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Uranium in PDB 2gic: Crystal Structure of A Vesicular Stomatitis Virus Nucleocapsid-Rna Complex

Protein crystallography data

The structure of Crystal Structure of A Vesicular Stomatitis Virus Nucleocapsid-Rna Complex, PDB code: 2gic was solved by T.J.Green, X.Zhang, G.W.Wertz, M.Luo, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 44.86 / 2.92
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 166.160, 236.316, 75.651, 90.00, 90.00, 90.00
R / Rfree (%) 25.5 / 30.6

Uranium Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 15;

Binding sites:

The binding sites of Uranium atom in the Crystal Structure of A Vesicular Stomatitis Virus Nucleocapsid-Rna Complex (pdb code 2gic). This binding sites where shown within 5.0 Angstroms radius around Uranium atom.
In total 15 binding sites of Uranium where determined in the Crystal Structure of A Vesicular Stomatitis Virus Nucleocapsid-Rna Complex, PDB code: 2gic:
Jump to Uranium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Uranium binding site 1 out of 15 in 2gic

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Uranium binding site 1 out of 15 in the Crystal Structure of A Vesicular Stomatitis Virus Nucleocapsid-Rna Complex


Mono view


Stereo pair view

A full contact list of Uranium with other atoms in the U binding site number 1 of Crystal Structure of A Vesicular Stomatitis Virus Nucleocapsid-Rna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:U423

b:92.7
occ:1.00
OD1 A:ASP123 3.6 27.0 1.0
NE2 A:GLN57 4.0 24.9 1.0
CG A:ASP123 4.1 27.6 1.0
CD A:GLN57 4.4 25.1 1.0
OE1 A:GLN57 4.6 25.0 1.0
OD2 A:ASP123 4.7 27.8 1.0
CB A:ASP123 4.7 27.6 1.0

Uranium binding site 2 out of 15 in 2gic

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Uranium binding site 2 out of 15 in the Crystal Structure of A Vesicular Stomatitis Virus Nucleocapsid-Rna Complex


Mono view


Stereo pair view

A full contact list of Uranium with other atoms in the U binding site number 2 of Crystal Structure of A Vesicular Stomatitis Virus Nucleocapsid-Rna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:U424

b:21.5
occ:1.00
OE2 A:GLU253 2.4 36.1 1.0
OD1 B:ASP343 2.4 25.2 1.0
OE1 A:GLU323 2.8 33.3 1.0
CD A:GLU253 3.2 35.1 1.0
CG B:ASP343 3.4 25.4 1.0
CD A:GLU323 3.5 31.6 1.0
OE1 A:GLU253 3.7 36.0 1.0
OE2 A:GLU323 3.9 31.7 1.0
CB B:ASP343 4.1 25.3 1.0
OD2 B:ASP343 4.3 25.8 1.0
CG A:GLU253 4.3 32.7 1.0
CG A:GLU323 4.4 29.0 1.0
ND2 A:ASN251 4.7 32.0 1.0
N A:ARG252 4.7 30.5 1.0
CB A:ASN251 4.7 29.4 1.0
CB A:GLU323 4.9 27.7 1.0
CB A:ARG252 4.9 30.9 1.0
O B:GLY239 5.0 27.5 1.0

Uranium binding site 3 out of 15 in 2gic

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Uranium binding site 3 out of 15 in the Crystal Structure of A Vesicular Stomatitis Virus Nucleocapsid-Rna Complex


Mono view


Stereo pair view

A full contact list of Uranium with other atoms in the U binding site number 3 of Crystal Structure of A Vesicular Stomatitis Virus Nucleocapsid-Rna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:U425

b:0.8
occ:1.00
OD1 E:ASP384 3.9 32.7 1.0
O A:ASP358 3.9 36.7 1.0
OD2 A:ASP358 4.4 37.1 1.0
OD1 A:ASP358 4.4 36.8 1.0
CG E:ASP384 4.6 32.0 1.0
CG A:ASP358 4.6 36.8 1.0
O E:GLY380 4.8 28.9 1.0
CB E:GLU383 4.9 31.3 1.0

