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Copper in PDB 6hu9: III2-IV2 Mitochondrial Respiratory Supercomplex From S. Cerevisiae

Enzymatic activity of III2-IV2 Mitochondrial Respiratory Supercomplex From S. Cerevisiae

All present enzymatic activity of III2-IV2 Mitochondrial Respiratory Supercomplex From S. Cerevisiae:
1.10.2.2; 1.9.3.1;

Other elements in 6hu9:

The structure of III2-IV2 Mitochondrial Respiratory Supercomplex From S. Cerevisiae also contains other interesting chemical elements:

Magnesium (Mg) 2 atoms
Zinc (Zn) 2 atoms
Iron (Fe) 14 atoms
Calcium (Ca) 2 atoms

Copper Binding Sites:

The binding sites of Copper atom in the III2-IV2 Mitochondrial Respiratory Supercomplex From S. Cerevisiae (pdb code 6hu9). This binding sites where shown within 5.0 Angstroms radius around Copper atom.
In total 6 binding sites of Copper where determined in the III2-IV2 Mitochondrial Respiratory Supercomplex From S. Cerevisiae, PDB code: 6hu9:
Jump to Copper binding site number: 1; 2; 3; 4; 5; 6;

Copper binding site 1 out of 6 in 6hu9

Go back to Copper Binding Sites List in 6hu9
Copper binding site 1 out of 6 in the III2-IV2 Mitochondrial Respiratory Supercomplex From S. Cerevisiae


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 1 of III2-IV2 Mitochondrial Respiratory Supercomplex From S. Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Cu601

b:66.3
occ:1.00
 NE2 a:HIS291 2.1 44.5 1.0
ND1 a:HIS241 2.1 40.2 1.0
NE2 a:HIS290 2.1 43.0 1.0
CE1 a:HIS291 2.7 44.5 1.0
CE1 a:HIS290 2.9 43.0 1.0
CG a:HIS241 3.0 40.2 1.0
CE1 a:HIS241 3.1 40.2 1.0
CD2 a:HIS291 3.2 44.5 1.0
CD2 a:HIS290 3.2 43.0 1.0
CB a:HIS241 3.3 40.2 1.0
ND1 a:HIS291 3.9 44.5 1.0
CA a:HIS241 4.0 40.2 1.0
ND1 a:HIS290 4.1 43.0 1.0
CG a:HIS291 4.1 44.5 1.0
CD2 a:HIS241 4.1 40.2 1.0
NE2 a:HIS241 4.2 40.2 1.0
CG a:HIS290 4.3 43.0 1.0
FE a:HEA603 4.5 54.3 1.0
CG2 a:VAL244 4.5 40.1 1.0
C1A a:HEA603 4.7 54.3 1.0
ND a:HEA603 4.7 54.3 1.0
NA a:HEA603 4.8 54.3 1.0
N a:HIS241 4.8 40.2 1.0
C4A a:HEA603 4.8 54.3 1.0
C2A a:HEA603 4.9 54.3 1.0
C4D a:HEA603 5.0 54.3 1.0

Copper binding site 2 out of 6 in 6hu9

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Copper binding site 2 out of 6 in the III2-IV2 Mitochondrial Respiratory Supercomplex From S. Cerevisiae


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 2 of III2-IV2 Mitochondrial Respiratory Supercomplex From S. Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
b:Cu301

b:69.9
occ:1.00
 ND1 b:HIS186 2.1 44.5 1.0
SG b:CYS225 2.1 44.3 1.0
SD b:MET232 2.2 41.1 1.0
SG b:CYS221 2.2 43.3 1.0
CU2 b:CUA302 2.6 71.6 1.0
CE b:MET232 2.8 41.1 1.0
CB b:CYS221 3.0 43.3 1.0
CE1 b:HIS186 3.1 44.5 1.0
CG b:HIS186 3.1 44.5 1.0
CB b:CYS225 3.4 44.3 1.0
CB b:HIS186 3.4 44.5 1.0
CG b:MET232 3.8 41.1 1.0
CA b:HIS186 4.0 44.5 1.0
NE2 b:HIS186 4.2 44.5 1.0
CD2 b:HIS186 4.2 44.5 1.0
O b:GLU223 4.3 43.6 1.0
CB b:MET232 4.3 41.1 1.0
CA b:CYS221 4.5 43.3 1.0
ND1 b:HIS229 4.5 40.5 1.0
CA b:CYS225 4.7 44.3 1.0
N b:ASP187 4.8 43.6 1.0
C b:HIS186 4.9 44.5 1.0
CZ2 b:TRP126 5.0 40.0 1.0

