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Iodine in PDB 3jzb: Crystal Structure of Tr-Alfa Bound to the Selective Thyromimetic Triac

Protein crystallography data

The structure of Crystal Structure of Tr-Alfa Bound to the Selective Thyromimetic Triac, PDB code: 3jzb was solved by A.S.Nascimento, S.M.G.Dias, F.M.Nunes, R.Aparicio, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 51.18 / 2.01
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 60.020, 80.825, 102.355, 90.00, 90.00, 90.00
R / Rfree (%) 17.1 / 19.9

Other elements in 3jzb:

The structure of Crystal Structure of Tr-Alfa Bound to the Selective Thyromimetic Triac also contains other interesting chemical elements:

Arsenic (As) 4 atoms

Iodine Binding Sites:

The binding sites of Iodine atom in the Crystal Structure of Tr-Alfa Bound to the Selective Thyromimetic Triac (pdb code 3jzb). This binding sites where shown within 5.0 Angstroms radius around Iodine atom.
In total 3 binding sites of Iodine where determined in the Crystal Structure of Tr-Alfa Bound to the Selective Thyromimetic Triac, PDB code: 3jzb:
Jump to Iodine binding site number: 1; 2; 3;

Iodine binding site 1 out of 3 in 3jzb

Go back to Iodine Binding Sites List in 3jzb
Iodine binding site 1 out of 3 in the Crystal Structure of Tr-Alfa Bound to the Selective Thyromimetic Triac


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 Tr-Alfa Bound to the Selective Thyromimetic Triac within 5.0Å range:
probe atom residue distance (Å) B Occ
A:I1

b:30.2
occ:1.00
I1 A:4HY1 0.0 30.2 1.0
C5 A:4HY1 2.1 26.9 1.0
C3 A:4HY1 3.1 27.3 1.0
C7 A:4HY1 3.1 29.4 1.0
O2 A:4HY1 3.2 28.0 1.0
O A:PHE218 3.2 29.7 1.0
C2 A:4HY1 3.6 23.2 1.0
CB A:ILE222 3.9 23.2 1.0
C4 A:4HY1 4.0 23.9 1.0
CG1 A:ILE221 4.0 31.0 1.0
CG1 A:ILE222 4.0 29.9 1.0
C A:PHE218 4.0 33.6 1.0
CA A:ILE222 4.1 26.3 1.0
CD1 A:ILE222 4.2 32.6 1.0
N A:ILE222 4.2 27.4 1.0
CB A:PHE218 4.3 26.4 1.0
CD1 A:LEU276 4.4 32.7 1.0
CA A:PHE218 4.4 28.4 1.0
C12 A:4HY1 4.4 22.7 1.0
CD1 A:ILE221 4.4 30.7 1.0
C1 A:4HY1 4.5 33.5 1.0
C A:ILE221 4.5 31.2 1.0
C9 A:4HY1 4.6 24.3 1.0
O A:ILE221 4.7 31.9 1.0
CB A:LEU276 4.8 30.1 1.0

Iodine binding site 2 out of 3 in 3jzb

Go back to Iodine Binding Sites List in 3jzb
Iodine binding site 2 out of 3 in the Crystal Structure of Tr-Alfa Bound to the Selective Thyromimetic Triac


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 Tr-Alfa Bound to the Selective Thyromimetic Triac within 5.0Å range:
probe atom residue distance (Å) B Occ
A:I1

b:31.6
occ:1.00
I2 A:4HY1 0.0 31.6 1.0
C6 A:4HY1 2.1 23.7 1.0
C8 A:4HY1 3.0 21.2 1.0
O1 A:4HY1 3.1 21.9 1.0
C4 A:4HY1 3.1 23.9 1.0
O A:GLY290 3.4 27.7 1.0
CD1 A:PHE215 3.9 28.5 1.0
CE1 A:PHE215 4.0 31.3 1.0
CA A:GLY291 4.2 26.6 1.0
CD2 A:LEU292 4.3 31.0 1.0
C A:GLY290 4.3 27.6 1.0
CD1 A:PHE218 4.3 24.5 1.0
CB A:PHE218 4.3 26.4 1.0
CG A:LEU292 4.4 30.9 1.0
CE A:MET388 4.5 37.4 1.0
C10 A:4HY1 4.5 25.5 1.0
C A:GLY291 4.5 28.2 1.0
C2 A:4HY1 4.5 23.2 1.0
N A:LEU292 4.6 21.6 1.0
N A:GLY291 4.6 26.9 1.0
CG2 A:THR219 4.8 35.2 1.0
CG A:PHE218 4.8 29.5 1.0
CZ A:PHE401 4.9 29.5 1.0
CG A:PHE215 5.0 26.6 1.0

Iodine binding site 3 out of 3 in 3jzb

Go back to Iodine Binding Sites List in 3jzb
Iodine binding site 3 out of 3 in the Crystal Structure of Tr-Alfa Bound to the Selective Thyromimetic Triac


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 3 of Crystal Structure of Tr-Alfa Bound to the Selective Thyromimetic Triac within 5.0Å range:
probe atom residue distance (Å) B Occ
A:I1

b:30.3
occ:1.00
I3 A:4HY1 0.0 30.3 1.0
C9 A:4HY1 2.1 24.3 1.0
C11 A:4HY1 3.1 25.9 1.0
O2 A:4HY1 3.1 28.0 1.0
C7 A:4HY1 3.1 29.4 1.0
CD1 A:ILE299 3.6 27.8 1.0
C12 A:4HY1 3.6 22.7 1.0
C2 A:4HY1 3.7 23.2 1.0
CD1 A:LEU292 4.1 29.7 1.0
CB A:ALA263 4.1 21.4 1.0
CE A:MET256 4.3 25.7 1.0
OG A:SER260 4.4 31.2 1.0
CD2 A:LEU276 4.4 31.8 1.0
C1 A:4HY1 4.4 33.5 1.0
CA A:SER260 4.4 23.5 1.0
C5 A:4HY1 4.5 26.9 1.0
O A:MET259 4.7 26.3 1.0
CD2 A:LEU287 4.7 27.6 1.0
C10 A:4HY1 4.8 25.5 1.0
CG2 A:ILE299 4.9 27.3 1.0
N A:SER260 4.9 20.1 1.0
C4 A:4HY1 4.9 23.9 1.0
CG1 A:ILE299 4.9 26.9 1.0
SD A:MET256 4.9 32.6 1.0
C A:MET259 5.0 20.0 1.0
CB A:SER260 5.0 25.6 1.0

Reference:

L.Martinez, A.S.Nascimento, F.M.Nunes, K.Phillips, R.Aparicio, S.M.Dias, A.C.Figueira, J.H.Lin, P.Nguyen, J.W.Apriletti, F.A.Neves, J.D.Baxter, P.Webb, M.S.Skaf, I.Polikarpov. Gaining Ligand Selectivity in Thyroid Hormone Receptors Via Entropy. Proc.Natl.Acad.Sci.Usa V. 106 20717 2009.
ISSN: ISSN 0027-8424
PubMed: 19926848
DOI: 10.1073/PNAS.0911024106
Page generated: Sun Aug 11 15:24:29 2024

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