Uranium binding site 4 out of 15 in 2gic

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Uranium binding site 4 out of 15 in the Crystal Structure of A Vesicular Stomatitis Virus Nucleocapsid-Rna Complex


Mono view


Stereo pair view

A full contact list of Uranium with other atoms in the U binding site number 4 of Crystal Structure of A Vesicular Stomatitis Virus Nucleocapsid-Rna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:U426

b:0.3
occ:1.00
OD2 A:ASP384 2.9 32.8 1.0
OD1 B:ASP358 3.4 33.4 1.0
CG B:ASP358 3.6 33.3 1.0
OD2 B:ASP358 4.0 33.6 1.0
CB B:ASP358 4.1 33.0 1.0
CG A:ASP384 4.2 32.2 1.0
C B:ASP358 4.2 32.9 1.0
O A:GLY380 4.7 28.8 1.0
CB A:GLU383 4.7 31.2 1.0
CA B:ASP358 4.8 32.9 1.0
OD1 A:ASP384 4.9 32.9 1.0
N A:ASP384 4.9 31.1 1.0
CA A:ASP384 5.0 31.2 1.0

Uranium binding site 5 out of 15 in 2gic

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Uranium binding site 5 out of 15 in the Crystal Structure of A Vesicular Stomatitis Virus Nucleocapsid-Rna Complex


Mono view


Stereo pair view

A full contact list of Uranium with other atoms in the U binding site number 5 of Crystal Structure of A Vesicular Stomatitis Virus Nucleocapsid-Rna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:U423

b:0.7
occ:1.00
OD2 B:ASP123 3.1 26.9 1.0
CG B:ASP123 3.4 27.1 1.0
CB B:ASP123 3.8 27.4 1.0
OD1 B:ASP123 3.9 26.9 1.0
NE2 B:GLN57 4.0 25.3 1.0
CB B:SER125 4.4 27.2 1.0
CD B:GLN57 4.5 25.5 1.0
OG B:SER125 4.8 27.1 1.0
OE1 B:GLN57 4.8 25.3 1.0

Uranium binding site 6 out of 15 in 2gic

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Uranium binding site 6 out of 15 in the Crystal Structure of A Vesicular Stomatitis Virus Nucleocapsid-Rna Complex


Mono view


Stereo pair view

A full contact list of Uranium with other atoms in the U binding site number 6 of Crystal Structure of A Vesicular Stomatitis Virus Nucleocapsid-Rna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:U424

b:16.0
occ:1.00
OE2 B:GLU253 2.2 34.1 1.0
OD1 C:ASP343 2.4 24.9 1.0
OE2 B:GLU323 2.5 35.4 1.0
OE1 B:GLU323 2.7 35.4 1.0
CD B:GLU253 2.9 34.0 1.0
CD B:GLU323 2.9 33.8 1.0
CG C:ASP343 3.1 25.2 1.0
OE1 B:GLU253 3.2 34.6 1.0
CB C:ASP343 3.8 25.2 1.0
OD2 C:ASP343 3.9 25.5 1.0
CG B:GLU253 4.2 32.4 1.0
CG B:GLU323 4.4 30.4 1.0
O C:GLY239 4.6 27.8 1.0
N B:ARG252 4.7 30.2 1.0
CA C:GLY239 4.7 27.6 1.0
CB B:ARG252 4.8 30.9 1.0
OG B:SER326 4.8 25.1 1.0
CB B:ASN251 4.9 29.1 1.0

Uranium binding site 7 out of 15 in 2gic

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Uranium binding site 7 out of 15 in the Crystal Structure of A Vesicular Stomatitis Virus Nucleocapsid-Rna Complex


