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Cadmium in PDB 1x3f: Crystal Structure of the Single-Stranded Dna-Binding Protein From Mycobacterium Smegmatis

Protein crystallography data

The structure of Crystal Structure of the Single-Stranded Dna-Binding Protein From Mycobacterium Smegmatis, PDB code: 1x3f was solved by K.Saikrishnan, G.P.Manjunath, P.Singh, J.Jeyakanthan, Z.Dauter, K.Sekar, K.Muniyappa, M.Vijayan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 2.70
Space group P 31 2 1
Cell size a, b, c (Å), α, β, γ (°) 78.014, 78.014, 71.018, 90.00, 90.00, 120.00
R / Rfree (%) 20 / 27.5

Cadmium Binding Sites:

The binding sites of Cadmium atom in the Crystal Structure of the Single-Stranded Dna-Binding Protein From Mycobacterium Smegmatis (pdb code 1x3f). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 2 binding sites of Cadmium where determined in the Crystal Structure of the Single-Stranded Dna-Binding Protein From Mycobacterium Smegmatis, PDB code: 1x3f:
Jump to Cadmium binding site number: 1; 2;

Cadmium binding site 1 out of 2 in 1x3f

Go back to Cadmium Binding Sites List in 1x3f
Cadmium binding site 1 out of 2 in the Crystal Structure of the Single-Stranded Dna-Binding Protein From Mycobacterium Smegmatis


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 the Single-Stranded Dna-Binding Protein From Mycobacterium Smegmatis within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd1002

b:44.2
occ:1.00
OE2 A:GLU51 2.3 54.2 1.0
O A:HOH1017 2.4 15.2 1.0
OE1 A:GLU51 2.4 51.4 1.0
O A:HOH1016 2.5 19.3 1.0
CD A:GLU51 2.6 53.0 1.0
O A:HOH1033 3.4 27.7 1.0
CG A:GLU51 4.1 54.1 1.0
CE1 A:PHE54 4.5 35.3 1.0
O A:ALA52 4.8 45.7 1.0
CB A:GLU51 5.0 54.4 1.0
N A:ALA52 5.0 50.1 1.0

Cadmium binding site 2 out of 2 in 1x3f

Go back to Cadmium Binding Sites List in 1x3f
Cadmium binding site 2 out of 2 in the Crystal Structure of the Single-Stranded Dna-Binding Protein From Mycobacterium Smegmatis


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 the Single-Stranded Dna-Binding Protein From Mycobacterium Smegmatis within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cd1001

b:37.7
occ:1.00
OE1 B:GLU65 2.2 33.2 1.0
OE2 B:GLU65 2.6 44.9 1.0
CD B:GLU65 2.6 39.1 1.0
CG B:GLU65 4.1 37.9 1.0
N B:GLU62 4.1 43.6 1.0
C B:ARG61 4.2 44.3 1.0
CA B:GLU62 4.3 42.8 1.0
O B:ARG61 4.5 43.6 1.0
CB B:ALA27 4.6 32.1 1.0
CA B:ARG61 4.6 45.1 1.0
CB B:GLU62 4.8 43.6 1.0
CB B:GLU65 5.0 35.5 1.0

Reference:

K.Saikrishnan, G.P.Manjunath, P.Singh, J.Jeyakanthan, Z.Dauter, K.Sekar, K.Muniyappa, M.Vijayan. Structure of Mycobacterium Smegmatis Single-Stranded Dna-Binding Protein and A Comparative Study Involving Homologus Ssbs: Biological Implications of Structural Plasticity and Variability in Quaternary Association. Acta Crystallogr.,Sect.D V. 61 1140 2005.
ISSN: ISSN 0907-4449
PubMed: 16041080
DOI: 10.1107/S0907444905016896
Page generated: Wed Oct 28 09:57:57 2020
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