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Copper in PDB 8e7s: III2IV2 Respiratory Supercomplex From Saccharomyces Cerevisiae with 4 Bound UQ6

Enzymatic activity of III2IV2 Respiratory Supercomplex From Saccharomyces Cerevisiae with 4 Bound UQ6

All present enzymatic activity of III2IV2 Respiratory Supercomplex From Saccharomyces Cerevisiae with 4 Bound UQ6:
7.1.1.8; 7.1.1.9;

Other elements in 8e7s:

The structure of III2IV2 Respiratory Supercomplex From Saccharomyces Cerevisiae with 4 Bound UQ6 also contains other interesting chemical elements:

Iron (Fe) 14 atoms

Copper Binding Sites:

The binding sites of Copper atom in the III2IV2 Respiratory Supercomplex From Saccharomyces Cerevisiae with 4 Bound UQ6 (pdb code 8e7s). This binding sites where shown within 5.0 Angstroms radius around Copper atom.
In total 6 binding sites of Copper where determined in the III2IV2 Respiratory Supercomplex From Saccharomyces Cerevisiae with 4 Bound UQ6, PDB code: 8e7s:
Jump to Copper binding site number: 1; 2; 3; 4; 5; 6;

Copper binding site 1 out of 6 in 8e7s

Go back to Copper Binding Sites List in 8e7s
Copper binding site 1 out of 6 in the III2IV2 Respiratory Supercomplex From Saccharomyces Cerevisiae with 4 Bound UQ6


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 1 of III2IV2 Respiratory Supercomplex From Saccharomyces Cerevisiae with 4 Bound UQ6 within 5.0Å range:
probe atom residue distance (Å) B Occ
K:Cu602

b:253.9
occ:1.00
 NE2 K:HIS291 2.0 253.5 1.0
NE2 K:HIS290 2.0 254.3 1.0
ND1 K:HIS241 2.0 254.7 1.0
CE1 K:HIS290 2.1 254.3 1.0
CE1 K:HIS291 2.2 253.5 1.0
CE1 K:HIS241 2.4 254.7 1.0
CD2 K:HIS291 3.0 253.5 1.0
ND1 K:HIS291 3.2 253.5 1.0
CG K:HIS241 3.3 254.7 1.0
ND1 K:HIS290 3.4 254.3 1.0
CD2 K:HIS290 3.4 254.3 1.0
CG K:HIS291 3.6 253.5 1.0
NE2 K:HIS241 3.6 254.7 1.0
CG K:HIS290 4.0 254.3 1.0
CD2 K:HIS241 4.1 254.7 1.0
CB K:HIS241 4.2 254.7 1.0
NA K:HEA601 4.4 196.6 1.0
C4A K:HEA601 4.4 196.6 1.0
C1A K:HEA601 4.5 196.6 1.0
C3A K:HEA601 4.6 196.6 1.0
C2A K:HEA601 4.7 196.6 1.0
CA K:HIS241 4.7 254.7 1.0
CHB K:HEA601 4.9 196.6 1.0
OMA K:HEA601 4.9 196.6 1.0
CB K:HIS291 5.0 253.5 1.0

Copper binding site 2 out of 6 in 8e7s

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Copper binding site 2 out of 6 in the III2IV2 Respiratory Supercomplex From Saccharomyces Cerevisiae with 4 Bound UQ6


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 2 of III2IV2 Respiratory Supercomplex From Saccharomyces Cerevisiae with 4 Bound UQ6 within 5.0Å range:
probe atom residue distance (Å) B Occ
P:Cu301

b:245.3
occ:1.00
 CE1 P:HIS229 1.8 196.5 1.0
ND1 P:HIS229 2.0 196.5 1.0
CE P:MET232 2.5 194.3 1.0
SG P:CYS225 2.6 191.9 1.0
CU2 P:CUA302 2.7 228.1 1.0
SD P:MET232 2.8 194.3 1.0
CE1 P:HIS186 2.8 196.9 1.0
CG P:MET232 2.9 194.3 1.0
ND1 P:HIS186 3.0 196.9 1.0
NE2 P:HIS229 3.1 196.5 1.0
CG P:HIS229 3.4 196.5 1.0
CB P:CYS225 3.6 191.9 1.0
CB P:MET232 3.8 194.3 1.0
CD2 P:HIS229 3.8 196.5 1.0
CB P:CYS221 3.8 216.1 1.0
SG P:CYS221 4.1 216.1 1.0
NE2 P:HIS186 4.1 196.9 1.0
CG P:HIS186 4.4 196.9 1.0
CB P:HIS229 4.5 196.5 1.0
O P:GLU223 4.6 205.7 1.0
CA P:HIS229 4.7 196.5 1.0
CA P:TRP124 4.7 166.2 1.0
NE1 P:TRP126 4.8 178.3 1.0
CA P:MET232 4.9 194.3 1.0
CD2 P:HIS186 4.9 196.9 1.0
CA P:CYS225 4.9 191.9 1.0

