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Silver in PDB 5f0w: Crystal Structure of Human Copper Homeostatic Proteins ATOX1

Protein crystallography data

The structure of Crystal Structure of Human Copper Homeostatic Proteins ATOX1, PDB code: 5f0w was solved by W.Wei, F.Wang, J.Zhao, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 24.48 / 2.70
Space group P 62
Cell size a, b, c (Å), α, β, γ (°) 112.493, 112.493, 56.634, 90.00, 90.00, 120.00
R / Rfree (%) 26.1 / 28.9

Silver Binding Sites:

The binding sites of Silver atom in the Crystal Structure of Human Copper Homeostatic Proteins ATOX1 (pdb code 5f0w). This binding sites where shown within 5.0 Angstroms radius around Silver atom.
In total 8 binding sites of Silver where determined in the Crystal Structure of Human Copper Homeostatic Proteins ATOX1, PDB code: 5f0w:
Jump to Silver binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Silver binding site 1 out of 8 in 5f0w

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Silver binding site 1 out of 8 in the Crystal Structure of Human Copper Homeostatic Proteins ATOX1


Mono view


Stereo pair view

A full contact list of Silver with other atoms in the Ag binding site number 1 of Crystal Structure of Human Copper Homeostatic Proteins ATOX1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ag101

b:34.4
occ:1.00
 SG B:CYS12 2.4 21.1 1.0
O A:HOH203 2.5 11.2 1.0
SG A:CYS15 2.7 22.4 1.0
OG1 B:THR11 2.9 21.1 1.0
AG A:AG102 2.9 32.9 1.0
AG B:AG102 3.0 30.6 1.0
N A:CYS15 3.3 22.7 1.0
CB B:CYS12 3.3 22.1 1.0
NZ A:LYS60 3.5 29.9 1.0
CA A:CYS15 3.6 23.7 1.0
C A:GLY14 3.7 21.8 1.0
CB A:CYS15 3.7 23.2 1.0
CB B:THR11 4.0 20.1 1.0
N B:CYS12 4.1 21.9 1.0
O A:GLY14 4.1 21.3 1.0
C B:THR11 4.1 23.1 1.0
O B:THR11 4.2 25.2 1.0
CE A:LYS60 4.3 30.0 1.0
CA B:CYS12 4.3 21.2 1.0
CA A:GLY14 4.4 21.9 1.0
SG A:CYS12 4.6 26.9 1.0
CA B:THR11 4.7 22.5 1.0
SG B:CYS15 4.9 25.0 1.0
AG B:AG101 4.9 35.6 1.0
N A:GLY14 5.0 21.7 1.0

Silver binding site 2 out of 8 in 5f0w

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Silver binding site 2 out of 8 in the Crystal Structure of Human Copper Homeostatic Proteins ATOX1


Mono view


Stereo pair view

A full contact list of Silver with other atoms in the Ag binding site number 2 of Crystal Structure of Human Copper Homeostatic Proteins ATOX1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ag102

b:32.9
occ:1.00
 SG A:CYS15 2.3 22.4 1.0
SG A:CYS12 2.4 26.9 1.0
AG A:AG101 2.9 34.4 1.0
AG B:AG101 3.0 35.6 1.0
N A:CYS12 3.0 25.0 1.0
OG1 A:THR11 3.2 23.9 1.0
AG B:AG102 3.2 30.6 1.0
CB A:CYS15 3.3 23.2 1.0
CB A:CYS12 3.4 24.7 1.0
N A:CYS15 3.4 22.7 1.0
O A:CYS12 3.4 20.5 1.0
CA A:CYS12 3.4 24.2 1.0
C A:CYS12 3.6 22.5 1.0
SG B:CYS12 3.7 21.1 1.0
C A:THR11 3.9 24.3 1.0
CA A:CYS15 3.9 23.7 1.0
N A:THR11 4.0 27.2 1.0
CA A:THR11 4.2 25.7 1.0
N A:GLY14 4.2 21.7 1.0
CB A:THR11 4.3 23.9 1.0
C A:GLY14 4.3 21.8 1.0
SG B:CYS15 4.4 25.0 1.0
OG1 B:THR11 4.4 21.1 1.0
N A:GLY13 4.4 24.0 1.0
CA A:GLY14 4.5 21.9 1.0
O A:THR11 4.7 22.6 1.0
C A:GLY13 5.0 23.4 1.0

Silver binding site 3 out of 8 in 5f0w

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Silver binding site 3 out of 8 in the Crystal Structure of Human Copper Homeostatic Proteins ATOX1


