Magnesium in PDB 8jce: Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU

The structure of Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU also contains other interesting chemical elements:

Zinc

(Zn)

12 atoms

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 12;

Binding sites:

The binding sites of Magnesium atom in the Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU (pdb code 8jce). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 12 binding sites of Magnesium where determined in the Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU, PDB code: 8jce:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 12 in the Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1004 b:80.2 occ:1.00 O L:HOH712 2.0 74.5 1.0 O L:HOH702 2.1 79.2 1.0 O10 L:YG4604 2.3 73.8 1.0 O7 L:YG4604 2.6 73.8 1.0 P2 L:YG4604 3.7 73.8 1.0 P1 L:YG4604 3.8 73.8 1.0 O8 L:YG4604 4.1 73.8 1.0 O12 L:YG4604 4.1 73.8 1.0 OD2 A:ASP277 4.1 66.3 1.0 C17 L:YG4604 4.3 73.8 1.0 O L:HOH701 4.4 63.1 1.0 N7 L:YG4604 4.4 73.8 1.0 O6 L:YG4604 4.4 73.8 1.0 OG1 L:THR246 4.4 56.5 1.0 OD1 A:ASP277 4.6 66.3 1.0 CG A:ASP277 4.6 66.3 1.0 O9 L:YG4604 4.6 73.8 1.0 O11 L:YG4604 4.7 73.8 1.0 OD1 L:ASN35 4.8 68.0 1.0 NH2 A:ARG275 4.9 66.4 1.0

Magnesium binding site 2 out of 12 in the Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg601 b:76.6 occ:1.00 O A:HOH1103 2.0 73.3 1.0 O A:HOH1102 2.1 74.3 1.0 O10 A:YG41003 2.5 73.0 1.0 O7 A:YG41003 2.7 73.0 1.0 OD1 B:ASP277 3.7 66.5 1.0 P2 A:YG41003 3.9 73.0 1.0 P1 A:YG41003 3.9 73.0 1.0 O12 A:YG41003 3.9 73.0 1.0 O8 A:YG41003 4.2 73.0 1.0 C17 A:YG41003 4.3 73.0 1.0 OG1 A:THR246 4.4 56.8 1.0 CG B:ASP277 4.4 66.5 1.0 N7 A:YG41003 4.4 73.0 1.0 O A:HOH1101 4.5 62.6 1.0 O6 A:YG41003 4.5 73.0 1.0 OD2 B:ASP277 4.5 66.5 1.0 NH2 B:ARG275 4.7 67.3 1.0 O11 A:YG41003 4.8 73.0 1.0 O9 A:YG41003 4.9 73.0 1.0 P3 A:YG41003 4.9 73.0 1.0 O25 A:YG41003 5.0 73.0 1.0

Magnesium binding site 3 out of 12 in the Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg601 b:80.9 occ:1.00 O B:HOH707 2.0 72.4 1.0 O B:HOH702 2.1 78.0 1.0 O10 B:YG4604 2.4 74.1 1.0 O7 B:YG4604 2.5 74.1 1.0 P1 B:YG4604 3.7 74.1 1.0 P2 B:YG4604 3.7 74.1 1.0 OD2 C:ASP277 3.9 66.8 1.0 O12 B:YG4604 3.9 74.1 1.0 O8 B:YG4604 4.1 74.1 1.0 C17 B:YG4604 4.3 74.1 1.0 O6 B:YG4604 4.4 74.1 1.0 OG1 B:THR246 4.4 58.4 1.0 N7 B:YG4604 4.4 74.1 1.0 O B:HOH701 4.4 62.9 1.0 CG C:ASP277 4.5 66.8 1.0 OD1 C:ASP277 4.6 66.8 1.0 NH2 C:ARG275 4.7 67.6 1.0 O11 B:YG4604 4.7 74.1 1.0 O9 B:YG4604 4.8 74.1 1.0 P3 B:YG4604 4.9 74.1 1.0 OD1 B:ASN35 5.0 68.1 1.0 O4 B:YG4604 5.0 74.1 1.0

