Calcium in PDB 5tgq: Restriction-Modification System Type II R.Swai, Dna Free

The structure of Restriction-Modification System Type II R.Swai, Dna Free, PDB code: 5tgq was solved by B.W.Shen, B.L.Stoddard, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.01 / 1.88
Space group	P 2 21 21
Cell size a, b, c (Å), α, β, γ (°)	48.386, 65.225, 67.567, 90.00, 90.00, 90.00
R / Rfree (%)	19.8 / 27.9

The structure of Restriction-Modification System Type II R.Swai, Dna Free also contains other interesting chemical elements:

Chlorine

(Cl)

3 atoms

The binding sites of Calcium atom in the Restriction-Modification System Type II R.Swai, Dna Free (pdb code 5tgq). 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 Restriction-Modification System Type II R.Swai, Dna Free, PDB code: 5tgq:

Calcium binding site 1 out of 1 in the Restriction-Modification System Type II R.Swai, Dna Free


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Restriction-Modification System Type II R.Swai, Dna Free within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca301 b:36.5 occ:1.00 O A:HOH470 2.3 47.5 1.0 O A:HOH447 2.3 51.6 1.0 O A:PHE94 2.3 35.3 1.0 O A:HOH410 2.3 43.2 1.0 OD2 A:ASP76 2.3 31.8 1.0 OD1 A:ASP93 2.3 36.1 1.0 CG A:ASP76 3.3 32.4 1.0 C A:PHE94 3.4 35.0 1.0 CG A:ASP93 3.5 33.8 1.0 OD1 A:ASP76 3.7 29.9 1.0 N A:PHE94 3.7 30.8 1.0 O A:HOH473 3.7 61.9 1.0 CA A:PHE94 4.1 32.2 1.0 OD2 A:ASP93 4.2 33.8 1.0 C A:ASP93 4.2 29.9 1.0 O A:HOH415 4.3 50.5 1.0 OG A:SER41 4.4 49.7 1.0 O A:HOH482 4.4 51.3 1.0 CA A:ASP93 4.4 29.2 1.0 CG A:LYS95 4.4 38.0 1.0 N A:LYS95 4.5 34.8 1.0 CB A:ASP93 4.6 31.0 1.0 CB A:PHE94 4.7 35.2 1.0 CA A:LYS95 4.7 38.3 1.0 CB A:ASP76 4.7 31.6 1.0 O A:HOH466 4.9 38.6 1.0

B.W.Shen, D.F.Heiter, K.D.Lunnen, G.G.Wilson, B.L.Stoddard. Dna Recognition By the Swai Restriction Endonuclease Involves Unusual Distortion of An 8 Base Pair A:T-Rich Target. Nucleic Acids Res. V. 45 1516 2017.
ISSN: ESSN 1362-4962
PubMed: 28180307
DOI: 10.1093/NAR/GKW1200