SMTL ID : 4ur7.1

Crystal structure of keto-deoxy-D-galactarate dehydratase complexed with pyruvate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-tetramer

Ligands

10 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 8 residues within 4Å: Chain A: L.186, M.187, Y.188, G.206, F.207, T.208, T.209 Ligands: GOL.5 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:L.186, A:Y.188, A:T.208, A:T.209 GOL.3: 6 residues within 4Å: Chain A: R.234, E.238 Chain D: T.179, G.183, D.184, G.206 8 PLIP interactions: 5 interactions with chain D, 3 interactions with chain A Hydrogen bonds: D:R.176, D:T.179, A:R.234 Water bridges: D:D.184, D:D.184, D:D.184, A:E.238, A:E.238 GOL.4: 7 residues within 4Å: Chain A: Y.43, V.218, P.219, G.220, L.221, H.299, K.300 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.220, A:L.221, A:K.300 GOL.5: 5 residues within 4Å: Chain A: G.11, M.187, T.208, R.230 Ligands: GOL.1 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.230, A:R.230 Water bridges: A:G.11, A:T.208 GOL.6: 8 residues within 4Å: Chain B: Y.43, V.218, P.219, G.220, L.221, Q.270, H.299, R.301 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Y.43, B:G.220, B:L.221 GOL.7: 7 residues within 4Å: Chain B: L.186, M.187, Y.188, G.206, F.207, T.208, T.209 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:L.186, B:Y.188, B:T.208, B:T.209 GOL.8: 5 residues within 4Å: Chain B: R.234, E.238 Chain C: T.179, G.183, G.206 4 PLIP interactions: 2 interactions with chain C, 2 interactions with chain B Hydrogen bonds: C:R.176, C:T.179, B:R.234, B:R.234 GOL.10: 7 residues within 4Å: Chain C: L.186, M.187, Y.188, G.206, F.207, T.208, T.209 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:L.186, C:Y.188, C:T.208, C:T.209 GOL.12: 7 residues within 4Å: Chain D: L.186, M.187, Y.188, G.206, F.207, T.208, T.209 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:L.186, D:Y.188, D:T.208, D:T.209 GOL.14: 6 residues within 4Å: Chain A: T.179, A.180, G.183, G.206 Chain D: R.234, E.238 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain D Hydrogen bonds: A:R.176, A:T.179, A:T.179, D:R.234

4 x FMT: FORMIC ACID(Non-functional Binders)

FMT.2: 5 residues within 4Å: Chain A: G.53, F.58, R.142, V.260 Chain B: I.115 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.53, A:R.142, A:R.142 FMT.9: 4 residues within 4Å: Chain A: I.115 Chain B: G.53, F.58, R.142 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.142, B:R.142 FMT.11: 5 residues within 4Å: Chain C: G.53, F.58, R.142, V.260 Chain D: I.115 4 PLIP interactions: 3 interactions with chain C, 1 interactions with chain D Hydrogen bonds: C:G.53, C:R.142, C:R.142 Water bridges: D:D.116 FMT.13: 5 residues within 4Å: Chain C: I.115 Chain D: G.53, F.58, R.142, V.260 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:G.53, D:R.142, D:R.142

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Taberman, H. et al., Structure and Function of a Decarboxylating Agrobacterium Tumefaciens Keto-Deoxy-D-Galactarate Dehydratase. Biochemistry (2014)

Release Date

2014-12-17

Peptides

KETO-DEOXY-D-GALACTARATE DEHYDRATASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

KETO-DEOXY-D-GALACTARATE DEHYDRATASE

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