Copper binding site 3 out of 6 in 8e7s

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Copper binding site 3 out of 6 in the III2IV2 Respiratory Supercomplex From Saccharomyces Cerevisiae with 4 Bound UQ6


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 3 of III2IV2 Respiratory Supercomplex From Saccharomyces Cerevisiae with 4 Bound UQ6 within 5.0Å range:
probe atom residue distance (Å) B Occ
P:Cu302

b:228.1
occ:1.00
 SG P:CYS225 2.0 191.9 1.0
ND1 P:HIS186 2.0 196.9 1.0
SG P:CYS221 2.3 216.1 1.0
CE1 P:HIS229 2.4 196.5 1.0
CU1 P:CUA301 2.7 245.3 1.0
CE1 P:HIS186 2.8 196.9 1.0
CG P:HIS186 2.9 196.9 1.0
O P:GLU223 3.0 205.7 1.0
NE2 P:HIS229 3.1 196.5 1.0
CB P:CYS221 3.3 216.1 1.0
ND1 P:HIS229 3.3 196.5 1.0
CB P:HIS186 3.4 196.9 1.0
CA P:HIS186 3.5 196.9 1.0
NE2 P:HIS186 3.7 196.9 1.0
CB P:CYS225 3.7 191.9 1.0
CD2 P:HIS186 3.8 196.9 1.0
N P:ASP187 4.0 207.8 1.0
C P:GLU223 4.1 205.7 1.0
CD2 P:HIS229 4.2 196.5 1.0
C P:HIS186 4.3 196.9 1.0
O P:ILE185 4.3 197.6 1.0
CG P:HIS229 4.3 196.5 1.0
CB P:GLU223 4.4 205.7 1.0
CA P:CYS225 4.6 191.9 1.0
N P:CYS225 4.6 191.9 1.0
N P:HIS186 4.6 196.9 1.0
CA P:GLU223 4.6 205.7 1.0
CG P:GLU223 4.7 205.7 1.0
N P:GLU223 4.7 205.7 1.0
CA P:CYS221 4.7 216.1 1.0
C P:LEU224 4.7 199.9 1.0
CG P:MET232 4.8 194.3 1.0
O P:LEU224 4.9 199.9 1.0
C P:ILE185 4.9 197.6 1.0
C P:CYS221 4.9 216.1 1.0
O P:CYS221 5.0 216.1 1.0

Copper binding site 4 out of 6 in 8e7s

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Copper binding site 4 out of 6 in the III2IV2 Respiratory Supercomplex From Saccharomyces Cerevisiae with 4 Bound UQ6


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 4 of III2IV2 Respiratory Supercomplex From Saccharomyces Cerevisiae with 4 Bound UQ6 within 5.0Å range:
probe atom residue distance (Å) B Occ
k:Cu601

b:379.1
occ:1.00
 CE1 k:HIS290 1.8 324.0 1.0
NE2 k:HIS291 2.0 335.6 1.0
NE2 k:HIS290 2.0 324.0 1.0
ND1 k:HIS241 2.1 340.9 1.0
CE1 k:HIS291 2.4 335.6 1.0
CE1 k:HIS241 2.7 340.9 1.0
CD2 k:HIS291 2.8 335.6 1.0
CG k:HIS241 3.1 340.9 1.0
ND1 k:HIS290 3.1 324.0 1.0
ND1 k:HIS291 3.3 335.6 1.0
CD2 k:HIS290 3.4 324.0 1.0
CG k:HIS291 3.5 335.6 1.0
CB k:HIS241 3.7 340.9 1.0
NE2 k:HIS241 3.8 340.9 1.0
CG k:HIS290 3.9 324.0 1.0
CD2 k:HIS241 4.0 340.9 1.0
CA k:HIS241 4.4 340.9 1.0
CG2 k:VAL287 4.8 307.8 1.0
CB k:HIS291 4.9 335.6 1.0
O k:VAL287 4.9 307.8 1.0

Copper binding site 5 out of 6 in 8e7s

Go back to Copper Binding Sites List in 8e7s
Copper binding site 5 out of 6 in the III2IV2 Respiratory Supercomplex From Saccharomyces Cerevisiae with 4 Bound UQ6


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 5 of III2IV2 Respiratory Supercomplex From Saccharomyces Cerevisiae with 4 Bound UQ6 within 5.0Å range:
probe atom residue distance (Å) B Occ
p:Cu301

b:365.9
occ:1.00
 CE1 p:HIS229 1.1 325.7 1.0
ND1 p:HIS229 2.0 325.7 1.0
NE2 p:HIS229 2.2 325.7 1.0
SD p:MET232 2.3 306.7 1.0
CU2 p:CUA302 2.7 331.0 1.0
SG p:CYS225 2.7 318.2 1.0
CG p:HIS229 3.1 325.7 1.0
CD2 p:HIS229 3.2 325.7 1.0
CB p:CYS221 3.4 303.8 1.0
CE p:MET232 3.6 306.7 1.0
SG p:CYS221 3.6 303.8 1.0
CG p:MET232 3.9 306.7 1.0
O p:GLU223 3.9 321.2 1.0
CB p:CYS225 3.9 318.2 1.0
ND1 p:HIS186 4.1 280.9 1.0
O p:CYS221 4.1 303.8 1.0
CB p:MET232 4.2 306.7 1.0
CE1 p:HIS186 4.4 280.9 1.0
CB p:HIS229 4.4 325.7 1.0
CA p:CYS221 4.5 303.8 1.0
O p:HIS229 4.6 325.7 1.0
C p:CYS221 4.7 303.8 1.0
CA p:HIS229 4.7 325.7 1.0
N p:CYS225 4.8 318.2 1.0
N p:CYS221 4.9 303.8 1.0

Copper binding site 6 out of 6 in 8e7s

Go back to Copper Binding Sites List in 8e7s
Copper binding site 6 out of 6 in the III2IV2 Respiratory Supercomplex From Saccharomyces Cerevisiae with 4 Bound UQ6


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 6 of III2IV2 Respiratory Supercomplex From Saccharomyces Cerevisiae with 4 Bound UQ6 within 5.0Å range:
probe atom residue distance (Å) B Occ
p:Cu302

b:331.0
occ:1.00
 ND1 p:HIS186 2.0 280.9 1.0
SG p:CYS225 2.1 318.2 1.0
SG p:CYS221 2.1 303.8 1.0
CU1 p:CUA301 2.7 365.9 1.0
CG p:HIS186 2.9 280.9 1.0
CE1 p:HIS186 3.0 280.9 1.0
CE1 p:HIS229 3.0 325.7 1.0
CB p:CYS221 3.2 303.8 1.0
CB p:HIS186 3.3 280.9 1.0
O p:GLU223 3.4 321.2 1.0
CA p:HIS186 3.5 280.9 1.0
NE2 p:HIS229 3.7 325.7 1.0
CB p:CYS225 3.9 318.2 1.0
ND1 p:HIS229 4.0 325.7 1.0
N p:ASP187 4.0 279.5 1.0
NE2 p:HIS186 4.0 280.9 1.0
CD2 p:HIS186 4.0 280.9 1.0
C p:HIS186 4.3 280.9 1.0
C p:GLU223 4.5 321.2 1.0
CA p:CYS221 4.5 303.8 1.0
O p:ILE185 4.6 272.8 1.0
O p:CYS221 4.7 303.8 1.0
N p:HIS186 4.7 280.9 1.0
SD p:MET232 4.8 306.7 1.0
CA p:CYS225 4.8 318.2 1.0
C p:CYS221 4.8 303.8 1.0
CB p:GLU223 4.8 321.2 1.0
N p:CYS225 4.8 318.2 1.0
CD2 p:HIS229 4.9 325.7 1.0
N p:GLU223 5.0 321.2 1.0
CZ2 p:TRP126 5.0 275.3 1.0
C p:LEU224 5.0 324.4 1.0

Reference:

C.F.Hryc, V.K.P.S.Mallampalli, E.I.Bovshik, S.Azinas, G.Fan, I.I.Serysheva, G.C.Sparagna, M.L.Baker, E.Mileykovskaya, W.Dowhan. Structural Insights Into Cardiolipin Replacement By Phosphatidylglycerol in A Cardiolipin-Lacking Yeast Respiratory Supercomplex. Nat Commun V. 14 2783 2023.
ISSN: ESSN 2041-1723
PubMed: 37188665
DOI: 10.1038/S41467-023-38441-5
Page generated: Wed Jul 31 09:39:59 2024

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