Iodine in PDB 2qc5: Streptogramin B Lyase Structure

The structure of Streptogramin B Lyase Structure, PDB code: 2qc5 was solved by M.Lipka, M.Bochtler, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	12.00 / 1.80
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	60.465, 68.117, 73.212, 90.00, 90.00, 90.00
R / Rfree (%)	17.9 / 21.2

The binding sites of Iodine atom in the Streptogramin B Lyase Structure (pdb code 2qc5). This binding sites where shown within 5.0 Angstroms radius around Iodine atom.
In total 2 binding sites of Iodine where determined in the Streptogramin B Lyase Structure, PDB code: 2qc5:
Jump to Iodine binding site number: 1; 2;

Iodine binding site 1 out of 2 in the Streptogramin B Lyase Structure


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 1 of Streptogramin B Lyase Structure within 5.0Å range: probe atom residue distance (Å) B Occ A:I557 b:31.8 occ:1.00 O A:HOH365 3.3 15.3 1.0 O A:HOH492 3.6 17.9 1.0 O A:HOH402 3.6 18.6 1.0 CA A:GLY19 3.7 8.7 1.0 N A:ILE20 3.8 8.7 1.0 CA A:CYS61 4.1 8.4 1.0 CB A:CYS61 4.1 8.7 1.0 O A:ILE20 4.1 8.5 1.0 SG A:CYS61 4.1 10.4 1.0 CE2 A:PHE145 4.2 10.3 1.0 N A:LEU62 4.2 6.2 1.0 O A:HOH491 4.2 23.8 1.0 C A:GLY19 4.3 8.4 1.0 O A:HOH364 4.3 18.4 1.0 O A:LEU62 4.5 6.6 1.0 CD2 A:LEU62 4.6 4.4 1.0 C A:CYS61 4.7 7.4 1.0 C A:ILE20 4.8 8.6 1.0 CZ A:PHE145 4.8 9.8 1.0 O A:HOH459 4.9 27.2 1.0 CA A:ILE20 4.9 8.4 1.0 N A:GLY19 5.0 8.6 1.0 O A:MET60 5.0 12.3 1.0 CA A:GLY271 5.0 6.8 1.0

Iodine binding site 2 out of 2 in the Streptogramin B Lyase Structure


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 2 of Streptogramin B Lyase Structure within 5.0Å range: probe atom residue distance (Å) B Occ A:I558 b:44.3 occ:1.00 O A:HOH482 2.8 29.8 1.0 OG1 A:THR264 2.8 12.5 1.0 N A:THR264 3.7 11.0 1.0 N A:GLN263 3.8 8.7 1.0 CB A:THR264 3.8 11.3 1.0 CB A:LEU262 3.9 7.1 1.0 CD2 A:LEU262 4.0 8.0 1.0 CD1 A:LEU5 4.1 13.7 1.0 CD1 A:LEU284 4.2 11.7 1.0 CA A:LEU262 4.4 7.3 1.0 CA A:THR264 4.4 11.1 1.0 CG A:LEU262 4.4 5.8 1.0 C A:LEU262 4.5 7.6 1.0 CA A:GLN263 4.6 10.3 1.0 C A:GLN263 4.7 11.1 1.0 OE2 A:GLU7 4.7 33.3 1.0 CB A:GLN263 4.7 11.4 1.0 CB A:LEU5 4.8 16.3 1.0 CD1 A:LEU262 4.8 7.2 1.0 CG A:GLU7 4.9 25.6 1.0 CG A:LEU5 4.9 15.5 1.0

M.Lipka, R.Filipek, M.Bochtler. Crystal Structure and Mechanism of the Staphylococcus Cohnii Virginiamycin B Lyase (Vgb). Biochemistry V. 47 4257 2008.
ISSN: ISSN 0006-2960
PubMed: 18341294
DOI: 10.1021/BI7015266