Atomistry » Zinc » PDB 6ksn-6l66 » 6ktq
Atomistry »
  Zinc »
    PDB 6ksn-6l66 »
      6ktq »

Zinc in PDB 6ktq: Crystal Structure of Catalytic Domain of Homocitrate Synthase From Sulfolobus Acidocaldarius (Sahcs(Dram)) in Complex with Alpha- Ketoglutarate/ZN2+/Coa

Enzymatic activity of Crystal Structure of Catalytic Domain of Homocitrate Synthase From Sulfolobus Acidocaldarius (Sahcs(Dram)) in Complex with Alpha- Ketoglutarate/ZN2+/Coa

All present enzymatic activity of Crystal Structure of Catalytic Domain of Homocitrate Synthase From Sulfolobus Acidocaldarius (Sahcs(Dram)) in Complex with Alpha- Ketoglutarate/ZN2+/Coa:
2.3.3.14;

Protein crystallography data

The structure of Crystal Structure of Catalytic Domain of Homocitrate Synthase From Sulfolobus Acidocaldarius (Sahcs(Dram)) in Complex with Alpha- Ketoglutarate/ZN2+/Coa, PDB code: 6ktq was solved by T.Suzuki, T.Tomita, T.Kuzuyama, M.Nishiyama, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 125.71 / 1.98
Space group P 32 2 1
Cell size a, b, c (Å), α, β, γ (°) 114.693, 114.693, 125.713, 90.00, 90.00, 120.00
R / Rfree (%) 17.4 / 21.6

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Catalytic Domain of Homocitrate Synthase From Sulfolobus Acidocaldarius (Sahcs(Dram)) in Complex with Alpha- Ketoglutarate/ZN2+/Coa (pdb code 6ktq). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of Catalytic Domain of Homocitrate Synthase From Sulfolobus Acidocaldarius (Sahcs(Dram)) in Complex with Alpha- Ketoglutarate/ZN2+/Coa, PDB code: 6ktq:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 6ktq

Go back to Zinc Binding Sites List in 6ktq
Zinc binding site 1 out of 2 in the Crystal Structure of Catalytic Domain of Homocitrate Synthase From Sulfolobus Acidocaldarius (Sahcs(Dram)) in Complex with Alpha- Ketoglutarate/ZN2+/Coa


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of Catalytic Domain of Homocitrate Synthase From Sulfolobus Acidocaldarius (Sahcs(Dram)) in Complex with Alpha- Ketoglutarate/ZN2+/Coa within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn401

b:30.6
occ:0.30
 OE1 A:GLU20 2.2 31.7 1.0
O5 A:AKG402 2.2 53.2 1.0
NE2 A:HIS205 2.2 32.6 1.0
NE2 A:HIS207 2.3 27.4 1.0
O A:HOH631 2.4 29.7 1.0
O1 A:AKG402 2.5 60.0 1.0
C2 A:AKG402 2.8 60.4 1.0
C1 A:AKG402 3.0 58.9 1.0
CD A:GLU20 3.1 28.2 1.0
CD2 A:HIS205 3.1 33.7 1.0
CE1 A:HIS205 3.2 32.6 1.0
CD2 A:HIS207 3.2 27.1 1.0
CE1 A:HIS207 3.3 27.2 1.0
OE2 A:GLU20 3.4 27.2 1.0
O A:HOH625 3.9 29.4 1.0
C3 A:AKG402 4.1 54.8 1.0
O2 A:AKG402 4.3 61.6 1.0
CG A:HIS205 4.3 31.8 1.0
ND1 A:HIS205 4.3 33.1 1.0
C4 A:AKG402 4.3 48.2 1.0
CG2 A:ILE241 4.3 23.7 1.0
CG A:GLU20 4.3 26.2 1.0
ND1 A:HIS207 4.4 27.8 1.0
CG A:HIS207 4.4 25.4 1.0
NH1 A:ARG19 4.5 33.9 1.0
NH2 A:ARG19 4.5 33.9 1.0

Zinc binding site 2 out of 2 in 6ktq

Go back to Zinc Binding Sites List in 6ktq
Zinc binding site 2 out of 2 in the Crystal Structure of Catalytic Domain of Homocitrate Synthase From Sulfolobus Acidocaldarius (Sahcs(Dram)) in Complex with Alpha- Ketoglutarate/ZN2+/Coa


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of Catalytic Domain of Homocitrate Synthase From Sulfolobus Acidocaldarius (Sahcs(Dram)) in Complex with Alpha- Ketoglutarate/ZN2+/Coa within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn403

b:35.8
occ:0.30
 OE1 B:GLU20 2.1 35.5 1.0
NE2 B:HIS205 2.2 39.0 1.0
O2 B:AKG404 2.3 66.6 1.0
NE2 B:HIS207 2.3 38.4 1.0
O B:HOH603 2.4 40.2 1.0
O5 B:AKG404 2.8 79.1 1.0
CD B:GLU20 3.0 29.4 1.0
CD2 B:HIS205 3.0 38.5 1.0
C1 B:AKG404 3.1 70.6 1.0
C2 B:AKG404 3.1 72.7 1.0
CE1 B:HIS205 3.3 40.1 1.0
CE1 B:HIS207 3.3 37.0 1.0
CD2 B:HIS207 3.3 33.7 1.0
OE2 B:GLU20 3.4 29.2 1.0
O B:HOH613 4.0 30.8 1.0
CG B:GLU20 4.2 26.7 1.0
CG B:HIS205 4.2 35.8 1.0
C3 B:AKG404 4.2 63.7 1.0
C4 B:AKG404 4.2 57.5 1.0
O1 B:AKG404 4.3 67.3 1.0
CG2 B:ILE241 4.3 27.2 1.0
ND1 B:HIS205 4.3 39.1 1.0
NH1 B:ARG19 4.3 46.2 1.0
ND1 B:HIS207 4.4 36.9 1.0
CG B:HIS207 4.4 34.1 1.0
NH2 B:ARG19 4.6 44.8 1.0
CB B:GLU20 4.9 27.0 1.0
CZ B:ARG19 5.0 44.0 1.0

Reference:

T.Suzuki, T.Tomita, K.Hirayama, M.Suzuki, T.Kuzuyama, M.Nishiyama. Involvement of Subdomain II in the Recognition of Acetyl-Coa Revealed By the Crystal Structure of Homocitrate Synthase From Sulfolobus Acidocaldarius. Febs J. 2020.
ISSN: ISSN 1742-464X
PubMed: 32897601
DOI: 10.1111/FEBS.15527
Page generated: Tue Oct 29 02:06:17 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy