Magnesium in PDB 9ar7: Cryoem Structure of THERMOCAS9 Bound with Target Dna Strand Only

The binding sites of Magnesium atom in the Cryoem Structure of THERMOCAS9 Bound with Target Dna Strand Only (pdb code 9ar7). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Cryoem Structure of THERMOCAS9 Bound with Target Dna Strand Only, PDB code: 9ar7:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Cryoem Structure of THERMOCAS9 Bound with Target Dna Strand Only


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Cryoem Structure of THERMOCAS9 Bound with Target Dna Strand Only within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg202 b:8.6 occ:1.00 O B:HOH307 2.1 6.6 1.0 OP2 B:A101 2.1 20.1 1.0 O B:HOH303 2.1 12.5 1.0 P B:A101 3.4 0.0 1.0 N7 B:G94 3.8 5.9 1.0 O B:HOH304 3.9 9.5 1.0 OP1 B:A101 4.0 4.9 1.0 C5 B:C93 4.3 3.7 1.0 O3' B:G100 4.4 6.9 1.0 C3' B:G100 4.4 11.3 1.0 OP2 B:G94 4.4 3.5 1.0 C5' B:G100 4.4 10.8 1.0 O6 B:G94 4.4 13.2 1.0 OP2 B:C93 4.4 4.3 1.0 O4 B:U95 4.4 9.2 1.0 O5' B:A101 4.5 12.6 1.0 C5' B:A101 4.5 9.6 1.0 C8 B:G94 4.7 4.8 1.0 C5 B:G94 4.7 11.4 1.0 C6 B:C93 4.8 4.3 1.0 C4 B:C93 4.8 2.7 1.0 O A:HOH1207 4.9 30.0 1.0 C6 B:G94 5.0 9.1 1.0 N4 B:C93 5.0 6.3 1.0

Magnesium binding site 2 out of 4 in the Cryoem Structure of THERMOCAS9 Bound with Target Dna Strand Only


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Cryoem Structure of THERMOCAS9 Bound with Target Dna Strand Only within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg203 b:13.8 occ:1.00 OP1 B:U102 2.1 12.1 1.0 OG1 A:THR812 2.7 22.4 1.0 O B:HOH308 2.7 15.6 1.0 P B:U102 3.2 4.9 1.0 CG2 A:THR812 3.2 9.3 1.0 OP2 B:U102 3.5 15.6 1.0 CB A:THR812 3.5 11.8 1.0 CB A:SER810 3.7 24.5 1.0 OG A:SER810 3.8 27.1 1.0 N A:THR812 4.1 15.9 1.0 O3' B:A101 4.2 9.1 1.0 O5' B:U102 4.3 13.4 1.0 CA A:THR812 4.4 7.1 1.0 C5' B:U102 4.5 9.3 1.0 N A:ILE811 4.5 15.7 1.0 CA A:SER810 4.5 18.3 1.0 OP2 B:G91 4.7 9.4 1.0 C A:SER810 5.0 26.9 1.0

Magnesium binding site 3 out of 4 in the Cryoem Structure of THERMOCAS9 Bound with Target Dna Strand Only


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Cryoem Structure of THERMOCAS9 Bound with Target Dna Strand Only within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1101 b:38.2 occ:1.00 OD2 A:ASP581 2.1 62.9 1.0 O A:HOH1208 2.1 64.3 1.0 O3' P:DC14 2.8 11.9 1.0 OP2 C:DC15 2.8 43.5 1.0 O A:HIS582 3.1 68.6 1.0 C3' P:DC14 3.2 4.8 1.0 CG A:ASP581 3.2 66.4 1.0 O A:HOH1204 3.3 59.6 1.0 OD1 A:ASP581 3.7 69.0 1.0 OD1 A:ASN605 3.8 75.5 1.0 N A:HIS582 4.0 66.0 1.0 C4' P:DC14 4.0 4.0 1.0 O A:GLY609 4.0 72.4 1.0 C A:HIS582 4.1 72.0 1.0 P C:DC15 4.1 51.1 1.0 NZ A:LYS608 4.3 73.5 1.0 C5' P:DC14 4.5 12.1 1.0 CB A:ASP581 4.5 64.8 1.0 CA A:HIS582 4.5 69.6 1.0 C2' P:DC14 4.5 4.1 1.0 OP1 C:DC15 4.6 47.3 1.0 CA A:ASP581 4.6 62.7 1.0 CB A:HIS582 4.7 68.9 1.0 C A:ASP581 4.7 62.8 1.0 C5' C:DC15 4.8 41.6 1.0 CD A:LYS608 4.9 72.3 1.0 O5' C:DC15 4.9 42.5 1.0 CG A:ASN605 4.9 76.9 1.0

Magnesium binding site 4 out of 4 in the Cryoem Structure of THERMOCAS9 Bound with Target Dna Strand Only


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Cryoem Structure of THERMOCAS9 Bound with Target Dna Strand Only within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1102 b:1.7 occ:1.00 OP1 B:C93 2.1 6.8 1.0 OG1 A:THR478 2.5 30.5 1.0 O B:HOH304 2.8 9.5 1.0 NE2 A:GLN479 3.1 24.8 1.0 P B:C93 3.3 10.0 1.0 O A:ARG475 3.4 54.9 1.0 O5' B:C93 3.5 10.2 1.0 CB A:THR478 3.5 27.8 1.0 C5' B:C93 3.6 2.3 1.0 CE A:MET806 3.6 21.0 1.0 CA A:ARG475 3.9 38.7 1.0 CG A:GLN479 4.0 15.5 1.0 CD A:GLN479 4.0 23.5 1.0 C A:ARG475 4.1 35.5 1.0 N A:GLN479 4.1 20.9 1.0 OP2 B:C93 4.3 4.3 1.0 OP2 B:G94 4.3 3.5 1.0 C A:THR478 4.3 19.1 1.0 SD A:MET806 4.4 36.5 1.0 CG A:ARG475 4.4 38.8 1.0 CB A:ARG475 4.4 40.1 1.0 O3' B:G92 4.4 5.1 1.0 CA A:THR478 4.4 33.2 1.0 O B:HOH301 4.6 12.5 1.0 CE A:LYS482 4.6 11.9 1.0 CG2 A:THR478 4.6 22.2 1.0 NE A:ARG475 4.7 53.3 1.0 O A:MET474 4.7 30.4 1.0 C4' B:C93 4.8 2.4 1.0 CA A:GLN479 4.8 21.1 1.0 O3' B:C93 4.8 9.7 1.0 CB A:GLN479 4.9 21.1 1.0 P B:G94 4.9 5.0 1.0 OP1 B:G94 4.9 12.5 1.0 N A:THR478 5.0 31.2 1.0 O A:THR478 5.0 29.6 1.0 N A:ARG475 5.0 37.4 1.0

M.Roth, Y.Shu, D.Trasandidou, Y.Zhao, J.Van Der Oost, H.Li. Molecular Basis For Epigenetic-Sensitive Editing By CAS9 To Be Published.