Magnesium binding site 4 out of 12 in the Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg601 b:80.5 occ:1.00 O C:HOH712 2.0 74.4 1.0 O C:HOH702 2.1 79.2 1.0 O10 C:YG4604 2.3 73.7 1.0 O7 C:YG4604 2.6 73.7 1.0 P2 C:YG4604 3.7 73.7 1.0 P1 C:YG4604 3.8 73.7 1.0 O8 C:YG4604 4.1 73.7 1.0 O12 C:YG4604 4.1 73.7 1.0 OD2 D:ASP277 4.1 66.4 1.0 C17 C:YG4604 4.3 73.7 1.0 O C:HOH701 4.4 62.8 1.0 N7 C:YG4604 4.4 73.7 1.0 O6 C:YG4604 4.4 73.7 1.0 OG1 C:THR246 4.4 56.7 1.0 OD1 D:ASP277 4.6 66.4 1.0 CG D:ASP277 4.6 66.4 1.0 O9 C:YG4604 4.6 73.7 1.0 O11 C:YG4604 4.7 73.7 1.0 OD1 C:ASN35 4.8 67.7 1.0 NH2 D:ARG275 4.9 66.4 1.0

Magnesium binding site 5 out of 12 in the Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg601 b:76.2 occ:1.00 O D:HOH703 2.0 73.4 1.0 O D:HOH702 2.1 74.0 1.0 O10 D:YG4604 2.5 73.4 1.0 O7 D:YG4604 2.7 73.4 1.0 OD2 E:ASP277 3.8 66.5 1.0 P2 D:YG4604 3.9 73.4 1.0 P1 D:YG4604 3.9 73.4 1.0 O12 D:YG4604 3.9 73.4 1.0 O8 D:YG4604 4.2 73.4 1.0 C17 D:YG4604 4.3 73.4 1.0 OG1 D:THR246 4.4 56.6 1.0 CG E:ASP277 4.4 66.5 1.0 N7 D:YG4604 4.4 73.4 1.0 O D:HOH701 4.5 63.0 1.0 O6 D:YG4604 4.5 73.4 1.0 OD1 E:ASP277 4.5 66.5 1.0 NH2 E:ARG275 4.7 67.2 1.0 O11 D:YG4604 4.8 73.4 1.0 O9 D:YG4604 4.9 73.4 1.0 P3 D:YG4604 4.9 73.4 1.0 O25 D:YG4604 5.0 73.4 1.0

Magnesium binding site 6 out of 12 in the Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU within 5.0Å range: probe atom residue distance (Å) B Occ F:Mg601 b:80.8 occ:1.00 O E:HOH707 2.0 72.5 1.0 O E:HOH702 2.1 77.6 1.0 O10 E:YG4604 2.4 73.7 1.0 O7 E:YG4604 2.5 73.7 1.0 P1 E:YG4604 3.7 73.7 1.0 P2 E:YG4604 3.7 73.7 1.0 O12 E:YG4604 3.9 73.7 1.0 OD2 F:ASP277 3.9 66.2 1.0 O8 E:YG4604 4.1 73.7 1.0 C17 E:YG4604 4.3 73.7 1.0 O6 E:YG4604 4.4 73.7 1.0 OG1 E:THR246 4.4 58.7 1.0 N7 E:YG4604 4.4 73.7 1.0 O E:HOH701 4.4 63.2 1.0 CG F:ASP277 4.5 66.2 1.0 OD1 F:ASP277 4.5 66.2 1.0 NH2 F:ARG275 4.7 67.4 1.0 O11 E:YG4604 4.7 73.7 1.0 O9 E:YG4604 4.8 73.7 1.0 P3 E:YG4604 4.9 73.7 1.0 OD1 E:ASN35 5.0 68.2 1.0 O4 E:YG4604 5.0 73.7 1.0

Magnesium binding site 7 out of 12 in the Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU within 5.0Å range: probe atom residue distance (Å) B Occ G:Mg601 b:80.7 occ:1.00 O F:HOH712 2.0 74.5 1.0 O F:HOH702 2.1 79.3 1.0 O10 F:YG4604 2.3 73.5 1.0 O7 F:YG4604 2.6 73.5 1.0 P2 F:YG4604 3.7 73.5 1.0 P1 F:YG4604 3.8 73.5 1.0 O8 F:YG4604 4.1 73.5 1.0 O12 F:YG4604 4.1 73.5 1.0 OD1 G:ASP277 4.1 66.1 1.0 C17 F:YG4604 4.3 73.5 1.0 O F:HOH701 4.4 63.1 1.0 N7 F:YG4604 4.4 73.5 1.0 O6 F:YG4604 4.4 73.5 1.0 OG1 F:THR246 4.4 56.8 1.0 OD2 G:ASP277 4.6 66.1 1.0 CG G:ASP277 4.6 66.1 1.0 O9 F:YG4604 4.6 73.5 1.0 O11 F:YG4604 4.7 73.5 1.0 OD1 F:ASN35 4.8 67.8 1.0 NH2 G:ARG275 4.9 66.5 1.0

