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Zinc in PDB 3mwt: Crystal Structure of Lassa Fever Virus Nucleoprotein in Complex with MN2+

Protein crystallography data

The structure of Crystal Structure of Lassa Fever Virus Nucleoprotein in Complex with MN2+, PDB code: 3mwt 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) 153.18 / 1.98
Space group P 3
Cell size a, b, c (Å), α, β, γ (°) 176.880, 176.880, 56.469, 90.00, 90.00, 120.00
R / Rfree (%) 18.1 / 21.8

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Lassa Fever Virus Nucleoprotein in Complex with MN2+ (pdb code 3mwt). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Crystal Structure of Lassa Fever Virus Nucleoprotein in Complex with MN2+, PDB code: 3mwt:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in 3mwt

Go back to Zinc Binding Sites List in 3mwt
Zinc binding site 1 out of 3 in the Crystal Structure of Lassa Fever Virus Nucleoprotein in Complex with MN2+


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of Lassa Fever Virus Nucleoprotein in Complex with MN2+ within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn690

b:57.6
occ:1.00
SG A:CYS506 2.0 38.2 1.0
NE2 A:HIS509 2.2 33.6 1.0
SG A:CYS529 2.2 30.7 1.0
OE2 A:GLU399 2.3 37.4 1.0
CD2 A:HIS509 2.9 28.8 1.0
CD A:GLU399 3.1 35.9 1.0
OE1 A:GLU399 3.2 30.1 1.0
CB A:CYS529 3.3 33.2 1.0
CE1 A:HIS509 3.4 34.8 1.0
CB A:CYS506 3.4 31.9 1.0
NE2 A:HIS412 3.6 43.5 1.0
CA A:CYS529 3.8 33.5 1.0
CE1 A:HIS412 3.8 48.9 1.0
CG A:HIS509 4.1 32.7 1.0
ND1 A:HIS509 4.3 32.1 1.0
N A:ALA530 4.4 30.3 1.0
C A:CYS529 4.5 34.9 1.0
CG A:GLU399 4.5 31.3 1.0
CE1 A:PHE414 4.5 36.8 1.0
CZ A:PHE414 4.7 35.0 1.0
CA A:CYS506 4.8 35.8 1.0
CB A:MET508 4.8 35.6 1.0
CD2 A:HIS412 4.9 40.2 1.0
N A:LEU531 4.9 33.5 1.0

Zinc binding site 2 out of 3 in 3mwt

Go back to Zinc Binding Sites List in 3mwt
Zinc binding site 2 out of 3 in the Crystal Structure of Lassa Fever Virus Nucleoprotein in Complex with MN2+


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of Lassa Fever Virus Nucleoprotein in Complex with MN2+ within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn690

b:46.8
occ:1.00
NE2 B:HIS509 2.1 23.4 1.0
OE2 B:GLU399 2.2 31.4 1.0
SG B:CYS529 2.4 28.1 1.0
SG B:CYS506 2.5 31.1 1.0
CD2 B:HIS509 2.8 22.6 1.0
CD B:GLU399 3.0 26.2 1.0
CB B:CYS529 3.1 24.8 1.0
OE1 B:GLU399 3.2 25.8 1.0
CE1 B:HIS509 3.3 22.3 1.0
CB B:CYS506 3.5 27.0 1.0
NE2 B:HIS412 3.6 25.1 1.0
CA B:CYS529 3.7 27.0 1.0
CE1 B:HIS412 4.0 30.3 1.0
CG B:HIS509 4.0 24.6 1.0
ND1 B:HIS509 4.2 23.0 1.0
N B:ALA530 4.3 27.8 1.0
C B:CYS529 4.4 29.2 1.0
CG B:GLU399 4.4 25.9 1.0
CE1 B:PHE414 4.6 38.1 1.0
CD2 B:HIS412 4.8 26.5 1.0
CZ B:PHE414 4.8 33.3 1.0
N B:LEU531 4.9 23.4 1.0
CB B:MET508 4.9 30.0 1.0
CA B:CYS506 5.0 26.2 1.0

Zinc binding site 3 out of 3 in 3mwt

Go back to Zinc Binding Sites List in 3mwt
Zinc binding site 3 out of 3 in the Crystal Structure of Lassa Fever Virus Nucleoprotein in Complex with MN2+


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of Lassa Fever Virus Nucleoprotein in Complex with MN2+ within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn690

b:61.4
occ:1.00
SG C:CYS529 1.9 36.7 1.0
OE2 C:GLU399 2.3 36.5 1.0
NE2 C:HIS509 2.4 38.5 1.0
SG C:CYS506 2.5 44.9 1.0
CD2 C:HIS509 2.9 38.1 1.0
OE1 C:GLU399 3.0 39.2 1.0
CD C:GLU399 3.0 41.7 1.0
CB C:CYS529 3.1 35.5 1.0
CB C:CYS506 3.5 39.2 1.0
CE1 C:HIS509 3.6 42.9 1.0
CA C:CYS529 3.7 40.1 1.0
NE2 C:HIS412 3.7 46.6 1.0
CE1 C:HIS412 4.1 46.5 1.0
CG C:HIS509 4.2 43.0 1.0
N C:ALA530 4.3 38.2 1.0
C C:CYS529 4.4 37.8 1.0
CG C:GLU399 4.5 32.8 1.0
ND1 C:HIS509 4.5 43.4 1.0
CE1 C:PHE414 4.7 40.8 1.0
CB C:MET508 4.9 40.8 1.0
CD2 C:HIS412 4.9 43.8 1.0
CZ C:PHE414 4.9 39.0 1.0
CA C:CYS506 4.9 39.9 1.0
N C:LEU531 5.0 31.4 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 11:51:25 2020
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