Calcium in PDB 3ldy: An Extraordinary Mechanism of Dna Perturbation Exhibited By the Rare- Cutting Hnh Restriction Endonuclease Paci

The structure of An Extraordinary Mechanism of Dna Perturbation Exhibited By the Rare- Cutting Hnh Restriction Endonuclease Paci, PDB code: 3ldy was solved by B.W.Shen, D.Heiter, S.-H.Chan, S.-Y.Xu, G.Wilson, B.L.Stoddard, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	28.95 / 1.97
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	36.908, 115.788, 114.689, 90.00, 90.00, 90.00
R / Rfree (%)	18.4 / 21.7

The structure of An Extraordinary Mechanism of Dna Perturbation Exhibited By the Rare- Cutting Hnh Restriction Endonuclease Paci also contains other interesting chemical elements:

Zinc

(Zn)

2 atoms

The binding sites of Calcium atom in the An Extraordinary Mechanism of Dna Perturbation Exhibited By the Rare- Cutting Hnh Restriction Endonuclease Paci (pdb code 3ldy). 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 An Extraordinary Mechanism of Dna Perturbation Exhibited By the Rare- Cutting Hnh Restriction Endonuclease Paci, PDB code: 3ldy:

Calcium binding site 1 out of 1 in the An Extraordinary Mechanism of Dna Perturbation Exhibited By the Rare- Cutting Hnh Restriction Endonuclease Paci


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of An Extraordinary Mechanism of Dna Perturbation Exhibited By the Rare- Cutting Hnh Restriction Endonuclease Paci within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca145 b:32.8 occ:1.00 OP1 C:DT11 2.3 20.2 1.0 OD1 A:ASN113 2.4 24.8 1.0 OD1 A:ASP92 2.4 32.2 1.0 O A:HOH167 2.5 24.5 1.0 O A:HOH168 2.5 18.8 1.0 O3' C:DT10 2.6 18.3 1.0 P C:DT11 3.1 22.1 1.0 CG A:ASP92 3.5 30.1 1.0 CG A:ASN113 3.5 23.0 1.0 CA A:ASP92 3.6 28.4 1.0 N A:ARG93 3.7 28.6 1.0 CB A:ASP92 3.8 28.5 1.0 C3' C:DT10 3.9 18.8 1.0 O5' C:DT11 4.0 23.8 1.0 ND2 A:ASN113 4.0 23.0 1.0 C4' C:DT10 4.1 18.6 1.0 NZ A:LYS116 4.1 25.2 1.0 C A:ASP92 4.1 28.1 1.0 O A:ASN113 4.2 22.4 1.0 O A:ARG93 4.3 30.9 1.0 OP2 C:DT11 4.4 17.4 1.0 O A:SER117 4.5 23.4 1.0 C5' C:DT10 4.5 19.2 1.0 OD2 A:ASP92 4.6 30.6 1.0 C2' C:DT10 4.6 18.2 1.0 C A:ARG93 4.7 30.2 1.0 CB A:ASN113 4.7 21.8 1.0 CA A:ARG93 4.7 29.6 1.0 OG A:SER96 4.8 35.0 1.0 CA A:ASN113 4.8 22.6 1.0 CD A:LYS116 4.8 22.7 1.0 C A:ASN113 4.9 22.1 1.0 N A:ASP92 4.9 27.8 1.0 O A:VAL91 4.9 27.8 1.0

B.W.Shen, D.F.Heiter, S.H.Chan, H.Wang, S.Y.Xu, R.D.Morgan, G.G.Wilson, B.L.Stoddard. Unusual Target Site Disruption By the Rare-Cutting Hnh Restriction Endonuclease Paci. Structure V. 18 734 2010.
ISSN: ISSN 0969-2126
PubMed: 20541511
DOI: 10.1016/J.STR.2010.03.009