Manganese in PDB 7ex8: Crystal Structure of Ebinur Lake Virus Cap Snatching Endonuclease in Complex with Inhibitor 27

All present enzymatic activity of Crystal Structure of Ebinur Lake Virus Cap Snatching Endonuclease in Complex with Inhibitor 27:
2.7.7.48;

The structure of Crystal Structure of Ebinur Lake Virus Cap Snatching Endonuclease in Complex with Inhibitor 27, PDB code: 7ex8 was solved by W.Kuang, Z.Hu, P.Gong, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	26.78 / 1.97
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	40.748, 70.692, 71.063, 90, 90, 90
R / Rfree (%)	19.5 / 22.7

The structure of Crystal Structure of Ebinur Lake Virus Cap Snatching Endonuclease in Complex with Inhibitor 27 also contains other interesting chemical elements:

Chlorine

(Cl)

4 atoms

The binding sites of Manganese atom in the Crystal Structure of Ebinur Lake Virus Cap Snatching Endonuclease in Complex with Inhibitor 27 (pdb code 7ex8). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 2 binding sites of Manganese where determined in the Crystal Structure of Ebinur Lake Virus Cap Snatching Endonuclease in Complex with Inhibitor 27, PDB code: 7ex8:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in the Crystal Structure of Ebinur Lake Virus Cap Snatching Endonuclease in Complex with Inhibitor 27


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Crystal Structure of Ebinur Lake Virus Cap Snatching Endonuclease in Complex with Inhibitor 27 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn201 b:32.5 occ:0.67 O6 A:I27203 2.0 26.7 1.0 OD1 A:ASP79 2.0 22.9 1.0 O9 A:I27203 2.0 28.7 1.0 O A:HOH303 2.1 26.5 1.0 O A:HOH324 2.1 26.2 1.0 OD1 A:ASN52 2.2 28.0 1.0 C5 A:I27203 3.0 31.6 1.0 C8 A:I27203 3.0 32.1 1.0 CG A:ASP79 3.2 24.3 1.0 CG A:ASN52 3.2 29.3 1.0 C7 A:I27203 3.3 31.2 1.0 ND2 A:ASN52 3.5 33.7 1.0 OD2 A:ASP79 3.8 25.5 1.0 MN A:MN202 3.9 27.6 1.0 OD1 A:ASN51 4.0 32.3 1.0 O A:HOH369 4.2 37.4 1.0 OD1 A:ASP92 4.2 27.4 1.0 CE1 A:HIS34 4.2 24.8 1.0 CB A:ASP79 4.3 23.6 1.0 CA A:ASP79 4.3 22.6 1.0 O A:THR77 4.3 27.2 1.0 C3 A:I27203 4.3 33.9 1.0 C10 A:I27203 4.4 34.1 1.0 NE2 A:HIS34 4.4 26.5 1.0 N A:ASP79 4.5 21.8 1.0 CB A:ASN52 4.5 26.4 1.0 O A:HOH333 4.6 33.1 1.0 OD2 A:ASP92 4.6 30.6 1.0 C18 A:I27203 4.7 33.0 1.0 N A:ASN52 4.7 25.8 1.0 C19 A:I27203 4.8 37.7 1.0 O2 A:I27203 4.8 30.3 1.0 CA A:ASN52 4.8 26.4 1.0 CG A:ASP92 4.8 30.8 1.0 O A:HOH368 4.9 40.6 1.0 C A:PRO78 5.0 23.6 1.0 C11 A:I27203 5.0 35.0 1.0

Manganese binding site 2 out of 2 in the Crystal Structure of Ebinur Lake Virus Cap Snatching Endonuclease in Complex with Inhibitor 27


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Crystal Structure of Ebinur Lake Virus Cap Snatching Endonuclease in Complex with Inhibitor 27 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn202 b:27.6 occ:1.00 OD2 A:ASP92 2.1 30.6 1.0 OD2 A:ASP79 2.1 25.5 1.0 O2 A:I27203 2.2 30.3 1.0 O A:TYR93 2.3 21.9 1.0 NE2 A:HIS34 2.4 26.5 1.0 O6 A:I27203 2.4 26.7 1.0 C1 A:I27203 2.8 38.5 1.0 C3 A:I27203 2.9 33.9 1.0 CG A:ASP92 3.0 30.8 1.0 CG A:ASP79 3.0 24.3 1.0 C5 A:I27203 3.1 31.6 1.0 CD2 A:HIS34 3.2 24.1 1.0 OD1 A:ASP79 3.3 22.9 1.0 CE1 A:HIS34 3.4 24.8 1.0 C A:TYR93 3.4 25.3 1.0 N A:TYR93 3.5 25.9 1.0 OD1 A:ASP92 3.6 27.4 1.0 MN A:MN201 3.9 32.5 0.7 CA A:TYR93 3.9 24.3 1.0 O4 A:I27203 4.1 36.5 1.0 CB A:ASP92 4.2 27.5 1.0 C A:ASP92 4.2 27.4 1.0 CB A:TYR93 4.2 25.2 1.0 O A:HOH368 4.4 40.6 1.0 CB A:ASP79 4.4 23.6 1.0 CG A:HIS34 4.4 25.8 1.0 O A:HOH324 4.4 26.2 1.0 C7 A:I27203 4.4 31.2 1.0 ND1 A:HIS34 4.4 23.8 1.0 CA A:ASP92 4.4 24.8 1.0 NZ A:LYS94 4.5 29.7 1.0 N A:LYS94 4.6 26.0 1.0 O A:HOH303 4.8 26.5 1.0 CD2 A:TYR93 4.8 26.2 1.0 CG A:TYR93 4.8 25.6 1.0 CA A:LYS94 5.0 22.4 1.0

W.Kuang, H.Zhang, Y.Cai, G.Zhang, F.Deng, H.Li, Y.Zhou, M.Wang, P.Gong, Y.Guo, Z.Hu. Structural and Biochemical Basis For Development of Diketo Acid Inhibitors Targeting the Cap-Snatching Endonuclease of the Ebinur Lake Virus (Order: Bunyavirales ). J.Virol. V. 96 17321 2022.
ISSN: ESSN 1098-5514
PubMed: 35266805
DOI: 10.1128/JVI.02173-21