Magnesium binding site 8 out of 12 in the Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU within 5.0Å range: probe atom residue distance (Å) B Occ H:Mg601 b:76.0 occ:1.00 O G:HOH703 2.0 73.1 1.0 O G:HOH702 2.1 73.6 1.0 O10 G:YG4604 2.5 73.1 1.0 O7 G:YG4604 2.7 73.1 1.0 OD1 H:ASP277 3.8 66.6 1.0 P2 G:YG4604 3.9 73.1 1.0 P1 G:YG4604 3.9 73.1 1.0 O12 G:YG4604 3.9 73.1 1.0 O8 G:YG4604 4.2 73.1 1.0 C17 G:YG4604 4.3 73.1 1.0 OG1 G:THR246 4.4 56.8 1.0 CG H:ASP277 4.4 66.6 1.0 N7 G:YG4604 4.4 73.1 1.0 O G:HOH701 4.5 63.2 1.0 O6 G:YG4604 4.5 73.1 1.0 OD2 H:ASP277 4.5 66.6 1.0 NH2 H:ARG275 4.7 67.1 1.0 O11 G:YG4604 4.8 73.1 1.0 O9 G:YG4604 4.9 73.1 1.0 P3 G:YG4604 4.9 73.1 1.0 O25 G:YG4604 5.0 73.1 1.0

Magnesium binding site 9 out of 12 in the Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU within 5.0Å range: probe atom residue distance (Å) B Occ I:Mg601 b:80.7 occ:1.00 O H:HOH707 2.0 72.2 1.0 O H:HOH702 2.1 78.0 1.0 O10 H:YG4604 2.4 73.9 1.0 O7 H:YG4604 2.5 73.9 1.0 P1 H:YG4604 3.7 73.9 1.0 P2 H:YG4604 3.7 73.9 1.0 O12 H:YG4604 3.9 73.9 1.0 OD2 I:ASP277 3.9 66.5 1.0 O8 H:YG4604 4.1 73.9 1.0 C17 H:YG4604 4.3 73.9 1.0 O6 H:YG4604 4.4 73.9 1.0 OG1 H:THR246 4.4 58.6 1.0 N7 H:YG4604 4.4 73.9 1.0 O H:HOH701 4.4 62.9 1.0 CG I:ASP277 4.5 66.5 1.0 OD1 I:ASP277 4.6 66.5 1.0 O11 H:YG4604 4.7 73.9 1.0 NH2 I:ARG275 4.7 67.6 1.0 O9 H:YG4604 4.8 73.9 1.0 P3 H:YG4604 4.9 73.9 1.0 OD1 H:ASN35 5.0 68.0 1.0 O4 H:YG4604 5.0 73.9 1.0

Magnesium binding site 10 out of 12 in the Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU within 5.0Å range: probe atom residue distance (Å) B Occ J:Mg601 b:80.4 occ:1.00 O I:HOH712 2.0 74.4 1.0 O I:HOH702 2.1 79.1 1.0 O10 I:YG4604 2.3 73.7 1.0 O7 I:YG4604 2.6 73.7 1.0 P2 I:YG4604 3.7 73.7 1.0 P1 I:YG4604 3.8 73.7 1.0 O8 I:YG4604 4.1 73.7 1.0 O12 I:YG4604 4.1 73.7 1.0 OD1 J:ASP277 4.1 66.2 1.0 C17 I:YG4604 4.3 73.7 1.0 O I:HOH701 4.4 63.3 1.0 N7 I:YG4604 4.4 73.7 1.0 O6 I:YG4604 4.4 73.7 1.0 OG1 I:THR246 4.5 56.5 1.0 OD2 J:ASP277 4.6 66.2 1.0 CG J:ASP277 4.6 66.2 1.0 O9 I:YG4604 4.6 73.7 1.0 O11 I:YG4604 4.7 73.7 1.0 OD1 I:ASN35 4.8 67.9 1.0 NH2 J:ARG275 4.9 66.4 1.0

M.C.Y.Law, K.Zhang, Y.B.Tan, T.M.Nguyen, D.Luo. Chikungunya Virus Non-Structural Protein 1 Is A Versatile Rna Capping and Decapping Enzyme. J.Biol.Chem. 05415 2023.
ISSN: ESSN 1083-351X
PubMed: 37918803
DOI: 10.1016/J.JBC.2023.105415