Atomistry » Zinc » PDB 2naa-2nwy » 2nll
Atomistry »
  Zinc »
    PDB 2naa-2nwy »
      2nll »

Zinc in PDB 2nll: Retinoid X Receptor-Thyroid Hormone Receptor Dna-Binding Domain Heterodimer Bound to Thyroid Response Element Dna

Protein crystallography data

The structure of Retinoid X Receptor-Thyroid Hormone Receptor Dna-Binding Domain Heterodimer Bound to Thyroid Response Element Dna, PDB code: 2nll was solved by F.Rastinejad, T.Perlmann, R.M.Evans, P.B.Sigler, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 6.00 / 1.90
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 40.900, 65.600, 125.700, 90.00, 90.00, 90.00
R / Rfree (%) 20.6 / 26.9

Other elements in 2nll:

The structure of Retinoid X Receptor-Thyroid Hormone Receptor Dna-Binding Domain Heterodimer Bound to Thyroid Response Element Dna also contains other interesting chemical elements:

Iodine (I) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Retinoid X Receptor-Thyroid Hormone Receptor Dna-Binding Domain Heterodimer Bound to Thyroid Response Element Dna (pdb code 2nll). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Retinoid X Receptor-Thyroid Hormone Receptor Dna-Binding Domain Heterodimer Bound to Thyroid Response Element Dna, PDB code: 2nll:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 2nll

Go back to Zinc Binding Sites List in 2nll
Zinc binding site 1 out of 4 in the Retinoid X Receptor-Thyroid Hormone Receptor Dna-Binding Domain Heterodimer Bound to Thyroid Response Element Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Retinoid X Receptor-Thyroid Hormone Receptor Dna-Binding Domain Heterodimer Bound to Thyroid Response Element Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn250

b:56.4
occ:1.00
SG A:CYS152 2.3 57.6 1.0
SG A:CYS155 2.3 51.4 1.0
SG A:CYS138 2.3 59.0 1.0
SG A:CYS135 2.4 55.4 1.0
CB A:CYS135 3.2 54.4 1.0
CB A:CYS152 3.3 59.5 1.0
CB A:CYS138 3.4 54.4 1.0
CB A:CYS155 3.4 46.8 1.0
N A:CYS138 3.6 52.2 1.0
N A:CYS155 4.0 43.7 1.0
N A:CYS152 4.0 55.0 1.0
CA A:CYS138 4.1 53.3 1.0
CA A:CYS152 4.2 56.8 1.0
CA A:CYS155 4.3 45.0 1.0
CB A:ILE137 4.4 56.6 1.0
NH1 A:ARG184 4.4 50.4 1.0
NH2 A:ARG191 4.5 32.5 1.0
CB A:ASP140 4.6 58.0 1.0
CA A:CYS135 4.7 53.4 1.0
O A:ASP140 4.7 59.2 1.0
C A:CYS138 4.7 55.1 1.0
C A:ILE137 4.7 53.0 1.0
C A:CYS152 4.9 56.6 1.0
N A:ASP140 4.9 58.1 1.0
O A:CYS152 4.9 55.9 1.0
CA A:ILE137 5.0 54.9 1.0

Zinc binding site 2 out of 4 in 2nll

Go back to Zinc Binding Sites List in 2nll
Zinc binding site 2 out of 4 in the Retinoid X Receptor-Thyroid Hormone Receptor Dna-Binding Domain Heterodimer Bound to Thyroid Response Element Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Retinoid X Receptor-Thyroid Hormone Receptor Dna-Binding Domain Heterodimer Bound to Thyroid Response Element Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn251

b:44.6
occ:1.00
SG A:CYS187 2.3 41.0 1.0
SG A:CYS190 2.3 45.4 1.0
SG A:CYS171 2.3 42.7 1.0
SG A:CYS177 2.3 47.6 1.0
CB A:CYS171 3.3 44.6 1.0
CB A:CYS187 3.3 35.1 1.0
CB A:CYS177 3.4 49.4 1.0
CB A:CYS190 3.5 44.7 1.0
CA A:CYS171 4.0 49.6 1.0
N A:CYS190 4.0 46.9 1.0
O A:HOH636 4.1 18.7 1.0
CA A:LYS175 4.3 53.9 1.0
N A:LYS175 4.3 54.7 1.0
CA A:CYS190 4.3 45.8 1.0
N A:CYS177 4.4 53.9 1.0
CB A:TYR189 4.5 49.2 1.0
CA A:CYS177 4.6 51.9 1.0
OD1 A:ASP176 4.7 55.6 1.0
CD1 A:TYR189 4.7 50.1 1.0
CA A:CYS187 4.7 35.7 1.0
N A:ASP176 4.7 56.8 1.0
N A:ARG172 4.7 47.5 1.0
OD2 A:ASP173 4.8 52.4 1.0
C A:CYS171 4.8 49.2 1.0
N A:ASP173 4.9 49.3 1.0

Zinc binding site 3 out of 4 in 2nll

Go back to Zinc Binding Sites List in 2nll
Zinc binding site 3 out of 4 in the Retinoid X Receptor-Thyroid Hormone Receptor Dna-Binding Domain Heterodimer Bound to Thyroid Response Element Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Retinoid X Receptor-Thyroid Hormone Receptor Dna-Binding Domain Heterodimer Bound to Thyroid Response Element Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn450

b:17.5
occ:1.00
SG B:CYS303 2.3 14.2 1.0
SG B:CYS323 2.3 16.6 1.0
SG B:CYS306 2.4 18.2 1.0
SG B:CYS320 2.4 14.9 1.0
CB B:CYS303 3.3 15.2 1.0
CB B:CYS323 3.4 14.8 1.0
CB B:CYS306 3.5 17.9 1.0
CB B:CYS320 3.6 8.8 1.0
N B:CYS306 3.7 12.2 1.0
N B:CYS323 4.1 17.3 1.0
N B:CYS320 4.1 15.1 1.0
CA B:CYS306 4.1 14.0 1.0
NH1 B:ARG354 4.2 15.1 1.0
CA B:CYS323 4.3 17.4 1.0
CA B:CYS320 4.4 16.9 1.0
CB B:VAL305 4.5 14.1 1.0
CB B:ASP308 4.6 19.1 1.0
CA B:CYS303 4.7 18.7 1.0
C B:VAL305 4.7 10.6 1.0
NH2 B:ARG361 4.8 10.5 1.0
C B:CYS306 4.8 15.3 1.0
N B:GLY307 4.8 17.1 1.0
CD B:ARG354 4.8 13.8 1.0
O B:CYS320 4.8 16.0 1.0
N B:ASP308 4.9 21.3 1.0
C B:CYS320 5.0 19.2 1.0

Zinc binding site 4 out of 4 in 2nll

Go back to Zinc Binding Sites List in 2nll
Zinc binding site 4 out of 4 in the Retinoid X Receptor-Thyroid Hormone Receptor Dna-Binding Domain Heterodimer Bound to Thyroid Response Element Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Retinoid X Receptor-Thyroid Hormone Receptor Dna-Binding Domain Heterodimer Bound to Thyroid Response Element Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn451

b:23.8
occ:1.00
SG B:CYS360 2.3 20.9 1.0
SG B:CYS347 2.3 25.5 1.0
SG B:CYS341 2.3 23.2 1.0
SG B:CYS357 2.3 16.4 1.0
CB B:CYS357 3.3 21.0 1.0
CB B:CYS341 3.3 29.9 1.0
CB B:CYS347 3.3 24.1 1.0
CB B:CYS360 3.4 16.9 1.0
CA B:CYS341 4.0 33.6 1.0
O B:HOH691 4.1 37.1 1.0
N B:CYS347 4.2 21.2 1.0
N B:CYS360 4.3 21.9 1.0
O B:GLU344 4.3 43.9 1.0
CA B:CYS347 4.4 22.4 1.0
CA B:CYS360 4.4 17.8 1.0
CA B:GLY345 4.4 30.8 1.0
CA B:CYS357 4.7 22.1 1.0
O B:HOH646 4.7 53.6 1.0
C B:CYS341 4.8 35.9 1.0
N B:LYS342 4.8 42.3 1.0
N B:LYS346 4.8 24.4 1.0
C B:GLY345 4.9 27.9 1.0

Reference:

F.Rastinejad, T.Perlmann, R.M.Evans, P.B.Sigler. Structural Determinants of Nuclear Receptor Assembly on Dna Direct Repeats. Nature V. 375 203 1995.
ISSN: ISSN 0028-0836
PubMed: 7746322
DOI: 10.1038/375203A0
Page generated: Thu Oct 17 02:13:53 2024

Last articles

Zn in 9J0N
Zn in 9J0O
Zn in 9J0P
Zn in 9FJX
Zn in 9EKB
Zn in 9C0F
Zn in 9CAH
Zn in 9CH0
Zn in 9CH3
Zn in 9CH1
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy