Magnesium in PDB 5wti: Crystal Structure of the Crispr-Associated Protein in Complex with Crrna and Dna

The structure of Crystal Structure of the Crispr-Associated Protein in Complex with Crrna and Dna, PDB code: 5wti was solved by D.Wu, X.Guan, Y.Zhu, Z.Huang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.91 / 2.68
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	172.056, 138.742, 95.611, 90.00, 117.45, 90.00
R / Rfree (%)	21.7 / 26.4

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 26;

Binding sites:

The binding sites of Magnesium atom in the Crystal Structure of the Crispr-Associated Protein in Complex with Crrna and Dna (pdb code 5wti). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 26 binding sites of Magnesium where determined in the Crystal Structure of the Crispr-Associated Protein in Complex with Crrna and Dna, PDB code: 5wti:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 26 in the Crystal Structure of the Crispr-Associated Protein in Complex with Crrna and Dna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of the Crispr-Associated Protein in Complex with Crrna and Dna within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg101 b:23.9 occ:1.00 O4' E:DG20 4.9 12.6 1.0 OE2 Z:GLU112 5.0 57.5 1.0

Magnesium binding site 2 out of 26 in the Crystal Structure of the Crispr-Associated Protein in Complex with Crrna and Dna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of the Crispr-Associated Protein in Complex with Crrna and Dna within 5.0Å range: probe atom residue distance (Å) B Occ H:Mg101 b:32.4 occ:1.00 N7 H:DG5 3.6 26.8 1.0 C7 H:DT4 4.4 31.8 1.0 O6 H:DG5 4.4 33.0 1.0 C8 H:DG5 4.5 28.4 1.0 C5 H:DG5 4.6 30.0 1.0 C5 H:DT4 4.8 33.0 1.0 C6 H:DG5 4.9 31.2 1.0

Magnesium binding site 3 out of 26 in the Crystal Structure of the Crispr-Associated Protein in Complex with Crrna and Dna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Crystal Structure of the Crispr-Associated Protein in Complex with Crrna and Dna within 5.0Å range: probe atom residue distance (Å) B Occ Z:Mg1201 b:45.0 occ:1.00 OE1 Z:GLU789 2.3 59.6 1.0 CD Z:GLU789 3.2 65.0 1.0 OE2 Z:GLU789 3.4 78.4 1.0 NZ Z:LYS793 3.8 19.9 1.0 O5' B:G104 4.3 22.3 1.0 CG Z:GLU789 4.6 36.5 1.0 C5' B:G104 4.7 27.4 1.0 CE Z:LYS793 4.8 10.6 1.0 OP2 B:G104 4.9 16.3 1.0

Magnesium binding site 4 out of 26 in the Crystal Structure of the Crispr-Associated Protein in Complex with Crrna and Dna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Crystal Structure of the Crispr-Associated Protein in Complex with Crrna and Dna within 5.0Å range: probe atom residue distance (Å) B Occ Z:Mg1202 b:40.4 occ:1.00 OD1 Z:ASP574 2.1 48.7 1.0 OE2 Z:GLU828 2.6 38.9 1.0 CG Z:ASP574 2.9 40.1 1.0 O Z:LEU575 2.9 43.9 1.0 OD2 Z:ASP574 3.0 62.6 1.0 CD Z:GLU828 3.5 37.1 1.0 OE1 Z:GLU828 3.6 33.4 1.0 C Z:LEU575 3.8 29.3 1.0 N Z:LEU575 4.2 27.6 1.0 CB Z:ASP574 4.2 19.6 1.0 OD1 Z:ASP952 4.3 48.6 1.0 C Z:ASP574 4.4 24.0 1.0 N Z:GLY576 4.6 24.8 1.0 CA Z:GLY576 4.6 30.2 1.0 CA Z:LEU575 4.6 24.9 1.0 CA Z:ASP574 4.7 22.2 1.0 CG Z:ASP952 4.9 47.2 1.0 CG Z:GLU828 4.9 32.8 1.0 O Z:ASP574 5.0 34.8 1.0

Magnesium binding site 5 out of 26 in the Crystal Structure of the Crispr-Associated Protein in Complex with Crrna and Dna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Crystal Structure of the Crispr-Associated Protein in Complex with Crrna and Dna within 5.0Å range: probe atom residue distance (Å) B Occ Z:Mg1203 b:30.5 occ:1.00 OD1 Z:ASP470 2.1 44.8 1.0 OE1 Z:GLN453 2.4 38.2 1.0 OP2 B:C102 2.5 30.2 1.0 CG Z:ASP470 3.2 24.7 1.0 CD Z:GLN453 3.6 29.0 1.0 OD2 Z:ASP470 3.7 23.1 1.0 P B:C102 3.9 14.6 1.0 N Z:GLU471 4.1 26.5 1.0 NE2 Z:GLN453 4.3 43.7 1.0 CB Z:ASP470 4.4 20.4 1.0 OP1 B:C102 4.5 12.1 1.0 O5' B:C102 4.6 11.8 1.0 CB Z:GLU471 4.6 23.4 1.0 CA Z:ASP470 4.7 24.6 1.0 CG Z:GLN453 4.8 26.6 1.0 C Z:ASP470 4.9 27.0 1.0 OH Z:TYR468 4.9 30.9 1.0 CA Z:GLU471 4.9 23.3 1.0 OG Z:SER472 4.9 35.9 1.0

