Atomistry » Chlorine » PDB 4ck4-4cqa » 4cn5
Atomistry »
  Chlorine »
    PDB 4ck4-4cqa »
      4cn5 »

Chlorine in PDB 4cn5: Crystal Structure of the Human Retinoid X Receptor Dna- Binding Domain Bound to the Human NR1D1 Response Element

Protein crystallography data

The structure of Crystal Structure of the Human Retinoid X Receptor Dna- Binding Domain Bound to the Human NR1D1 Response Element, PDB code: 4cn5 was solved by A.G.Mcewen, P.Poussin-Courmontagne, J.Osz, N.Rochel, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 43.093 / 2.00
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 103.286, 44.327, 63.915, 90.00, 98.95, 90.00
R / Rfree (%) 16.73 / 22.7

Other elements in 4cn5:

The structure of Crystal Structure of the Human Retinoid X Receptor Dna- Binding Domain Bound to the Human NR1D1 Response Element also contains other interesting chemical elements:

Potassium (K) 4 atoms
Zinc (Zn) 4 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Crystal Structure of the Human Retinoid X Receptor Dna- Binding Domain Bound to the Human NR1D1 Response Element (pdb code 4cn5). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 5 binding sites of Chlorine where determined in the Crystal Structure of the Human Retinoid X Receptor Dna- Binding Domain Bound to the Human NR1D1 Response Element, PDB code: 4cn5:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5;

Chlorine binding site 1 out of 5 in 4cn5

Go back to Chlorine Binding Sites List in 4cn5
Chlorine binding site 1 out of 5 in the Crystal Structure of the Human Retinoid X Receptor Dna- Binding Domain Bound to the Human NR1D1 Response Element


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Crystal Structure of the Human Retinoid X Receptor Dna- Binding Domain Bound to the Human NR1D1 Response Element within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl1212

b:53.6
occ:1.00
 N A:TYR169 3.1 27.0 1.0
O A:TYR169 3.5 27.7 1.0
CD2 A:TYR189 3.7 24.9 1.0
CA A:TYR169 3.8 24.9 1.0
CB A:TYR169 3.9 28.2 1.0
NE2 A:GLN193 3.9 36.7 1.0
CD2 A:TYR169 4.0 20.5 1.0
CD2 A:TYR192 4.0 19.6 1.0
CE2 A:TYR189 4.0 27.9 1.0
C A:TYR169 4.0 27.0 1.0
C A:THR168 4.0 34.7 1.0
CA A:THR168 4.1 37.3 1.0
CG A:TYR169 4.3 25.3 1.0
O A:HOH2040 4.3 53.0 1.0
CG2 A:THR168 4.4 36.4 1.0
CE2 A:TYR192 4.6 25.7 1.0
O A:HOH2043 4.6 39.3 1.0
CG A:TYR189 4.6 23.4 1.0
O A:LEU167 4.7 41.0 1.0
CA A:TYR189 4.8 19.5 1.0
CG A:TYR192 4.8 24.2 1.0
CB A:THR168 4.8 39.9 1.0
O A:HOH2044 4.8 31.2 1.0
CB A:TYR192 5.0 21.8 1.0
CB A:TYR189 5.0 27.8 1.0
CE2 A:TYR169 5.0 18.3 1.0

Chlorine binding site 2 out of 5 in 4cn5

Go back to Chlorine Binding Sites List in 4cn5
Chlorine binding site 2 out of 5 in the Crystal Structure of the Human Retinoid X Receptor Dna- Binding Domain Bound to the Human NR1D1 Response Element


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Crystal Structure of the Human Retinoid X Receptor Dna- Binding Domain Bound to the Human NR1D1 Response Element within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl1213

b:38.9
occ:1.00
 N A:ARG182 2.9 20.9 1.0
O A:HOH2069 3.0 46.1 1.0
N A:LYS181 3.4 21.1 1.0
CB A:LYS181 3.5 23.7 1.0
CB A:ARG182 3.5 21.4 1.0
CA A:LYS181 3.7 19.8 1.0
C A:LYS181 3.7 20.0 1.0
CA A:ARG182 3.8 19.0 1.0
CG A:ASP180 3.8 33.7 1.0
OD1 A:ASP180 3.9 31.5 1.0
O A:HOH2006 3.9 20.6 1.0
CB A:ASP180 4.1 24.9 1.0
OD2 A:ASP180 4.2 40.4 1.0
C A:ASP180 4.3 17.0 1.0
O A:HOH2068 4.5 43.1 1.0
CG A:LYS181 4.5 29.5 1.0
O A:HOH2054 4.6 33.7 1.0
CA A:ASP180 4.8 19.5 1.0
O A:LYS181 4.9 18.8 1.0
CD A:LYS181 5.0 37.0 1.0

Chlorine binding site 3 out of 5 in 4cn5

Go back to Chlorine Binding Sites List in 4cn5
Chlorine binding site 3 out of 5 in the Crystal Structure of the Human Retinoid X Receptor Dna- Binding Domain Bound to the Human NR1D1 Response Element


