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Copper in PDB 9bpb: Tethered Respiratory III2IV2 Supercomplex From Saccharomyces Cerevisiae

Enzymatic activity of Tethered Respiratory III2IV2 Supercomplex From Saccharomyces Cerevisiae

All present enzymatic activity of Tethered Respiratory III2IV2 Supercomplex From Saccharomyces Cerevisiae:
7.1.1.8; 7.1.1.9;

Other elements in 9bpb:

The structure of Tethered Respiratory III2IV2 Supercomplex From Saccharomyces Cerevisiae also contains other interesting chemical elements:

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

Copper Binding Sites:

The binding sites of Copper atom in the Tethered Respiratory III2IV2 Supercomplex From Saccharomyces Cerevisiae (pdb code 9bpb). This binding sites where shown within 5.0 Angstroms radius around Copper atom.
In total 6 binding sites of Copper where determined in the Tethered Respiratory III2IV2 Supercomplex From Saccharomyces Cerevisiae, PDB code: 9bpb:
Jump to Copper binding site number: 1; 2; 3; 4; 5; 6;

Copper binding site 1 out of 6 in 9bpb

Go back to Copper Binding Sites List in 9bpb
Copper binding site 1 out of 6 in the Tethered Respiratory III2IV2 Supercomplex 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 Tethered Respiratory III2IV2 Supercomplex From Saccharomyces Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Cu602

b:20.0
occ:1.00
 ND1 a:HIS241 2.4 30.0 1.0
NE2 a:HIS291 2.6 29.3 1.0
NE2 a:HIS290 2.9 31.1 1.0
CB a:HIS241 3.0 30.8 1.0
CG a:HIS241 3.0 34.6 1.0
CA a:HIS241 3.3 39.1 1.0
CD2 a:HIS291 3.3 26.2 1.0
CE1 a:HIS241 3.5 32.7 1.0
CE1 a:HIS291 3.6 36.4 1.0
CE1 a:HIS290 3.7 32.1 1.0
CD2 a:HIS290 3.9 36.3 1.0
CG2 a:VAL244 4.0 21.1 1.0
CD2 a:HIS241 4.2 33.6 1.0
O a:HIS241 4.2 39.3 1.0
C a:HIS241 4.3 37.3 1.0
CG1 a:VAL244 4.3 29.7 1.0
N a:HIS241 4.4 26.7 1.0
NE2 a:HIS241 4.4 39.6 1.0
CG a:HIS291 4.5 28.3 1.0
ND1 a:HIS291 4.6 35.8 1.0
FE a:HEA603 4.7 20.0 1.0
CB a:VAL244 4.8 23.8 1.0
O a:VAL287 4.9 55.4 1.0
ND1 a:HIS290 4.9 39.7 1.0
ND a:HEA603 4.9 20.0 1.0
C1A a:HEA603 4.9 20.0 1.0

Copper binding site 2 out of 6 in 9bpb

Go back to Copper Binding Sites List in 9bpb
Copper binding site 2 out of 6 in the Tethered Respiratory III2IV2 Supercomplex 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 Tethered Respiratory III2IV2 Supercomplex From Saccharomyces Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
b:Cu303

b:20.0
occ:1.00
 CU1 b:CUA303 0.0 20.0 1.0
CU2 b:CUA303 1.7 20.0 1.0
SG b:CYS225 2.1 32.7 1.0
SG b:CYS221 2.5 37.1 1.0
O b:GLU223 2.5 39.6 1.0
ND1 b:HIS229 2.5 32.3 1.0
CB b:CYS225 3.1 33.7 1.0
CE1 b:HIS229 3.2 34.1 1.0
SD b:MET232 3.7 51.5 1.0
CG b:HIS229 3.7 29.7 1.0
N b:CYS225 3.8 32.2 1.0
C b:GLU223 3.8 31.3 1.0
CB b:CYS221 3.9 37.5 1.0
CB b:HIS186 4.0 30.0 1.0
CA b:CYS225 4.1 27.0 1.0
CA b:HIS229 4.1 36.9 1.0
CB b:HIS229 4.2 25.7 1.0
C b:LEU224 4.3 32.4 1.0
CE b:MET232 4.3 38.0 1.0
NE2 b:HIS229 4.4 33.8 1.0
CA b:LEU224 4.5 21.9 1.0
O b:HIS229 4.6 39.3 1.0
CA b:HIS186 4.6 37.5 1.0
N b:LEU224 4.6 24.2 1.0
N b:GLU223 4.7 36.9 1.0
CD2 b:HIS229 4.7 37.0 1.0
C b:CYS221 4.7 34.7 1.0
CA b:GLU223 4.8 33.4 1.0
ND1 b:HIS186 4.8 30.0 1.0
O b:CYS221 4.8 38.9 1.0
C b:HIS229 4.9 43.9 1.0
CG b:HIS186 4.9 30.0 1.0
C b:SER222 4.9 47.4 1.0
CA b:CYS221 4.9 31.9 1.0
N b:SER222 4.9 36.4 1.0
C b:CYS225 5.0 31.3 1.0

