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Cadmium in PDB 4q0y: Crystal Structure of A Hypothetical Protein (CLOSPO_01618) From Clostridium Sporogenes Atcc 15579 at 1.70 A Resolution

Protein crystallography data

The structure of Crystal Structure of A Hypothetical Protein (CLOSPO_01618) From Clostridium Sporogenes Atcc 15579 at 1.70 A Resolution, PDB code: 4q0y was solved by Joint Center For Structural Genomics (Jcsg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.68 / 1.70
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 34.224, 96.134, 118.711, 90.00, 90.00, 90.00
R / Rfree (%) 18.4 / 20.2

Cadmium Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 17;

Binding sites:

The binding sites of Cadmium atom in the Crystal Structure of A Hypothetical Protein (CLOSPO_01618) From Clostridium Sporogenes Atcc 15579 at 1.70 A Resolution (pdb code 4q0y). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 17 binding sites of Cadmium where determined in the Crystal Structure of A Hypothetical Protein (CLOSPO_01618) From Clostridium Sporogenes Atcc 15579 at 1.70 A Resolution, PDB code: 4q0y:
Jump to Cadmium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Cadmium binding site 1 out of 17 in 4q0y

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Cadmium binding site 1 out of 17 in the Crystal Structure of A Hypothetical Protein (CLOSPO_01618) From Clostridium Sporogenes Atcc 15579 at 1.70 A Resolution


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 A Hypothetical Protein (CLOSPO_01618) From Clostridium Sporogenes Atcc 15579 at 1.70 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd201

b:16.8
occ:0.60
OE2 A:GLU33 2.2 27.4 1.0
O B:HOH398 2.2 10.8 0.6
O A:HOH393 2.2 14.0 1.0
O B:HOH395 2.3 10.8 0.4
O B:HOH396 2.4 26.4 1.0
OE1 A:GLU33 2.5 27.8 1.0
CD A:GLU33 2.7 24.3 1.0
O B:HOH395 2.9 11.8 0.6
O B:HOH398 2.9 11.7 0.4
NZ B:LYS69 3.8 28.8 1.0
CB B:SER66 4.2 19.0 1.0
OG B:SER66 4.2 19.1 1.0
CG A:GLU33 4.2 21.7 1.0
O A:HOH394 4.3 28.7 1.0
O A:ASN73 4.4 15.8 1.0
OE2 B:GLU62 4.4 38.7 1.0
CE B:LYS69 4.4 28.3 1.0
CD B:LYS69 4.5 23.1 1.0
CA B:SER66 4.5 15.4 1.0
O A:HOH340 4.5 29.1 1.0
O B:HOH397 4.6 38.6 1.0
CA A:GLY0 4.8 63.8 1.0
O B:SER35 4.8 19.0 1.0
O B:HOH399 4.8 36.0 1.0

Cadmium binding site 2 out of 17 in 4q0y

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Cadmium binding site 2 out of 17 in the Crystal Structure of A Hypothetical Protein (CLOSPO_01618) From Clostridium Sporogenes Atcc 15579 at 1.70 A Resolution


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 A Hypothetical Protein (CLOSPO_01618) From Clostridium Sporogenes Atcc 15579 at 1.70 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd202

b:21.5
occ:0.70
OE2 A:GLU62 2.3 20.2 1.0
O A:HOH397 2.3 30.6 1.0
O A:HOH396 2.4 7.9 1.0
O B:HOH402 2.5 20.4 0.5
O A:HOH403 2.5 43.6 1.0
OE1 A:GLU62 2.5 20.9 1.0
CD A:GLU62 2.8 21.6 1.0
O B:HOH404 3.3 39.1 1.0
O B:HOH402 4.0 19.2 0.5
CG A:GLU62 4.3 20.7 1.0
CB A:SER36 4.5 16.1 1.0
CB A:SER66 4.6 19.1 0.5
O A:LEU37 4.6 15.7 1.0
CB A:SER66 4.7 22.1 0.5
CA A:SER36 4.7 16.5 1.0
N A:LEU37 4.8 14.9 1.0
O B:HOH403 4.8 51.5 1.0
CA A:SER66 4.9 19.0 0.5
CA A:SER66 4.9 20.4 0.5
N A:SER66 5.0 17.3 1.0

Cadmium binding site 3 out of 17 in 4q0y

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Cadmium binding site 3 out of 17 in the Crystal Structure of A Hypothetical Protein (CLOSPO_01618) From Clostridium Sporogenes Atcc 15579 at 1.70 A Resolution


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 A Hypothetical Protein (CLOSPO_01618) From Clostridium Sporogenes Atcc 15579 at 1.70 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd203

b:30.4
occ:0.50
O A:HOH412 2.0 27.3 1.0
O A:HOH398 2.5 27.3 1.0
OD2 A:ASP115 2.6 27.1 1.0
OD1 A:ASP115 2.8 25.8 1.0
O A:HOH411 2.9 37.6 1.0
CG A:ASP115 3.1 23.2 1.0
O A:HOH369 3.2 37.7 1.0
CB A:ASP115 4.5 20.8 1.0
CE A:LYS106 4.6 21.5 1.0
O A:HOH399 4.8 18.2 0.5

Cadmium binding site 4 out of 17 in 4q0y

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Cadmium binding site 4 out of 17 in the Crystal Structure of A Hypothetical Protein (CLOSPO_01618) From Clostridium Sporogenes Atcc 15579 at 1.70 A Resolution


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 A Hypothetical Protein (CLOSPO_01618) From Clostridium Sporogenes Atcc 15579 at 1.70 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd204

b:34.2
occ:0.50
OE2 A:GLU109 2.2 42.6 1.0
O A:HOH401 2.5 52.4 1.0
O A:HOH335 2.5 30.6 1.0
OD2 A:ASP110 2.6 39.2 1.0
CD A:GLU109 3.2 32.8 1.0
CG A:GLU109 3.5 29.4 1.0
O A:HOH301 3.5 16.8 1.0
CG A:ASP110 3.6 41.7 1.0
O A:HOH358 4.1 31.1 1.0
OD1 A:ASP110 4.1 48.1 1.0
O A:HOH402 4.1 17.1 0.5
OE1 A:GLU109 4.3 34.7 1.0
O A:HOH402 4.3 27.6 0.5
CB A:ASP110 4.9 38.3 1.0
CB A:GLU109 5.0 25.7 1.0

Cadmium binding site 5 out of 17 in 4q0y

Go back to Cadmium Binding Sites List in 4q0y
Cadmium binding site 5 out of 17 in the Crystal Structure of A Hypothetical Protein (CLOSPO_01618) From Clostridium Sporogenes Atcc 15579 at 1.70 A Resolution


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 A Hypothetical Protein (CLOSPO_01618) From Clostridium Sporogenes Atcc 15579 at 1.70 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd205

b:29.1
occ:0.50
O A:HOH407 2.1 43.2 1.0
O A:HOH406 2.2 33.8 1.0
OE1 A:GLU63 2.6 41.2 1.0
O A:HOH330 2.7 17.9 1.0
OE2 A:GLU63 3.2 68.2 1.0
CD A:GLU63 3.2 56.5 1.0
OD1 A:ASP61 3.4 33.4 0.4
CG A:ASP61 4.2 27.0 0.4
N A:GLU62 4.4 19.4 1.0
CB A:GLU62 4.6 21.4 1.0
OD2 A:ASP61 4.6 31.4 0.4
CG A:GLU63 4.7 46.7 1.0
N A:GLU63 4.8 24.5 1.0
CA A:GLU62 5.0 18.9 1.0

Cadmium binding site 6 out of 17 in 4q0y

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Cadmium binding site 6 out of 17 in the Crystal Structure of A Hypothetical Protein (CLOSPO_01618) From Clostridium Sporogenes Atcc 15579 at 1.70 A Resolution


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 A Hypothetical Protein (CLOSPO_01618) From Clostridium Sporogenes Atcc 15579 at 1.70 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd206

b:15.0
occ:0.60
OD2 A:ASP89 2.2 35.6 1.0
O A:HOH312 2.3 22.6 1.0
CG A:ASP89 2.9 30.6 1.0
OD1 A:ASP89 2.9 30.4 1.0
O A:HOH347 4.2 35.6 1.0
CB A:ASP89 4.4 31.8 1.0

Cadmium binding site 7 out of 17 in 4q0y

Go back to Cadmium Binding Sites List in 4q0y
Cadmium binding site 7 out of 17 in the Crystal Structure of A Hypothetical Protein (CLOSPO_01618) From Clostridium Sporogenes Atcc 15579 at 1.70 A Resolution


