Iridium in PDB 3b31: Crystal Structure of Domain III of the Cricket Paralysis Virus Ires Rna

The structure of Crystal Structure of Domain III of the Cricket Paralysis Virus Ires Rna, PDB code: 3b31 was solved by J.S.Kieft, D.A.Costantino, J.S.Pfingsten, R.P.Rambo, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	23.20 / 2.40
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	58.724, 58.724, 98.989, 90.00, 90.00, 90.00
R / Rfree (%)	23.9 / 26.9

The binding sites of Iridium atom in the Crystal Structure of Domain III of the Cricket Paralysis Virus Ires Rna (pdb code 3b31). This binding sites where shown within 5.0 Angstroms radius around Iridium atom.
In total 3 binding sites of Iridium where determined in the Crystal Structure of Domain III of the Cricket Paralysis Virus Ires Rna, PDB code: 3b31:
Jump to Iridium binding site number: 1; 2; 3;

Iridium binding site 1 out of 3 in the Crystal Structure of Domain III of the Cricket Paralysis Virus Ires Rna


Mono view


Stereo pair view

A full contact list of Iridium with other atoms in the Ir binding site number 1 of Crystal Structure of Domain III of the Cricket Paralysis Virus Ires Rna within 5.0Å range: probe atom residue distance (Å) B Occ A:Ir1 b:85.7 occ:1.00 IR A:IRI1 0.0 85.7 1.0 N2 A:IRI1 2.2 84.1 1.0 N6 A:IRI1 2.3 84.6 1.0 N4 A:IRI1 2.3 83.6 1.0 N1 A:IRI1 2.3 85.0 1.0 N5 A:IRI1 2.3 84.8 1.0 N3 A:IRI1 2.3 84.6 1.0 O4 A:U6198 3.9 50.2 1.0 O4 A:U6177 4.0 48.8 1.0 O4 A:U6176 4.1 48.9 1.0 O A:HOH6276 4.2 72.5 1.0 O A:HOH6275 4.6 63.4 1.0 C4 A:U6198 4.9 48.3 1.0 N6 A:A6200 5.0 56.8 1.0

Iridium binding site 2 out of 3 in the Crystal Structure of Domain III of the Cricket Paralysis Virus Ires Rna


Mono view


Stereo pair view

A full contact list of Iridium with other atoms in the Ir binding site number 2 of Crystal Structure of Domain III of the Cricket Paralysis Virus Ires Rna within 5.0Å range: probe atom residue distance (Å) B Occ A:Ir2 b:49.7 occ:1.00 IR A:IRI2 0.0 49.7 1.0 N2 A:IRI2 2.2 47.7 1.0 N4 A:IRI2 2.2 47.4 1.0 N5 A:IRI2 2.2 47.0 1.0 N6 A:IRI2 2.2 48.1 1.0 N1 A:IRI2 2.3 47.6 1.0 N3 A:IRI2 2.3 47.8 1.0 O4 A:U6185 3.7 33.3 1.0 OP2 A:A6184 3.8 36.3 1.0 O A:HOH6257 3.8 54.2 1.0 O A:HOH6256 4.1 65.0 1.0 O4 A:U6186 4.1 37.0 1.0 OP1 A:G6183 4.3 44.6 1.0 O A:HOH6255 4.3 62.4 1.0 O2' A:A6182 4.3 50.4 1.0 O3' A:A6182 4.3 45.7 1.0 OP1 A:G6189 4.4 35.1 1.0 O5' A:G6183 4.6 43.3 1.0 O A:HOH6267 4.7 64.7 1.0 P A:G6183 4.7 43.2 1.0 C4 A:U6185 4.9 31.9 1.0 O A:HOH6211 4.9 39.6 1.0

Iridium binding site 3 out of 3 in the Crystal Structure of Domain III of the Cricket Paralysis Virus Ires Rna


Mono view


Stereo pair view

A full contact list of Iridium with other atoms in the Ir binding site number 3 of Crystal Structure of Domain III of the Cricket Paralysis Virus Ires Rna within 5.0Å range: probe atom residue distance (Å) B Occ A:Ir3 b:0.2 occ:1.00 IR A:IRI3 0.0 0.2 1.0 N6 A:IRI3 1.9 0.1 1.0 N2 A:IRI3 2.1 0.8 1.0 N4 A:IRI3 2.1 1.0 1.0 N3 A:IRI3 2.2 1.0 1.0 N1 A:IRI3 2.2 0.1 1.0 N5 A:IRI3 2.3 0.9 1.0 O4 A:U6193 3.9 31.7 1.0 O6 A:G6183 4.3 34.9 1.0 O A:HOH6253 4.4 58.3 1.0 OP2 A:A6191 4.4 49.6 1.0 OP2 A:G6192 4.4 43.2 1.0 O A:HOH6263 4.6 49.4 1.0 N6 A:A6184 4.7 31.0 1.0 N7 A:G6192 4.8 37.3 1.0 O A:HOH6212 4.9 41.3 1.0 O A:HOH6255 4.9 62.4 1.0 O A:HOH6211 4.9 39.6 1.0

D.A.Costantino, J.S.Pfingsten, R.P.Rambo, J.S.Kieft. Trna-Mrna Mimicry Drives Translation Initiation From A Viral Ires. Nat.Struct.Mol.Biol. V. 15 57 2008.
ISSN: ISSN 1545-9993
PubMed: 18157151
DOI: 10.1038/NSMB1351