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Cadmium in PDB 8j0u: Crystal Structure of Horse Spleen L-Ferritin A115T Mutant at -180DEG Celsius.

Protein crystallography data

The structure of Crystal Structure of Horse Spleen L-Ferritin A115T Mutant at -180DEG Celsius., PDB code: 8j0u was solved by B.Maity, J.Tian, S.Abe, T.Ueno, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 23.60 / 1.50
Space group F 4 3 2
Cell size a, b, c (Å), α, β, γ (°) 181.156, 181.156, 181.156, 90, 90, 90
R / Rfree (%) 15.9 / 18.1

Other elements in 8j0u:

The structure of Crystal Structure of Horse Spleen L-Ferritin A115T Mutant at -180DEG Celsius. also contains other interesting chemical elements:

Chlorine (Cl) 1 atom
Sodium (Na) 1 atom

Cadmium Binding Sites:

The binding sites of Cadmium atom in the Crystal Structure of Horse Spleen L-Ferritin A115T Mutant at -180DEG Celsius. (pdb code 8j0u). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 9 binding sites of Cadmium where determined in the Crystal Structure of Horse Spleen L-Ferritin A115T Mutant at -180DEG Celsius., PDB code: 8j0u:
Jump to Cadmium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Cadmium binding site 1 out of 9 in 8j0u

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Cadmium binding site 1 out of 9 in the Crystal Structure of Horse Spleen L-Ferritin A115T Mutant at -180DEG Celsius.


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of Crystal Structure of Horse Spleen L-Ferritin A115T Mutant at -180DEG Celsius. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd604

b:25.9
occ:0.15
 O A:HOH709 2.0 28.6 1.0
OD1 A:ASP127 2.6 14.1 0.5
OD1 A:ASP127 3.4 14.9 0.5
CG A:ASP127 3.7 13.2 0.5
OG A:SER131 3.9 25.2 1.0
OD2 A:ASP127 4.1 14.2 0.5
OE1 A:GLU130 4.4 21.3 1.0
CG A:ASP127 4.7 11.6 0.5
CB A:ASP127 5.0 11.8 0.5

Cadmium binding site 2 out of 9 in 8j0u

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Cadmium binding site 2 out of 9 in the Crystal Structure of Horse Spleen L-Ferritin A115T Mutant at -180DEG Celsius.


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 2 of Crystal Structure of Horse Spleen L-Ferritin A115T Mutant at -180DEG Celsius. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd605

b:17.8
occ:0.25
 CD A:CD612 1.9 22.5 0.1
OE1 A:GLU130 2.3 21.3 1.0
CD A:GLU130 2.9 17.8 1.0
OE2 A:GLU130 3.1 13.8 1.0
CG A:GLU130 4.3 14.4 1.0
CD A:CD607 4.5 24.7 0.2
O A:HOH914 4.8 41.5 1.0
OD1 A:ASP127 4.9 14.1 0.5
CB A:GLU130 4.9 12.9 1.0

Cadmium binding site 3 out of 9 in 8j0u

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Cadmium binding site 3 out of 9 in the Crystal Structure of Horse Spleen L-Ferritin A115T Mutant at -180DEG Celsius.


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 3 of Crystal Structure of Horse Spleen L-Ferritin A115T Mutant at -180DEG Celsius. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd606

b:9.1
occ:0.30
 CD A:CD611 1.3 11.3 0.2
OD1 A:ASP80 2.4 12.1 1.0
CL A:CL616 2.4 37.9 1.0
OD2 A:ASP80 2.5 19.9 1.0
CG A:ASP80 2.9 17.5 1.0
CB A:ASP80 4.4 14.5 1.0
O A:HOH750 4.4 16.3 1.0
O A:HOH716 4.5 21.5 1.0

Cadmium binding site 4 out of 9 in 8j0u

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Cadmium binding site 4 out of 9 in the Crystal Structure of Horse Spleen L-Ferritin A115T Mutant at -180DEG Celsius.


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 4 of Crystal Structure of Horse Spleen L-Ferritin A115T Mutant at -180DEG Celsius. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd607

b:24.7
occ:0.20
 CE1 A:HIS114 2.8 8.9 1.0
NE2 A:HIS114 3.1 10.1 1.0
OE2 A:GLU130 3.1 13.8 1.0
O A:HOH914 3.2 41.5 1.0
CB A:CYS126 3.6 10.6 1.0
SG A:CYS126 3.9 12.3 1.0
ND1 A:HIS114 4.0 10.4 1.0
OG A:SER118 4.0 11.6 0.5
CD A:CD612 4.1 22.5 0.1
CD A:GLU130 4.3 17.8 1.0
CD2 A:HIS114 4.4 9.1 1.0
CD A:CD605 4.5 17.8 0.2
CG A:HIS114 4.8 9.2 1.0
CA A:CYS126 4.8 9.9 1.0
OE1 A:GLU130 4.9 21.3 1.0
OG A:SER118 4.9 14.3 0.5

Cadmium binding site 5 out of 9 in 8j0u

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Cadmium binding site 5 out of 9 in the Crystal Structure of Horse Spleen L-Ferritin A115T Mutant at -180DEG Celsius.


