Calcium in PDB 1cw9: Dna Decamer with An Engineered Crosslink in the Minor Groove

The structure of Dna Decamer with An Engineered Crosslink in the Minor Groove, PDB code: 1cw9 was solved by D.M.F.Van Aalten, D.A.Erlanson, G.L.Verdine, L.Joshua-Tor, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	13.00 / 1.55
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	34.435, 43.180, 72.412, 90.00, 90.00, 90.00
R / Rfree (%)	20.3 / 23.2

The binding sites of Calcium atom in the Dna Decamer with An Engineered Crosslink in the Minor Groove (pdb code 1cw9). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total only one binding site of Calcium was determined in the Dna Decamer with An Engineered Crosslink in the Minor Groove, PDB code: 1cw9:

Calcium binding site 1 out of 1 in the Dna Decamer with An Engineered Crosslink in the Minor Groove


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Dna Decamer with An Engineered Crosslink in the Minor Groove within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca11 b:16.8 occ:1.00 O A:HOH21 2.3 19.6 1.0 O A:HOH26 2.4 21.5 1.0 O B:HOH359 2.4 23.2 1.0 O A:HOH16 2.4 18.0 1.0 O A:HOH30 2.5 19.2 1.0 O6 A:G475 2.5 16.1 1.0 O6 B:G475 2.5 16.4 1.0 C6 A:G475 3.6 12.1 1.0 C6 B:G475 3.6 16.9 1.0 N4 A:DC6 3.7 16.9 1.0 N4 B:DC6 4.0 16.9 1.0 N7 A:G475 4.2 13.8 1.0 C5 A:G475 4.3 10.9 1.0 N7 B:G475 4.3 17.3 1.0 C5 B:G475 4.3 13.9 1.0 O A:HOH46 4.5 23.9 1.0 N7 A:DG4 4.5 18.2 1.0 O A:HOH37 4.6 24.4 1.0 N7 B:DG4 4.7 16.4 1.0 N1 B:G475 4.7 14.7 1.0 N1 A:G475 4.7 12.1 1.0 O B:HOH523 4.7 29.6 1.0 C8 B:DG4 4.8 17.1 1.0 C4 A:DC6 4.9 17.0 1.0 C8 A:DG4 4.9 19.2 1.0 C5 A:DG4 4.9 14.5 1.0 O A:HOH33 5.0 23.4 1.0

D.M.Van Aalten, D.A.Erlanson, G.L.Verdine, L.Joshua-Tor. A Structural Snapshot of Base-Pair Opening in Dna. Proc.Natl.Acad.Sci.Usa V. 96 11809 1999.
ISSN: ISSN 0027-8424
PubMed: 10518532
DOI: 10.1073/PNAS.96.21.11809