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Uranium in PDB 3pu1: Crystal Structure of A Vesicular Stomatitis Virus Nucleocapsid-Polyg Complex

Protein crystallography data

The structure of Crystal Structure of A Vesicular Stomatitis Virus Nucleocapsid-Polyg Complex, PDB code: 3pu1 was solved by M.Luo, T.J.Green, M.Rowse, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 45.10 / 3.14
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 163.222, 233.189, 75.570, 90.00, 90.00, 90.00
R / Rfree (%) 25.9 / 30.5

Uranium Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20;

Binding sites:

The binding sites of Uranium atom in the Crystal Structure of A Vesicular Stomatitis Virus Nucleocapsid-Polyg Complex (pdb code 3pu1). This binding sites where shown within 5.0 Angstroms radius around Uranium atom.
In total 20 binding sites of Uranium where determined in the Crystal Structure of A Vesicular Stomatitis Virus Nucleocapsid-Polyg Complex, PDB code: 3pu1:
Jump to Uranium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Uranium binding site 1 out of 20 in 3pu1

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Uranium binding site 1 out of 20 in the Crystal Structure of A Vesicular Stomatitis Virus Nucleocapsid-Polyg Complex


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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-Polyg Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:U521

b:0.7
occ:0.77
OE1 A:GLN57 4.1 0.9 1.0
NE2 A:GLN57 4.2 99.7 1.0
CB A:ASP123 4.3 0.4 1.0
CD A:GLN57 4.3 0.3 1.0
CG A:ASP123 4.4 0.9 1.0
OD1 A:ASP123 4.5 0.5 1.0
OD2 A:ASP123 4.9 0.2 1.0

Uranium binding site 2 out of 20 in 3pu1

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Uranium binding site 2 out of 20 in the Crystal Structure of A Vesicular Stomatitis Virus Nucleocapsid-Polyg Complex


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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-Polyg Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:U522

b:0.2
occ:0.88
OD1 B:ASP343 2.6 97.4 1.0
OE1 A:GLU323 2.6 98.8 1.0
OE2 A:GLU253 3.0 95.1 1.0
CG B:ASP343 3.5 99.3 1.0
CD A:GLU323 3.8 94.0 1.0
OD2 B:ASP343 3.8 99.0 1.0
CD A:GLU253 4.2 96.0 1.0
OE2 A:GLU323 4.3 87.8 1.0
CB A:ASN251 4.5 63.8 1.0
N A:ARG252 4.6 69.3 1.0
O B:GLY239 4.7 73.4 1.0
CA B:GLY239 4.7 69.2 1.0
CB B:ASP343 4.7 85.9 1.0
CB A:ARG252 4.7 81.8 1.0
CG A:GLU253 4.7 88.9 1.0
CB A:GLU323 4.9 67.5 1.0
CG A:GLU323 5.0 79.4 1.0

Uranium binding site 3 out of 20 in 3pu1

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Uranium binding site 3 out of 20 in the Crystal Structure of A Vesicular Stomatitis Virus Nucleocapsid-Polyg Complex


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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-Polyg Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:U523

b:0.1
occ:0.73
OD1 E:ASP384 3.3 0.0 1.0
OD2 A:ASP358 3.4 0.9 1.0
OD2 E:ASP384 3.6 97.5 1.0
CG E:ASP384 3.6 0.9 1.0
CG A:ASP358 3.9 0.4 1.0
OD1 A:ASP358 4.1 0.9 1.0
CB E:ASP384 4.7 99.8 1.0
N E:ASP384 4.7 93.3 1.0
CA E:ASP384 4.8 95.6 1.0
CB A:ASP358 4.8 0.8 1.0
O E:GLY380 4.8 79.3 1.0

Uranium binding site 4 out of 20 in 3pu1

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Uranium binding site 4 out of 20 in the Crystal Structure of A Vesicular Stomatitis Virus Nucleocapsid-Polyg Complex


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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-Polyg Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:U524

b:0.3
occ:0.71
OD2 B:ASP358 3.1 0.0 1.0
OD1 A:ASP384 3.3 0.0 1.0
CG B:ASP358 3.6 0.9 1.0
CG A:ASP384 3.8 0.5 1.0
OD1 B:ASP358 3.8 0.1 1.0
OD2 A:ASP384 3.9 96.8 1.0
CB B:ASP358 4.5 0.7 1.0
CA A:ASP384 4.8 97.8 1.0
N A:ASP384 4.8 90.7 1.0
CB A:ASP384 4.8 0.3 1.0

Uranium binding site 5 out of 20 in 3pu1

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Uranium binding site 5 out of 20 in the Crystal Structure of A Vesicular Stomatitis Virus Nucleocapsid-Polyg Complex


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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-Polyg Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:U534

b:0.1
occ:1.00
OD2 A:ASP343 2.3 0.7 1.0
OE1 E:GLU323 2.7 99.5 1.0
OE2 E:GLU253 2.9 92.6 1.0
CG A:ASP343 3.4 0.8 1.0
CD E:GLU323 3.9 95.1 1.0
CD E:GLU253 4.0 95.0 1.0
OD1 A:ASP343 4.1 0.2 1.0
N E:ARG252 4.4 69.2 1.0
OE2 E:GLU323 4.4 89.3 1.0
CB A:ASP343 4.5 85.9 1.0
CB E:ASN251 4.5 62.8 1.0
CB E:ARG252 4.6 81.9 1.0
CG E:GLU253 4.7 85.8 1.0
CA A:GLY239 4.9 70.9 1.0
O A:GLY239 4.9 74.7 1.0

Uranium binding site 6 out of 20 in 3pu1

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Uranium binding site 6 out of 20 in the Crystal Structure of A Vesicular Stomatitis Virus Nucleocapsid-Polyg 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-Polyg Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:U525

b:0.3
occ:0.43
OD1 B:ASP123 3.2 0.0 1.0
CB B:ASP123 3.3 0.6 1.0
CG B:ASP123 3.3 0.1 1.0
CA B:ASP123 3.9 0.2 1.0
OE1 B:GLN57 3.9 0.6 1.0
OD2 B:ASP123 4.1 0.7 1.0
CD B:GLN57 4.5 0.2 1.0
NE2 B:GLN57 4.5 99.8 1.0
OG B:SER125 4.8 0.5 1.0
N B:ASP123 4.9 0.3 1.0
C B:ASP123 4.9 0.9 1.0

Uranium binding site 7 out of 20 in 3pu1

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Uranium binding site 7 out of 20 in the Crystal Structure of A Vesicular Stomatitis Virus Nucleocapsid-Polyg 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-Polyg Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:U526

b:0.4
occ:0.89
OE1 B:GLU323 2.6 97.8 1.0
OE2 B:GLU253 3.0 88.6 1.0
OD1 C:ASP343 3.5 97.9 1.0
CG C:ASP343 3.7 1.0 1.0
CD B:GLU323 3.7 94.5 1.0
OD2 C:ASP343 3.8 0.4 1.0
CD B:GLU253 4.2 93.2 1.0
CB B:ASN251 4.3 64.4 1.0
OE2 B:GLU323 4.3 86.8 1.0
N B:ARG252 4.4 69.0 1.0
CB C:ASP343 4.5 87.8 1.0
CG B:GLU253 4.7 87.0 1.0
CB B:ARG252 4.8 80.9 1.0
CA C:GLY239 4.8 69.4 1.0
O C:GLY239 4.9 68.8 1.0
CB B:GLU323 4.9 66.9 1.0
CG B:GLU323 4.9 83.4 1.0
CA B:ASN251 5.0 67.3 1.0

Uranium binding site 8 out of 20 in 3pu1

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Uranium binding site 8 out of 20 in the Crystal Structure of A Vesicular Stomatitis Virus Nucleocapsid-Polyg 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-Polyg Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:U527

b:0.6
occ:0.51
OD1 B:ASP384 2.9 0.2 1.0
CG B:ASP384 3.3 0.7 1.0
OD2 B:ASP384 3.6 0.6 1.0
CA B:ASP384 4.1 98.1 1.0
N B:ASP384 4.1 94.2 1.0
CB B:ASP384 4.3 100.0 1.0
CB B:GLU383 4.7 98.1 1.0
C B:GLU383 4.8 93.5 1.0
O B:GLY380 4.9 79.0 1.0

Uranium binding site 9 out of 20 in 3pu1

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Uranium binding site 9 out of 20 in the Crystal Structure of A Vesicular Stomatitis Virus Nucleocapsid-Polyg 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-Polyg Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:U528

b:0.6
occ:0.76
NE2 C:GLN57 4.1 0.1 1.0
CD C:GLN57 4.6 0.6 1.0
OE1 C:GLN57 4.7 0.8 1.0
NZ C:LYS60 4.8 97.3 1.0

Uranium binding site 10 out of 20 in 3pu1

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Uranium binding site 10 out of 20 in the Crystal Structure of A Vesicular Stomatitis Virus Nucleocapsid-Polyg 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-Polyg Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:U529

b:0.3
occ:0.87
OE1 C:GLU323 2.6 94.4 1.0
OE2 C:GLU253 3.1 89.1 1.0
CD C:GLU323 3.8 95.0 1.0
CG D:ASP343 4.0 0.4 1.0
OD1 D:ASP343 4.1 99.7 1.0
CB D:ASP343 4.2 87.9 1.0
CD C:GLU253 4.3 92.6 1.0
OE2 C:GLU323 4.3 89.5 1.0
OD2 D:ASP343 4.4 0.5 1.0
CB C:ASN251 4.5 63.5 1.0
N C:ARG252 4.5 66.9 1.0
O D:GLY239 4.5 74.2 1.0
CA D:GLY239 4.6 67.9 1.0
CB C:ARG252 4.8 81.8 1.0
CG C:GLU253 4.8 87.0 1.0
CG C:GLU323 5.0 82.8 1.0
CB C:GLU323 5.0 68.9 1.0

Reference:

T.J.Green, M.Rowse, J.Tsao, J.Kang, P.Ge, Z.H.Zhou, M.Luo. Access to Rna Encapsidated in the Nucleocapsid of Vesicular Stomatitis Virus. J.Virol. V. 85 2714 2011.
ISSN: ISSN 0022-538X
PubMed: 21177817
DOI: 10.1128/JVI.01927-10
Page generated: Wed Dec 16 02:29:48 2020

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