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Strontium in PDB 4rj1: Structural Variations and Solvent Structure of Uggggu Quadruplexes Stabilized By SR2+ Ions

Protein crystallography data

The structure of Structural Variations and Solvent Structure of Uggggu Quadruplexes Stabilized By SR2+ Ions, PDB code: 4rj1 was solved by A.C.Fyfe, P.W.Dunten, W.G.Scott, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 37.38 / 0.92
Space group P 4 21 2
Cell size a, b, c (Å), α, β, γ (°) 36.618, 36.618, 37.382, 90.00, 90.00, 90.00
R / Rfree (%) 9.1 / 10.9

Other elements in 4rj1:

The structure of Structural Variations and Solvent Structure of Uggggu Quadruplexes Stabilized By SR2+ Ions also contains other interesting chemical elements:

Calcium (Ca) 3 atoms
Sodium (Na) 4 atoms

Strontium Binding Sites:

The binding sites of Strontium atom in the Structural Variations and Solvent Structure of Uggggu Quadruplexes Stabilized By SR2+ Ions (pdb code 4rj1). This binding sites where shown within 5.0 Angstroms radius around Strontium atom.
In total 5 binding sites of Strontium where determined in the Structural Variations and Solvent Structure of Uggggu Quadruplexes Stabilized By SR2+ Ions, PDB code: 4rj1:
Jump to Strontium binding site number: 1; 2; 3; 4; 5;

Strontium binding site 1 out of 5 in 4rj1

Go back to Strontium Binding Sites List in 4rj1
Strontium binding site 1 out of 5 in the Structural Variations and Solvent Structure of Uggggu Quadruplexes Stabilized By SR2+ Ions


Mono view


Stereo pair view

A full contact list of Strontium with other atoms in the Sr binding site number 1 of Structural Variations and Solvent Structure of Uggggu Quadruplexes Stabilized By SR2+ Ions within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Sr9001

b:4.5
occ:0.25
O6 A:G1005 2.6 4.8 1.0
O6 A:G1004 2.6 4.2 1.0
H1 A:G1004 3.3 5.7 1.0
H1 A:G1005 3.5 6.3 1.0
C6 A:G1004 3.6 4.2 1.0
C6 A:G1005 3.6 4.8 1.0
N1 A:G1004 3.9 4.1 1.0
N1 A:G1005 4.0 4.9 1.0
NA A:NA9003 4.3 5.1 0.1
C5 A:G1004 4.8 4.2 1.0
C5 A:G1005 4.9 5.0 1.0

Strontium binding site 2 out of 5 in 4rj1

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Strontium binding site 2 out of 5 in the Structural Variations and Solvent Structure of Uggggu Quadruplexes Stabilized By SR2+ Ions


Mono view


Stereo pair view

A full contact list of Strontium with other atoms in the Sr binding site number 2 of Structural Variations and Solvent Structure of Uggggu Quadruplexes Stabilized By SR2+ Ions within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Sr9002

b:3.4
occ:0.25
O6 A:G1002 2.6 3.8 1.0
O6 A:G1003 2.6 3.9 1.0
H1 A:G1002 3.4 4.6 1.0
H1 A:G1003 3.4 5.0 1.0
C6 A:G1002 3.6 3.7 1.0
C6 A:G1003 3.6 3.8 1.0
N1 A:G1002 3.9 3.8 1.0
N1 A:G1003 4.0 4.0 1.0
C5 A:G1002 4.8 3.9 1.0
C5 A:G1003 4.9 3.8 1.0

Strontium binding site 3 out of 5 in 4rj1

Go back to Strontium Binding Sites List in 4rj1
Strontium binding site 3 out of 5 in the Structural Variations and Solvent Structure of Uggggu Quadruplexes Stabilized By SR2+ Ions


Mono view


Stereo pair view

A full contact list of Strontium with other atoms in the Sr binding site number 3 of Structural Variations and Solvent Structure of Uggggu Quadruplexes Stabilized By SR2+ Ions within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Sr9004

b:7.3
occ:0.73
O A:HOH9111 2.5 10.7 0.7
O A:HOH9110 2.5 14.4 1.0
O A:HOH9102 2.5 11.3 1.0
O A:HOH9112 2.5 11.5 0.7
O3' A:U1006 2.6 8.4 1.0
O A:HOH9108 2.6 9.3 0.9
O2' A:U1006 2.7 6.9 1.0
C2' A:U1006 3.6 6.8 1.0
C3' A:U1006 3.6 7.5 1.0
H1' A:U1006 3.6 9.3 1.0
OP2 A:G1005 4.0 8.3 1.0
H3' A:U1006 4.1 10.8 1.0
C1' A:U1006 4.2 6.9 1.0
O A:HOH9133 4.4 21.2 1.0
H2' A:U1006 4.6 9.7 1.0
OP2 A:G1004 4.7 7.3 1.0
O2 A:U1006 4.7 7.5 1.0
C4' A:U1006 4.8 9.0 1.0
H4' A:U1006 4.9 12.1 1.0
O A:HOH9101 4.9 9.1 0.4
O A:HOH9101 5.0 18.2 0.6

Strontium binding site 4 out of 5 in 4rj1

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Strontium binding site 4 out of 5 in the Structural Variations and Solvent Structure of Uggggu Quadruplexes Stabilized By SR2+ Ions


Mono view


Stereo pair view

A full contact list of Strontium with other atoms in the Sr binding site number 4 of Structural Variations and Solvent Structure of Uggggu Quadruplexes Stabilized By SR2+ Ions within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Sr2101

b:3.3
occ:0.25
O6 B:G2002 2.6 3.9 1.0
O6 B:G2003 2.6 4.0 1.0
H1 B:G2002 3.4 3.8 1.0
H1 B:G2003 3.4 4.7 1.0
C6 B:G2002 3.6 3.5 1.0
C6 B:G2003 3.6 4.2 1.0
N1 B:G2002 3.9 3.7 1.0
N1 B:G2003 3.9 4.2 1.0
C5 B:G2002 4.8 3.9 1.0
C5 B:G2003 4.9 4.2 1.0

Strontium binding site 5 out of 5 in 4rj1

Go back to Strontium Binding Sites List in 4rj1
Strontium binding site 5 out of 5 in the Structural Variations and Solvent Structure of Uggggu Quadruplexes Stabilized By SR2+ Ions


Mono view


Stereo pair view

A full contact list of Strontium with other atoms in the Sr binding site number 5 of Structural Variations and Solvent Structure of Uggggu Quadruplexes Stabilized By SR2+ Ions within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Sr2102

b:3.5
occ:0.25
O6 B:G2004 2.6 3.9 1.0
O6 B:G2005 2.6 4.1 1.0
H1 B:G2004 3.4 4.3 1.0
H1 B:G2005 3.5 5.2 1.0
C6 B:G2004 3.5 3.6 1.0
C6 B:G2005 3.6 4.0 1.0
N1 B:G2004 3.9 3.8 1.0
N1 B:G2005 4.0 4.2 1.0
NA B:NA2103 4.4 6.8 0.1
C5 B:G2004 4.8 3.9 1.0
C5 B:G2005 4.9 4.3 1.0

Reference:

A.C.Fyfe, P.W.Dunten, W.G.Scott. Structural Variations and Solvent Structure of Uggggu Quadruplexes Stabilized By SR2+ Ions. To Be Published.
Page generated: Wed Dec 16 02:24:07 2020

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