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Barium in PDB 7ki3: Human ARGONAUTE2:Mir-122 Bound to the Hcv Genotype 1A Site-1 Rna

Protein crystallography data

The structure of Human ARGONAUTE2:Mir-122 Bound to the Hcv Genotype 1A Site-1 Rna, PDB code: 7ki3 was solved by L.F.R.Gebert, I.J.Macrae, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 99.23 / 3.00
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 87.313, 112.963, 207.684, 90, 90, 90
R / Rfree (%) 23.3 / 27.6

Barium Binding Sites:

The binding sites of Barium atom in the Human ARGONAUTE2:Mir-122 Bound to the Hcv Genotype 1A Site-1 Rna (pdb code 7ki3). This binding sites where shown within 5.0 Angstroms radius around Barium atom.
In total 3 binding sites of Barium where determined in the Human ARGONAUTE2:Mir-122 Bound to the Hcv Genotype 1A Site-1 Rna, PDB code: 7ki3:
Jump to Barium binding site number: 1; 2; 3;

Barium binding site 1 out of 3 in 7ki3

Go back to Barium Binding Sites List in 7ki3
Barium binding site 1 out of 3 in the Human ARGONAUTE2:Mir-122 Bound to the Hcv Genotype 1A Site-1 Rna


Mono view


Stereo pair view

A full contact list of Barium with other atoms in the Ba binding site number 1 of Human ARGONAUTE2:Mir-122 Bound to the Hcv Genotype 1A Site-1 Rna within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ba901

b:54.8
occ:1.00
O A:VAL598 2.7 44.4 1.0
OD1 A:ASP597 2.9 57.2 1.0
CG A:ASP597 3.6 47.0 1.0
OD2 A:ASP597 3.7 49.6 1.0
C A:VAL598 3.8 39.1 1.0
N A:VAL598 4.3 37.5 1.0
OD1 A:ASP669 4.4 48.5 1.0
CA A:GLY670 4.6 44.0 1.0
CA A:VAL598 4.7 38.3 1.0
N A:THR599 4.7 33.6 1.0
O A:ASP669 4.8 40.9 1.0
CA A:THR599 4.8 38.3 1.0

Barium binding site 2 out of 3 in 7ki3

Go back to Barium Binding Sites List in 7ki3
Barium binding site 2 out of 3 in the Human ARGONAUTE2:Mir-122 Bound to the Hcv Genotype 1A Site-1 Rna


Mono view


Stereo pair view

A full contact list of Barium with other atoms in the Ba binding site number 2 of Human ARGONAUTE2:Mir-122 Bound to the Hcv Genotype 1A Site-1 Rna within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ba101

b:128.9
occ:1.00
O6 C:G1 2.3 119.5 1.0
C6 C:G1 3.4 126.9 1.0
O4 B:U17 3.7 101.3 1.0
N4 C:C2 4.3 128.1 1.0
C5 C:G1 4.3 135.0 1.0
N1 C:G1 4.4 124.3 1.0
O6 B:G16 4.4 129.0 1.0
O6 B:G15 4.5 114.5 1.0
N7 C:G1 4.5 137.1 1.0
O A:CYS66 4.5 97.9 1.0
O A:GLU64 4.6 114.4 1.0
C4 B:U17 4.7 112.9 1.0
N3 B:U17 4.9 122.6 1.0

Barium binding site 3 out of 3 in 7ki3

Go back to Barium Binding Sites List in 7ki3
Barium binding site 3 out of 3 in the Human ARGONAUTE2:Mir-122 Bound to the Hcv Genotype 1A Site-1 Rna


Mono view


Stereo pair view

A full contact list of Barium with other atoms in the Ba binding site number 3 of Human ARGONAUTE2:Mir-122 Bound to the Hcv Genotype 1A Site-1 Rna within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ba901

b:69.7
occ:1.00
O D:VAL598 2.7 39.2 1.0
OD1 D:ASP597 2.7 46.0 1.0
CG D:ASP597 3.7 37.2 1.0
C D:VAL598 3.8 28.9 1.0
OD2 D:ASP597 3.9 38.4 1.0
N D:VAL598 4.3 28.3 1.0
OD1 D:ASP669 4.3 41.9 1.0
CA D:GLY670 4.4 44.9 1.0
O D:ASP669 4.6 40.2 1.0
CA D:VAL598 4.6 29.6 1.0
N D:THR599 4.7 27.0 1.0
O D:GLY670 4.7 48.0 1.0
CA D:THR599 4.8 32.2 1.0
C D:ASP669 5.0 39.3 1.0
N D:GLY670 5.0 42.1 1.0

Reference:

L.F.R.Gebert, M.Law, I.J.Macrae. A Structured Rna Motif Locks ARGONAUTE2:Mir-122 Onto the 5' End of the Hcv Genome Nat Commun 2021.
ISSN: ESSN 2041-1723
Page generated: Fri Nov 5 11:09:15 2021

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