Calcium in PDB 1dct: Dna (Cytosine-5) Methylase From Haeiii Covalently Bound to Dna

All present enzymatic activity of Dna (Cytosine-5) Methylase From Haeiii Covalently Bound to Dna:
2.1.1.73;

The structure of Dna (Cytosine-5) Methylase From Haeiii Covalently Bound to Dna, PDB code: 1dct was solved by K.M.Reinisch, L.Chen, G.L.Verdine, W.N.Lipscomb, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	10.00 / 2.80
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	57.570, 108.040, 155.790, 90.00, 90.00, 90.00
R / Rfree (%)	22.6 / 32.6

The structure of Dna (Cytosine-5) Methylase From Haeiii Covalently Bound to Dna also contains other interesting chemical elements:

Fluorine

(F)

2 atoms

The binding sites of Calcium atom in the Dna (Cytosine-5) Methylase From Haeiii Covalently Bound to Dna (pdb code 1dct). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Dna (Cytosine-5) Methylase From Haeiii Covalently Bound to Dna, PDB code: 1dct:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Dna (Cytosine-5) Methylase From Haeiii Covalently Bound to Dna


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Dna (Cytosine-5) Methylase From Haeiii Covalently Bound to Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1001 b:49.2 occ:1.00 OD1 A:ASN166 2.1 34.4 1.0 HD21 A:ASN166 2.3 0.0 1.0 CG A:ASN166 2.9 33.6 1.0 ND2 A:ASN166 2.9 31.2 1.0 HD22 A:ASN166 3.9 0.0 1.0 O A:LYS163 3.9 32.9 1.0 CB A:ASN166 4.4 33.9 1.0 C A:LYS163 4.7 32.6 1.0 OD2 A:ASP136 4.8 32.9 1.0 CA A:ASN166 4.9 33.7 1.0 OD1 A:ASP136 5.0 26.9 1.0 CB A:LYS163 5.0 32.0 1.0

Calcium binding site 2 out of 2 in the Dna (Cytosine-5) Methylase From Haeiii Covalently Bound to Dna


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Dna (Cytosine-5) Methylase From Haeiii Covalently Bound to Dna within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca1002 b:29.9 occ:1.00 OD1 B:ASN166 2.4 35.0 1.0 CG B:ASN166 3.6 36.0 1.0 HD21 B:ASN166 4.1 0.0 1.0 ND2 B:ASN166 4.3 35.5 1.0 CB B:ASN166 4.6 34.7 1.0 OD1 B:ASP136 4.8 28.8 1.0

K.M.Reinisch, L.Chen, G.L.Verdine, W.N.Lipscomb. The Crystal Structure of Haeiii Methyltransferase Convalently Complexed to Dna: An Extrahelical Cytosine and Rearranged Base Pairing. Cell(Cambridge,Mass.) V. 82 143 1995.
ISSN: ISSN 0092-8674
PubMed: 7606780
DOI: 10.1016/0092-8674(95)90060-8