Arsenic in PDB 7jju: Crystal Structure of En Exoribonuclease-Resistant Rna (Xrrna) From Potato Leafroll Virus (Plrv)

The structure of Crystal Structure of En Exoribonuclease-Resistant Rna (Xrrna) From Potato Leafroll Virus (Plrv), PDB code: 7jju was solved by A.-L.Steckelberg, Q.Vicens, P.Auffinger, D.C.Costantino, J.C.Nix, J.S.Kieft, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.72 / 2.60
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	72.190, 72.190, 137.140, 90.00, 90.00, 90.00
R / Rfree (%)	22.5 / 25.3

The structure of Crystal Structure of En Exoribonuclease-Resistant Rna (Xrrna) From Potato Leafroll Virus (Plrv) also contains other interesting chemical elements:

Iridium

(Ir)

10 atoms

The binding sites of Arsenic atom in the Crystal Structure of En Exoribonuclease-Resistant Rna (Xrrna) From Potato Leafroll Virus (Plrv) (pdb code 7jju). This binding sites where shown within 5.0 Angstroms radius around Arsenic atom.
In total 6 binding sites of Arsenic where determined in the Crystal Structure of En Exoribonuclease-Resistant Rna (Xrrna) From Potato Leafroll Virus (Plrv), PDB code: 7jju:
Jump to Arsenic binding site number: 1; 2; 3; 4; 5; 6;

Arsenic binding site 1 out of 6 in the Crystal Structure of En Exoribonuclease-Resistant Rna (Xrrna) From Potato Leafroll Virus (Plrv)


Mono view


Stereo pair view

A full contact list of Arsenic with other atoms in the As binding site number 1 of Crystal Structure of En Exoribonuclease-Resistant Rna (Xrrna) From Potato Leafroll Virus (Plrv) within 5.0Å range: probe atom residue distance (Å) B Occ A:As105 b:0.9 occ:1.00 AS A:CAC105 0.0 0.9 1.0 O1 A:CAC105 1.7 98.6 1.0 O2 A:CAC105 1.7 92.1 1.0 C1 A:CAC105 2.0 0.3 1.0 C2 A:CAC105 2.0 89.5 1.0 O6 A:G23 3.9 59.5 1.0 O4 A:U24 3.9 56.7 1.0 N7 A:G23 4.1 50.2 1.0 N6 A:A22 4.6 56.1 1.0 C6 A:G23 4.7 56.0 1.0 C5 A:G23 4.8 52.0 1.0 N7 A:A22 4.9 54.8 1.0 C4 A:U24 4.9 51.2 1.0

Arsenic binding site 2 out of 6 in the Crystal Structure of En Exoribonuclease-Resistant Rna (Xrrna) From Potato Leafroll Virus (Plrv)


Mono view


Stereo pair view

A full contact list of Arsenic with other atoms in the As binding site number 2 of Crystal Structure of En Exoribonuclease-Resistant Rna (Xrrna) From Potato Leafroll Virus (Plrv) within 5.0Å range: probe atom residue distance (Å) B Occ A:As106 b:0.2 occ:1.00 AS A:CAC106 0.0 0.2 1.0 O2 A:CAC106 1.7 0.0 1.0 O1 A:CAC106 1.7 0.7 1.0 C1 A:CAC106 2.0 0.2 1.0 C2 A:CAC106 2.0 0.7 1.0 OP2 A:G39 4.2 72.4 1.0 N5 A:IRI110 4.2 0.7 0.8 N4 A:IRI110 4.7 0.0 0.8

Arsenic binding site 3 out of 6 in the Crystal Structure of En Exoribonuclease-Resistant Rna (Xrrna) From Potato Leafroll Virus (Plrv)


Mono view


Stereo pair view

A full contact list of Arsenic with other atoms in the As binding site number 3 of Crystal Structure of En Exoribonuclease-Resistant Rna (Xrrna) From Potato Leafroll Virus (Plrv) within 5.0Å range: probe atom residue distance (Å) B Occ B:As505 b:0.7 occ:1.00 AS B:CAC505 0.0 0.7 1.0 O1 B:CAC505 1.7 0.3 1.0 O2 B:CAC505 1.7 0.1 1.0 C2 B:CAC505 2.0 93.2 1.0 C1 B:CAC505 2.0 0.4 1.0 N3 B:IRI509 3.4 0.6 1.0 N2 B:IRI509 3.7 0.8 1.0 OP2 B:G39 3.9 63.9 1.0 N5 B:IRI509 4.3 0.2 1.0 IR B:IRI509 4.6 0.1 1.0 OP1 B:A38 4.8 54.4 1.0

Arsenic binding site 4 out of 6 in the Crystal Structure of En Exoribonuclease-Resistant Rna (Xrrna) From Potato Leafroll Virus (Plrv)


Mono view


Stereo pair view

A full contact list of Arsenic with other atoms in the As binding site number 4 of Crystal Structure of En Exoribonuclease-Resistant Rna (Xrrna) From Potato Leafroll Virus (Plrv) within 5.0Å range: probe atom residue distance (Å) B Occ B:As506 b:0.0 occ:1.00 AS B:CAC506 0.0 0.0 1.0 O2 B:CAC506 1.7 0.5 1.0 O1 B:CAC506 1.7 0.8 1.0 C2 B:CAC506 2.0 0.6 1.0 C1 B:CAC506 2.0 0.3 1.0 OP1 B:A43 4.0 95.1 1.0 OP1 B:A44 4.2 84.2 1.0 O6 B:G45 4.3 77.2 1.0 N7 B:A44 4.3 77.1 1.0 N6 B:A44 4.9 66.7 1.0

Arsenic binding site 5 out of 6 in the Crystal Structure of En Exoribonuclease-Resistant Rna (Xrrna) From Potato Leafroll Virus (Plrv)


Mono view


Stereo pair view

A full contact list of Arsenic with other atoms in the As binding site number 5 of Crystal Structure of En Exoribonuclease-Resistant Rna (Xrrna) From Potato Leafroll Virus (Plrv) within 5.0Å range: probe atom residue distance (Å) B Occ B:As507 b:0.6 occ:1.00 AS B:CAC507 0.0 0.6 1.0 O2 B:CAC507 1.7 0.2 1.0 O1 B:CAC507 1.7 0.8 1.0 C1 B:CAC507 2.0 1.0 1.0 C2 B:CAC507 2.0 99.2 1.0 OP1 B:G36 4.1 70.8 1.0 OP1 B:A3 4.1 78.2 1.0 OP2 B:A3 4.2 72.0 1.0 OP2 B:A4 4.2 57.6 1.0 P B:A3 4.6 67.2 1.0 O5' B:A3 4.9 57.8 1.0

Arsenic binding site 6 out of 6 in the Crystal Structure of En Exoribonuclease-Resistant Rna (Xrrna) From Potato Leafroll Virus (Plrv)


Mono view


Stereo pair view

A full contact list of Arsenic with other atoms in the As binding site number 6 of Crystal Structure of En Exoribonuclease-Resistant Rna (Xrrna) From Potato Leafroll Virus (Plrv) within 5.0Å range: probe atom residue distance (Å) B Occ B:As508 b:0.1 occ:1.00 AS B:CAC508 0.0 0.1 1.0 O1 B:CAC508 1.7 87.9 1.0 O2 B:CAC508 1.7 0.1 1.0 C1 B:CAC508 2.0 80.6 1.0 C2 B:CAC508 2.0 0.3 1.0 N7 B:G23 4.3 50.8 1.0 O4 B:U24 4.4 59.4 1.0 O6 B:G23 4.4 54.2 1.0 N6 B:A22 4.6 60.9 1.0 N7 B:A22 4.7 57.2 1.0

A.L.Steckelberg, Q.Vicens, D.A.Costantino, J.C.Nix, J.S.Kieft. The Crystal Structure of A Polerovirus Exoribonuclease-Resistant Rna Shows How Diverse Sequences Are Integrated Into A Conserved Fold. Rna V. 26 1767 2020.
ISSN: ESSN 1469-9001
PubMed: 32848042
DOI: 10.1261/RNA.076224.120