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Strontium in PDB 4jab: U/G Wobble Base Pair in A Rna Duplex

Protein crystallography data

The structure of U/G Wobble Base Pair in A Rna Duplex, PDB code: 4jab was solved by S.Jiang, H.Sun, J.Gan, Z.Huang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.93 / 2.23
Space group H 3
Cell size a, b, c (Å), α, β, γ (°) 41.681, 41.681, 60.014, 90.00, 90.00, 120.00
R / Rfree (%) 15.2 / 22.9

Strontium Binding Sites:

The binding sites of Strontium atom in the U/G Wobble Base Pair in A Rna Duplex (pdb code 4jab). This binding sites where shown within 5.0 Angstroms radius around Strontium atom.
In total 5 binding sites of Strontium where determined in the U/G Wobble Base Pair in A Rna Duplex, PDB code: 4jab:
Jump to Strontium binding site number: 1; 2; 3; 4; 5;

Strontium binding site 1 out of 5 in 4jab

Go back to Strontium Binding Sites List in 4jab
Strontium binding site 1 out of 5 in the U/G Wobble Base Pair in A Rna Duplex


Mono view


Stereo pair view

A full contact list of Strontium with other atoms in the Sr binding site number 1 of U/G Wobble Base Pair in A Rna Duplex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Sr101

b:99.2
occ:1.00
O4 A:U4 3.2 26.4 1.0
N6 A:A5 4.1 41.1 1.0
C4 A:U4 4.3 20.4 1.0
O4 B:U12 4.3 32.0 1.0
C5 A:U4 4.8 19.2 1.0
N6 B:A13 4.9 48.9 1.0

Strontium binding site 2 out of 5 in 4jab

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Strontium binding site 2 out of 5 in the U/G Wobble Base Pair in A Rna Duplex


Mono view


Stereo pair view

A full contact list of Strontium with other atoms in the Sr binding site number 2 of U/G Wobble Base Pair in A Rna Duplex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Sr102

b:88.0
occ:1.00
O4 A:U6 2.7 31.7 1.0
C4 A:U6 3.9 20.8 1.0
O6 B:G9 4.5 32.6 1.0
N7 B:G9 4.6 14.1 1.0
C5 A:U6 4.6 18.6 1.0
O4 B:U10 4.8 28.5 1.0
N7 A:A5 4.8 31.8 1.0
N6 A:A7 5.0 12.4 1.0
N3 A:U6 5.0 24.4 1.0

Strontium binding site 3 out of 5 in 4jab

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Strontium binding site 3 out of 5 in the U/G Wobble Base Pair in A Rna Duplex


Mono view


Stereo pair view

A full contact list of Strontium with other atoms in the Sr binding site number 3 of U/G Wobble Base Pair in A Rna Duplex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Sr103

b:21.5
occ:0.33
O2' A:C8 2.3 29.8 1.0
O3' A:C8 2.6 32.0 1.0
C2' A:C8 3.2 22.5 1.0
C3' A:C8 3.5 27.4 1.0
C4' A:C8 4.4 27.8 1.0
C1' A:C8 4.6 22.9 1.0

Strontium binding site 4 out of 5 in 4jab

Go back to Strontium Binding Sites List in 4jab
Strontium binding site 4 out of 5 in the U/G Wobble Base Pair in A Rna Duplex


Mono view


Stereo pair view

A full contact list of Strontium with other atoms in the Sr binding site number 4 of U/G Wobble Base Pair in A Rna Duplex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Sr104

b:33.2
occ:0.33
O4' A:C8 4.3 31.3 1.0
O2' A:C8 4.4 29.8 1.0
C1' A:C8 4.5 22.9 1.0
C4' A:C8 4.6 27.8 1.0

Strontium binding site 5 out of 5 in 4jab

Go back to Strontium Binding Sites List in 4jab
Strontium binding site 5 out of 5 in the U/G Wobble Base Pair in A Rna Duplex


Mono view


Stereo pair view

A full contact list of Strontium with other atoms in the Sr binding site number 5 of U/G Wobble Base Pair in A Rna Duplex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Sr101

b:91.5
occ:1.00
O4 B:U14 2.5 26.6 1.0
C4 B:U14 3.7 27.9 1.0
O4 A:U2 3.7 36.1 1.0
N6 B:A13 4.0 48.9 1.0
O6 A:G3 4.0 51.1 1.0
N3 B:U14 4.4 24.9 1.0
O6 A:G1 4.8 38.0 1.0
C5 B:U14 4.8 23.8 1.0
C4 A:U2 4.9 24.8 1.0
N6 B:A15 4.9 39.6 1.0
C6 B:A13 5.0 28.8 1.0

Reference:

S.Jiang, H.Sun, J.Gan, Z.Huang. 2-Se Uridine Enhanced U/G Wobble Base Pair Discrimination To Be Published.
Page generated: Wed Dec 16 02:23:58 2020

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