Mono view


Stereo pair view

A full contact list of Silver with other atoms in the Ag binding site number 3 of Crystal Structure of Human Copper Homeostatic Proteins ATOX1 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ag101

b:35.6
occ:1.00
 O B:HOH202 2.4 9.6 1.0
SG A:CYS12 2.5 26.9 1.0
SG B:CYS15 2.6 25.0 1.0
OG1 A:THR11 2.7 23.9 1.0
AG B:AG102 3.0 30.6 1.0
AG A:AG102 3.0 32.9 1.0
N B:CYS15 3.2 25.1 1.0
CB A:CYS12 3.3 24.7 1.0
CA B:CYS15 3.4 25.6 1.0
NZ B:LYS60 3.5 26.4 1.0
C B:GLY14 3.6 24.4 1.0
CB B:CYS15 3.6 24.8 1.0
CB A:THR11 3.9 23.9 1.0
O B:GLY14 3.9 22.2 1.0
N A:CYS12 4.0 25.0 1.0
C A:THR11 4.1 24.3 1.0
O A:THR11 4.1 22.6 1.0
CE B:LYS60 4.2 25.7 1.0
CA A:CYS12 4.3 24.2 1.0
CA B:GLY14 4.3 25.0 1.0
CA A:THR11 4.6 25.7 1.0
SG B:CYS12 4.6 21.1 1.0
SG A:CYS15 4.9 22.4 1.0
C B:CYS15 4.9 27.3 1.0
N B:GLY14 4.9 26.6 1.0
AG A:AG101 4.9 34.4 1.0

Silver binding site 4 out of 8 in 5f0w

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Silver binding site 4 out of 8 in the Crystal Structure of Human Copper Homeostatic Proteins ATOX1


Mono view


Stereo pair view

A full contact list of Silver with other atoms in the Ag binding site number 4 of Crystal Structure of Human Copper Homeostatic Proteins ATOX1 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ag102

b:30.6
occ:1.00
 SG B:CYS12 2.3 21.1 1.0
SG B:CYS15 2.4 25.0 1.0
AG A:AG101 3.0 34.4 1.0
AG B:AG101 3.0 35.6 1.0
N B:CYS12 3.0 21.9 1.0
OG1 B:THR11 3.1 21.1 1.0
AG A:AG102 3.2 32.9 1.0
CB B:CYS12 3.3 22.1 1.0
CA B:CYS12 3.4 21.2 1.0
CB B:CYS15 3.4 24.8 1.0
O B:CYS12 3.4 21.4 1.0
N B:CYS15 3.4 25.1 1.0
C B:CYS12 3.5 22.0 1.0
SG A:CYS12 3.7 26.9 1.0
C B:THR11 3.8 23.1 1.0
CA B:CYS15 4.0 25.6 1.0
N B:THR11 4.0 23.3 1.0
CA B:THR11 4.2 22.5 1.0
N B:GLY14 4.2 26.6 1.0
CB B:THR11 4.2 20.1 1.0
C B:GLY14 4.3 24.4 1.0
SG A:CYS15 4.4 22.4 1.0
N B:GLY13 4.4 23.5 1.0
OG1 A:THR11 4.4 23.9 1.0
CA B:GLY14 4.5 25.0 1.0
O B:THR11 4.6 25.2 1.0

Silver binding site 5 out of 8 in 5f0w

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Silver binding site 5 out of 8 in the Crystal Structure of Human Copper Homeostatic Proteins ATOX1


Mono view


Stereo pair view

A full contact list of Silver with other atoms in the Ag binding site number 5 of Crystal Structure of Human Copper Homeostatic Proteins ATOX1 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ag101

b:44.0
occ:1.00
 SG D:CYS12 2.5 33.8 1.0
SG C:CYS15 2.5 40.2 1.0
OG1 D:THR11 2.8 36.9 1.0
O D:HOH202 2.8 18.3 1.0
AG C:AG102 2.9 38.9 1.0
N C:CYS15 3.0 36.5 1.0
AG D:AG102 3.1 41.4 1.0
CA C:CYS15 3.1 40.0 1.0
CB D:CYS12 3.3 33.7 1.0
CB C:CYS15 3.4 37.2 1.0
C C:GLY14 3.5 33.3 1.0
NZ C:LYS60 3.7 39.6 1.0
O C:GLY14 3.8 29.9 1.0
CB D:THR11 3.9 38.2 1.0
N D:CYS12 4.0 36.5 1.0
C D:THR11 4.0 37.7 1.0
O D:THR11 4.1 38.5 1.0
CA D:CYS12 4.2 35.5 1.0
CA C:GLY14 4.3 33.1 1.0
CE C:LYS60 4.4 39.0 1.0
CA D:THR11 4.6 38.9 1.0
C C:CYS15 4.6 41.4 1.0
SG D:CYS15 4.7 30.1 1.0
SG C:CYS12 4.9 39.4 1.0
N C:GLY14 5.0 32.1 1.0

Silver binding site 6 out of 8 in 5f0w

Go back to Silver Binding Sites List in 5f0w
Silver binding site 6 out of 8 in the Crystal Structure of Human Copper Homeostatic Proteins ATOX1


Mono view


Stereo pair view

A full contact list of Silver with other atoms in the Ag binding site number 6 of Crystal Structure of Human Copper Homeostatic Proteins ATOX1 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ag102

b:38.9
occ:1.00
 SG C:CYS15 2.3 40.2 1.0
SG C:CYS12 2.6 39.4 1.0
AG C:AG101 2.9 44.0 1.0
N C:CYS12 3.0 38.1 1.0
AG D:AG101 3.1 52.0 1.0
AG D:AG102 3.1 41.4 1.0
N C:CYS15 3.2 36.5 1.0
CB C:CYS15 3.2 37.2 1.0
O C:CYS12 3.3 40.4 1.0
OG1 C:THR11 3.4 40.9 1.0
CA C:CYS12 3.4 36.1 1.0
C C:CYS12 3.5 36.2 1.0
CB C:CYS12 3.5 36.0 1.0
SG D:CYS12 3.5 33.8 1.0
CA C:CYS15 3.7 40.0 1.0
C C:THR11 3.9 38.4 1.0
N C:THR11 4.0 43.4 1.0
N C:GLY14 4.1 32.1 1.0
C C:GLY14 4.1 33.3 1.0
SG D:CYS15 4.3 30.1 1.0
CA C:THR11 4.3 41.7 1.0
CA C:GLY14 4.4 33.1 1.0
OG1 D:THR11 4.4 36.9 1.0
N C:GLY13 4.4 35.4 1.0
CB C:THR11 4.5 41.2 1.0
O C:THR11 4.7 38.5 1.0
C C:GLY13 4.9 33.7 1.0

Silver binding site 7 out of 8 in 5f0w

Go back to Silver Binding Sites List in 5f0w
Silver binding site 7 out of 8 in the Crystal Structure of Human Copper Homeostatic Proteins ATOX1


Mono view


Stereo pair view

A full contact list of Silver with other atoms in the Ag binding site number 7 of Crystal Structure of Human Copper Homeostatic Proteins ATOX1 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ag101

b:52.0
occ:1.00
 SG C:CYS12 2.3 39.4 1.0
SG D:CYS15 2.6 30.1 1.0
AG D:AG102 2.8 41.4 1.0
O D:HOH203 2.9 17.9 1.0
AG C:AG102 3.1 38.9 1.0
N D:CYS15 3.2 28.9 1.0
OG1 C:THR11 3.3 40.9 1.0
CB C:CYS12 3.3 36.0 1.0
NZ D:LYS60 3.3 51.3 1.0
CA D:CYS15 3.4 31.0 1.0
CB D:CYS15 3.5 33.4 1.0
C D:GLY14 3.6 27.4 1.0
O D:GLY14 3.9 27.8 1.0
CE D:LYS60 4.1 49.7 1.0
N C:CYS12 4.1 38.1 1.0
C C:THR11 4.3 38.4 1.0
CA C:CYS12 4.3 36.1 1.0
CA D:GLY14 4.3 28.2 1.0
O C:THR11 4.4 38.5 1.0
CB C:THR11 4.4 41.2 1.0
SG D:CYS12 4.6 33.8 1.0
C D:CYS15 4.9 33.5 1.0
N D:GLY14 4.9 31.2 1.0
CA C:THR11 5.0 41.7 1.0

Silver binding site 8 out of 8 in 5f0w

Go back to Silver Binding Sites List in 5f0w
Silver binding site 8 out of 8 in the Crystal Structure of Human Copper Homeostatic Proteins ATOX1


Mono view


Stereo pair view

A full contact list of Silver with other atoms in the Ag binding site number 8 of Crystal Structure of Human Copper Homeostatic Proteins ATOX1 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ag102

b:41.4
occ:1.00
 SG D:CYS15 2.1 30.1 1.0
SG D:CYS12 2.5 33.8 1.0
AG D:AG101 2.8 52.0 1.0
AG C:AG101 3.1 44.0 1.0
N D:CYS12 3.1 36.5 1.0
AG C:AG102 3.1 38.9 1.0
CB D:CYS15 3.2 33.4 1.0
OG1 D:THR11 3.2 36.9 1.0
N D:CYS15 3.3 28.9 1.0
O D:CYS12 3.4 33.7 1.0
CB D:CYS12 3.5 33.7 1.0
CA D:CYS12 3.5 35.5 1.0
C D:CYS12 3.6 38.9 1.0
SG C:CYS12 3.6 39.4 1.0
CA D:CYS15 3.8 31.0 1.0
C D:THR11 3.9 37.7 1.0
N D:THR11 3.9 38.3 1.0
N D:GLY14 4.2 31.2 1.0
CA D:THR11 4.2 38.9 1.0
C D:GLY14 4.2 27.4 1.0
CB D:THR11 4.3 38.2 1.0
SG C:CYS15 4.4 40.2 1.0
CA D:GLY14 4.5 28.2 1.0
N D:GLY13 4.5 39.4 1.0
OG1 C:THR11 4.7 40.9 1.0
O D:THR11 4.8 38.5 1.0
C D:MET10 5.0 41.3 1.0
C D:GLY13 5.0 33.2 1.0

Reference:

W.Wei, F.Wang, J.Zhao. Structure of Tetrasilver Bound to Human Copper Homeostatic Proteins ATOX1 at 1.7 Angstroms Resolution To Be Published.
Page generated: Wed Jul 10 08:24:17 2024

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