Atomistry » Magnesium » PDB 7qpl-7qtl » 7qqx
Atomistry »
  Magnesium »
    PDB 7qpl-7qtl »
      7qqx »

Magnesium in PDB 7qqx: SPCAS9 Bound to Fancf Off-TARGET5 Dna Substrate

Protein crystallography data

The structure of SPCAS9 Bound to Fancf Off-TARGET5 Dna Substrate, PDB code: 7qqx was solved by M.Pacesa, M.Jinek, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 48.00 / 2.40
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 178.534, 67.378, 188.387, 90, 110.9, 90
R / Rfree (%) 18.2 / 21.6

Other elements in 7qqx:

The structure of SPCAS9 Bound to Fancf Off-TARGET5 Dna Substrate also contains other interesting chemical elements:

Potassium (K) 9 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the SPCAS9 Bound to Fancf Off-TARGET5 Dna Substrate (pdb code 7qqx). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the SPCAS9 Bound to Fancf Off-TARGET5 Dna Substrate, PDB code: 7qqx:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 7qqx

Go back to Magnesium Binding Sites List in 7qqx
Magnesium binding site 1 out of 2 in the SPCAS9 Bound to Fancf Off-TARGET5 Dna Substrate


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of SPCAS9 Bound to Fancf Off-TARGET5 Dna Substrate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg101

b:77.7
occ:1.00
O A:HOH201 1.9 87.1 1.0
O B:HOH1813 2.0 72.0 1.0
O A:HOH214 2.1 78.2 1.0
O B:HOH1679 2.2 77.4 1.0
O A:HOH337 2.3 53.7 1.0
O A:HOH295 2.6 39.6 1.0
O A:HOH278 3.3 51.1 1.0
O4 A:U22 3.9 42.7 1.0
O A:HOH340 4.0 67.0 1.0
O A:HOH248 4.1 42.9 1.0
O A:HOH291 4.2 50.2 1.0
OP2 A:G21 4.4 48.7 1.0
O A:HOH262 4.5 28.2 1.0
NH1 B:ARG403 4.6 52.8 1.0
O A:HOH269 4.6 59.2 1.0
N7 A:G21 4.7 41.9 1.0
O A:HOH312 4.8 50.0 1.0
C4 A:U22 4.9 41.9 1.0
N6 A:A48 4.9 33.8 1.0
NH2 B:ARG403 5.0 60.6 1.0
CZ B:ARG403 5.0 56.9 1.0

Magnesium binding site 2 out of 2 in 7qqx

Go back to Magnesium Binding Sites List in 7qqx
Magnesium binding site 2 out of 2 in the SPCAS9 Bound to Fancf Off-TARGET5 Dna Substrate


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of SPCAS9 Bound to Fancf Off-TARGET5 Dna Substrate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg102

b:33.4
occ:1.00
OP1 A:U50 2.1 43.8 1.0
O A:HOH218 2.1 38.7 1.0
O A:HOH282 2.1 38.1 1.0
O A:HOH257 2.1 36.2 1.0
O A:HOH301 2.1 34.8 1.0
O A:HOH204 2.2 42.9 1.0
P A:U50 3.4 43.7 1.0
O A:HOH209 3.9 39.7 1.0
O6 A:G62 3.9 44.5 1.0
O B:HOH1593 4.0 27.3 1.0
OP2 A:U50 4.1 49.6 1.0
O5' A:U50 4.1 40.1 1.0
O A:HOH332 4.2 64.4 1.0
OP1 A:A51 4.3 38.0 1.0
NZ B:LYS1123 4.3 41.4 1.0
OP2 A:A52 4.3 31.1 1.0
O6 A:G53 4.4 40.4 1.0
O A:HOH202 4.5 80.3 1.0
N7 A:G53 4.5 37.4 1.0
O3' A:A49 4.5 44.3 1.0
OP1 A:A52 4.5 44.4 1.0
C5' A:U50 4.6 36.1 1.0
C6 A:G62 4.9 40.2 1.0
N1 A:G62 4.9 39.9 1.0
P A:A52 4.9 38.7 1.0

Reference:

M.Pacesa, C.H.Lin, A.Clery, A.Saha, P.R.Arantes, K.Bargsten, M.J.Irby, F.H.Allain, G.Palermo, P.Cameron, P.D.Donohoue, M.Jinek. Structural Basis For CAS9 Off-Target Activity. Cell V. 185 4067 2022.
ISSN: ISSN 1097-4172
PubMed: 36306733
DOI: 10.1016/J.CELL.2022.09.026
Page generated: Thu Oct 3 06:43:21 2024

Last articles

Zn in 1MC5
Zn in 1MFM
Zn in 1MA0
Zn in 1MED
Zn in 1MEA
Zn in 1MBX
Zn in 1MA3
Zn in 1M9O
Zn in 1M9R
Zn in 1M9Q
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy