Cobalt in PDB 8aso: Nickel(II) Bound to A Non-Canonical Quadruplex

The structure of Nickel(II) Bound to A Non-Canonical Quadruplex, PDB code: 8aso was solved by M.C.Lambert, J.P.Hall, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	22.80 / 1.19
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	21.947, 58.973, 45.598, 90, 90, 90
R / Rfree (%)	14.1 / 17.6

The structure of Nickel(II) Bound to A Non-Canonical Quadruplex also contains other interesting chemical elements:

Nickel

(Ni)

3 atoms

The binding sites of Cobalt atom in the Nickel(II) Bound to A Non-Canonical Quadruplex (pdb code 8aso). This binding sites where shown within 5.0 Angstroms radius around Cobalt atom.
In total 5 binding sites of Cobalt where determined in the Nickel(II) Bound to A Non-Canonical Quadruplex, PDB code: 8aso:
Jump to Cobalt binding site number: 1; 2; 3; 4; 5;

Cobalt binding site 1 out of 5 in the Nickel(II) Bound to A Non-Canonical Quadruplex


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 1 of Nickel(II) Bound to A Non-Canonical Quadruplex within 5.0Å range: probe atom residue distance (Å) B Occ A:Co101 b:34.2 occ:1.00 CO A:NCO101 0.0 34.2 1.0 N4 A:NCO101 2.0 33.6 1.0 N3 A:NCO101 2.0 38.4 1.0 N6 A:NCO101 2.0 31.8 1.0 N1 A:NCO101 2.0 32.3 1.0 N2 A:NCO101 2.0 32.3 1.0 N5 A:NCO101 2.0 34.9 1.0 HN41 A:NCO101 2.5 40.3 1.0 HN42 A:NCO101 2.5 40.3 1.0 HN43 A:NCO101 2.5 40.3 1.0 HN32 A:NCO101 2.5 46.0 1.0 HN33 A:NCO101 2.5 46.0 1.0 HN31 A:NCO101 2.5 46.0 1.0 HN63 A:NCO101 2.5 38.2 1.0 HN61 A:NCO101 2.5 38.2 1.0 HN13 A:NCO101 2.5 38.8 1.0 HN12 A:NCO101 2.5 38.8 1.0 HN11 A:NCO101 2.5 38.8 1.0 HN62 A:NCO101 2.5 38.2 1.0 HN22 A:NCO101 2.5 38.8 1.0 HN21 A:NCO101 2.5 38.8 1.0 HN23 A:NCO101 2.5 38.8 1.0 HN52 A:NCO101 2.5 41.9 1.0 HN53 A:NCO101 2.5 41.9 1.0 HN51 A:NCO101 2.5 41.9 1.0 OP1 A:DC2 3.7 20.3 1.0 O A:HOH209 3.8 32.6 0.9 OP1 A:DC6 3.9 23.1 1.0 O A:HOH221 4.2 51.6 1.0 O A:HOH224 4.3 30.7 1.0 P A:DC2 4.8 17.0 1.0 O3' A:DG1 4.8 17.6 1.0 O3' A:DG5 4.8 16.1 1.0

Cobalt binding site 2 out of 5 in the Nickel(II) Bound to A Non-Canonical Quadruplex


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 2 of Nickel(II) Bound to A Non-Canonical Quadruplex within 5.0Å range: probe atom residue distance (Å) B Occ A:Co102 b:7.0 occ:1.00 CO A:NCO102 0.0 7.0 1.0 N2 A:NCO102 2.0 8.3 1.0 N6 A:NCO102 2.0 7.9 1.0 N4 A:NCO102 2.0 7.9 1.0 N1 A:NCO102 2.0 7.3 1.0 N3 A:NCO102 2.0 7.5 1.0 N5 A:NCO102 2.0 8.4 1.0 HN22 A:NCO102 2.5 10.0 1.0 HN23 A:NCO102 2.5 10.0 1.0 HN21 A:NCO102 2.5 10.0 1.0 HN41 A:NCO102 2.5 9.5 1.0 HN61 A:NCO102 2.5 9.4 1.0 HN43 A:NCO102 2.5 9.5 1.0 HN42 A:NCO102 2.5 9.5 1.0 HN62 A:NCO102 2.5 9.4 1.0 HN63 A:NCO102 2.5 9.4 1.0 HN13 A:NCO102 2.5 8.8 1.0 HN11 A:NCO102 2.5 8.8 1.0 HN12 A:NCO102 2.5 8.8 1.0 HN33 A:NCO102 2.5 9.1 1.0 HN31 A:NCO102 2.5 9.1 1.0 HN32 A:NCO102 2.5 9.1 1.0 HN53 A:NCO102 2.5 10.1 1.0 HN52 A:NCO102 2.5 10.1 1.0 HN51 A:NCO102 2.5 10.1 1.0 O A:HOH214 3.7 10.2 1.0 O B:HOH212 3.9 8.4 1.0 OP1 A:DA3 4.1 7.8 1.0 O B:HOH215 4.1 9.1 1.0 O A:HOH225 4.2 12.9 1.0 OP2 A:DA3 4.3 7.1 1.0 OP1 B:DA3 4.6 6.5 1.0 O A:HOH220 4.7 10.5 0.3 P A:DA3 4.8 6.7 1.0 OP2 B:DC2 4.8 8.2 1.0 O A:HOH207 4.8 17.7 0.6 H3' B:DC2 5.0 7.0 1.0

