Iodine in PDB 3gqx: Pyrococcus Horikoshii NOP5 Rna Binding Domain From A Twinned Crystal Form

The structure of Pyrococcus Horikoshii NOP5 Rna Binding Domain From A Twinned Crystal Form, PDB code: 3gqx was solved by F.E.Reyes, J.W.Hardin, R.T.Batey, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	23.68 / 2.50
Space group	P 41
Cell size a, b, c (Å), α, β, γ (°)	73.604, 73.604, 114.279, 90.00, 90.00, 90.00
R / Rfree (%)	25.2 / 28.7

The binding sites of Iodine atom in the Pyrococcus Horikoshii NOP5 Rna Binding Domain From A Twinned Crystal Form (pdb code 3gqx). This binding sites where shown within 5.0 Angstroms radius around Iodine atom.
In total 3 binding sites of Iodine where determined in the Pyrococcus Horikoshii NOP5 Rna Binding Domain From A Twinned Crystal Form, PDB code: 3gqx:
Jump to Iodine binding site number: 1; 2; 3;

Iodine binding site 1 out of 3 in the Pyrococcus Horikoshii NOP5 Rna Binding Domain From A Twinned Crystal Form


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 1 of Pyrococcus Horikoshii NOP5 Rna Binding Domain From A Twinned Crystal Form within 5.0Å range: probe atom residue distance (Å) B Occ B:I1 b:90.1 occ:1.00 OG A:SER272 3.5 0.6 1.0 CA B:GLU244 3.8 70.8 1.0 O B:HOH119 3.9 69.4 1.0 CD1 B:ILE247 4.0 41.3 1.0 CB B:GLU244 4.1 78.3 1.0 N B:GLU244 4.2 63.2 1.0 O B:HOH122 4.3 69.4 1.0 CD1 B:LEU243 4.4 51.2 1.0 CB A:SER272 4.4 76.6 1.0 O B:LEU243 4.5 57.9 1.0 C B:LEU243 4.5 57.3 1.0 CG1 B:ILE247 4.6 48.2 1.0 CB B:ILE247 4.9 64.5 1.0 CG B:GLU244 4.9 0.8 1.0 O A:HOH38 4.9 41.4 1.0 C B:GLU244 5.0 59.0 1.0

Iodine binding site 2 out of 3 in the Pyrococcus Horikoshii NOP5 Rna Binding Domain From A Twinned Crystal Form


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 2 of Pyrococcus Horikoshii NOP5 Rna Binding Domain From A Twinned Crystal Form within 5.0Å range: probe atom residue distance (Å) B Occ B:I3 b:82.8 occ:1.00 N A:LEU243 3.6 65.4 1.0 CG1 B:VAL254 3.8 67.2 1.0 N B:LEU277 3.8 41.1 1.0 CA A:GLY242 4.0 56.6 1.0 CB B:LEU277 4.0 48.2 1.0 CB A:LEU243 4.3 54.4 1.0 C A:GLY242 4.3 64.0 1.0 CG2 B:ILE271 4.4 45.6 1.0 CA A:LEU243 4.5 73.1 1.0 CA B:LEU277 4.5 52.5 1.0 CA B:GLY276 4.7 77.7 1.0 C B:GLY276 4.8 92.6 1.0 CG2 B:VAL254 4.9 58.3 1.0

Iodine binding site 3 out of 3 in the Pyrococcus Horikoshii NOP5 Rna Binding Domain From A Twinned Crystal Form


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 3 of Pyrococcus Horikoshii NOP5 Rna Binding Domain From A Twinned Crystal Form within 5.0Å range: probe atom residue distance (Å) B Occ A:I2 b:88.8 occ:1.00 O B:HOH69 3.2 40.8 1.0 N A:LEU277 3.6 44.9 1.0 N B:LEU243 3.8 44.8 1.0 CA A:GLY276 4.0 57.9 1.0 CA B:GLY242 4.2 74.3 1.0 C A:GLY276 4.3 63.5 1.0 CG2 A:ILE271 4.3 60.5 1.0 CB A:LEU277 4.3 58.9 1.0 CB B:LEU243 4.4 45.7 1.0 CA A:LEU277 4.5 60.9 1.0 C B:GLY242 4.5 74.3 1.0 CG1 A:VAL254 4.7 37.0 1.0 CA B:LEU243 4.8 46.2 1.0 O B:HOH119 4.8 69.4 1.0 O A:HOH72 4.9 62.3 1.0

J.W.Hardin, F.E.Reyes, R.T.Batey. Analysis of A Critical Interaction Within the Archaeal Box C/D Small Ribonucleoprotein Complex J.Biol.Chem. V. 284 15317 2009.
ISSN: ISSN 0021-9258
PubMed: 19336398
DOI: 10.1074/JBC.M901368200