Iodine in PDB 3a4n: Crystal Structure of Archaeal O-Phosphoseryl-Trna(Sec) Kinase

The structure of Crystal Structure of Archaeal O-Phosphoseryl-Trna(Sec) Kinase, PDB code: 3a4n was solved by Y.Araiso, R.Ishitani, D.Soll, O.Nureki, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	46.37 / 2.50
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	58.189, 73.946, 65.105, 90.00, 113.90, 90.00
R / Rfree (%)	20 / 27

The binding sites of Iodine atom in the Crystal Structure of Archaeal O-Phosphoseryl-Trna(Sec) Kinase (pdb code 3a4n). This binding sites where shown within 5.0 Angstroms radius around Iodine atom.
In total 2 binding sites of Iodine where determined in the Crystal Structure of Archaeal O-Phosphoseryl-Trna(Sec) Kinase, PDB code: 3a4n:
Jump to Iodine binding site number: 1; 2;

Iodine binding site 1 out of 2 in the Crystal Structure of Archaeal O-Phosphoseryl-Trna(Sec) Kinase


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 1 of Crystal Structure of Archaeal O-Phosphoseryl-Trna(Sec) Kinase within 5.0Å range: probe atom residue distance (Å) B Occ A:I402 b:38.1 occ:1.00 O A:HOH269 3.3 24.2 1.0 NE A:ARG199 3.6 25.3 0.5 NH1 A:ARG223 3.7 26.2 1.0 CD A:ARG223 4.0 24.3 1.0 CG A:LYS131 4.0 33.7 1.0 CB A:LYS131 4.0 32.0 1.0 CG A:ARG199 4.1 23.0 0.5 CG1 A:VAL220 4.1 32.7 1.0 NH1 A:ARG199 4.1 25.4 0.5 CG2 A:VAL128 4.2 30.1 1.0 CZ A:ARG223 4.2 25.2 1.0 CZ A:ARG199 4.2 24.9 0.5 NE A:ARG223 4.3 24.1 1.0 CG A:ARG199 4.3 22.9 0.5 CG1 A:VAL128 4.4 25.1 1.0 CA A:VAL128 4.4 28.7 1.0 CD A:ARG199 4.4 23.3 0.5 CB A:VAL128 4.5 29.0 1.0 CG2 A:VAL220 4.5 32.6 1.0 CG1 A:VAL202 4.6 25.8 1.0 CB A:ARG199 4.7 23.4 0.5 CB A:ARG199 4.7 23.3 0.5 CA A:ARG199 4.7 23.6 0.5 CA A:ARG199 4.7 23.6 0.5 CD A:ARG199 4.7 22.8 0.5 CB A:VAL220 4.8 32.8 1.0 O A:VAL128 4.9 28.6 1.0

Iodine binding site 2 out of 2 in the Crystal Structure of Archaeal O-Phosphoseryl-Trna(Sec) Kinase


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 2 of Crystal Structure of Archaeal O-Phosphoseryl-Trna(Sec) Kinase within 5.0Å range: probe atom residue distance (Å) B Occ B:I402 b:36.5 occ:1.00 NH2 B:ARG199 3.3 30.2 0.5 O B:HOH286 3.4 32.8 1.0 CG B:ARG199 3.7 25.7 0.5 CG B:LYS131 3.8 35.0 1.0 CZ B:ARG199 3.8 27.7 0.5 CD B:ARG223 3.9 28.5 1.0 CG1 B:VAL128 3.9 28.6 1.0 NH1 B:ARG223 4.0 30.2 1.0 CB B:LYS131 4.1 32.5 1.0 NE B:ARG223 4.2 29.2 1.0 CZ B:ARG223 4.2 27.9 1.0 NE B:ARG199 4.2 28.0 0.5 CG B:ARG199 4.3 25.5 0.5 CD B:ARG199 4.3 27.4 0.5 CG1 B:VAL202 4.3 26.8 1.0 CA B:VAL128 4.5 30.5 1.0 CB B:VAL128 4.5 31.2 1.0 NH1 B:ARG199 4.5 27.7 0.5 CG1 B:VAL220 4.5 32.6 1.0 CG2 B:VAL128 4.6 28.4 1.0 CG2 B:VAL220 4.6 38.5 1.0 CB B:ARG199 4.7 25.6 0.5 CB B:ARG199 4.7 25.8 0.5 CA B:ARG199 4.8 25.1 0.5 CA B:ARG199 4.8 25.1 0.5

Y.Araiso, R.L.Sherrer, R.Ishitani, J.M.L.Ho, D.Soll, O.Nureki. Structure of A Trna-Dependent Kinase Essential For Selenocysteine Decoding Proc.Natl.Acad.Sci.Usa V. 106 16215 2009.
ISSN: ISSN 0027-8424
PubMed: 19805283
DOI: 10.1073/PNAS.0908861106