Copper binding site 3 out of 6 in 6hu9

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Copper binding site 3 out of 6 in the III2-IV2 Mitochondrial Respiratory Supercomplex From S. Cerevisiae


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 3 of III2-IV2 Mitochondrial Respiratory Supercomplex From S. Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
b:Cu302

b:71.6
occ:1.00
 ND1 b:HIS229 2.0 40.5 1.0
SG b:CYS225 2.1 44.3 1.0
SG b:CYS221 2.2 43.3 1.0
CE1 b:HIS229 2.4 40.5 1.0
O b:GLU223 2.5 43.6 1.0
CU1 b:CUA301 2.6 69.9 1.0
CB b:CYS221 2.8 43.3 1.0
CB b:CYS225 3.2 44.3 1.0
CG b:HIS229 3.4 40.5 1.0
O b:CYS221 3.6 43.3 1.0
O b:HIS229 3.6 40.5 1.0
NE2 b:HIS229 3.7 40.5 1.0
C b:GLU223 3.8 43.6 1.0
C b:CYS221 3.9 43.3 1.0
CA b:CYS221 4.0 43.3 1.0
CA b:HIS229 4.0 40.5 1.0
SD b:MET232 4.0 41.1 1.0
CB b:HIS229 4.1 40.5 1.0
N b:CYS225 4.2 44.3 1.0
CD2 b:HIS229 4.2 40.5 1.0
C b:HIS229 4.2 40.5 1.0
N b:GLU223 4.3 43.6 1.0
CA b:CYS225 4.3 44.3 1.0
ND1 b:HIS186 4.3 44.5 1.0
C b:LEU224 4.4 39.8 1.0
CA b:LEU224 4.6 39.8 1.0
N b:LEU224 4.6 39.8 1.0
CA b:GLU223 4.7 43.6 1.0
N b:SER222 4.9 41.4 1.0
CB b:MET232 4.9 41.1 1.0
N b:CYS221 4.9 43.3 1.0
O b:LEU224 5.0 39.8 1.0

Copper binding site 4 out of 6 in 6hu9

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Copper binding site 4 out of 6 in the III2-IV2 Mitochondrial Respiratory Supercomplex From S. Cerevisiae


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 4 of III2-IV2 Mitochondrial Respiratory Supercomplex From S. Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
m:Cu601

b:57.9
occ:1.00
 NE2 m:HIS291 2.1 44.7 1.0
ND1 m:HIS241 2.1 41.2 1.0
NE2 m:HIS290 2.2 45.5 1.0
CE1 m:HIS291 2.6 44.7 1.0
CE1 m:HIS290 3.1 45.5 1.0
CE1 m:HIS241 3.1 41.2 1.0
CG m:HIS241 3.1 41.2 1.0
CD2 m:HIS290 3.2 45.5 1.0
CD2 m:HIS291 3.2 44.7 1.0
CB m:HIS241 3.4 41.2 1.0
ND1 m:HIS291 3.7 44.7 1.0
CG m:HIS291 4.1 44.7 1.0
CA m:HIS241 4.1 41.2 1.0
FE m:HEA603 4.2 54.3 1.0
NE2 m:HIS241 4.2 41.2 1.0
CD2 m:HIS241 4.2 41.2 1.0
ND1 m:HIS290 4.2 45.5 1.0
CG m:HIS290 4.3 45.5 1.0
C1A m:HEA603 4.3 54.3 1.0
ND m:HEA603 4.3 54.3 1.0
CG2 m:VAL244 4.4 40.9 1.0
NA m:HEA603 4.5 54.3 1.0
C4A m:HEA603 4.6 54.3 1.0
C2A m:HEA603 4.6 54.3 1.0
C4D m:HEA603 4.6 54.3 1.0
C3A m:HEA603 4.7 54.3 1.0
CHA m:HEA603 4.8 54.3 1.0
NB m:HEA603 4.9 54.3 1.0
C1D m:HEA603 4.9 54.3 1.0
NC m:HEA603 5.0 54.3 1.0
N m:HIS241 5.0 41.2 1.0

