Zinc in PDB 8oqj: Peripheral Subunit Binding Domain of the E. Coli Dihydrolipoamide Acetyltransferase (E2) of the Pyruvate Dehydrogenase Complex

Enzymatic activity of Peripheral Subunit Binding Domain of the E. Coli Dihydrolipoamide Acetyltransferase (E2) of the Pyruvate Dehydrogenase Complex

All present enzymatic activity of Peripheral Subunit Binding Domain of the E. Coli Dihydrolipoamide Acetyltransferase (E2) of the Pyruvate Dehydrogenase Complex:
2.3.1.12;

Protein crystallography data

The structure of Peripheral Subunit Binding Domain of the E. Coli Dihydrolipoamide Acetyltransferase (E2) of the Pyruvate Dehydrogenase Complex, PDB code: 8oqj was solved by S.Meinhold, R.Zdanowicz, R.Glockshuber, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 35.50 / 1.64
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 33.576, 37.831, 37.834, 100.39, 114.39, 101.18
R / Rfree (%) 21.5 / 24.5

Zinc Binding Sites:

The binding sites of Zinc atom in the Peripheral Subunit Binding Domain of the E. Coli Dihydrolipoamide Acetyltransferase (E2) of the Pyruvate Dehydrogenase Complex (pdb code 8oqj). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Peripheral Subunit Binding Domain of the E. Coli Dihydrolipoamide Acetyltransferase (E2) of the Pyruvate Dehydrogenase Complex, PDB code: 8oqj:

Zinc binding site 1 out of 1 in 8oqj

Go back to Zinc Binding Sites List in 8oqj
Zinc binding site 1 out of 1 in the Peripheral Subunit Binding Domain of the E. Coli Dihydrolipoamide Acetyltransferase (E2) of the Pyruvate Dehydrogenase Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Peripheral Subunit Binding Domain of the E. Coli Dihydrolipoamide Acetyltransferase (E2) of the Pyruvate Dehydrogenase Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn401

b:25.4
occ:0.83
NE2 B:HIS327 2.0 38.2 1.0
OD1 B:ASP323 2.1 36.1 1.0
CG B:ASP323 2.7 24.8 1.0
OD2 B:ASP323 2.8 26.9 1.0
CD2 B:HIS327 3.0 25.0 1.0
CE1 B:HIS327 3.0 42.1 1.0
O B:HOH529 4.1 40.5 1.0
ND1 B:HIS327 4.1 44.9 1.0
CG B:HIS327 4.1 24.8 1.0
CB B:ASP323 4.2 26.4 1.0
O B:ASP323 4.7 22.0 1.0
CA B:ASP323 4.8 27.6 1.0

Reference:

S.Meinhold, R.Zdanowicz, C.Giese, R.Glockshuber. Dimerization of A 5-kDa Domain Defines the Architecture of the 5-Mda Gammaproteobacterial Pyruvate Dehydrogenase Complex Sci Adv 2024.
ISSN: ESSN 2375-2548
DOI: 10.1126/SCIADV.ADJ6358
Page generated: Thu Oct 31 08:52:57 2024

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