Mono view


Stereo pair view

A full contact list of Uranium with other atoms in the U binding site number 7 of Crystal Structure of A Vesicular Stomatitis Virus Nucleocapsid-Rna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:U425

b:0.6
occ:1.00
OD2 B:ASP384 3.0 31.3 1.0
OD1 B:ASP384 3.4 30.7 1.0
CG B:ASP384 3.4 30.9 1.0
CB B:ASP384 4.7 30.7 1.0
CB B:GLU383 4.7 30.8 1.0
N B:ASP384 4.8 30.8 1.0
O B:GLY380 4.8 28.4 1.0
CA B:ASP384 4.9 30.8 1.0

Uranium binding site 8 out of 15 in 2gic

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Uranium binding site 8 out of 15 in the Crystal Structure of A Vesicular Stomatitis Virus Nucleocapsid-Rna Complex


Mono view


Stereo pair view

A full contact list of Uranium with other atoms in the U binding site number 8 of Crystal Structure of A Vesicular Stomatitis Virus Nucleocapsid-Rna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:U423

b:54.2
occ:1.00
NE2 C:GLN57 4.3 25.4 1.0
OE1 C:GLN57 4.7 25.5 1.0
OD1 C:ASP123 4.9 27.3 1.0
CD C:GLN57 5.0 25.6 1.0
CG C:ASP123 5.0 27.5 1.0

Uranium binding site 9 out of 15 in 2gic

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Uranium binding site 9 out of 15 in the Crystal Structure of A Vesicular Stomatitis Virus Nucleocapsid-Rna Complex


Mono view


Stereo pair view

A full contact list of Uranium with other atoms in the U binding site number 9 of Crystal Structure of A Vesicular Stomatitis Virus Nucleocapsid-Rna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:U424

b:22.7
occ:1.00
OE2 C:GLU253 2.2 36.6 1.0
OE1 C:GLU323 2.4 31.7 1.0
OD1 D:ASP343 3.1 26.6 1.0
CD C:GLU253 3.2 36.2 1.0
CD C:GLU323 3.3 31.1 1.0
OE2 C:GLU323 3.5 31.8 1.0
CG D:ASP343 3.6 25.9 1.0
OE1 C:GLU253 3.6 38.0 1.0
CB D:ASP343 4.0 25.6 1.0
OD2 D:ASP343 4.4 26.1 1.0
CG C:GLU253 4.5 33.4 1.0
CG C:GLU323 4.6 28.9 1.0
ND2 C:ASN251 4.6 31.0 1.0
CB C:ASN251 4.7 29.7 1.0
N C:ARG252 4.8 30.7 1.0
O D:GLY239 4.9 27.6 1.0

Uranium binding site 10 out of 15 in 2gic

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Uranium binding site 10 out of 15 in the Crystal Structure of A Vesicular Stomatitis Virus Nucleocapsid-Rna Complex


Mono view


Stereo pair view

A full contact list of Uranium with other atoms in the U binding site number 10 of Crystal Structure of A Vesicular Stomatitis Virus Nucleocapsid-Rna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:U425

b:0.0
occ:1.00
OD2 C:ASP384 2.6 32.0 1.0
CG C:ASP384 3.6 31.7 1.0
OD1 C:ASP384 4.1 32.4 1.0
OD1 D:ASP358 4.5 29.4 1.0
N C:ASP384 4.7 30.9 1.0
CA C:ASP384 4.7 31.0 1.0
O C:GLY380 4.8 28.4 1.0
CB C:ASP384 4.8 31.1 1.0
CB C:GLU383 4.8 31.0 1.0

Reference:

T.J.Green, X.Zhang, G.W.Wertz, M.Luo. Structure of the Vesicular Stomatitis Virus Nucleoprotein-Rna Complex Unveils How the Rna Is Sequestered Science V. 313 357 2006.
ISSN: ISSN 0036-8075
PubMed: 16778022
DOI: 10.1126/SCIENCE.1126953
Page generated: Wed Dec 16 02:29:39 2020

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