Calcium in PDB 1s1k: Influence of Groove Interactions on Dna Holliday Junction Formation

The structure of Influence of Groove Interactions on Dna Holliday Junction Formation, PDB code: 1s1k was solved by F.A.Hays, J.Watson, P.S.Ho, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	17.49 / 1.90
Space group	P 61 2 2
Cell size a, b, c (Å), α, β, γ (°)	32.957, 32.957, 88.556, 90.00, 90.00, 120.00
R / Rfree (%)	23.2 / 25.8

The structure of Influence of Groove Interactions on Dna Holliday Junction Formation also contains other interesting chemical elements:

Sodium

(Na)

1 atom

The binding sites of Calcium atom in the Influence of Groove Interactions on Dna Holliday Junction Formation (pdb code 1s1k). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Influence of Groove Interactions on Dna Holliday Junction Formation, PDB code: 1s1k:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Influence of Groove Interactions on Dna Holliday Junction Formation


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Influence of Groove Interactions on Dna Holliday Junction Formation within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca11 b:20.9 occ:0.50 O A:HOH45 2.8 36.0 1.0 O A:HOH20 3.1 10.5 1.0 C2' A:DT5 3.7 5.7 1.0 O A:HOH42 3.7 17.7 1.0 OP2 A:DA6 4.2 14.0 1.0 C3' A:DT5 4.3 6.3 1.0 OP2 A:DT5 4.4 12.2 1.0 O5' A:DT5 4.4 9.2 1.0 C6 A:DT5 4.5 6.5 1.0 N7 A:DA6 4.7 4.6 1.0 C1' A:DT5 4.9 5.0 1.0

Calcium binding site 2 out of 2 in the Influence of Groove Interactions on Dna Holliday Junction Formation


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Influence of Groove Interactions on Dna Holliday Junction Formation within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca14 b:9.0 occ:0.50 O A:HOH28 2.4 18.3 1.0 OP2 A:DC7 2.5 15.8 1.0 O A:HOH23 3.4 21.9 1.0 O A:HOH18 4.0 12.6 1.0 P A:DC7 4.1 15.4 1.0 O5' A:DC7 4.6 13.9 1.0 C2' A:DA6 4.6 10.2 1.0 C3' A:DA6 4.8 11.2 1.0 O A:HOH37 4.9 37.0 1.0

F.A.Hays, Z.J.Jones, P.S.Ho. Influence of Minor Groove Substituents on the Structure of Dna Holliday Junctions. Biochemistry V. 43 9813 2004.
ISSN: ISSN 0006-2960
PubMed: 15274635
DOI: 10.1021/BI049461D