Copper binding site 5 out of 6 in 6hu9

Go back to Copper Binding Sites List in 6hu9
Copper binding site 5 out of 6 in the III2-IV2 Mitochondrial Respiratory Supercomplex From S. Cerevisiae


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 5 of III2-IV2 Mitochondrial Respiratory Supercomplex From S. Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
n:Cu301

b:80.7
occ:1.00
 SG n:CYS225 2.0 55.4 1.0
ND1 n:HIS186 2.1 52.6 1.0
SD n:MET232 2.2 51.4 1.0
SG n:CYS221 2.3 52.4 1.0
CU2 n:CUA302 2.6 76.7 1.0
CE n:MET232 2.8 51.4 1.0
CB n:CYS225 3.0 55.4 1.0
CE1 n:HIS186 3.0 52.6 1.0
CB n:CYS221 3.0 52.4 1.0
CG n:HIS186 3.1 52.6 1.0
CB n:HIS186 3.5 52.6 1.0
CG n:MET232 4.0 51.4 1.0
NE2 n:HIS186 4.1 52.6 1.0
CA n:HIS186 4.1 52.6 1.0
CD2 n:HIS186 4.2 52.6 1.0
O n:GLU223 4.4 53.4 1.0
CA n:CYS225 4.4 55.4 1.0
CA n:CYS221 4.5 52.4 1.0
CB n:MET232 4.6 51.4 1.0
ND1 n:HIS229 4.7 50.8 1.0
N n:CYS225 4.9 55.4 1.0

Copper binding site 6 out of 6 in 6hu9

Go back to Copper Binding Sites List in 6hu9
Copper binding site 6 out of 6 in the III2-IV2 Mitochondrial Respiratory Supercomplex From S. Cerevisiae


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 6 of III2-IV2 Mitochondrial Respiratory Supercomplex From S. Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
n:Cu302

b:76.7
occ:1.00
 ND1 n:HIS229 2.2 50.8 1.0
SG n:CYS225 2.2 55.4 1.0
SG n:CYS221 2.3 52.4 1.0
O n:GLU223 2.4 53.4 1.0
CU1 n:CUA301 2.6 80.7 1.0
CB n:CYS225 2.7 55.4 1.0
CE1 n:HIS229 3.1 50.8 1.0
CG n:HIS229 3.1 50.8 1.0
CB n:CYS221 3.2 52.4 1.0
N n:CYS225 3.3 55.4 1.0
CB n:HIS229 3.4 50.8 1.0
CA n:HIS229 3.5 50.8 1.0
CA n:CYS225 3.6 55.4 1.0
C n:GLU223 3.6 53.4 1.0
O n:HIS229 3.8 50.8 1.0
SD n:MET232 3.9 51.4 1.0
C n:LEU224 4.0 49.5 1.0
C n:HIS229 4.1 50.8 1.0
NE2 n:HIS229 4.2 50.8 1.0
CD2 n:HIS229 4.2 50.8 1.0
CA n:LEU224 4.3 49.5 1.0
O n:CYS221 4.3 52.4 1.0
ND1 n:HIS186 4.3 52.6 1.0
CA n:CYS221 4.4 52.4 1.0
C n:CYS221 4.4 52.4 1.0
N n:LEU224 4.4 49.5 1.0
N n:GLU223 4.4 53.4 1.0
CA n:GLU223 4.7 53.4 1.0
N n:HIS229 4.7 50.8 1.0
C n:CYS225 4.8 55.4 1.0
O n:LEU224 4.8 49.5 1.0

Reference:

A.M.Hartley, N.Lukoyanova, Y.Zhang, A.Cabrera-Orefice, S.Arnold, B.Meunier, N.Pinotsis, A.Marechal. Structure of Yeast Cytochrome C Oxidase in A Supercomplex with Cytochrome BC1. Nat. Struct. Mol. Biol. V. 26 78 2019.
ISSN: ESSN 1545-9985
PubMed: 30598554
DOI: 10.1038/S41594-018-0172-Z
Page generated: Wed Jul 31 06:11:09 2024

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