Atomistry » Manganese » PDB 4mu4-4nx7 » 4nfz
Atomistry »
  Manganese »
    PDB 4mu4-4nx7 »
      4nfz »

Manganese in PDB 4nfz: Crystal Structure of Polymerase Subunit Pa N-Terminal Endonuclease Domain From Bat-Derived Influenza Virus H17N10

Protein crystallography data

The structure of Crystal Structure of Polymerase Subunit Pa N-Terminal Endonuclease Domain From Bat-Derived Influenza Virus H17N10, PDB code: 4nfz was solved by B.Tefsen, G.Lu, Y.Zhu, J.Haywood, L.Zhao, T.Deng, J.Qi, G.F.Gao, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 42.80 / 2.70
Space group P 61 2 2
Cell size a, b, c (Å), α, β, γ (°) 74.300, 74.300, 401.159, 90.00, 90.00, 120.00
R / Rfree (%) 24 / 27.8

Manganese Binding Sites:

The binding sites of Manganese atom in the Crystal Structure of Polymerase Subunit Pa N-Terminal Endonuclease Domain From Bat-Derived Influenza Virus H17N10 (pdb code 4nfz). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 3 binding sites of Manganese where determined in the Crystal Structure of Polymerase Subunit Pa N-Terminal Endonuclease Domain From Bat-Derived Influenza Virus H17N10, PDB code: 4nfz:
Jump to Manganese binding site number: 1; 2; 3;

Manganese binding site 1 out of 3 in 4nfz

Go back to Manganese Binding Sites List in 4nfz
Manganese binding site 1 out of 3 in the Crystal Structure of Polymerase Subunit Pa N-Terminal Endonuclease Domain From Bat-Derived Influenza Virus H17N10


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 Polymerase Subunit Pa N-Terminal Endonuclease Domain From Bat-Derived Influenza Virus H17N10 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn300

b:43.9
occ:1.00
OE2 A:GLU119 2.1 57.1 1.0
O A:ILE120 2.2 43.8 1.0
NE2 A:HIS41 2.2 41.8 1.0
OD2 A:ASP108 2.2 36.6 1.0
CD2 A:HIS41 3.0 31.6 1.0
CE1 A:HIS41 3.0 40.0 1.0
CG A:ASP108 3.2 40.2 1.0
CD A:GLU119 3.4 66.0 1.0
C A:ILE120 3.4 38.1 1.0
OD1 A:ASP108 3.4 43.1 1.0
CG A:HIS41 4.0 32.1 1.0
ND1 A:HIS41 4.0 38.4 1.0
OE1 A:GLU119 4.1 60.1 1.0
N A:ILE120 4.2 38.2 1.0
CA A:ILE120 4.3 36.0 1.0
CE A:LYS134 4.4 60.5 1.0
N A:GLY121 4.4 46.3 1.0
CG A:GLU119 4.4 49.0 1.0
CA A:GLY121 4.5 50.6 1.0
CB A:ASP108 4.7 30.1 1.0
CB A:ILE120 4.9 38.6 1.0

Manganese binding site 2 out of 3 in 4nfz

Go back to Manganese Binding Sites List in 4nfz
Manganese binding site 2 out of 3 in the Crystal Structure of Polymerase Subunit Pa N-Terminal Endonuclease Domain From Bat-Derived Influenza Virus H17N10


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 Polymerase Subunit Pa N-Terminal Endonuclease Domain From Bat-Derived Influenza Virus H17N10 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mn300

b:45.6
occ:1.00
OE2 B:GLU119 2.1 53.6 1.0
O B:ILE120 2.2 53.4 1.0
NE2 B:HIS41 2.2 43.7 1.0
OD2 B:ASP108 2.2 38.0 1.0
CD2 B:HIS41 2.9 35.9 1.0
CE1 B:HIS41 3.0 38.4 1.0
CG B:ASP108 3.2 42.6 1.0
CD B:GLU119 3.4 64.7 1.0
C B:ILE120 3.4 49.4 1.0
OD1 B:ASP108 3.4 44.2 1.0
CG B:HIS41 4.0 34.9 1.0
ND1 B:HIS41 4.0 37.6 1.0
OE1 B:GLU119 4.1 58.4 1.0
N B:ILE120 4.3 46.8 1.0
CA B:ILE120 4.4 44.6 1.0
CE B:LYS134 4.4 62.9 1.0
N B:GLY121 4.4 36.6 1.0
CG B:GLU119 4.4 49.3 1.0
CA B:GLY121 4.5 43.4 1.0
CB B:ASP108 4.7 35.9 1.0
CB B:ILE120 4.9 42.6 1.0

Manganese binding site 3 out of 3 in 4nfz

Go back to Manganese Binding Sites List in 4nfz
Manganese binding site 3 out of 3 in the Crystal Structure of Polymerase Subunit Pa N-Terminal Endonuclease Domain From Bat-Derived Influenza Virus H17N10


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 3 of Crystal Structure of Polymerase Subunit Pa N-Terminal Endonuclease Domain From Bat-Derived Influenza Virus H17N10 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mn300

b:51.1
occ:1.00
OE2 C:GLU119 2.1 60.4 1.0
O C:ILE120 2.2 56.8 1.0
OD2 C:ASP108 2.2 45.5 1.0
NE2 C:HIS41 2.2 43.8 1.0
CD2 C:HIS41 3.0 36.7 1.0
CE1 C:HIS41 3.0 41.0 1.0
CG C:ASP108 3.2 50.1 1.0
CD C:GLU119 3.4 67.3 1.0
OD1 C:ASP108 3.4 52.7 1.0
C C:ILE120 3.4 51.5 1.0
CG C:HIS41 4.0 38.4 1.0
ND1 C:HIS41 4.0 41.5 1.0
OE1 C:GLU119 4.1 58.6 1.0
N C:ILE120 4.2 48.9 1.0
CA C:ILE120 4.3 49.2 1.0
CE C:LYS134 4.4 60.2 1.0
N C:GLY121 4.4 46.0 1.0
CG C:GLU119 4.4 54.8 1.0
CA C:GLY121 4.5 53.8 1.0
CB C:ASP108 4.6 42.0 1.0
CB C:ILE120 4.9 46.8 1.0
OE1 C:GLU80 5.0 47.1 1.0

Reference:

B.Tefsen, G.Lu, Y.Zhu, J.Haywood, L.Zhao, T.Deng, J.Qi, G.F.Gao. The N-Terminal Domain of Pa From Bat-Derived Influenza-Like Virus H17N10 Has Endonuclease Activity J.Virol. V. 88 1935 2014.
ISSN: ISSN 0022-538X
PubMed: 24284327
DOI: 10.1128/JVI.03270-13
Page generated: Tue Dec 15 04:25:01 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy