keto-L-Gulonate 6-Phosphate Decarboxylase

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