SMTL ID : 1xby.1 (1 other biounit)

Structure of 3-keto-L-gulonate 6-phosphate decarboxylase E112D/T169A mutant with bound D-ribulose 5-phosphate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.58 Å

Oligo State

homo-dimer

Ligands

2 x 5RP: RIBULOSE-5-PHOSPHATE(Non-covalent)

5RP.1: 16 residues within 4Å: Chain A: A.9, D.11, E.33, D.62, K.64, H.136, R.139, G.170, G.171, L.172, I.189, A.190, G.191, R.192 Chain B: D.67 Ligands: MG.2 17 PLIP interactions: 16 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:D.11, A:D.11, A:K.64, A:H.136, A:G.171, A:L.172, A:G.191, A:R.192 Water bridges: A:T.36, A:H.136, A:R.139, A:R.139, A:G.170, A:R.192, A:S.193, B:D.67 Salt bridges: A:R.192 5RP.3: 15 residues within 4Å: Chain A: D.67 Chain B: A.9, D.11, E.33, D.62, K.64, H.136, R.139, G.170, G.171, I.189, A.190, G.191, R.192 Ligands: MG.4 19 PLIP interactions: 19 interactions with chain B Hydrogen bonds: B:D.11, B:D.11, B:K.64, B:H.136, B:G.171, B:L.172, B:G.191, B:R.192 Water bridges: B:T.36, B:R.139, B:R.139, B:G.170, B:G.170, B:R.192, B:S.193, B:S.193, B:R.195 Salt bridges: B:R.139, B:R.192

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: E.33, D.62 Ligands: 5RP.1 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.33, A:D.62, H2O.10, H2O.10 MG.4: 3 residues within 4Å: Chain B: E.33, D.62 Ligands: 5RP.3 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:E.33, B:D.62, H2O.19, H2O.19

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wise, E.L. et al., Evolution of enzymatic activities in the orotidine 5'-monophosphate decarboxylase suprafamily: structural basis for catalytic promiscuity in wild-type and designed mutants of 3-keto-L-gulonate 6-phosphate decarboxylase. Biochemistry (2005)

Release Date

2005-04-26

Peptides

3-keto-L-gulonate 6-phosphate decarboxylase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

3-keto-L-gulonate 6-phosphate decarboxylase

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