Manganese in PDB 5fdd: Endonuclease Inhibitor 1 Bound to Influenza Strain H1N1 Polymerase Acidic Subunit N-Terminal Region at pH 7.0

The structure of Endonuclease Inhibitor 1 Bound to Influenza Strain H1N1 Polymerase Acidic Subunit N-Terminal Region at pH 7.0, PDB code: 5fdd was solved by S.Fudo, N.Yamamoto, M.Nukaga, T.Odagiri, M.Tashiro, T.Hoshino, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	37.79 / 2.51
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	66.397, 66.397, 127.392, 90.00, 90.00, 90.00
R / Rfree (%)	20.1 / 23.2

The structure of Endonuclease Inhibitor 1 Bound to Influenza Strain H1N1 Polymerase Acidic Subunit N-Terminal Region at pH 7.0 also contains other interesting chemical elements:

Chlorine

(Cl)

1 atom

The binding sites of Manganese atom in the Endonuclease Inhibitor 1 Bound to Influenza Strain H1N1 Polymerase Acidic Subunit N-Terminal Region at pH 7.0 (pdb code 5fdd). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total only one binding site of Manganese was determined in the Endonuclease Inhibitor 1 Bound to Influenza Strain H1N1 Polymerase Acidic Subunit N-Terminal Region at pH 7.0, PDB code: 5fdd:

Manganese binding site 1 out of 1 in the Endonuclease Inhibitor 1 Bound to Influenza Strain H1N1 Polymerase Acidic Subunit N-Terminal Region at pH 7.0


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Endonuclease Inhibitor 1 Bound to Influenza Strain H1N1 Polymerase Acidic Subunit N-Terminal Region at pH 7.0 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn202 b:0.5 occ:1.00 OD1 A:ASP93 2.5 54.6 1.0 CAC A:4P8201 3.0 0.4 1.0 OE1 A:GLU65 3.0 72.5 1.0 O A:LEU91 3.3 55.6 1.0 CAD A:4P8201 3.4 98.3 1.0 CG A:ASP93 3.5 51.3 1.0 O A:HOH301 3.9 33.9 1.0 OAS A:4P8201 4.0 82.0 1.0 OD2 A:ASP93 4.0 43.6 1.0 OE1 A:GLU104 4.1 54.0 1.0 CAJ A:4P8201 4.1 86.0 1.0 CAB A:4P8201 4.1 0.7 1.0 O A:PRO92 4.2 41.6 1.0 CD A:GLU65 4.2 70.2 1.0 OE2 A:GLU104 4.2 61.9 1.0 C A:PRO92 4.2 42.3 1.0 CE1 A:HIS46 4.3 48.6 1.0 C A:LEU91 4.3 58.1 1.0 N A:ASP93 4.4 34.4 1.0 CAH A:4P8201 4.5 0.6 1.0 CD A:GLU104 4.6 59.8 1.0 CA A:ASP93 4.6 50.8 1.0 CB A:ASP93 4.6 42.7 1.0 NE2 A:HIS46 4.7 40.8 1.0 CAE A:4P8201 4.7 0.5 1.0 CA A:PRO92 4.8 52.0 1.0 CAI A:4P8201 4.8 94.1 1.0 CB A:LEU91 4.9 54.1 1.0 CB A:GLU65 5.0 56.9 1.0 CG A:GLU65 5.0 61.0 1.0 N A:PRO92 5.0 48.8 1.0

S.Fudo, N.Yamamoto, M.Nukaga, T.Odagiri, M.Tashiro, T.Hoshino. Two Distinctive Binding Modes of Endonuclease Inhibitors to the N-Terminal Region of Influenza Virus Polymerase Acidic Subunit Biochemistry V. 55 2646 2016.
ISSN: ISSN 0006-2960
PubMed: 27088785
DOI: 10.1021/ACS.BIOCHEM.5B01087