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Cadmium in PDB 6hhs: Mamm Ctd E289D - Cadmium Form

Protein crystallography data

The structure of Mamm Ctd E289D - Cadmium Form, PDB code: 6hhs was solved by S.Barber-Zucker, R.Zarivach, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.27 / 2.70
Space group I 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 83.599, 94.545, 107.490, 90.00, 91.76, 90.00
R / Rfree (%) 25 / 29

Cadmium Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 12;

Binding sites:

The binding sites of Cadmium atom in the Mamm Ctd E289D - Cadmium Form (pdb code 6hhs). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 12 binding sites of Cadmium where determined in the Mamm Ctd E289D - Cadmium Form, PDB code: 6hhs:
Jump to Cadmium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Cadmium binding site 1 out of 12 in 6hhs

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Cadmium binding site 1 out of 12 in the Mamm Ctd E289D - Cadmium Form


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of Mamm Ctd E289D - Cadmium Form within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd401

b:25.2
occ:1.00
OE2 C:GLU282 2.0 32.7 1.0
NE2 A:HIS236 2.2 31.8 1.0
NE2 D:HIS285 2.2 28.8 1.0
CD C:GLU282 2.7 31.3 1.0
OE1 C:GLU282 2.7 31.3 1.0
CE1 A:HIS236 3.1 33.8 1.0
CE1 D:HIS285 3.2 27.8 1.0
CD2 A:HIS236 3.2 29.6 1.0
CD2 D:HIS285 3.2 28.0 1.0
OD2 C:ASP245 3.9 35.4 1.0
OD2 A:ASP289 4.1 30.3 1.0
CG C:GLU282 4.2 29.7 1.0
ND1 A:HIS236 4.3 32.5 1.0
ND1 D:HIS285 4.3 27.2 1.0
CG A:HIS236 4.3 30.1 1.0
O D:HOH514 4.3 29.2 1.0
O C:HOH509 4.4 11.6 1.0
CG D:HIS285 4.4 26.6 1.0
CG2 A:ILE235 4.5 32.0 1.0
CG C:ASP245 4.7 33.0 1.0
O C:VAL242 4.7 36.2 1.0
NE1 C:TRP247 4.8 42.9 1.0
CB C:ASP245 4.9 31.8 1.0

Cadmium binding site 2 out of 12 in 6hhs

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Cadmium binding site 2 out of 12 in the Mamm Ctd E289D - Cadmium Form


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 2 of Mamm Ctd E289D - Cadmium Form within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd402

b:28.2
occ:1.00
O G:HOH404 2.1 9.5 1.0
O A:HOH502 2.1 3.2 1.0
OD2 A:ASP245 2.3 37.7 1.0
OD1 G:ASP289 2.4 28.6 1.0
OD2 G:ASP289 2.7 27.3 1.0
OD1 A:ASP245 2.7 35.4 1.0
CG A:ASP245 2.8 36.0 1.0
CG G:ASP289 2.8 27.5 1.0
NE2 B:HIS264 3.0 32.8 1.0
CE1 B:HIS264 3.6 32.5 1.0
CD2 B:HIS264 3.6 33.3 1.0
O G:HOH401 3.8 8.2 1.0
O G:HOH405 4.0 29.0 1.0
OE2 A:GLU282 4.1 35.6 1.0
CB A:ASP245 4.3 34.7 1.0
CB G:ASP289 4.3 26.5 1.0
ND1 B:HIS264 4.4 32.8 1.0
CG B:HIS264 4.4 32.8 1.0
O G:ALA290 4.4 29.4 1.0
O A:HOH509 4.7 19.5 1.0
N G:ALA290 4.8 28.0 1.0
N A:ASP245 4.9 36.4 1.0

Cadmium binding site 3 out of 12 in 6hhs

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Cadmium binding site 3 out of 12 in the Mamm Ctd E289D - Cadmium Form


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 3 of Mamm Ctd E289D - Cadmium Form within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd403

b:30.0
occ:1.00
O G:HOH401 1.8 8.2 1.0
OE2 A:GLU282 2.1 35.6 1.0
NE2 B:HIS285 2.2 31.4 1.0
NE2 G:HIS236 2.3 29.9 1.0
OE1 A:GLU282 2.6 33.4 1.0
CD A:GLU282 2.7 33.8 1.0
CD2 G:HIS236 3.1 28.5 1.0
CD2 B:HIS285 3.1 30.7 1.0
CE1 B:HIS285 3.3 30.7 1.0
CE1 G:HIS236 3.4 31.5 1.0
OD2 A:ASP245 3.9 37.7 1.0
O A:HOH502 3.9 3.2 1.0
OD2 G:ASP289 4.1 27.3 1.0
CG A:GLU282 4.2 32.0 1.0
CG G:HIS236 4.3 29.1 1.0
CG B:HIS285 4.3 29.5 1.0
ND1 B:HIS285 4.3 29.9 1.0
ND1 G:HIS236 4.4 31.2 1.0
CG2 G:ILE235 4.6 27.4 1.0
NE1 A:TRP247 4.7 56.6 1.0
CG A:ASP245 4.7 36.0 1.0
O A:VAL242 4.8 39.1 1.0
CB A:ASP245 4.9 34.7 1.0

Cadmium binding site 4 out of 12 in 6hhs

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Cadmium binding site 4 out of 12 in the Mamm Ctd E289D - Cadmium Form


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 4 of Mamm Ctd E289D - Cadmium Form within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd404

b:34.7
occ:1.00
O D:HOH505 1.9 11.4 1.0
OE2 B:GLU282 2.0 38.0 1.0
NE2 A:HIS285 2.1 30.5 1.0
OE1 B:GLU282 2.5 35.3 1.0
CD B:GLU282 2.5 35.1 1.0
NE2 D:HIS236 2.6 36.1 1.0
CD2 A:HIS285 3.0 29.8 1.0
CE1 A:HIS285 3.2 29.2 1.0
CD2 D:HIS236 3.3 34.9 1.0
CE1 D:HIS236 3.6 34.5 1.0
OD2 B:ASP245 3.9 38.1 1.0
CG B:GLU282 4.0 33.4 1.0
O B:HOH501 4.1 3.9 1.0
CG A:HIS285 4.2 27.9 1.0
OD2 D:ASP289 4.3 35.5 1.0
ND1 A:HIS285 4.3 28.1 1.0
CG D:HIS236 4.4 32.8 1.0
ND1 D:HIS236 4.5 32.4 1.0
O A:HOH508 4.6 17.3 1.0
CG2 D:ILE235 4.6 32.4 1.0
NE1 B:TRP247 4.6 43.8 1.0
CG B:ASP245 4.7 36.6 1.0
O B:VAL242 4.8 36.3 1.0
CB B:ASP245 4.9 35.8 1.0
CB B:GLU282 4.9 32.1 1.0

Cadmium binding site 5 out of 12 in 6hhs

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Cadmium binding site 5 out of 12 in the Mamm Ctd E289D - Cadmium Form


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 5 of Mamm Ctd E289D - Cadmium Form within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd405

b:24.2
occ:1.00
O C:HOH509 2.2 11.6 1.0
OD2 C:ASP245 2.3 35.4 1.0
NE2 D:HIS264 2.3 27.0 1.0
O A:HOH510 2.4 18.3 1.0
OD1 A:ASP289 2.5 30.2 1.0
OD2 A:ASP289 2.6 30.3 1.0
OD1 C:ASP245 2.9 32.3 1.0
CG A:ASP289 2.9 29.8 1.0
CG C:ASP245 2.9 33.0 1.0
CD2 D:HIS264 3.0 27.9 1.0
CE1 D:HIS264 3.5 27.0 1.0
O C:HOH507 4.0 24.0 1.0
O C:HOH502 4.1 18.6 1.0
CG D:HIS264 4.3 28.5 1.0
OE2 C:GLU282 4.3 32.7 1.0
CB C:ASP245 4.4 31.8 1.0
CB A:ASP289 4.4 28.3 1.0
ND1 D:HIS264 4.5 27.5 1.0
O A:ALA290 4.5 35.5 1.0
N A:ALA290 4.9 31.9 1.0
N C:ASP245 5.0 34.1 1.0

Cadmium binding site 6 out of 12 in 6hhs

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Cadmium binding site 6 out of 12 in the Mamm Ctd E289D - Cadmium Form


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 6 of Mamm Ctd E289D - Cadmium Form within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cd401

b:29.6
occ:1.00
O B:HOH501 1.8 3.9 1.0
OD2 B:ASP245 2.3 38.1 1.0
NE2 A:HIS264 2.3 31.9 1.0
OD1 D:ASP289 2.5 36.4 1.0
OD2 D:ASP289 2.6 35.5 1.0
OD1 B:ASP245 2.7 35.8 1.0
CG B:ASP245 2.8 36.6 1.0
CG D:ASP289 2.8 34.8 1.0
CD2 A:HIS264 3.0 32.0 1.0
CE1 A:HIS264 3.5 31.6 1.0
O D:HOH504 3.8 17.1 1.0
O B:HOH510 3.9 32.5 1.0
OE2 B:GLU282 4.1 38.0 1.0
O D:HOH505 4.3 11.4 1.0
CG A:HIS264 4.3 31.7 1.0
O D:ALA290 4.3 36.5 1.0
CB B:ASP245 4.3 35.8 1.0
CB D:ASP289 4.4 32.4 1.0
ND1 A:HIS264 4.5 31.7 1.0
O A:HOH508 4.6 17.3 1.0
N D:ALA290 4.8 34.0 1.0
N B:ASP245 5.0 37.1 1.0

Cadmium binding site 7 out of 12 in 6hhs

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Cadmium binding site 7 out of 12 in the Mamm Ctd E289D - Cadmium Form


