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Zinc in PDB 4coj: Crystal Structure of the Anaerobic Ribonucleotide Reductase From Thermotoga Maritima in Complex with Datp and Ctp

Enzymatic activity of Crystal Structure of the Anaerobic Ribonucleotide Reductase From Thermotoga Maritima in Complex with Datp and Ctp

All present enzymatic activity of Crystal Structure of the Anaerobic Ribonucleotide Reductase From Thermotoga Maritima in Complex with Datp and Ctp:
1.17.4.2;

Protein crystallography data

The structure of Crystal Structure of the Anaerobic Ribonucleotide Reductase From Thermotoga Maritima in Complex with Datp and Ctp, PDB code: 4coj was solved by O.Aurelius, R.Johansson, V.Bagenholm, T.Beck, A.Balhuizen, D.Lundin, B.M.Sjoberg, E.Mulliez, D.T.Logan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.140 / 2.48
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 77.983, 94.509, 87.068, 90.00, 112.09, 90.00
R / Rfree (%) 20.36 / 24.2

Other elements in 4coj:

The structure of Crystal Structure of the Anaerobic Ribonucleotide Reductase From Thermotoga Maritima in Complex with Datp and Ctp also contains other interesting chemical elements:

Magnesium (Mg) 2 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of the Anaerobic Ribonucleotide Reductase From Thermotoga Maritima in Complex with Datp and Ctp (pdb code 4coj). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of the Anaerobic Ribonucleotide Reductase From Thermotoga Maritima in Complex with Datp and Ctp, PDB code: 4coj:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 4coj

Go back to Zinc Binding Sites List in 4coj
Zinc binding site 1 out of 2 in the Crystal Structure of the Anaerobic Ribonucleotide Reductase From Thermotoga Maritima in Complex with Datp and Ctp


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of the Anaerobic Ribonucleotide Reductase From Thermotoga Maritima in Complex with Datp and Ctp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn652

b:65.0
occ:1.00
 ND1 A:HIS598 2.0 51.7 1.0
SG A:CYS608 2.3 68.9 1.0
SG A:CYS594 2.3 69.2 1.0
SG A:CYS605 2.4 53.3 1.0
CE1 A:HIS598 3.0 55.6 1.0
CG A:HIS598 3.0 49.9 1.0
CB A:CYS605 3.2 88.0 1.0
CB A:HIS598 3.3 56.0 1.0
CB A:CYS594 3.4 72.0 1.0
CB A:CYS608 3.7 72.1 1.0
NE2 A:HIS598 4.0 54.2 1.0
CD2 A:HIS598 4.0 52.4 1.0
N A:CYS608 4.1 72.1 1.0
CB A:LYS610 4.4 73.8 1.0
CA A:CYS608 4.5 74.0 1.0
CA A:HIS598 4.5 55.1 1.0
CB A:VAL607 4.6 75.3 1.0
N A:HIS598 4.6 54.7 1.0
CB A:ASP596 4.6 64.1 1.0
O A:LYS610 4.7 72.9 1.0
CA A:CYS605 4.7 86.4 1.0
N A:LYS610 4.7 80.3 1.0
CA A:CYS594 4.8 69.7 1.0
CE1 A:PHE600 4.9 55.4 1.0
OD2 A:ASP596 4.9 70.1 1.0
N A:GLY609 4.9 79.1 1.0
CG A:LYS610 4.9 73.6 1.0
CD A:LYS610 5.0 72.2 1.0

Zinc binding site 2 out of 2 in 4coj

Go back to Zinc Binding Sites List in 4coj
Zinc binding site 2 out of 2 in the Crystal Structure of the Anaerobic Ribonucleotide Reductase From Thermotoga Maritima in Complex with Datp and Ctp


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of the Anaerobic Ribonucleotide Reductase From Thermotoga Maritima in Complex with Datp and Ctp within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn652

b:64.1
occ:1.00
 ND1 B:HIS598 2.0 55.1 1.0
SG B:CYS608 2.2 84.5 1.0
SG B:CYS594 2.3 76.8 1.0
SG B:CYS605 2.3 55.2 1.0
CG B:HIS598 2.8 54.0 1.0
CE1 B:HIS598 3.0 56.5 1.0
CB B:HIS598 3.1 53.6 1.0
CB B:CYS605 3.1 72.5 1.0
CB B:CYS594 3.5 60.9 1.0
CB B:CYS608 3.6 67.7 1.0
CD2 B:HIS598 3.9 53.5 1.0
NE2 B:HIS598 4.0 55.4 1.0
N B:CYS608 4.0 68.1 1.0
CA B:HIS598 4.3 52.4 1.0
N B:HIS598 4.3 52.5 1.0
CA B:CYS608 4.4 69.6 1.0
CB B:VAL607 4.5 73.7 1.0
CA B:CYS605 4.6 71.9 1.0
CB B:LYS610 4.8 69.3 1.0
CA B:CYS594 4.8 58.5 1.0
CB B:ASP596 4.8 58.4 1.0
C B:VAL607 4.9 69.7 1.0
CD B:LYS610 5.0 68.3 1.0

Reference:

O.Aurelius, R.Johansson, V.Bagenholm, T.Beck, A.Balhuizen, D.Lundin, B.M.Sjoberg, E.Mulliez, D.T.Logan. The Crystal Structure of the Thermotoga Maritima Anaerobic Ribonucleotide Reductase Lacks A Radical Cysteine Pre-Positioned in the Active Site To Be Published.
Page generated: Sat Oct 26 20:55:09 2024

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