Copper binding site 3 out of 6 in 9bpb

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Copper binding site 3 out of 6 in the Tethered Respiratory III2IV2 Supercomplex 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 Tethered Respiratory III2IV2 Supercomplex From Saccharomyces Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
b:Cu303

b:20.0
occ:1.00
 CU2 b:CUA303 0.0 20.0 1.0
CU1 b:CUA303 1.7 20.0 1.0
SG b:CYS225 2.0 32.7 1.0
SD b:MET232 2.5 51.5 1.0
SG b:CYS221 2.7 37.1 1.0
CE b:MET232 2.8 38.0 1.0
CB b:CYS225 3.1 33.7 1.0
CB b:HIS186 3.2 30.0 1.0
ND1 b:HIS186 3.5 30.0 1.0
CG b:HIS186 3.8 30.0 1.0
O b:GLU223 4.0 39.6 1.0
CB b:CYS221 4.0 37.5 1.0
ND1 b:HIS229 4.1 32.3 1.0
CG b:MET232 4.2 38.3 1.0
CA b:HIS186 4.3 37.5 1.0
CA b:CYS225 4.5 27.0 1.0
N b:CYS225 4.7 32.2 1.0
CB b:MET232 4.7 36.0 1.0
CE1 b:HIS186 4.7 30.0 1.0
CA b:HIS229 4.8 36.9 1.0
N b:TRP124 4.8 56.9 1.0
CE1 b:HIS229 4.9 34.1 1.0

Copper binding site 4 out of 6 in 9bpb

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Copper binding site 4 out of 6 in the Tethered Respiratory III2IV2 Supercomplex From Saccharomyces Cerevisiae


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 4 of Tethered Respiratory III2IV2 Supercomplex From Saccharomyces Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
m:Cu602

b:20.0
occ:1.00
 ND1 m:HIS241 2.4 30.0 1.0
NE2 m:HIS291 2.6 29.3 1.0
NE2 m:HIS290 2.9 31.1 1.0
CB m:HIS241 3.0 30.8 1.0
CG m:HIS241 3.0 34.6 1.0
CA m:HIS241 3.3 39.1 1.0
CD2 m:HIS291 3.3 26.2 1.0
CE1 m:HIS241 3.5 32.7 1.0
CE1 m:HIS291 3.6 36.4 1.0
CE1 m:HIS290 3.7 32.1 1.0
CD2 m:HIS290 3.9 36.3 1.0
CG2 m:VAL244 4.0 21.1 1.0
CD2 m:HIS241 4.2 33.6 1.0
O m:HIS241 4.2 39.3 1.0
C m:HIS241 4.3 37.3 1.0
CG1 m:VAL244 4.3 29.7 1.0
N m:HIS241 4.4 26.7 1.0
NE2 m:HIS241 4.4 39.6 1.0
CG m:HIS291 4.5 28.3 1.0
ND1 m:HIS291 4.6 35.8 1.0
FE m:HEA603 4.7 20.0 1.0
CB m:VAL244 4.8 23.8 1.0
O m:VAL287 4.9 55.4 1.0
ND1 m:HIS290 4.9 39.7 1.0
ND m:HEA603 4.9 20.0 1.0
C1A m:HEA603 4.9 20.0 1.0

