Atomistry » Zinc » PDB 4ci0-4cs8 » 4cn2
Atomistry »
  Zinc »
    PDB 4ci0-4cs8 »
      4cn2 »

Zinc in PDB 4cn2: Crystal Structure of the Human Retinoid X Receptor Dna- Binding Domain Bound to the Human RAMP2 Response Element

Protein crystallography data

The structure of Crystal Structure of the Human Retinoid X Receptor Dna- Binding Domain Bound to the Human RAMP2 Response Element, PDB code: 4cn2 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) 23.898 / 2.07
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 113.234, 43.952, 63.316, 90.00, 106.02, 90.00
R / Rfree (%) 16.48 / 21.42

Other elements in 4cn2:

The structure of Crystal Structure of the Human Retinoid X Receptor Dna- Binding Domain Bound to the Human RAMP2 Response Element also contains other interesting chemical elements:

Magnesium (Mg) 7 atoms
Chlorine (Cl) 4 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of the Human Retinoid X Receptor Dna- Binding Domain Bound to the Human RAMP2 Response Element (pdb code 4cn2). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Crystal Structure of the Human Retinoid X Receptor Dna- Binding Domain Bound to the Human RAMP2 Response Element, PDB code: 4cn2:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 4cn2

Go back to Zinc Binding Sites List in 4cn2
Zinc binding site 1 out of 4 in the Crystal Structure of the Human Retinoid X Receptor Dna- Binding Domain Bound to the Human RAMP2 Response Element


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of the Human Retinoid X Receptor Dna- Binding Domain Bound to the Human RAMP2 Response Element within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn1211

b:26.9
occ:1.00
SG C:CYS152 2.3 17.2 1.0
SG C:CYS138 2.3 16.4 1.0
SG C:CYS135 2.4 17.3 1.0
SG C:CYS155 2.4 15.7 1.0
CB C:CYS135 3.2 20.2 1.0
CB C:CYS155 3.3 11.8 1.0
CB C:CYS138 3.4 12.9 1.0
CB C:CYS152 3.5 14.7 1.0
N C:CYS138 3.7 15.1 1.0
N C:CYS152 3.9 10.9 1.0
N C:CYS155 4.1 13.7 1.0
CA C:CYS138 4.1 19.0 1.0
NH1 C:ARG184 4.3 20.4 1.0
CA C:CYS152 4.3 10.6 1.0
CA C:CYS155 4.3 13.6 1.0
CB C:ILE137 4.4 21.1 1.0
CB C:ASP140 4.4 20.9 1.0
C C:ILE137 4.7 20.6 1.0
CA C:CYS135 4.7 15.9 1.0
C C:CYS138 4.7 19.2 1.0
CG2 C:ILE137 4.8 18.9 1.0
N C:GLY139 4.8 16.8 1.0
N C:ASP140 4.8 16.4 1.0
NH2 C:ARG191 4.9 13.7 1.0
CA C:ILE137 4.9 15.6 1.0
C C:CYS152 4.9 18.1 1.0
O C:CYS152 5.0 18.1 1.0
C C:SER151 5.0 17.9 1.0

Zinc binding site 2 out of 4 in 4cn2

Go back to Zinc Binding Sites List in 4cn2
Zinc binding site 2 out of 4 in the Crystal Structure of the Human Retinoid X Receptor Dna- Binding Domain Bound to the Human RAMP2 Response Element


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of the Human Retinoid X Receptor Dna- Binding Domain Bound to the Human RAMP2 Response Element within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn1212

b:38.8
occ:1.00
SG C:CYS187 2.3 19.5 1.0
SG C:CYS177 2.4 29.1 1.0
SG C:CYS171 2.4 26.3 1.0
SG C:CYS190 2.5 24.2 1.0
CB C:CYS171 3.2 21.1 1.0
CB C:CYS187 3.2 17.9 1.0
CB C:CYS190 3.4 15.2 1.0
CB C:CYS177 3.4 28.1 1.0
N C:CYS177 4.1 30.2 1.0
CA C:CYS171 4.1 27.1 1.0
NE2 D:GLN210 4.2 59.4 1.0
N C:CYS190 4.2 17.2 1.0
O C:HOH2023 4.3 31.3 1.0
CA C:LYS175 4.3 31.1 1.0
CA C:CYS190 4.4 17.3 1.0
CA C:CYS177 4.4 25.7 1.0
N C:LYS175 4.4 30.4 1.0
N C:ASP176 4.6 40.6 1.0
CA C:CYS187 4.7 17.5 1.0
C C:LYS175 4.8 38.8 1.0
CB C:ASP173 4.8 39.9 1.0
C C:CYS171 4.9 35.8 1.0
OD2 C:ASP173 5.0 68.6 1.0

