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Zinc in PDB 3mx5: Lassa Fever Virus Nucleoprotein Complexed with Utp

Protein crystallography data

The structure of Lassa Fever Virus Nucleoprotein Complexed with Utp, PDB code: 3mx5 was solved by X.Qi, S.Lan, W.Wang, L.M.Schelde, H.Dong, G.Wallat, Y.Liang, H.Ly, C.Dong, Scottish Structural Proteomics Facility (Sspf), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 76.70 / 1.90
Space group P 3
Cell size a, b, c (Å), α, β, γ (°) 177.110, 177.110, 56.720, 90.00, 90.00, 120.00
R / Rfree (%) 18.3 / 22.4

Zinc Binding Sites:

The binding sites of Zinc atom in the Lassa Fever Virus Nucleoprotein Complexed with Utp (pdb code 3mx5). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Lassa Fever Virus Nucleoprotein Complexed with Utp, PDB code: 3mx5:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in 3mx5

Go back to Zinc Binding Sites List in 3mx5
Zinc binding site 1 out of 3 in the Lassa Fever Virus Nucleoprotein Complexed with Utp


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Lassa Fever Virus Nucleoprotein Complexed with Utp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn570

b:47.8
occ:1.00
OE2 A:GLU399 1.9 43.7 1.0
NE2 A:HIS509 2.0 43.8 1.0
SG A:CYS529 2.2 43.7 1.0
SG A:CYS506 2.3 50.7 1.0
CD2 A:HIS509 2.8 43.7 1.0
CD A:GLU399 3.0 43.7 1.0
CB A:CYS529 3.0 43.7 1.0
CE1 A:HIS509 3.1 45.4 1.0
OE1 A:GLU399 3.3 43.8 1.0
CB A:CYS506 3.3 48.3 1.0
NE2 A:HIS412 3.7 47.5 1.0
CA A:CYS529 3.7 44.8 1.0
CE1 A:HIS412 3.9 49.6 1.0
CG A:HIS509 4.0 43.8 1.0
ND1 A:HIS509 4.1 43.8 1.0
CG A:GLU399 4.3 43.7 1.0
C A:CYS529 4.4 43.7 1.0
N A:ALA530 4.5 43.7 1.0
CE1 A:PHE414 4.7 50.2 1.0
CB A:MET508 4.7 43.7 1.0
CA A:CYS506 4.7 45.4 1.0
N A:LEU531 4.9 43.7 1.0
CD2 A:HIS412 4.9 45.0 1.0

Zinc binding site 2 out of 3 in 3mx5

Go back to Zinc Binding Sites List in 3mx5
Zinc binding site 2 out of 3 in the Lassa Fever Virus Nucleoprotein Complexed with Utp


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Lassa Fever Virus Nucleoprotein Complexed with Utp within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn570

b:46.5
occ:1.00
OE2 B:GLU399 1.9 43.8 1.0
NE2 B:HIS509 2.0 43.9 1.0
SG B:CYS506 2.3 45.9 1.0
SG B:CYS529 2.3 46.0 1.0
CD2 B:HIS509 2.8 43.9 1.0
CD B:GLU399 2.9 44.4 1.0
CE1 B:HIS509 3.1 43.9 1.0
CB B:CYS529 3.2 43.8 1.0
OE1 B:GLU399 3.3 43.8 1.0
CB B:CYS506 3.4 44.4 1.0
NE2 B:HIS412 3.6 46.9 1.0
CA B:CYS529 3.8 47.5 1.0
CE1 B:HIS412 4.0 44.0 1.0
CG B:HIS509 4.0 44.0 1.0
ND1 B:HIS509 4.1 44.0 1.0
CG B:GLU399 4.3 43.8 1.0
N B:ALA530 4.4 47.1 1.0
C B:CYS529 4.4 46.5 1.0
CE1 B:PHE414 4.7 50.2 1.0
CB B:MET508 4.7 49.8 1.0
CZ B:PHE414 4.8 47.7 1.0
CA B:CYS506 4.8 45.1 1.0
CD2 B:HIS412 4.8 43.9 1.0

Zinc binding site 3 out of 3 in 3mx5

Go back to Zinc Binding Sites List in 3mx5
Zinc binding site 3 out of 3 in the Lassa Fever Virus Nucleoprotein Complexed with Utp


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Lassa Fever Virus Nucleoprotein Complexed with Utp within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn570

b:52.4
occ:1.00
OE2 C:GLU399 2.0 46.9 1.0
NE2 C:HIS509 2.1 48.7 1.0
SG C:CYS529 2.3 54.8 1.0
SG C:CYS506 2.3 51.2 1.0
CD2 C:HIS509 2.9 51.2 1.0
CD C:GLU399 3.0 46.0 1.0
CB C:CYS529 3.1 48.6 1.0
CE1 C:HIS509 3.3 47.9 1.0
OE1 C:GLU399 3.3 47.4 1.0
CB C:CYS506 3.4 49.6 1.0
CA C:CYS529 3.7 49.9 1.0
NE2 C:HIS412 3.7 53.5 1.0
CE1 C:HIS412 4.1 55.2 1.0
CG C:HIS509 4.2 50.2 1.0
ND1 C:HIS509 4.3 48.5 1.0
C C:CYS529 4.3 47.4 1.0
CG C:GLU399 4.4 48.0 1.0
N C:ALA530 4.4 45.7 1.0
CE1 C:PHE414 4.6 56.8 1.0
CA C:CYS506 4.8 48.8 1.0
CD2 C:HIS412 4.9 55.7 1.0
CB C:MET508 4.9 51.2 1.0
N C:LEU531 4.9 46.1 1.0
CZ C:PHE414 4.9 57.6 1.0

Reference:

X.Qi, S.Lan, W.Wang, L.M.Schelde, H.Dong, G.D.Wallat, H.Ly, Y.Liang, C.Dong. Cap Binding and Immune Evasion Revealed By Lassa Nucleoprotein Structure. Nature V. 468 779 2010.
ISSN: ISSN 0028-0836
PubMed: 21085117
DOI: 10.1038/NATURE09605
Page generated: Sat Sep 26 11:51:26 2020
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