Magnesium in PDB 5yeu: Structural and Mechanistic Analyses Reveal A Unique CAS4-Like Protein in the Mimivirus Virophage Resistance Element System

The structure of Structural and Mechanistic Analyses Reveal A Unique CAS4-Like Protein in the Mimivirus Virophage Resistance Element System, PDB code: 5yeu was solved by C.Dou, M.J.Yu, Y.J.Gu, W.Cheng, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	40.25 / 3.00
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	79.259, 93.453, 123.190, 90.00, 90.00, 90.00
R / Rfree (%)	22.4 / 26.3

The binding sites of Magnesium atom in the Structural and Mechanistic Analyses Reveal A Unique CAS4-Like Protein in the Mimivirus Virophage Resistance Element System (pdb code 5yeu). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Structural and Mechanistic Analyses Reveal A Unique CAS4-Like Protein in the Mimivirus Virophage Resistance Element System, PDB code: 5yeu:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Structural and Mechanistic Analyses Reveal A Unique CAS4-Like Protein in the Mimivirus Virophage Resistance Element System


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structural and Mechanistic Analyses Reveal A Unique CAS4-Like Protein in the Mimivirus Virophage Resistance Element System within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg601 b:46.1 occ:1.00 OD1 A:ASP268 2.3 47.1 1.0 OE2 A:GLU289 2.7 44.3 1.0 O A:HOH718 2.7 50.6 1.0 OD2 A:ASP268 2.9 46.6 1.0 CG A:ASP268 3.0 44.4 1.0 CD A:GLU289 3.7 48.7 1.0 NZ A:LYS291 3.8 44.8 1.0 OE1 A:GLU289 3.9 50.8 1.0 OE1 A:GLU234 4.0 68.4 1.0 NE2 A:GLN316 4.1 40.9 1.0 OE2 A:GLU234 4.1 58.0 1.0 CD A:GLU234 4.3 65.5 1.0 O A:HOH712 4.4 36.7 1.0 CB A:ASP268 4.5 37.2 1.0 O A:ILE290 4.7 32.1 1.0 CE A:LYS291 4.9 32.8 1.0 O A:SER266 5.0 45.3 1.0

Magnesium binding site 2 out of 4 in the Structural and Mechanistic Analyses Reveal A Unique CAS4-Like Protein in the Mimivirus Virophage Resistance Element System


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structural and Mechanistic Analyses Reveal A Unique CAS4-Like Protein in the Mimivirus Virophage Resistance Element System within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg602 b:41.1 occ:1.00 O A:HOH710 2.3 40.9 1.0 OG1 A:THR191 2.8 48.9 1.0 NH1 A:ARG186 3.5 51.6 1.0 OG1 A:THR193 4.1 49.5 1.0 NH2 A:ARG186 4.2 45.7 1.0 CB A:THR191 4.2 45.3 1.0 CB A:SER266 4.2 41.7 1.0 O A:HOH718 4.2 50.6 1.0 N A:SER266 4.2 43.9 1.0 CZ A:ARG186 4.3 59.6 1.0 N A:ALA192 4.4 38.8 1.0 CG2 A:THR193 4.4 38.6 1.0 O A:SER266 4.5 45.3 1.0 N A:THR193 4.5 43.0 1.0 CA A:SER266 4.7 42.3 1.0 CB A:ALA192 4.8 36.4 1.0 CB A:THR193 4.8 34.0 1.0 CG2 A:THR191 5.0 48.3 1.0

Magnesium binding site 3 out of 4 in the Structural and Mechanistic Analyses Reveal A Unique CAS4-Like Protein in the Mimivirus Virophage Resistance Element System


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structural and Mechanistic Analyses Reveal A Unique CAS4-Like Protein in the Mimivirus Virophage Resistance Element System within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg601 b:46.4 occ:1.00 O B:HOH704 2.1 46.3 1.0 OE2 B:GLU289 2.1 49.9 1.0 O B:HOH701 2.2 50.6 1.0 OD2 B:ASP268 2.7 58.0 1.0 OD1 B:ASP268 2.8 62.2 1.0 CG B:ASP268 3.1 61.1 1.0 CD B:GLU289 3.2 49.2 1.0 OE1 B:GLU289 3.6 50.8 1.0 NE2 B:GLN316 3.7 43.6 1.0 NZ B:LYS291 3.9 40.7 1.0 CG B:GLU289 4.5 46.1 1.0 OE1 B:GLU234 4.5 74.5 1.0 O B:ILE290 4.6 51.9 1.0 CB B:ASP268 4.6 55.2 1.0 OE2 B:GLU234 4.6 81.8 1.0 CE B:LYS291 4.6 39.0 1.0 CD B:GLU234 4.7 75.1 1.0 NE2 B:GLN320 4.8 51.1 1.0 CD B:GLN316 4.8 44.2 1.0 O B:SER266 5.0 59.1 1.0

Magnesium binding site 4 out of 4 in the Structural and Mechanistic Analyses Reveal A Unique CAS4-Like Protein in the Mimivirus Virophage Resistance Element System


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Structural and Mechanistic Analyses Reveal A Unique CAS4-Like Protein in the Mimivirus Virophage Resistance Element System within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg602 b:44.4 occ:1.00 OG1 B:THR191 3.3 58.6 1.0 N B:SER266 3.8 48.7 1.0 CB B:ALA192 3.8 39.2 1.0 O B:HOH701 3.8 50.6 1.0 NE2 B:GLN316 3.9 43.6 1.0 O B:SER266 4.0 59.1 1.0 N B:ALA192 4.0 45.9 1.0 NE2 B:GLN320 4.0 51.1 1.0 N B:THR193 4.2 49.1 1.0 CA B:ALA192 4.4 44.4 1.0 CB B:SER266 4.4 51.7 1.0 CG2 B:THR193 4.4 41.5 1.0 CA B:SER266 4.4 48.3 1.0 OG1 B:THR193 4.5 47.9 1.0 C B:SER266 4.5 53.0 1.0 CA B:ALA265 4.6 46.3 1.0 C B:ALA265 4.7 50.7 1.0 CB B:THR191 4.7 53.0 1.0 C B:ALA192 4.7 50.2 1.0 CD B:GLN316 4.8 44.2 1.0 CG B:GLN316 4.9 43.0 1.0 CB B:THR193 5.0 47.3 1.0 C B:THR191 5.0 49.6 1.0

C.Dou, M.J.Yu, Y.J.Gu, J.Wang, K.Yin, C.Nie, X.Zhu, S.Qi, Y.Wei, W.Cheng. Structural and Mechanistic Analyses Reveal A Unique CAS4-Like Protein in the Mimivirus Virophage Resistance Element System Iscience V. 3 1 2018.
ISSN: ESSN 2589-0042
DOI: 10.1016/J.ISCI.2018.04.001