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 5 of Crystal Structure of Horse Spleen L-Ferritin A115T Mutant at -180DEG Celsius. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd608

b:25.4
occ:0.15
 O A:HOH815 1.9 32.2 1.0
OE2 A:GLU11 2.4 12.7 1.0
OE1 A:GLU11 2.6 18.8 1.0
CD A:GLU11 2.8 15.8 1.0
O A:HOH833 3.0 21.0 1.0
O A:HOH893 3.6 36.7 1.0
OG1 A:THR10 4.0 14.7 1.0
CG A:GLU11 4.4 12.6 1.0
OE1 A:GLN120 4.6 18.1 1.0
CB A:SER9 4.6 8.3 1.0
NE2 A:GLN120 4.7 22.3 1.0
N A:THR10 4.8 8.7 1.0
CD A:GLN120 5.0 18.0 1.0
N A:GLU11 5.0 8.2 1.0

Cadmium binding site 6 out of 9 in 8j0u

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Cadmium binding site 6 out of 9 in the Crystal Structure of Horse Spleen L-Ferritin A115T Mutant at -180DEG Celsius.


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 6 of Crystal Structure of Horse Spleen L-Ferritin A115T Mutant at -180DEG Celsius. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd609

b:17.9
occ:0.15
 O A:HOH707 2.0 27.1 1.0
OE2 A:GLU56 2.1 33.6 1.0
OE2 A:GLU60 2.2 23.4 1.0
CD A:GLU60 3.0 20.5 1.0
OE1 A:GLU60 3.0 21.8 1.0
CD A:GLU56 3.1 26.3 1.0
CG A:GLU56 3.6 16.1 1.0
OE1 A:GLU56 4.2 33.3 1.0
CG A:GLU60 4.4 13.9 1.0
CB A:GLU56 4.9 11.4 1.0
O A:HOH714 4.9 38.7 1.0

Cadmium binding site 7 out of 9 in 8j0u

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Cadmium binding site 7 out of 9 in the Crystal Structure of Horse Spleen L-Ferritin A115T Mutant at -180DEG Celsius.


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 7 of Crystal Structure of Horse Spleen L-Ferritin A115T Mutant at -180DEG Celsius. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd610

b:15.4
occ:0.15
 O A:HOH740 1.8 31.8 1.0
NE2 A:HIS132 2.1 23.5 1.0
CE1 A:HIS132 2.8 22.8 1.0
CD2 A:HIS132 3.3 21.4 1.0
O A:HOH881 3.7 29.7 1.0
ND1 A:HIS132 4.0 20.7 1.0
CG A:HIS132 4.3 17.4 1.0
NH2 A:ARG64 4.3 33.4 1.0

Cadmium binding site 8 out of 9 in 8j0u

Go back to Cadmium Binding Sites List in 8j0u
Cadmium binding site 8 out of 9 in the Crystal Structure of Horse Spleen L-Ferritin A115T Mutant at -180DEG Celsius.


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 8 of Crystal Structure of Horse Spleen L-Ferritin A115T Mutant at -180DEG Celsius. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd611

b:11.3
occ:0.20
 CD A:CD606 1.3 9.1 0.3
OD2 A:ASP80 1.7 19.9 1.0
CG A:ASP80 2.2 17.5 1.0
OD1 A:ASP80 2.3 12.1 1.0
CL A:CL616 3.4 37.9 1.0
O A:HOH716 3.4 21.5 1.0
CB A:ASP80 3.6 14.5 1.0
O A:HOH750 4.4 16.3 1.0
CA A:ASP80 4.8 12.4 1.0

Cadmium binding site 9 out of 9 in 8j0u

Go back to Cadmium Binding Sites List in 8j0u
Cadmium binding site 9 out of 9 in the Crystal Structure of Horse Spleen L-Ferritin A115T Mutant at -180DEG Celsius.


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 9 of Crystal Structure of Horse Spleen L-Ferritin A115T Mutant at -180DEG Celsius. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd612

b:22.5
occ:0.10
 CD A:CD605 1.9 17.8 0.2
CD A:CD607 4.1 24.7 0.2
OE1 A:GLU130 4.1 21.3 1.0
OE2 A:GLU130 4.1 13.8 1.0
O A:HOH914 4.2 41.5 1.0
CD A:GLU130 4.4 17.8 1.0

Reference:

B.Maity, J.Tian, S.Abe, T.Ueno. Crystal Structure of Horse Spleen L-Ferritin A115T Mutant at -180DEG Celsius. To Be Published.
Page generated: Fri Jul 19 20:32:56 2024

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