Calcium in PDB 5ezf: Racemic Crystal Structures of Pribnow Box Consensus Promoter Sequence (Pbca)

The structure of Racemic Crystal Structures of Pribnow Box Consensus Promoter Sequence (Pbca), PDB code: 5ezf was solved by P.K.Mandal, G.W.Collie, B.Kauffmann, S.C.Srivastava, I.Huc, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	32.86 / 1.65
Space group	P b c a
Cell size a, b, c (Å), α, β, γ (°)	41.736, 39.329, 65.713, 90.00, 90.00, 90.00
R / Rfree (%)	29.6 / 31.7

The binding sites of Calcium atom in the Racemic Crystal Structures of Pribnow Box Consensus Promoter Sequence (Pbca) (pdb code 5ezf). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Racemic Crystal Structures of Pribnow Box Consensus Promoter Sequence (Pbca), PDB code: 5ezf:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Racemic Crystal Structures of Pribnow Box Consensus Promoter Sequence (Pbca)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Racemic Crystal Structures of Pribnow Box Consensus Promoter Sequence (Pbca) within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca101 b:27.1 occ:0.73 O5' B:DC1 2.3 38.6 1.0 O B:HOH204 2.5 37.0 1.0 O B:HOH206 2.5 60.8 1.0 C5' B:DC1 3.4 32.0 1.0 O4' B:DC1 4.1 33.8 1.0 C4' B:DC1 4.4 35.8 1.0

Calcium binding site 2 out of 2 in the Racemic Crystal Structures of Pribnow Box Consensus Promoter Sequence (Pbca)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Racemic Crystal Structures of Pribnow Box Consensus Promoter Sequence (Pbca) within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca102 b:22.5 occ:0.66 O A:HOH111 2.3 24.9 1.0 O A:HOH128 2.3 42.8 0.9 O6 B:DG10 2.5 25.1 1.0 O A:HOH115 2.5 49.7 1.0 O B:HOH205 2.6 25.2 0.9 O B:HOH203 2.7 56.5 0.9 C6 B:DG10 3.5 25.1 1.0 N7 B:DG10 3.9 25.9 1.0 C5 B:DG10 4.1 25.1 1.0 N4 A:DC3 4.1 27.3 1.0 O6 A:DG2 4.2 20.6 1.0 N1 B:DG10 4.7 24.9 1.0 N7 B:DA9 4.7 33.0 1.0 N7 A:DG2 4.8 23.2 1.0 N6 B:DA9 4.8 26.3 1.0

P.K.Mandal, G.W.Collie, S.C.Srivastava, B.Kauffmann, I.Huc. Structure Elucidation of the Pribnow Box Consensus Promoter Sequence By Racemic Dna Crystallography. Nucleic Acids Res. V. 44 5936 2016.
ISSN: ESSN 1362-4962
PubMed: 27137886
DOI: 10.1093/NAR/GKW367