Calcium in PDB 4a08: Structure of HSDDB1-DRDDB2 Bound to A 13 Bp Cpd-Duplex (Purine at D-1 Position) at 3.0 A Resolution (Cpd 1)

The structure of Structure of HSDDB1-DRDDB2 Bound to A 13 Bp Cpd-Duplex (Purine at D-1 Position) at 3.0 A Resolution (Cpd 1), PDB code: 4a08 was solved by A.Scrima, E.S.Fischer, S.Iwai, H.Gut, N.H.Thoma, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.62 / 3.00
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	114.370, 116.700, 137.580, 90.00, 90.00, 90.00
R / Rfree (%)	23.4 / 29.4

The binding sites of Calcium atom in the Structure of HSDDB1-DRDDB2 Bound to A 13 Bp Cpd-Duplex (Purine at D-1 Position) at 3.0 A Resolution (Cpd 1) (pdb code 4a08). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Structure of HSDDB1-DRDDB2 Bound to A 13 Bp Cpd-Duplex (Purine at D-1 Position) at 3.0 A Resolution (Cpd 1), PDB code: 4a08:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Structure of HSDDB1-DRDDB2 Bound to A 13 Bp Cpd-Duplex (Purine at D-1 Position) at 3.0 A Resolution (Cpd 1)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Structure of HSDDB1-DRDDB2 Bound to A 13 Bp Cpd-Duplex (Purine at D-1 Position) at 3.0 A Resolution (Cpd 1) within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca1456 b:56.4 occ:1.00 OP1 H:DG3 2.4 78.8 1.0 OD2 B:ASP237 3.0 54.6 1.0 CG B:ASP237 3.5 54.3 1.0 OD1 B:ASP237 3.7 54.4 1.0 P H:DG3 3.8 78.7 1.0 OP2 H:DG4 4.2 78.3 1.0 O5' H:DG3 4.4 78.8 1.0 OP2 H:DG3 4.6 78.8 1.0 CB B:ASP237 4.6 54.1 1.0 O3' H:DG2 4.8 78.7 1.0

Calcium binding site 2 out of 2 in the Structure of HSDDB1-DRDDB2 Bound to A 13 Bp Cpd-Duplex (Purine at D-1 Position) at 3.0 A Resolution (Cpd 1)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Structure of HSDDB1-DRDDB2 Bound to A 13 Bp Cpd-Duplex (Purine at D-1 Position) at 3.0 A Resolution (Cpd 1) within 5.0Å range: probe atom residue distance (Å) B Occ H:Ca1015 b:78.7 occ:1.00 O6 H:DG4 3.7 76.8 1.0 N7 H:DG3 3.9 78.9 1.0 O6 G:DG11 4.1 62.7 1.0 C8 H:DG3 4.6 78.8 1.0 C6 H:DG4 4.8 76.8 1.0 C5 G:DC10 5.0 58.2 1.0

A.Scrima, E.S.Fischer, S.Iwai, H.Gut, N.H.Thoma. The Molecular Basis of CRL4(DDB2/Csa) Ubiquitin Ligase Architecture, Targeting, and Activation Cell(Cambridge,Mass.) V. 147 1024 2011.
ISSN: ISSN 0092-8674
PubMed: 22118460
DOI: 10.1016/J.CELL.2011.10.035