Copper binding site 5 out of 6 in 9bpb

Go back to Copper Binding Sites List in 9bpb
Copper binding site 5 out of 6 in the Tethered Respiratory III2IV2 Supercomplex From Saccharomyces Cerevisiae


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 5 of Tethered Respiratory III2IV2 Supercomplex From Saccharomyces Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
n:Cu303

b:20.0
occ:1.00
 CU1 n:CUA303 0.0 20.0 1.0
CU2 n:CUA303 1.7 20.0 1.0
SG n:CYS225 2.1 32.7 1.0
SG n:CYS221 2.5 37.1 1.0
O n:GLU223 2.5 39.6 1.0
ND1 n:HIS229 2.5 32.3 1.0
CB n:CYS225 3.1 33.7 1.0
CE1 n:HIS229 3.2 34.1 1.0
SD n:MET232 3.7 51.5 1.0
CG n:HIS229 3.7 29.7 1.0
N n:CYS225 3.8 32.2 1.0
C n:GLU223 3.8 31.3 1.0
CB n:CYS221 3.9 37.5 1.0
CB n:HIS186 4.0 30.0 1.0
CA n:CYS225 4.1 27.0 1.0
CA n:HIS229 4.1 36.9 1.0
CB n:HIS229 4.2 25.7 1.0
C n:LEU224 4.3 32.4 1.0
CE n:MET232 4.3 38.0 1.0
NE2 n:HIS229 4.4 33.8 1.0
CA n:LEU224 4.5 21.9 1.0
O n:HIS229 4.6 39.3 1.0
CA n:HIS186 4.6 37.5 1.0
N n:LEU224 4.6 24.2 1.0
N n:GLU223 4.7 36.9 1.0
CD2 n:HIS229 4.7 37.0 1.0
C n:CYS221 4.7 34.7 1.0
CA n:GLU223 4.8 33.4 1.0
ND1 n:HIS186 4.8 30.0 1.0
O n:CYS221 4.8 38.9 1.0
C n:HIS229 4.9 43.9 1.0
CG n:HIS186 4.9 30.0 1.0
C n:SER222 4.9 47.4 1.0
CA n:CYS221 4.9 31.9 1.0
N n:SER222 4.9 36.4 1.0
C n:CYS225 5.0 31.3 1.0

Copper binding site 6 out of 6 in 9bpb

Go back to Copper Binding Sites List in 9bpb
Copper binding site 6 out of 6 in the Tethered Respiratory III2IV2 Supercomplex From Saccharomyces Cerevisiae


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 6 of Tethered Respiratory III2IV2 Supercomplex From Saccharomyces Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
n:Cu303

b:20.0
occ:1.00
 CU2 n:CUA303 0.0 20.0 1.0
CU1 n:CUA303 1.7 20.0 1.0
SG n:CYS225 2.0 32.7 1.0
SD n:MET232 2.5 51.5 1.0
SG n:CYS221 2.7 37.1 1.0
CE n:MET232 2.8 38.0 1.0
CB n:CYS225 3.1 33.7 1.0
CB n:HIS186 3.2 30.0 1.0
ND1 n:HIS186 3.5 30.0 1.0
CG n:HIS186 3.8 30.0 1.0
O n:GLU223 4.0 39.6 1.0
CB n:CYS221 4.0 37.5 1.0
ND1 n:HIS229 4.1 32.3 1.0
CG n:MET232 4.2 38.3 1.0
CA n:HIS186 4.3 37.5 1.0
CA n:CYS225 4.5 27.0 1.0
N n:CYS225 4.7 32.2 1.0
CB n:MET232 4.7 36.0 1.0
CE1 n:HIS186 4.7 30.0 1.0
CA n:HIS229 4.8 36.9 1.0
N n:TRP124 4.8 56.9 1.0
CE1 n:HIS229 4.9 34.1 1.0

Reference:

M.H.Eldeeb, Z.Cosner, J.Mays, A.Carlstrom, G.Rodriguez, J.Berndtsson, M.Ott, F.Fontanesi. Differential Substrate Utilization By Yeast Respiratory Supercomplexes To Be Published.
Page generated: Mon Jul 14 09:45:45 2025

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