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 7 of Mamm Ctd E289D - Cadmium Form within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cd401

b:29.3
occ:1.00
OE2 D:GLU282 2.1 32.1 1.0
NE2 C:HIS285 2.2 26.9 1.0
NE2 E:HIS236 2.2 30.5 1.0
O E:HOH503 2.4 29.5 1.0
OE1 D:GLU282 2.6 30.9 1.0
CD D:GLU282 2.6 31.5 1.0
CD2 E:HIS236 3.2 29.2 1.0
CE1 C:HIS285 3.2 25.7 1.0
CD2 C:HIS285 3.2 26.3 1.0
CE1 E:HIS236 3.2 32.4 1.0
OD2 D:ASP245 3.6 37.5 1.0
OD2 E:ASP289 4.0 32.3 1.0
CG D:GLU282 4.1 30.4 1.0
O D:HOH509 4.2 17.2 1.0
ND1 E:HIS236 4.3 31.8 1.0
ND1 C:HIS285 4.3 24.4 1.0
CG E:HIS236 4.3 29.7 1.0
CG C:HIS285 4.3 24.8 1.0
CG2 E:ILE235 4.4 32.5 1.0
CG D:ASP245 4.5 35.3 1.0
O D:VAL242 4.8 35.3 1.0
CB D:ASP245 4.8 33.8 1.0
NE1 D:TRP247 4.9 54.2 1.0

Cadmium binding site 8 out of 12 in 6hhs

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Cadmium binding site 8 out of 12 in the Mamm Ctd E289D - Cadmium Form


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 8 of Mamm Ctd E289D - Cadmium Form within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cd402

b:26.4
occ:1.00
NE2 E:HIS285 2.2 30.0 1.0
NE2 C:HIS236 2.3 26.8 1.0
CE1 E:HIS285 3.2 29.6 1.0
CD2 E:HIS285 3.2 30.5 1.0
CD2 C:HIS236 3.2 25.3 1.0
CE1 C:HIS236 3.3 28.6 1.0
OD2 C:ASP289 3.9 30.0 1.0
ND1 E:HIS285 4.3 29.1 1.0
CG E:HIS285 4.3 28.8 1.0
ND1 C:HIS236 4.4 28.1 1.0
CG C:HIS236 4.4 25.9 1.0
CG2 C:ILE235 4.6 27.2 1.0
CD C:CD403 5.0 27.2 1.0

Cadmium binding site 9 out of 12 in 6hhs

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Cadmium binding site 9 out of 12 in the Mamm Ctd E289D - Cadmium Form


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 9 of Mamm Ctd E289D - Cadmium Form within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cd403

b:27.2
occ:1.00
O C:HOH501 1.7 7.0 1.0
NE2 E:HIS264 2.3 25.7 1.0
OD1 C:ASP289 2.5 28.4 1.0
OD2 C:ASP289 2.6 30.0 1.0
CG C:ASP289 2.9 28.2 1.0
CD2 E:HIS264 3.0 26.1 1.0
CE1 E:HIS264 3.4 25.8 1.0
CG E:HIS264 4.3 26.9 1.0
CB C:ASP289 4.4 26.3 1.0
ND1 E:HIS264 4.4 26.2 1.0
O C:ALA290 4.5 28.3 1.0
N C:ALA290 4.9 27.2 1.0
CD C:CD402 5.0 26.4 1.0

Cadmium binding site 10 out of 12 in 6hhs

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Cadmium binding site 10 out of 12 in the Mamm Ctd E289D - Cadmium Form


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 10 of Mamm Ctd E289D - Cadmium Form within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cd401

b:32.4
occ:1.00
O D:HOH509 1.9 17.2 1.0
NE2 C:HIS264 2.3 30.6 1.0
OD2 D:ASP245 2.4 37.5 1.0
OD2 E:ASP289 2.4 32.3 1.0
OD1 E:ASP289 2.4 33.8 1.0
CG E:ASP289 2.7 32.8 1.0
OD1 D:ASP245 2.8 34.7 1.0
O C:HOH504 2.9 41.7 1.0
CG D:ASP245 2.9 35.3 1.0
CD2 C:HIS264 3.1 30.9 1.0
CE1 C:HIS264 3.5 31.2 1.0
O C:HOH503 4.1 10.2 1.0
CB E:ASP289 4.3 31.6 1.0
CG C:HIS264 4.3 30.9 1.0
OE1 D:GLU282 4.3 30.9 1.0
O E:ALA290 4.4 38.7 1.0
O D:HOH508 4.4 16.4 1.0
CB D:ASP245 4.4 33.8 1.0
O E:HOH503 4.4 29.5 1.0
ND1 C:HIS264 4.5 31.0 1.0
O D:HOH512 4.8 8.7 1.0
N E:ALA290 4.8 33.6 1.0
N D:ASP245 5.0 35.4 1.0

Reference:

S.Barber-Zucker, R.Zarivach. Mamm Ctd E289D - Cadmium Form To Be Published.
Page generated: Sat Dec 12 08:28:37 2020

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