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Zinc in PDB 1a6y: Reverba Orphan Nuclear Receptor/Dna Complex

Protein crystallography data

The structure of Reverba Orphan Nuclear Receptor/Dna Complex, PDB code: 1a6y was solved by Q.Zhao, S.Khorasanizadeh, F.Rastinejad, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 6.00 / 2.30
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 38.670, 45.690, 47.950, 75.16, 80.64, 85.58
R / Rfree (%) 19.2 / 28.8

Other elements in 1a6y:

The structure of Reverba Orphan Nuclear Receptor/Dna Complex also contains other interesting chemical elements:

Iodine (I) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Reverba Orphan Nuclear Receptor/Dna Complex (pdb code 1a6y). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Reverba Orphan Nuclear Receptor/Dna Complex, PDB code: 1a6y:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 1a6y

Go back to Zinc Binding Sites List in 1a6y
Zinc binding site 1 out of 4 in the Reverba Orphan Nuclear Receptor/Dna Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Reverba Orphan Nuclear Receptor/Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn550

b:15.3
occ:1.00
SG A:CYS121 2.2 12.5 1.0
SG A:CYS118 2.3 12.7 1.0
SG A:CYS101 2.3 24.5 1.0
SG A:CYS104 2.4 30.0 1.0
CB A:CYS121 3.2 17.6 1.0
CB A:CYS101 3.4 20.5 1.0
CB A:CYS104 3.4 11.7 1.0
CB A:CYS118 3.8 17.1 1.0
N A:CYS104 3.9 14.7 1.0
N A:CYS121 4.0 7.6 1.0
N A:CYS118 4.1 21.9 1.0
CA A:CYS121 4.2 9.7 1.0
NH1 A:ARG150 4.2 2.0 1.0
CA A:CYS104 4.2 18.7 1.0
NH2 A:ARG157 4.3 2.0 1.0
CB A:ASP106 4.3 24.0 1.0
CB A:VAL103 4.4 23.6 1.0
CA A:CYS118 4.5 19.4 1.0
CD A:ARG150 4.6 8.9 1.0
C A:VAL103 4.6 20.0 1.0
O A:CYS118 4.7 8.9 1.0
C A:CYS104 4.7 16.0 1.0
CA A:CYS101 4.8 22.1 1.0
CG1 A:VAL103 4.9 18.9 1.0
C A:CYS118 4.9 13.3 1.0
CA A:VAL103 4.9 32.1 1.0
C A:GLY120 4.9 2.0 1.0
O A:CYS104 5.0 24.9 1.0
N A:ASP106 5.0 20.8 1.0

Zinc binding site 2 out of 4 in 1a6y

Go back to Zinc Binding Sites List in 1a6y
Zinc binding site 2 out of 4 in the Reverba Orphan Nuclear Receptor/Dna Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Reverba Orphan Nuclear Receptor/Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn551

b:33.4
occ:1.00
SG A:CYS143 2.2 18.2 1.0
SG A:CYS137 2.3 29.7 1.0
SG A:CYS153 2.3 15.7 1.0
SG A:CYS156 2.4 39.3 1.0
CB A:CYS153 3.2 17.2 1.0
CB A:CYS143 3.3 32.2 1.0
CB A:CYS137 3.5 35.9 1.0
CB A:CYS156 3.6 16.3 1.0
N A:CYS143 4.1 33.9 1.0
CA A:GLU141 4.2 33.3 1.0
CA A:CYS143 4.3 29.1 1.0
CA A:CYS137 4.4 32.2 1.0
N A:GLU141 4.5 42.4 1.0
N A:CYS156 4.5 23.7 1.0
O A:HOH770 4.6 48.0 1.0
C A:GLU141 4.6 32.9 1.0
N A:LEU138 4.6 37.8 1.0
CA A:CYS156 4.7 24.1 1.0
CA A:CYS153 4.7 25.8 1.0
N A:ASN142 4.7 32.3 1.0
N A:LYS139 4.7 35.6 1.0
O A:LYS139 4.9 34.7 1.0
C A:CYS137 5.0 32.8 1.0

Zinc binding site 3 out of 4 in 1a6y

Go back to Zinc Binding Sites List in 1a6y
Zinc binding site 3 out of 4 in the Reverba Orphan Nuclear Receptor/Dna Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Reverba Orphan Nuclear Receptor/Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn450

b:18.5
occ:1.00
SG B:CYS101 2.2 16.1 1.0
SG B:CYS118 2.3 25.6 1.0
SG B:CYS121 2.3 25.1 1.0
SG B:CYS104 2.4 35.4 1.0
CB B:CYS118 3.1 22.4 1.0
CB B:CYS101 3.1 30.7 1.0
CB B:CYS104 3.5 20.0 1.0
CB B:CYS121 3.5 17.8 1.0
N B:CYS118 3.6 19.5 1.0
N B:CYS104 3.8 29.9 1.0
CA B:CYS118 3.9 15.7 1.0
N B:CYS121 4.2 2.0 1.0
CA B:CYS104 4.2 23.4 1.0
CB B:ASP106 4.3 25.5 1.0
CB B:VAL103 4.4 17.5 1.0
CA B:CYS121 4.5 21.2 1.0
NH1 B:ARG150 4.5 16.6 1.0
C B:CYS118 4.5 12.5 1.0
CA B:CYS101 4.6 28.7 1.0
O B:CYS118 4.7 10.5 1.0
C B:VAL103 4.7 35.9 1.0
CG1 B:VAL103 4.7 13.0 1.0
C B:CYS104 4.7 33.3 1.0
N B:ASP106 4.7 19.6 1.0
C B:ALA117 4.8 29.0 1.0
CA B:VAL103 4.9 28.6 1.0
NH2 B:ARG157 4.9 21.7 1.0
CD B:ARG150 5.0 18.7 1.0
N B:VAL103 5.0 24.1 1.0

Zinc binding site 4 out of 4 in 1a6y

Go back to Zinc Binding Sites List in 1a6y
Zinc binding site 4 out of 4 in the Reverba Orphan Nuclear Receptor/Dna Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Reverba Orphan Nuclear Receptor/Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn451

b:23.1
occ:1.00
SG B:CYS153 2.2 18.9 1.0
SG B:CYS143 2.3 33.5 1.0
SG B:CYS156 2.3 34.2 1.0
SG B:CYS137 2.3 44.2 1.0
CB B:CYS153 2.9 25.6 1.0
CB B:CYS156 3.1 26.9 1.0
CB B:CYS137 3.4 33.4 1.0
CB B:CYS143 3.4 23.3 1.0
N B:CYS156 4.1 21.3 1.0
CA B:CYS156 4.2 26.3 1.0
CA B:GLU141 4.3 16.3 1.0
N B:CYS143 4.3 16.1 1.0
CA B:CYS153 4.4 21.7 1.0
CA B:CYS137 4.4 42.2 1.0
CA B:CYS143 4.5 19.7 1.0
N B:GLU141 4.7 19.2 1.0
N B:ASN142 4.7 19.2 1.0
O B:CYS153 4.8 20.0 1.0
C B:CYS153 4.9 21.1 1.0
C B:GLU141 4.9 15.2 1.0

Reference:

Q.Zhao, S.Khorasanizadeh, Y.Miyoshi, M.A.Lazar, F.Rastinejad. Structural Elements of An Orphan Nuclear Receptor-Dna Complex. Mol.Cell V. 1 849 1998.
ISSN: ISSN 1097-2765
PubMed: 9660968
DOI: 10.1016/S1097-2765(00)80084-2
Page generated: Wed Dec 16 02:44:25 2020

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