Cobalt binding site 3 out of 5 in the Nickel(II) Bound to A Non-Canonical Quadruplex


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 3 of Nickel(II) Bound to A Non-Canonical Quadruplex within 5.0Å range: probe atom residue distance (Å) B Occ A:Co103 b:59.5 occ:0.77 CO A:NCO103 0.0 59.5 0.8 N1 A:NCO103 2.0 59.0 0.8 N6 A:NCO103 2.0 59.3 0.8 N3 A:NCO103 2.0 58.3 0.8 N4 A:NCO103 2.0 59.0 0.8 N5 A:NCO103 2.0 60.1 0.8 N2 A:NCO103 2.0 58.0 0.8 HN12 A:NCO103 2.5 70.8 0.8 HN13 A:NCO103 2.5 70.8 0.8 HN11 A:NCO103 2.5 70.8 0.8 HN63 A:NCO103 2.5 71.2 0.8 HN33 A:NCO103 2.5 70.0 0.8 HN62 A:NCO103 2.5 71.2 0.8 HN31 A:NCO103 2.5 70.0 0.8 HN32 A:NCO103 2.5 70.0 0.8 HN61 A:NCO103 2.5 71.2 0.8 HN41 A:NCO103 2.5 70.8 0.8 HN43 A:NCO103 2.5 70.8 0.8 HN42 A:NCO103 2.5 70.8 0.8 HN52 A:NCO103 2.5 72.2 0.8 HN22 A:NCO103 2.5 69.5 0.8 HN53 A:NCO103 2.5 72.2 0.8 HN51 A:NCO103 2.5 72.2 0.8 HN23 A:NCO103 2.5 69.5 0.8 HN21 A:NCO103 2.5 69.5 0.8 OP2 A:DC6 4.3 20.6 1.0 OP1 A:DC6 4.9 23.1 1.0

Cobalt binding site 4 out of 5 in the Nickel(II) Bound to A Non-Canonical Quadruplex


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 4 of Nickel(II) Bound to A Non-Canonical Quadruplex within 5.0Å range: probe atom residue distance (Å) B Occ B:Co101 b:14.3 occ:0.51 CO B:NCO101 0.0 14.3 0.5 N1 B:NCO101 0.3 56.1 0.2 HN12 B:NCO101 1.1 67.4 0.2 HN11 B:NCO101 1.2 67.4 0.2 HN13 B:NCO101 1.2 67.4 0.2 CO B:NCO101 1.6 54.6 0.2 N2 B:NCO101 2.0 8.3 0.5 N1 B:NCO101 2.0 14.4 0.5 N5 B:NCO101 2.0 17.4 0.5 N3 B:NCO101 2.0 17.2 0.5 N4 B:NCO101 2.0 14.0 0.5 N6 B:NCO101 2.0 14.6 0.5 HN33 B:NCO101 2.4 66.8 0.2 HN42 B:NCO101 2.4 62.4 0.2 N3 B:NCO101 2.4 55.7 0.2 HN21 B:NCO101 2.5 9.9 0.5 HN22 B:NCO101 2.5 9.9 0.5 HN23 B:NCO101 2.5 9.9 0.5 HN13 B:NCO101 2.5 17.3 0.5 HN12 B:NCO101 2.5 17.3 0.5 HN52 B:NCO101 2.5 20.9 0.5 HN51 B:NCO101 2.5 20.9 0.5 HN53 B:NCO101 2.5 20.9 0.5 HN33 B:NCO101 2.5 20.6 0.5 HN11 B:NCO101 2.5 17.3 0.5 HN32 B:NCO101 2.5 20.6 0.5 HN43 B:NCO101 2.5 16.8 0.5 HN42 B:NCO101 2.5 16.8 0.5 HN41 B:NCO101 2.5 16.8 0.5 HN31 B:NCO101 2.5 20.6 0.5 HN62 B:NCO101 2.5 17.6 0.5 HN63 B:NCO101 2.5 17.6 0.5 HN61 B:NCO101 2.5 17.6 0.5 N4 B:NCO101 2.5 52.0 0.2 N6 B:NCO101 2.6 51.9 0.2 HN52 B:NCO101 2.6 65.6 0.2 N5 B:NCO101 2.7 54.7 0.2 HN63 B:NCO101 2.7 62.3 0.2 HN61 B:NCO101 2.7 62.3 0.2 HN31 B:NCO101 2.9 66.8 0.2 HN51 B:NCO101 3.1 65.6 0.2 HN41 B:NCO101 3.2 62.4 0.2 HN43 B:NCO101 3.3 62.4 0.2 HN32 B:NCO101 3.3 66.8 0.2 HN62 B:NCO101 3.5 62.3 0.2 HN53 B:NCO101 3.5 65.6 0.2 N2 B:NCO101 3.5 56.3 0.2 HN23 B:NCO101 4.0 67.5 0.2 HN21 B:NCO101 4.0 67.5 0.2 HN22 B:NCO101 4.0 67.5 0.2

