SMTL ID : 5j84.1 (1 other biounit)

Crystal structure of L-arabinonate dehydratase in holo-form

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-tetramer

Ligands

4 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: E.100, D.137, K.138, E.462 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.100, A:D.137, A:E.462, A:E.462, H2O.3 MG.3: 6 residues within 4Å: Chain B: E.100, D.137, K.138, T.214, N.287, E.462 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.100, B:D.137, B:E.462, H2O.14 MG.5: 6 residues within 4Å: Chain C: E.100, D.137, K.138, T.214, N.287, E.462 5 PLIP interactions: 4 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:E.100, C:D.137, C:T.214, C:E.462, H2O.18 MG.7: 5 residues within 4Å: Chain D: E.100, D.137, K.138, T.214, E.462 4 PLIP interactions: 3 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:E.100, D:D.137, D:E.462, H2O.32

4 x FES: FE2/S2 (INORGANIC) CLUSTER(Non-covalent)

FES.2: 10 residues within 4Å: Chain A: C.68, E.100, N.101, C.136, D.137, T.208, C.209, A.215 Chain B: Y.35, W.39 3 PLIP interactions: 3 interactions with chain A, Metal complexes: A:C.68, A:C.136, A:C.209 FES.4: 10 residues within 4Å: Chain A: Y.35, W.39 Chain B: C.68, E.100, N.101, C.136, D.137, T.208, C.209, A.215 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:C.68, B:C.136, B:C.209, H2O.15 FES.6: 10 residues within 4Å: Chain C: C.68, E.100, N.101, C.136, D.137, T.208, C.209, A.215 Chain D: Y.35, W.39 3 PLIP interactions: 3 interactions with chain C, Metal complexes: C:C.68, C:C.136, C:C.209 FES.8: 10 residues within 4Å: Chain C: Y.35, W.39 Chain D: C.68, E.100, N.101, C.136, D.137, T.208, C.209, A.215 3 PLIP interactions: 3 interactions with chain D, Metal complexes: D:C.68, D:C.136, D:C.209

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rahman, M.M. et al., The Crystal Structure of a Bacterial l-Arabinonate Dehydratase Contains a [2Fe-2S] Cluster. ACS Chem. Biol. (2017)

Release Date

2017-06-21

Peptides

Dihydroxy-acid dehydratase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Dihydroxy-acid dehydratase

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