Copper in PDB 6ymy: Cytochrome C Oxidase From Saccharomyces Cerevisiae

Enzymatic activity of Cytochrome C Oxidase From Saccharomyces Cerevisiae

All present enzymatic activity of Cytochrome C Oxidase From Saccharomyces Cerevisiae:
1.9.3.1;

Other elements in 6ymy:

The structure of Cytochrome C Oxidase From Saccharomyces Cerevisiae also contains other interesting chemical elements:

Zinc (Zn) 1 atom
Iron (Fe) 2 atoms

Copper Binding Sites:

The binding sites of Copper atom in the Cytochrome C Oxidase From Saccharomyces Cerevisiae (pdb code 6ymy). This binding sites where shown within 5.0 Angstroms radius around Copper atom.
In total 3 binding sites of Copper where determined in the Cytochrome C Oxidase From Saccharomyces Cerevisiae, PDB code: 6ymy:
Jump to Copper binding site number: 1; 2; 3;

Copper binding site 1 out of 3 in 6ymy

Go back to Copper Binding Sites List in 6ymy
Copper binding site 1 out of 3 in the Cytochrome C Oxidase From Saccharomyces Cerevisiae


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 1 of Cytochrome C Oxidase From Saccharomyces Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Cu601

b:0.2
occ:1.00
ND1 a:HIS241 2.1 98.4 1.0
NE2 a:HIS291 2.1 0.2 1.0
NE2 a:HIS290 2.2 0.2 1.0
CE1 a:HIS291 2.4 0.2 1.0
CE1 a:HIS241 2.8 98.4 1.0
CD2 a:HIS290 3.1 0.2 1.0
CE1 a:HIS290 3.1 0.2 1.0
CG a:HIS241 3.3 98.4 1.0
CD2 a:HIS291 3.3 0.2 1.0
ND1 a:HIS291 3.6 0.2 1.0
C1A a:HEA603 3.7 98.5 1.0
NA a:HEA603 3.7 98.5 1.0
CB a:HIS241 3.9 98.4 1.0
CHA a:HEA603 3.9 98.5 1.0
CG a:HIS291 4.0 0.2 1.0
NE2 a:HIS241 4.1 98.4 1.0
C4D a:HEA603 4.1 98.5 1.0
FE a:HEA603 4.2 98.5 1.0
ND a:HEA603 4.2 98.5 1.0
ND1 a:HIS290 4.2 0.2 1.0
CG a:HIS290 4.2 0.2 1.0
C4A a:HEA603 4.3 98.5 1.0
CD2 a:HIS241 4.3 98.4 1.0
C2A a:HEA603 4.3 98.5 1.0
CA a:HIS241 4.5 98.4 1.0
C3A a:HEA603 4.6 98.5 1.0
NB a:HEA603 4.8 98.5 1.0
CG1 a:VAL244 4.9 98.3 1.0
C3D a:HEA603 4.9 98.5 1.0
CHB a:HEA603 5.0 98.5 1.0
CG2 a:VAL244 5.0 98.3 1.0

Copper binding site 2 out of 3 in 6ymy

Go back to Copper Binding Sites List in 6ymy
Copper binding site 2 out of 3 in the Cytochrome C Oxidase From Saccharomyces Cerevisiae


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 2 of Cytochrome C Oxidase From Saccharomyces Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
b:Cu301

b:0.7
occ:1.00
CU1 b:CUA301 0.0 0.7 1.0
CU2 b:CUA301 2.7 0.7 1.0
ND1 b:HIS229 2.8 0.4 1.0
O b:GLU223 2.8 0.5 1.0
SG b:CYS221 3.0 99.9 1.0
CB b:CYS225 3.2 0.9 1.0
SG b:CYS225 3.2 0.9 1.0
O b:HIS229 3.4 0.4 1.0
N b:CYS225 3.5 0.9 1.0
CA b:HIS229 3.5 0.4 1.0
CG b:HIS229 3.6 0.4 1.0
CB b:HIS186 3.6 0.6 1.0
CB b:HIS229 3.7 0.4 1.0
CE1 b:HIS229 3.8 0.4 1.0
C b:HIS229 3.9 0.4 1.0
CA b:CYS225 4.0 0.9 1.0
C b:GLU223 4.0 0.5 1.0
CB b:CYS221 4.1 99.9 1.0
C b:LEU224 4.1 0.6 1.0
CG b:HIS186 4.3 0.6 1.0
CA b:LEU224 4.4 0.6 1.0
SD b:MET232 4.4 99.7 1.0
CE b:MET232 4.6 99.7 1.0
N b:LEU224 4.7 0.6 1.0
CD2 b:HIS229 4.8 0.4 1.0
N b:HIS229 4.8 0.4 1.0
CG b:MET232 4.8 99.7 1.0
O b:CYS221 4.8 99.9 1.0
CA b:HIS186 4.8 0.6 1.0
NE2 b:HIS229 4.8 0.4 1.0
O b:GLY228 4.9 0.7 1.0
ND1 b:HIS186 4.9 0.6 1.0
O b:LEU224 5.0 0.6 1.0
CD2 b:HIS186 5.0 0.6 1.0
C b:CYS221 5.0 99.9 1.0

Copper binding site 3 out of 3 in 6ymy

Go back to Copper Binding Sites List in 6ymy
Copper binding site 3 out of 3 in the Cytochrome C Oxidase From Saccharomyces Cerevisiae


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 3 of Cytochrome C Oxidase From Saccharomyces Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
b:Cu301

b:0.7
occ:1.00
CU2 b:CUA301 0.0 0.7 1.0
CG b:HIS186 2.5 0.6 1.0
CE b:MET232 2.6 99.7 1.0
CU1 b:CUA301 2.7 0.7 1.0
CD2 b:HIS186 2.8 0.6 1.0
SD b:MET232 2.8 99.7 1.0
ND1 b:HIS186 2.8 0.6 1.0
CB b:HIS186 2.9 0.6 1.0
NE2 b:HIS186 3.3 0.6 1.0
CE1 b:HIS186 3.3 0.6 1.0
SG b:CYS221 3.4 99.9 1.0
CB b:CYS225 3.5 0.9 1.0
SG b:CYS225 3.6 0.9 1.0
CG b:MET232 4.0 99.7 1.0
O b:GLN123 4.1 0.1 1.0
CA b:HIS186 4.4 0.6 1.0
CB b:CYS221 4.4 99.9 1.0
C b:GLN123 4.5 0.1 1.0
CA b:GLN123 4.8 0.1 1.0
O b:GLU223 4.8 0.5 1.0
CA b:CYS225 4.9 0.9 1.0
C b:HIS186 4.9 0.6 1.0

Reference:

J.Berndtsson, A.Aufschnaiter, S.Rathore, L.Marin-Buera, H.Dawitz, J.Diessl, V.Kohler, A.Barrientos, S.Buttner, F.Fontanesi, M.Ott. Mitochondrial Respiratory Supercomplex Formation Improves Bioenergetics and Confers A Selectable Fitness Advantage To Be Published.
Page generated: Sun Dec 13 11:27:10 2020

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