Zinc binding site 3 out of 4 in 4cn2

Go back to Zinc Binding Sites List in 4cn2
Zinc binding site 3 out of 4 in the Crystal Structure of the Human Retinoid X Receptor Dna- Binding Domain Bound to the Human RAMP2 Response Element


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of the Human Retinoid X Receptor Dna- Binding Domain Bound to the Human RAMP2 Response Element within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn1213

b:47.8
occ:1.00
SG D:CYS155 2.3 36.9 1.0
SG D:CYS135 2.4 36.2 1.0
SG D:CYS152 2.4 32.2 1.0
SG D:CYS138 2.4 36.4 1.0
CB D:CYS155 3.1 27.5 1.0
CB D:CYS135 3.3 39.9 1.0
CB D:CYS138 3.5 39.2 1.0
CB D:CYS152 3.7 27.6 1.0
N D:CYS138 3.7 38.8 1.0
N D:CYS155 4.0 25.9 1.0
N D:CYS152 4.0 30.4 1.0
CA D:CYS155 4.1 24.2 1.0
CA D:CYS138 4.2 45.4 1.0
NH1 D:ARG184 4.3 53.1 1.0
CB D:ILE137 4.4 32.0 1.0
CA D:CYS152 4.4 32.6 1.0
CB D:ASP140 4.5 56.4 1.0
NH2 D:ARG191 4.6 27.1 1.0
C D:ILE137 4.7 38.0 1.0
CA D:CYS135 4.7 46.0 1.0
C D:CYS138 4.9 46.7 1.0
CA D:ILE137 4.9 33.2 1.0
CD D:ARG184 4.9 34.0 1.0
CG2 D:ILE137 4.9 28.1 1.0
N D:ILE137 5.0 35.8 1.0
N D:ASP140 5.0 43.5 1.0

Zinc binding site 4 out of 4 in 4cn2

Go back to Zinc Binding Sites List in 4cn2
Zinc binding site 4 out of 4 in the Crystal Structure of the Human Retinoid X Receptor Dna- Binding Domain Bound to the Human RAMP2 Response Element


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal Structure of the Human Retinoid X Receptor Dna- Binding Domain Bound to the Human RAMP2 Response Element within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn1214

b:59.9
occ:1.00
SG D:CYS187 2.4 39.0 1.0
SG D:CYS190 2.4 44.0 1.0
SG D:CYS177 2.5 48.4 1.0
SG D:CYS171 2.7 45.4 1.0
CB D:CYS177 3.3 62.3 1.0
CB D:CYS190 3.3 38.3 1.0
CB D:CYS187 3.3 35.5 1.0
CB D:CYS171 3.6 44.9 1.0
O D:HOH2013 3.7 39.0 1.0
OD1 D:ASP173 4.0 0.3 1.0
N D:CYS177 4.1 61.9 1.0
N D:CYS190 4.1 35.5 1.0
CA D:CYS171 4.3 45.9 1.0
CA D:CYS177 4.3 62.7 1.0
CA D:CYS190 4.3 32.6 1.0
CA D:LYS175 4.4 62.1 1.0
N D:LYS175 4.6 61.2 1.0
N D:ASP176 4.7 63.2 1.0
C D:LYS175 4.8 60.6 1.0
CA D:CYS187 4.8 32.7 1.0
N D:ARG172 4.9 52.7 1.0
CD1 D:TYR189 4.9 38.5 1.0
CG D:ASP173 5.0 0.4 1.0
CB D:TYR189 5.0 37.1 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: Wed Dec 16 05:08:44 2020

Last articles

Zn in 7VD8
Zn in 7V1R
Zn in 7V1Q
Zn in 7VPF
Zn in 7T85
Zn in 7T5F
Zn in 7NF9
Zn in 7M4M
Zn in 7M4O
Zn in 7M4N
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy