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Platinum in PDB 3onr: Crystal Structure of the Calcium Chelating Immunodominant Antigen, Calcium Dodecin (RV0379),From Mycobacterium Tuberculosis with A Novel Calcium-Binding Site

Protein crystallography data

The structure of Crystal Structure of the Calcium Chelating Immunodominant Antigen, Calcium Dodecin (RV0379),From Mycobacterium Tuberculosis with A Novel Calcium-Binding Site, PDB code: 3onr was solved by A.Arulandu, J.C.Sacchettini, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 28.88 / 1.80
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 70.193, 78.446, 152.489, 90.00, 90.00, 90.00
R / Rfree (%) 18.1 / 22.9

Other elements in 3onr:

The structure of Crystal Structure of the Calcium Chelating Immunodominant Antigen, Calcium Dodecin (RV0379),From Mycobacterium Tuberculosis with A Novel Calcium-Binding Site also contains other interesting chemical elements:

Calcium (Ca) 4 atoms

Platinum Binding Sites:

The binding sites of Platinum atom in the Crystal Structure of the Calcium Chelating Immunodominant Antigen, Calcium Dodecin (RV0379),From Mycobacterium Tuberculosis with A Novel Calcium-Binding Site (pdb code 3onr). This binding sites where shown within 5.0 Angstroms radius around Platinum atom.
In total 3 binding sites of Platinum where determined in the Crystal Structure of the Calcium Chelating Immunodominant Antigen, Calcium Dodecin (RV0379),From Mycobacterium Tuberculosis with A Novel Calcium-Binding Site, PDB code: 3onr:
Jump to Platinum binding site number: 1; 2; 3;

Platinum binding site 1 out of 3 in 3onr

Go back to Platinum Binding Sites List in 3onr
Platinum binding site 1 out of 3 in the Crystal Structure of the Calcium Chelating Immunodominant Antigen, Calcium Dodecin (RV0379),From Mycobacterium Tuberculosis with A Novel Calcium-Binding Site


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 1 of Crystal Structure of the Calcium Chelating Immunodominant Antigen, Calcium Dodecin (RV0379),From Mycobacterium Tuberculosis with A Novel Calcium-Binding Site within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Pt73

b:54.9
occ:0.30
CA E:PRO67 3.9 43.4 1.0
N E:PRO67 4.0 41.0 1.0
C E:ARG66 4.3 37.2 1.0
CG E:PRO67 4.3 46.9 1.0
CD E:PRO67 4.4 41.4 1.0
O E:ARG66 4.4 37.2 1.0
CB E:PRO67 4.5 45.1 1.0
C E:PRO67 5.0 43.0 1.0

Platinum binding site 2 out of 3 in 3onr

Go back to Platinum Binding Sites List in 3onr
Platinum binding site 2 out of 3 in the Crystal Structure of the Calcium Chelating Immunodominant Antigen, Calcium Dodecin (RV0379),From Mycobacterium Tuberculosis with A Novel Calcium-Binding Site


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 2 of Crystal Structure of the Calcium Chelating Immunodominant Antigen, Calcium Dodecin (RV0379),From Mycobacterium Tuberculosis with A Novel Calcium-Binding Site within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Pt73

b:44.0
occ:0.40
CA F:PRO67 4.0 41.6 1.0
OG H:SER31 4.2 50.0 1.0
CB F:PRO67 4.2 43.9 1.0
N F:PRO67 4.3 38.9 1.0
CE F:MET65 4.5 42.0 1.0
C F:ARG66 4.6 36.0 1.0
CD F:PRO67 4.6 40.1 1.0
CB H:SER31 4.7 44.3 1.0
CG F:PRO67 4.9 43.8 1.0
O F:ARG66 4.9 36.6 1.0

Platinum binding site 3 out of 3 in 3onr

Go back to Platinum Binding Sites List in 3onr
Platinum binding site 3 out of 3 in the Crystal Structure of the Calcium Chelating Immunodominant Antigen, Calcium Dodecin (RV0379),From Mycobacterium Tuberculosis with A Novel Calcium-Binding Site


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 3 of Crystal Structure of the Calcium Chelating Immunodominant Antigen, Calcium Dodecin (RV0379),From Mycobacterium Tuberculosis with A Novel Calcium-Binding Site within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Pt73

b:41.8
occ:0.35
O I:HOH243 2.8 12.4 1.0
NH1 I:ARG66 3.5 60.0 1.0
CZ I:ARG66 3.9 57.4 1.0
NE I:ARG66 4.2 54.6 1.0
CD I:ARG66 4.3 51.0 1.0
NH2 I:ARG66 4.6 56.7 1.0
CG I:ARG66 5.0 44.8 1.0

Reference:

A.Arockiasamy, A.Aggarwal, C.G.Savva, A.Holzenburg, J.C.Sacchettini. Crystal Structure of Calcium Dodecin (RV0379), From Mycobacterium Tuberculosis with A Unique Calcium-Binding Site. Protein Sci. V. 20 827 2011.
ISSN: ISSN 0961-8368
PubMed: 21370306
DOI: 10.1002/PRO.607
Page generated: Wed Dec 16 02:04:21 2020

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