SMTL ID : 2y7e.1

Crystal structure of the 3-keto-5-aminohexanoate cleavage enzyme (Kce) from Candidatus Cloacamonas acidaminovorans (tetragonal form)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.28 Å

Oligo State

homo-tetramer

Ligands

4 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: H.52, H.54, S.88, E.236 Ligands: FMT.2 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.52, A:H.54, A:E.236, H2O.12, H2O.12 ZN.4: 5 residues within 4Å: Chain B: H.52, H.54, S.88, E.236 Ligands: FMT.5 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:H.52, B:H.54, B:E.236, H2O.23, H2O.23 ZN.6: 5 residues within 4Å: Chain C: H.52, H.54, S.88, E.236 Ligands: FMT.7 5 PLIP interactions: 3 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:H.52, C:H.54, C:E.236, H2O.34, H2O.34 ZN.9: 5 residues within 4Å: Chain D: H.52, H.54, S.88, E.236 Ligands: FMT.10 5 PLIP interactions: 3 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:H.52, D:H.54, D:E.236, H2O.45, H2O.45

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

FMT.2: 7 residues within 4Å: Chain A: H.52, H.54, S.88, G.90, T.112, N.114 Ligands: ZN.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.89, A:G.90, A:N.114 FMT.5: 9 residues within 4Å: Chain B: H.52, H.54, S.88, T.89, G.90, T.112, N.114, E.236 Ligands: ZN.4 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:T.89, B:G.90, B:T.112, B:N.114 FMT.7: 7 residues within 4Å: Chain C: H.52, H.54, S.88, G.90, T.112, N.114 Ligands: ZN.6 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:T.89, C:G.90, C:T.112, C:N.114 FMT.10: 9 residues within 4Å: Chain D: H.52, H.54, S.88, T.89, G.90, T.112, N.114, E.236 Ligands: ZN.9 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:T.89, D:G.90, D:N.114

2 x MG: MAGNESIUM ION(Non-functional Binders)

MG.3: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.8: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bellinzoni, M. et al., 3-Keto-5-Aminohexanoate Cleavage Enzyme: A Common Fold for an Uncommon Claisen-Type Condensation. J.Biol.Chem. (2011)

Release Date

2011-06-01

Peptides

3-KETO-5-AMINOHEXANOATE CLEAVAGE ENZYME: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

3-KETO-5-AMINOHEXANOATE CLEAVAGE ENZYME

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