SMTL ID : 2vbf.1

The holostructure of the branched-chain keto acid decarboxylase (KdcA) from Lactococcus lactis

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

homo-dimer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain B: D.452, N.479, G.481 Ligands: TPP.2 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.452, B:G.481, H2O.39 MG.3: 5 residues within 4Å: Chain A: D.452, I.477, N.479, G.481 Ligands: TPP.4 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.452, A:G.481, H2O.17

2 x TPP: THIAMINE DIPHOSPHATE(Non-covalent)

TPP.2: 22 residues within 4Å: Chain A: V.46, P.47, G.48, E.72, V.97, H.136 Chain B: G.401, T.402, G.425, S.426, I.427, G.451, D.452, G.453, S.454, N.479, G.481, Y.482, T.483, V.484, E.485 Ligands: MG.1 20 PLIP interactions: 19 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:I.427, B:Y.482, B:V.484, B:E.485, A:V.97 Hydrogen bonds: B:T.402, B:G.425, B:I.427, B:G.451, B:G.453, B:S.454, B:N.479, B:G.481, B:T.483, B:V.484 Water bridges: B:T.402, B:S.403, B:D.452, B:S.454, B:S.454 TPP.4: 21 residues within 4Å: Chain A: G.401, T.402, G.425, S.426, I.427, G.451, D.452, G.453, S.454, N.479, G.481, Y.482, T.483, V.484, E.485 Chain B: P.47, G.48, E.72, V.97, H.136 Ligands: MG.3 22 PLIP interactions: 2 interactions with chain B, 20 interactions with chain A Hydrophobic interactions: B:V.97, A:I.427, A:I.427, A:Y.482, A:V.484 Water bridges: B:E.72, A:T.402, A:S.403, A:D.452, A:S.454, A:S.454 Hydrogen bonds: A:T.402, A:G.425, A:I.427, A:G.451, A:G.453, A:S.454, A:N.479, A:G.481, A:T.483, A:T.483, A:V.484

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Berthold, C.L. et al., Crystal Structure of the Branched-Chain Keto Acid Decarboxylase (Kdca) from Lactococcus Lactis Provides Insights Into the Structural Basis for the Chemo- and Enantioselective Carboligation Reaction. Acta Crystallogr.,Sect.D (2007)

Release Date

2007-12-18

Peptides

BRANCHED-CHAIN ALPHA-KETOACID DECARBOXYLASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

BRANCHED-CHAIN ALPHA-KETOACID DECARBOXYLASE

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