Calcium in PDB 1zfb: Ggc Duplex B-Dna

The structure of Ggc Duplex B-Dna, PDB code: 1zfb was solved by F.A.Hays, A.T.Teegarden, Z.J.R.Jones, M.Harms, D.Raup, J.Watson, E.Cavaliere, P.S.Ho, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	16.35 / 1.65
Space group	H 3
Cell size a, b, c (Å), α, β, γ (°)	53.640, 53.640, 44.820, 90.00, 90.00, 120.00
R / Rfree (%)	23.3 / 28.3

The binding sites of Calcium atom in the Ggc Duplex B-Dna (pdb code 1zfb). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Ggc Duplex B-Dna, PDB code: 1zfb:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Ggc Duplex B-Dna


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Ggc Duplex B-Dna within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca21 b:7.5 occ:1.00 O B:HOH39 2.0 10.8 1.0 O B:HOH38 2.1 11.9 1.0 O A:HOH35 2.2 9.4 1.0 O B:HOH31 2.7 12.1 1.0 O B:HOH96 2.8 20.7 1.0 N2 A:DG3 4.2 7.6 1.0 O4' B:DG20 4.4 6.8 1.0 O4' A:DC4 4.5 7.4 1.0 C4' B:DG20 4.7 7.1 1.0 N3 B:DG19 4.8 5.0 1.0 N2 B:DG19 4.8 4.6 1.0 N3 A:DG3 4.9 8.2 1.0 C4' A:DC4 4.9 7.5 1.0 O B:HOH58 4.9 12.4 1.0 O4' B:DG19 4.9 7.1 1.0 C5' B:DG20 5.0 7.6 1.0

Calcium binding site 2 out of 2 in the Ggc Duplex B-Dna


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Ggc Duplex B-Dna within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca22 b:19.2 occ:1.00 O A:HOH80 2.4 11.4 1.0 O A:HOH45 2.5 5.8 1.0 O A:HOH27 2.5 9.2 1.0 O A:HOH74 2.9 12.0 1.0 O B:HOH99 3.1 17.7 1.0 O6 A:DG3 4.4 7.6 1.0 N7 B:DG16 4.5 3.5 1.0 O B:HOH61 4.6 10.4 1.0 O6 B:DG17 4.7 3.6 1.0 C8 B:DG16 4.9 3.9 1.0 N7 A:DG3 5.0 8.2 1.0

F.A.Hays, A.Teegarden, Z.J.Jones, M.Harms, D.Raup, J.Watson, E.Cavaliere, P.S.Ho. How Sequence Defines Structure: A Crystallographic Map of Dna Structure and Conformation. Proc.Natl.Acad.Sci.Usa V. 102 7157 2005.
ISSN: ISSN 0027-8424
PubMed: 15870206
DOI: 10.1073/PNAS.0409455102