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Crystal Structure of the Human Retinoid X Receptor Dna- Binding Domain Bound to the Human NR1D1 Response Element within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl1214

b:57.4
occ:1.00
 N A:ARG172 2.9 30.3 1.0
SG A:CYS187 3.5 21.9 1.0
CB A:ARG172 3.5 50.3 1.0
CG A:ARG172 3.7 59.0 1.0
CA A:ARG172 3.7 35.6 1.0
CB A:CYS187 3.8 27.0 1.0
C A:CYS171 3.9 31.7 1.0
CA A:CYS171 3.9 33.9 1.0
ZN A:ZN1211 4.1 34.4 1.0
SG A:CYS171 4.1 30.0 1.0
CD A:ARG172 4.2 69.9 1.0
O A:ARG186 4.2 21.7 1.0
N A:ASP173 4.2 37.1 1.0
OD2 A:ASP173 4.3 47.6 1.0
CA A:CYS187 4.4 18.2 1.0
C A:ARG172 4.5 35.1 1.0
CB A:CYS171 4.5 35.2 1.0
O A:THR170 4.5 30.3 1.0
SG A:CYS177 4.6 30.9 1.0
O A:HOH2048 4.6 38.9 1.0
O A:HOH2049 4.6 21.2 1.0

Chlorine binding site 4 out of 5 in 4cn5

Go back to Chlorine Binding Sites List in 4cn5
Chlorine binding site 4 out of 5 in the Crystal Structure of the Human Retinoid X Receptor Dna- Binding Domain Bound to the Human NR1D1 Response Element


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Crystal Structure of the Human Retinoid X Receptor Dna- Binding Domain Bound to the Human NR1D1 Response Element within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cl1021

b:47.8
occ:1.00
 NZ B:LYS160 2.5 28.9 1.0
OP2 C:DT12 2.8 18.9 1.0
O B:HOH2080 3.2 34.2 1.0
C7 C:DT13 3.4 18.8 1.0
CE B:LYS160 3.5 26.2 1.0
C7 C:DT12 3.5 12.9 1.0
C6 C:DT12 3.7 17.2 1.0
O B:HOH2026 3.7 26.2 1.0
O5' C:DT12 3.7 22.9 1.0
CD B:LYS160 3.8 20.0 1.0
C5 C:DT12 3.8 17.6 1.0
P C:DT12 3.8 19.1 1.0
NH1 B:ARG164 3.8 23.3 1.0
C2' C:DT12 4.6 20.6 1.0
OP1 C:DT12 4.6 18.6 1.0
N1 C:DT12 4.6 19.8 1.0
O B:HOH2048 4.6 30.8 1.0
C5 C:DT13 4.7 19.6 1.0
C4 C:DT12 4.8 15.6 1.0
O B:HOH2046 4.8 27.4 1.0
CZ B:ARG164 4.8 21.2 1.0
O B:HOH2025 4.8 22.0 1.0
NH2 B:ARG164 4.9 16.7 1.0

Chlorine binding site 5 out of 5 in 4cn5

Go back to Chlorine Binding Sites List in 4cn5
Chlorine binding site 5 out of 5 in the Crystal Structure of the Human Retinoid X Receptor Dna- Binding Domain Bound to the Human NR1D1 Response Element


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Crystal Structure of the Human Retinoid X Receptor Dna- Binding Domain Bound to the Human NR1D1 Response Element within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cl1020

b:44.2
occ:1.00
 O A:HOH2046 2.7 28.0 1.0
OP1 D:DC9 2.8 19.9 1.0
O A:HOH2093 2.8 31.4 1.0
NE2 A:GLN188 3.1 26.3 1.0
C5' D:DC9 3.5 21.8 1.0
O A:HOH2095 3.8 38.2 1.0
O5' D:DC9 3.8 22.3 1.0
C3' D:DC9 3.8 18.2 1.0
P D:DC9 3.8 26.8 1.0
O D:HOH2022 4.0 40.3 1.0
CD A:GLN188 4.0 25.4 1.0
OE1 A:GLN188 4.0 20.9 1.0
C4' D:DC9 4.1 23.8 1.0
CE1 A:TYR169 4.1 24.6 1.0
CD1 A:LEU167 4.1 32.9 1.0
O A:HOH2030 4.1 32.4 1.0
O3' D:DC9 4.2 23.2 1.0
O D:HOH2023 4.2 57.9 1.0
OH A:TYR169 4.6 23.2 1.0
OP2 D:DT10 4.6 21.9 1.0
OP2 D:DC9 4.7 26.4 1.0
CZ A:TYR169 4.9 21.5 1.0
P D:DT10 4.9 15.6 1.0
O A:HOH2035 4.9 26.7 1.0
O3' D:DT8 5.0 26.4 1.0

Reference:

J.Osz, A.G.Mcewen, P.Poussin-Courmontagne, E.Moutier, C.Birck, I.Davidson, D.Moras, N.Rochel. Structural Basis of Natural Promoter Recognition By the Retinoid X Nuclear Receptor. Sci.Rep. V. 5 8216 2015.
ISSN: ISSN 2045-2322
PubMed: 25645674
DOI: 10.1038/SREP08216
Page generated: Sun Jul 21 11:22:16 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy