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Copper in PDB 6q58: Copper Loading to A Cytosolic Copper Storage Protein From Streptomyces Lividans (Five Coppers)

Protein crystallography data

The structure of Copper Loading to A Cytosolic Copper Storage Protein From Streptomyces Lividans (Five Coppers), PDB code: 6q58 was solved by M.L.Straw, M.A.Hough, J.A.R.Worrall, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 212.34 / 1.50
Space group P 61 2 2
Cell size a, b, c (Å), α, β, γ (°) 93.051, 93.051, 212.340, 90.00, 90.00, 120.00
R / Rfree (%) 19.5 / 21.4

Copper Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 15;

Binding sites:

The binding sites of Copper atom in the Copper Loading to A Cytosolic Copper Storage Protein From Streptomyces Lividans (Five Coppers) (pdb code 6q58). This binding sites where shown within 5.0 Angstroms radius around Copper atom.
In total 15 binding sites of Copper where determined in the Copper Loading to A Cytosolic Copper Storage Protein From Streptomyces Lividans (Five Coppers), PDB code: 6q58:
Jump to Copper binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Copper binding site 1 out of 15 in 6q58

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Copper binding site 1 out of 15 in the Copper Loading to A Cytosolic Copper Storage Protein From Streptomyces Lividans (Five Coppers)


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 1 of Copper Loading to A Cytosolic Copper Storage Protein From Streptomyces Lividans (Five Coppers) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cu201

b:21.8
occ:1.00
 ND1 B:HIS113 2.0 17.8 1.0
SG B:CYS41 2.3 16.1 1.0
SG B:CYS114 2.4 18.1 1.0
CE1 B:HIS113 2.9 19.2 1.0
N B:CYS114 3.0 16.8 1.0
CG B:HIS113 3.1 19.3 1.0
CU B:CU1202 3.2 25.1 1.0
CA B:CYS114 3.2 17.6 1.0
C B:HIS113 3.3 18.2 1.0
CB B:CYS114 3.4 16.9 1.0
SG B:CYS45 3.4 18.6 1.0
CB B:CYS41 3.6 14.5 1.0
CB B:HIS113 3.6 20.1 1.0
CU B:CU1203 3.7 28.5 1.0
O B:HIS113 3.7 19.5 1.0
O B:CYS41 3.8 14.7 1.0
CA B:CYS41 3.9 15.8 1.0
CA B:HIS113 4.0 19.2 1.0
NE2 B:HIS113 4.0 17.9 1.0
C B:CYS41 4.1 15.2 1.0
CD2 B:HIS113 4.2 18.6 1.0
SG B:CYS57 4.7 21.2 1.0
C B:CYS114 4.7 18.1 1.0
N B:HIS113 4.8 19.4 1.0
CB B:HIS111 4.8 21.5 1.0
CB B:CYS45 4.9 17.5 1.0
N B:CYS45 4.9 16.4 1.0
CB B:ALA44 4.9 15.7 1.0

Copper binding site 2 out of 15 in 6q58

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Copper binding site 2 out of 15 in the Copper Loading to A Cytosolic Copper Storage Protein From Streptomyces Lividans (Five Coppers)


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 2 of Copper Loading to A Cytosolic Copper Storage Protein From Streptomyces Lividans (Five Coppers) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cu202

b:25.1
occ:1.00
 SG B:CYS114 2.1 18.1 1.0
SG B:CYS57 2.1 21.2 1.0
CU B:CU1204 3.0 30.7 1.0
CU B:CU1203 3.1 28.5 1.0
CU B:CU1201 3.2 21.8 1.0
CB B:CYS114 3.3 16.9 1.0
SG B:CYS41 3.4 16.1 1.0
CB B:CYS57 3.4 15.8 1.0
SG B:CYS45 3.6 18.6 1.0
SG B:CYS104 4.0 20.0 1.0
CA B:CYS104 4.0 18.2 1.0
CA B:CYS114 4.0 17.6 1.0
ND1 B:HIS107 4.1 26.1 1.0
CB B:HIS107 4.3 19.8 1.0
CB B:CYS104 4.3 18.7 1.0
CG B:HIS107 4.5 20.6 1.0
CA B:CYS57 4.7 15.5 1.0
O B:CYS104 4.7 20.6 1.0
OD2 B:ASP61 4.8 16.0 1.0
N B:CYS114 4.8 16.8 1.0
N B:CYS104 4.8 16.9 1.0
CD2 B:LEU54 4.8 21.1 1.0
ND1 B:HIS113 4.9 17.8 1.0
C B:CYS104 4.9 18.9 1.0
O B:GLU103 4.9 17.7 1.0

Copper binding site 3 out of 15 in 6q58

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Copper binding site 3 out of 15 in the Copper Loading to A Cytosolic Copper Storage Protein From Streptomyces Lividans (Five Coppers)


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 3 of Copper Loading to A Cytosolic Copper Storage Protein From Streptomyces Lividans (Five Coppers) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cu203

b:28.5
occ:1.00
 SG B:CYS104 2.0 20.0 1.0
SG B:CYS41 2.2 16.1 1.0
CU B:CU1204 2.5 30.7 1.0
CU B:CU1202 3.1 25.1 1.0
OD1 B:ASP61 3.2 18.1 1.0
CB B:CYS117 3.3 21.4 1.0
CB B:CYS104 3.3 18.7 1.0
CB B:CYS41 3.3 14.5 1.0
SG B:CYS57 3.4 21.2 1.0
SG B:CYS117 3.4 22.9 1.0
CU B:CU1201 3.7 21.8 1.0
OD2 B:ASP61 3.7 16.0 1.0
CA B:CYS114 3.9 17.6 1.0
CG B:ASP61 3.9 15.3 1.0
CA B:CYS104 4.1 18.2 1.0
SG B:CYS114 4.1 18.1 1.0
CB B:CYS114 4.2 16.9 1.0
O B:CYS114 4.4 18.5 1.0
O B:HIS113 4.5 19.5 1.0
CA B:CYS117 4.6 19.5 1.0
C B:CYS114 4.6 18.1 1.0
CA B:CYS41 4.7 15.8 1.0
N B:CYS114 4.7 16.8 1.0
N B:CYS104 4.8 16.9 1.0
C B:HIS113 5.0 18.2 1.0
C B:CYS117 5.0 17.9 1.0

Copper binding site 4 out of 15 in 6q58

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Copper binding site 4 out of 15 in the Copper Loading to A Cytosolic Copper Storage Protein From Streptomyces Lividans (Five Coppers)


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 4 of Copper Loading to A Cytosolic Copper Storage Protein From Streptomyces Lividans (Five Coppers) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cu204

b:30.7
occ:1.00
 SG B:CYS57 2.1 21.2 1.0
SG B:CYS104 2.1 20.0 1.0
CU B:CU1203 2.5 28.5 1.0
CU B:CU1202 3.0 25.1 1.0
OD1 B:ASP61 3.1 18.1 1.0
CB B:CYS104 3.3 18.7 1.0
CA B:CYS104 3.3 18.2 1.0
N B:CYS104 3.4 16.9 1.0
CB B:CYS57 3.4 15.8 1.0
CA B:CYS57 3.7 15.5 1.0
CG B:ASP61 3.8 15.3 1.0
O B:CYS57 3.8 14.9 1.0
OD2 B:ASP61 3.9 16.0 1.0
O B:CYS100 4.0 16.2 1.0
C B:GLU103 4.0 18.3 1.0
C B:CYS57 4.1 14.8 1.0
SG B:CYS41 4.1 16.1 1.0
SG B:CYS100 4.4 17.7 1.0
CB B:GLU103 4.5 18.6 1.0
CG B:GLU103 4.5 19.8 1.0
O B:GLU103 4.6 17.7 1.0
C B:CYS104 4.8 18.9 1.0
SG B:CYS114 4.9 18.1 1.0
CA B:GLU103 4.9 17.2 1.0

Copper binding site 5 out of 15 in 6q58

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Copper binding site 5 out of 15 in the Copper Loading to A Cytosolic Copper Storage Protein From Streptomyces Lividans (Five Coppers)


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 5 of Copper Loading to A Cytosolic Copper Storage Protein From Streptomyces Lividans (Five Coppers) within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cu201

b:45.0
occ:1.00
 SG C:CYS114 2.1 34.4 1.0
SG C:CYS57 2.1 42.4 1.0
CU C:CU1202 3.0 56.4 1.0
CU C:CU1203 3.1 37.5 1.0
CB C:CYS114 3.2 31.6 1.0
SG C:CYS41 3.4 27.7 1.0
CB C:CYS57 3.4 35.8 1.0
SG C:CYS45 3.6 32.9 1.0
CA C:CYS114 4.0 34.6 1.0
CA C:CYS104 4.0 41.3 1.0
ND1 C:HIS107 4.0 53.0 1.0
SG C:CYS104 4.1 44.4 1.0
CB C:HIS107 4.2 46.0 1.0
CB C:CYS104 4.4 41.1 1.0
CG C:HIS107 4.5 50.0 1.0
O C:CYS104 4.6 40.2 1.0
CA C:CYS57 4.7 32.9 1.0
CD2 C:LEU54 4.8 37.9 1.0
N C:CYS114 4.8 36.0 1.0
OD2 C:ASP61 4.8 29.5 1.0
C C:CYS104 4.8 41.2 1.0
N C:CYS104 4.9 38.3 1.0
ND1 C:HIS113 4.9 38.3 1.0
O C:GLU103 5.0 39.5 1.0

Copper binding site 6 out of 15 in 6q58

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Copper binding site 6 out of 15 in the Copper Loading to A Cytosolic Copper Storage Protein From Streptomyces Lividans (Five Coppers)


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 6 of Copper Loading to A Cytosolic Copper Storage Protein From Streptomyces Lividans (Five Coppers) within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cu202

b:56.4
occ:1.00
 SG C:CYS104 2.0 44.4 1.0
SG C:CYS41 2.2 27.7 1.0
OD1 C:ASP61 3.0 29.6 1.0
CU C:CU1201 3.0 45.0 1.0
SG C:CYS57 3.3 42.4 1.0
CB C:CYS104 3.3 41.1 1.0
CB C:CYS41 3.3 26.5 1.0
CB C:CYS117 3.5 35.3 1.0
SG C:CYS117 3.5 38.9 1.0
OD2 C:ASP61 3.6 29.5 1.0
CG C:ASP61 3.6 27.6 1.0
CU C:CU1203 3.7 37.5 1.0
CA C:CYS114 3.9 34.6 1.0
CA C:CYS104 4.0 41.3 1.0
SG C:CYS114 4.1 34.4 1.0
CB C:CYS114 4.2 31.6 1.0
O C:HOH354 4.3 33.7 1.0
O C:CYS114 4.5 37.5 1.0
O C:HIS113 4.7 39.0 1.0
CA C:CYS41 4.7 28.1 1.0
C C:CYS114 4.7 35.4 1.0
N C:CYS104 4.8 38.3 1.0
N C:CYS114 4.8 36.0 1.0
CA C:CYS117 4.8 36.3 1.0

Copper binding site 7 out of 15 in 6q58

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Copper binding site 7 out of 15 in the Copper Loading to A Cytosolic Copper Storage Protein From Streptomyces Lividans (Five Coppers)


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 7 of Copper Loading to A Cytosolic Copper Storage Protein From Streptomyces Lividans (Five Coppers) within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cu203

b:37.5
occ:1.00
 ND1 C:HIS113 2.0 38.3 1.0
SG C:CYS41 2.2 27.7 1.0
SG C:CYS114 2.4 34.4 1.0
CE1 C:HIS113 2.9 37.8 1.0
N C:CYS114 3.0 36.0 1.0
CU C:CU1201 3.1 45.0 1.0
CG C:HIS113 3.1 38.0 1.0
CA C:CYS114 3.2 34.6 1.0
C C:HIS113 3.3 38.9 1.0
CB C:CYS114 3.4 31.6 1.0
SG C:CYS45 3.4 32.9 1.0
CB C:CYS41 3.5 26.5 1.0
CB C:HIS113 3.6 37.7 1.0
CU C:CU1202 3.7 56.4 1.0
O C:CYS41 3.8 30.2 1.0
CA C:CYS41 3.8 28.1 1.0
O C:HIS113 3.8 39.0 1.0
CA C:HIS113 4.0 38.7 1.0
NE2 C:HIS113 4.0 36.5 1.0
C C:CYS41 4.1 29.3 1.0
CD2 C:HIS113 4.2 38.1 1.0
SG C:CYS57 4.7 42.4 1.0
C C:CYS114 4.7 35.4 1.0
N C:HIS113 4.8 40.2 1.0
CB C:HIS111 4.8 51.2 1.0
N C:CYS45 4.9 31.1 1.0
CB C:CYS45 4.9 30.4 1.0
CB C:ALA44 5.0 31.5 1.0

Copper binding site 8 out of 15 in 6q58

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Copper binding site 8 out of 15 in the Copper Loading to A Cytosolic Copper Storage Protein From Streptomyces Lividans (Five Coppers)


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 8 of Copper Loading to A Cytosolic Copper Storage Protein From Streptomyces Lividans (Five Coppers) within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cu201

b:22.6
occ:1.00
 SG D:CYS114 2.1 16.3 1.0
SG D:CYS57 2.1 19.6 1.0
CU D:CU1204 3.1 28.7 1.0
CU D:CU1203 3.2 32.6 1.0
CU D:CU1202 3.2 20.1 1.0
CB D:CYS114 3.3 15.6 1.0
SG D:CYS41 3.3 14.8 1.0
CB D:CYS57 3.4 18.1 1.0
SG D:CYS45 3.4 18.2 1.0
CA D:CYS114 4.0 14.5 1.0
CA D:CYS104 4.0 16.4 1.0
ND1 D:HIS107 4.1 22.2 1.0
SG D:CYS104 4.1 19.8 1.0
CB D:HIS107 4.3 16.8 1.0
CB D:CYS104 4.4 17.4 1.0
CG D:HIS107 4.5 18.3 1.0
O D:CYS104 4.6 16.6 1.0
CA D:CYS57 4.7 15.1 1.0
OD2 D:ASP61 4.7 15.3 1.0
N D:CYS114 4.8 15.1 1.0
CD2 D:LEU54 4.8 18.8 1.0
ND1 D:HIS113 4.8 14.2 1.0
C D:CYS104 4.8 17.0 1.0
N D:CYS104 4.9 16.1 1.0

Copper binding site 9 out of 15 in 6q58

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Copper binding site 9 out of 15 in the Copper Loading to A Cytosolic Copper Storage Protein From Streptomyces Lividans (Five Coppers)


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 9 of Copper Loading to A Cytosolic Copper Storage Protein From Streptomyces Lividans (Five Coppers) within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cu202

b:20.1
occ:1.00
 ND1 D:HIS113 2.0 14.2 1.0
SG D:CYS41 2.2 14.8 1.0
SG D:CYS114 2.5 16.3 1.0
CE1 D:HIS113 2.9 16.9 1.0
N D:CYS114 3.0 15.1 1.0
CG D:HIS113 3.1 16.5 1.0
CU D:CU1201 3.2 22.6 1.0
CA D:CYS114 3.3 14.5 1.0
C D:HIS113 3.3 16.3 1.0
SG D:CYS45 3.4 18.2 1.0
CB D:CYS114 3.4 15.6 1.0
CB D:CYS41 3.5 16.1 1.0
CB D:HIS113 3.6 17.6 1.0
CU D:CU1204 3.7 28.7 1.0
O D:CYS41 3.7 13.8 1.0
O D:HIS113 3.7 17.5 1.0
CA D:CYS41 3.9 15.3 1.0
CA D:HIS113 4.0 17.5 1.0
NE2 D:HIS113 4.0 16.7 1.0
C D:CYS41 4.1 14.1 1.0
CD2 D:HIS113 4.2 15.8 1.0
SG D:CYS57 4.7 19.6 1.0
C D:CYS114 4.7 16.7 1.0
N D:HIS113 4.8 18.5 1.0
N D:CYS45 4.8 14.8 1.0
CB D:ALA44 4.9 16.1 1.0
CB D:CYS45 4.9 15.8 1.0
CB D:HIS111 4.9 18.2 1.0
O D:HOH337 5.0 32.9 1.0

Copper binding site 10 out of 15 in 6q58

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Copper binding site 10 out of 15 in the Copper Loading to A Cytosolic Copper Storage Protein From Streptomyces Lividans (Five Coppers)


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 10 of Copper Loading to A Cytosolic Copper Storage Protein From Streptomyces Lividans (Five Coppers) within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cu203

b:32.6
occ:1.00
 SG D:CYS57 2.1 19.6 1.0
SG D:CYS104 2.1 19.8 1.0
O D:HOH378 2.2 18.9 1.0
CU D:CU1204 2.5 28.7 1.0
OD1 D:ASP61 2.9 17.8 1.0
CU D:CU1201 3.2 22.6 1.0
CA D:CYS104 3.2 16.4 1.0
CB D:CYS104 3.2 17.4 1.0
N D:CYS104 3.4 16.1 1.0
CB D:CYS57 3.4 18.1 1.0
CG D:ASP61 3.7 16.3 1.0
O D:CYS57 3.7 13.9 1.0
CA D:CYS57 3.7 15.1 1.0
OD2 D:ASP61 3.8 15.3 1.0
C D:CYS57 4.0 13.9 1.0
O D:CYS100 4.0 16.0 1.0
SG D:CYS41 4.1 14.8 1.0
C D:GLU103 4.1 16.5 1.0
SG D:CYS100 4.4 16.9 1.0
O D:GLU103 4.6 17.0 1.0
CB D:GLU103 4.7 18.3 1.0
CG D:GLU103 4.7 18.5 1.0
C D:CYS104 4.7 17.0 1.0
SG D:CYS114 5.0 16.3 1.0
CA D:GLU103 5.0 16.7 1.0

Reference:

M.L.Straw, M.A.Hough, M.T.Wilson, J.A.R.Worrall. A Histidine Residue and A Tetranuclear Cuprous-Thiolate Cluster Dominate the Copper Loading Landscape of A Copper Storage Protein From Streptomyces Lividans. Chemistry V. 25 10678 2019.
ISSN: ISSN 0947-6539
PubMed: 31111982
DOI: 10.1002/CHEM.201901411
Page generated: Wed Jul 31 06:46:59 2024

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