Magnesium binding site 6 out of 26 in the Crystal Structure of the Crispr-Associated Protein in Complex with Crrna and Dna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Crystal Structure of the Crispr-Associated Protein in Complex with Crrna and Dna within 5.0Å range: probe atom residue distance (Å) B Occ Z:Mg1204 b:46.2 occ:1.00 CD Z:LYS199 2.4 55.4 1.0 NZ Z:LYS199 2.7 61.6 1.0 O Z:ILE201 2.8 31.8 1.0 CE Z:LYS199 2.9 61.8 1.0 O Z:LYS199 3.0 67.2 1.0 CA Z:LYS199 3.7 51.4 1.0 CG Z:LYS199 3.7 67.0 1.0 C Z:LYS199 3.7 52.3 1.0 C Z:ILE201 4.0 33.0 1.0 CD1 Z:TRP203 4.0 22.1 1.0 O Z:VAL198 4.0 40.9 1.0 CB Z:LYS199 4.2 53.7 1.0 CA Z:LYS202 4.5 24.2 1.0 NE1 Z:TRP203 4.6 22.4 1.0 N Z:TRP203 4.6 23.5 1.0 N Z:LYS202 4.7 28.5 1.0 N Z:LYS199 4.9 42.7 1.0 C Z:VAL198 4.9 34.5 1.0 N Z:ILE201 4.9 35.5 1.0

Magnesium binding site 7 out of 26 in the Crystal Structure of the Crispr-Associated Protein in Complex with Crrna and Dna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Crystal Structure of the Crispr-Associated Protein in Complex with Crrna and Dna within 5.0Å range: probe atom residue distance (Å) B Occ Z:Mg1205 b:54.2 occ:1.00 O Z:ARG208 3.3 66.3 1.0 C Z:ARG208 4.4 70.3 1.0 OD2 Z:ASP126 4.4 30.3 1.0 CA Z:ASN209 4.7 56.3 1.0 N Z:ASN209 5.0 62.2 1.0

Magnesium binding site 8 out of 26 in the Crystal Structure of the Crispr-Associated Protein in Complex with Crrna and Dna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Crystal Structure of the Crispr-Associated Protein in Complex with Crrna and Dna within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg201 b:41.5 occ:1.00 O2' B:U97 3.8 47.2 1.0 O6 B:G75 4.5 50.8 1.0 C2' B:U97 4.7 40.7 1.0 O4 B:U31 4.8 54.0 1.0

Magnesium binding site 9 out of 26 in the Crystal Structure of the Crispr-Associated Protein in Complex with Crrna and Dna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Crystal Structure of the Crispr-Associated Protein in Complex with Crrna and Dna within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg202 b:46.9 occ:1.00 O4 B:U82 2.7 55.9 1.0 O6 B:G81 2.8 50.2 1.0 C4 B:U82 3.8 43.4 1.0 C6 B:G81 3.8 43.2 1.0 O4 B:U80 3.9 47.0 1.0 O6 B:G93 4.2 36.8 1.0 O6 B:G92 4.3 39.4 1.0 N3 B:U82 4.4 40.0 1.0 N7 B:G81 4.5 44.0 1.0 C5 B:G81 4.5 42.6 1.0 C4 B:U80 4.6 44.4 1.0 N4 B:C94 4.6 25.4 1.0 N4 B:C83 4.9 44.0 1.0 N1 B:G81 4.9 39.9 1.0 C5 B:U80 4.9 46.4 1.0 C5 B:U82 5.0 37.8 1.0

Magnesium binding site 10 out of 26 in the Crystal Structure of the Crispr-Associated Protein in Complex with Crrna and Dna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Crystal Structure of the Crispr-Associated Protein in Complex with Crrna and Dna within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg203 b:37.0 occ:1.00 O4 B:U96 2.6 35.5 1.0 MG B:MG204 2.9 36.9 1.0 O4 B:U97 3.2 39.6 1.0 C4 B:U96 3.7 29.1 1.0 N6 B:A79 4.1 39.7 1.0 N6 B:A95 4.4 31.8 1.0 O6 B:G78 4.4 41.5 1.0 C4 B:U97 4.4 29.6 1.0 C5 B:U96 4.5 33.4 1.0 N3 B:U96 4.7 25.3 1.0 N4 B:C77 4.9 44.8 1.0 N7 B:A95 5.0 34.7 1.0

D.Wu, X.Guan, Y.Zhu, K.Ren, Z.Huang. Structural Basis of Stringent Pam Recognition By Crispr-C2C1 in Complex with Sgrna Cell Res. V. 27 705 2017.
ISSN: ISSN 1748-7838
PubMed: 28374750
DOI: 10.1038/CR.2017.46