Cobalt binding site 5 out of 5 in the Nickel(II) Bound to A Non-Canonical Quadruplex


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 5 of Nickel(II) Bound to A Non-Canonical Quadruplex within 5.0Å range: probe atom residue distance (Å) B Occ B:Co101 b:54.6 occ:0.24 CO B:NCO101 0.0 54.6 0.2 N2 B:NCO101 0.3 8.3 0.5 HN21 B:NCO101 1.2 9.9 0.5 HN23 B:NCO101 1.2 9.9 0.5 HN22 B:NCO101 1.2 9.9 0.5 CO B:NCO101 1.6 14.3 0.5 N2 B:NCO101 1.9 56.3 0.2 N1 B:NCO101 1.9 56.1 0.2 N3 B:NCO101 2.0 55.7 0.2 N4 B:NCO101 2.0 52.0 0.2 N6 B:NCO101 2.0 51.9 0.2 N5 B:NCO101 2.0 54.7 0.2 HN22 B:NCO101 2.5 67.5 0.2 HN13 B:NCO101 2.5 67.4 0.2 HN23 B:NCO101 2.5 67.5 0.2 HN11 B:NCO101 2.5 67.4 0.2 HN12 B:NCO101 2.5 67.4 0.2 HN21 B:NCO101 2.5 67.5 0.2 HN32 B:NCO101 2.5 20.6 0.5 HN53 B:NCO101 2.5 20.9 0.5 HN41 B:NCO101 2.5 62.4 0.2 HN31 B:NCO101 2.5 66.8 0.2 HN32 B:NCO101 2.5 66.8 0.2 HN63 B:NCO101 2.5 62.3 0.2 HN42 B:NCO101 2.5 62.4 0.2 HN61 B:NCO101 2.5 62.3 0.2 HN43 B:NCO101 2.5 62.4 0.2 HN52 B:NCO101 2.5 65.6 0.2 HN51 B:NCO101 2.5 65.6 0.2 HN33 B:NCO101 2.5 66.8 0.2 HN53 B:NCO101 2.5 65.6 0.2 N6 B:NCO101 2.5 14.6 0.5 HN41 B:NCO101 2.5 16.8 0.5 HN62 B:NCO101 2.5 62.3 0.2 N3 B:NCO101 2.5 17.2 0.5 HN62 B:NCO101 2.6 17.6 0.5 N5 B:NCO101 2.6 17.4 0.5 N4 B:NCO101 2.6 14.0 0.5 HN63 B:NCO101 2.8 17.6 0.5 HN31 B:NCO101 3.0 20.6 0.5 HN51 B:NCO101 3.0 20.9 0.5 HN42 B:NCO101 3.1 16.8 0.5 HN33 B:NCO101 3.4 20.6 0.5 HN52 B:NCO101 3.4 20.9 0.5 HN43 B:NCO101 3.4 16.8 0.5 HN61 B:NCO101 3.4 17.6 0.5 N1 B:NCO101 3.6 14.4 0.5 HN11 B:NCO101 4.0 17.3 0.5 HN12 B:NCO101 4.1 17.3 0.5 HN13 B:NCO101 4.1 17.3 0.5

M.C.Lambert, J.P.Hall, J.A.Brazier, C.J.Cardin. Identifying Metal-Dna Binding Sites, What Is the Best Method to Get Transition Metals Into A Crystal System? To Be Published.