SMTL ID : 2cw6.4 (4 other biounits)

Crystal Structure of Human HMG-CoA Lyase: Insights into Catalysis and the Molecular Basis for Hydroxymethylglutaric Aciduria

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-12-mer

Ligands

12 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: D.15, H.206, H.208, N.248 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.15, A:H.206, A:H.208, H2O.4, H2O.5 MG.3: 4 residues within 4Å: Chain B: D.15, H.206, H.208, N.248 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.15, B:H.206, B:H.208, H2O.8, H2O.9 MG.4: 4 residues within 4Å: Chain C: D.15, H.206, H.208, N.248 5 PLIP interactions: 3 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:D.15, C:H.206, C:H.208, H2O.14, H2O.15 MG.6: 4 residues within 4Å: Chain D: D.15, H.206, H.208, N.248 5 PLIP interactions: 3 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:D.15, D:H.206, D:H.208, H2O.18, H2O.19 MG.7: 4 residues within 4Å: Chain E: D.15, H.206, H.208, N.248 4 PLIP interactions: 3 interactions with chain E, 1 Ligand-Water interactions Metal complexes: E:D.15, E:H.206, E:H.208, H2O.23 MG.8: 4 residues within 4Å: Chain F: D.15, H.206, H.208, N.248 4 PLIP interactions: 3 interactions with chain F, 1 Ligand-Water interactions Metal complexes: F:D.15, F:H.206, F:H.208, H2O.25 MG.9: 4 residues within 4Å: Chain G: D.15, H.206, H.208, N.248 4 PLIP interactions: 3 interactions with chain G, 1 Ligand-Water interactions Metal complexes: G:D.15, G:H.206, G:H.208, H2O.29 MG.10: 4 residues within 4Å: Chain H: D.15, H.206, H.208, N.248 4 PLIP interactions: 4 interactions with chain H Metal complexes: H:D.15, H:D.15, H:H.206, H:H.208 MG.11: 4 residues within 4Å: Chain I: D.15, H.206, H.208, N.248 4 PLIP interactions: 3 interactions with chain I, 1 Ligand-Water interactions Metal complexes: I:D.15, I:H.206, I:H.208, H2O.35 MG.12: 4 residues within 4Å: Chain J: D.15, H.206, H.208, N.248 4 PLIP interactions: 3 interactions with chain J, 1 Ligand-Water interactions Metal complexes: J:D.15, J:H.206, J:H.208, H2O.36 MG.13: 4 residues within 4Å: Chain K: D.15, H.206, H.208, N.248 4 PLIP interactions: 3 interactions with chain K, 1 Ligand-Water interactions Metal complexes: K:D.15, K:H.206, K:H.208, H2O.41 MG.14: 4 residues within 4Å: Chain L: D.15, H.206, H.208, N.248 4 PLIP interactions: 4 interactions with chain L Metal complexes: L:D.15, L:D.15, L:H.206, L:H.208

2 x 3HG: 3-HYDROXYPENTANEDIOIC ACID(Non-covalent)

3HG.2: 4 residues within 4Å: Chain A: R.14, Q.18, L.79, F.100 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.18 Water bridges: A:S.48 Salt bridges: A:R.14 3HG.5: 4 residues within 4Å: Chain C: R.14, Q.18, L.79, F.100 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:Q.18 Water bridges: C:S.48 Salt bridges: C:R.14

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fu, Z. et al., Crystal structure of human 3-hydroxy-3-methylglutaryl-CoA Lyase: insights into catalysis and the molecular basis for hydroxymethylglutaric aciduria. J.Biol.Chem. (2006)

Release Date

2005-12-06

Peptides

Hydroxymethylglutaryl-CoA lyase, mitochondrial: ABCDEFGHIJKL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

E
C

F
D

G
E

H
F

I
C

J
D

K
E

L
F

Hydroxymethylglutaryl-CoA lyase, mitochondrial

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