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 A Hypothetical Protein (CLOSPO_01618) From Clostridium Sporogenes Atcc 15579 at 1.70 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cd201

b:22.6
occ:0.80
OD1 B:ASP89 2.4 26.2 1.0
O B:HOH336 2.4 22.0 1.0
O B:HOH301 2.4 7.7 1.0
OD2 B:ASP89 2.8 31.2 1.0
CG B:ASP89 3.0 28.6 1.0
CB B:ASP89 4.5 23.6 1.0

Cadmium binding site 8 out of 17 in 4q0y

Go back to Cadmium Binding Sites List in 4q0y
Cadmium binding site 8 out of 17 in the Crystal Structure of A Hypothetical Protein (CLOSPO_01618) From Clostridium Sporogenes Atcc 15579 at 1.70 A Resolution


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 A Hypothetical Protein (CLOSPO_01618) From Clostridium Sporogenes Atcc 15579 at 1.70 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cd202

b:32.5
occ:0.50
O C:HOH384 1.9 28.0 1.0
O B:HOH423 2.3 39.0 1.0
O C:HOH385 2.3 25.6 1.0
O C:HOH316 2.6 18.0 1.0
O C:HOH401 2.6 48.8 1.0
O B:HOH344 2.9 41.2 1.0
O C:HOH383 3.5 33.8 1.0
O B:ASP126 4.0 19.2 1.0
OD1 C:ASP54 4.0 34.6 1.0
CD C:CD201 4.1 23.6 0.7
O C:HOH348 4.2 24.3 1.0
O B:GLY125 4.2 19.7 1.0
NZ B:LYS153 4.3 26.2 1.0
C B:GLY125 4.7 19.6 1.0
C B:ASP126 4.9 19.9 1.0
CB C:ASN53 4.9 31.9 1.0
CG C:ASP54 5.0 31.0 1.0

Cadmium binding site 9 out of 17 in 4q0y

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Cadmium binding site 9 out of 17 in the Crystal Structure of A Hypothetical Protein (CLOSPO_01618) From Clostridium Sporogenes Atcc 15579 at 1.70 A Resolution


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 A Hypothetical Protein (CLOSPO_01618) From Clostridium Sporogenes Atcc 15579 at 1.70 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cd203

b:27.6
occ:0.50
OE1 B:GLU62 2.2 31.3 1.0
O A:HOH394 2.2 28.7 1.0
O B:HOH399 2.3 36.0 1.0
O A:HOH395 2.5 33.5 1.0
OE2 B:GLU62 2.5 38.7 1.0
CD B:GLU62 2.7 31.5 1.0
O A:GLY0 3.9 53.1 1.0
N A:GLY0 3.9 72.3 1.0
CA A:GLY0 4.0 63.8 1.0
O B:LEU37 4.1 20.4 1.0
O B:HOH347 4.1 30.9 1.0
C A:GLY0 4.1 54.6 1.0
CG B:GLU62 4.2 23.2 1.0
O B:HOH396 4.7 26.4 1.0
OE2 A:GLU33 4.7 27.4 1.0
O B:HOH395 4.8 10.8 0.4
O B:HOH395 4.8 11.8 0.6
CB B:GLU62 5.0 18.9 1.0

Cadmium binding site 10 out of 17 in 4q0y

Go back to Cadmium Binding Sites List in 4q0y
Cadmium binding site 10 out of 17 in the Crystal Structure of A Hypothetical Protein (CLOSPO_01618) From Clostridium Sporogenes Atcc 15579 at 1.70 A Resolution


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 10 of Crystal Structure of A Hypothetical Protein (CLOSPO_01618) From Clostridium Sporogenes Atcc 15579 at 1.70 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cd204

b:22.7
occ:0.80
O B:HOH408 2.1 45.9 1.0
OE1 B:GLU109 2.3 31.0 1.0
O B:HOH359 2.5 25.4 1.0
OE2 B:GLU109 2.7 42.9 1.0
CD B:GLU109 2.8 32.5 1.0
SE B:MSE32 3.5 65.2 0.8
CG B:MSE32 4.3 56.7 1.0
CG B:GLU109 4.3 29.0 1.0
OH B:TYR107 4.8 18.0 1.0
CE2 B:TYR107 4.9 16.6 1.0

Reference:

Joint Center For Structural Genomics (Jcsg), Joint Center For Structural Genomics (Jcsg). N/A N/A.
Page generated: Thu Jul 10 13:55:11 2025

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