SMTL ID : 7ebc.1

Crystal structure of Isocitrate lyase-1 from Saccaromyces cervisiae

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-tetramer

Ligands

4 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: W.114, D.129, D.185, D.187 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:D.185, H2O.1, H2O.1, H2O.6, H2O.6 MG.2: 3 residues within 4Å: Chain B: W.114, D.129, D.185 5 PLIP interactions: 1 interactions with chain B, 4 Ligand-Water interactions Metal complexes: B:D.185, H2O.7, H2O.7, H2O.11, H2O.11 MG.4: 2 residues within 4Å: Chain C: D.129, D.185 4 PLIP interactions: 1 interactions with chain C, 3 Ligand-Water interactions Metal complexes: C:D.185, H2O.12, H2O.12, H2O.16 MG.5: 2 residues within 4Å: Chain D: D.129, D.185 4 PLIP interactions: 1 interactions with chain D, 3 Ligand-Water interactions Metal complexes: D:D.185, H2O.17, H2O.18, H2O.22

1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.3: 5 residues within 4Å: Chain A: S.447, N.449 Chain B: M.512, L.519, K.520 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:S.447, A:N.449, B:K.520 Water bridges: B:Q.508

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hiragi, K. et al., Structural insights into the targeting specificity of ubiquitin ligase for S. cerevisiae isocitrate lyase but not C. albicans isocitrate lyase. J.Struct.Biol. (2021)

Release Date

2021-06-23

Peptides

Isocitrate lyase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Isocitrate lyase