Calcium in PDB 5lj4: Crystal Structure of Dna Duplex Containing Zp Base Pair

The structure of Crystal Structure of Dna Duplex Containing Zp Base Pair, PDB code: 5lj4 was solved by C.R.J.Agnew, R.L.Brady, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	33.96 / 2.17
Space group	H 3
Cell size a, b, c (Å), α, β, γ (°)	41.700, 41.700, 99.932, 90.00, 90.00, 120.00
R / Rfree (%)	22 / 27.5

The binding sites of Calcium atom in the Crystal Structure of Dna Duplex Containing Zp Base Pair (pdb code 5lj4). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Crystal Structure of Dna Duplex Containing Zp Base Pair, PDB code: 5lj4:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in the Crystal Structure of Dna Duplex Containing Zp Base Pair


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of Dna Duplex Containing Zp Base Pair within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca101 b:50.9 occ:1.00 O6 A:DG12 2.1 49.5 1.0 C6 A:DG12 3.3 45.8 1.0 OP1 A:DC11 3.9 55.2 1.0 N1 A:DG12 4.0 47.8 1.0 C5 A:DG12 4.5 34.8 1.0 P A:DC11 4.6 58.5 1.0 OP2 A:DC11 4.6 67.2 1.0 O5' A:DC11 4.7 52.1 1.0

Calcium binding site 2 out of 4 in the Crystal Structure of Dna Duplex Containing Zp Base Pair


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structure of Dna Duplex Containing Zp Base Pair within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca102 b:77.3 occ:1.00 C5' A:DA6 4.1 58.5 1.0 O B:HOH202 4.4 39.5 1.0 O4' A:DA5 4.5 66.3 1.0 C4' A:DA6 4.5 62.7 1.0 O4' B:DG22 4.5 56.1 1.0 C4' B:DG22 4.6 58.0 1.0 N2 A:1WA4 4.7 47.6 1.0 O4' A:DA6 4.7 61.1 1.0 C5' B:DG22 4.7 64.1 1.0 O2 B:1W521 4.7 58.4 1.0 O3' A:DA5 4.9 68.7 1.0 C1' A:DA5 4.9 63.5 1.0 N3 A:DA5 4.9 53.2 1.0

Calcium binding site 3 out of 4 in the Crystal Structure of Dna Duplex Containing Zp Base Pair


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Crystal Structure of Dna Duplex Containing Zp Base Pair within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca103 b:37.8 occ:0.33 OP2 A:DG12 2.6 43.8 1.0 N7 A:DG12 3.5 37.7 1.0 P A:DG12 3.7 47.4 1.0 C8 A:DG12 3.9 39.6 1.0 OP1 A:DG12 4.2 38.1 1.0 O5' A:DG12 4.3 46.1 1.0 C5 A:DG12 4.6 34.8 1.0

Calcium binding site 4 out of 4 in the Crystal Structure of Dna Duplex Containing Zp Base Pair


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Crystal Structure of Dna Duplex Containing Zp Base Pair within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca101 b:97.0 occ:1.00 C5' B:DA18 3.7 95.0 1.0 C4' B:DA18 3.9 95.3 1.0 O4' B:DA18 4.1 93.7 1.0 O4' A:DG10 4.2 76.6 1.0 C4' A:DG10 4.4 67.0 1.0 O2 A:1W59 4.5 73.3 1.0 C5' A:DG10 4.6 71.6 1.0 N3 B:DA17 4.7 66.2 1.0 N2 B:1WA16 4.8 62.0 1.0

L.F.Reichenbach, A.A.Sobri, N.R.Zaccai, C.R.J.Agnew, N.Burton, L.P.Eperon, S.De Ornellas, I.C.Eperon, R.L.Brady, G.A.Burley. Structural Basis of the Mispairing of An Artificially Expanded Genetic Information System Chem V. 1 946 2016.
ISSN: ESSN 2451-9294
DOI: 10.1016/J.CHEMPR.2016.11.009