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Zinc in PDB 1r4r: Crystallographic Analysis of the Interaction of the Glucocorticoid Receptor with Dna

Protein crystallography data

The structure of Crystallographic Analysis of the Interaction of the Glucocorticoid Receptor with Dna, PDB code: 1r4r was solved by B.F.Luisi, W.X.Xu, Z.Otwinowski, L.P.Freedman, K.R.Yamamoto, P.B.Sigler, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 6.00 / 3.00
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 38.500, 99.700, 121.900, 90.00, 90.00, 90.00
R / Rfree (%) n/a / n/a

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystallographic Analysis of the Interaction of the Glucocorticoid Receptor with Dna (pdb code 1r4r). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Crystallographic Analysis of the Interaction of the Glucocorticoid Receptor with Dna, PDB code: 1r4r:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 1r4r

Go back to Zinc Binding Sites List in 1r4r
Zinc binding site 1 out of 4 in the Crystallographic Analysis of the Interaction of the Glucocorticoid Receptor with Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystallographic Analysis of the Interaction of the Glucocorticoid Receptor with Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn526

b:27.9
occ:1.00
SG A:CYS460 2.2 22.6 1.0
SG A:CYS443 2.3 23.8 1.0
SG A:CYS457 2.3 27.9 1.0
SG A:CYS440 2.4 30.9 1.0
H A:CYS457 2.8 0.0 1.0
CB A:CYS443 3.0 22.0 1.0
CB A:CYS460 3.3 21.6 1.0
CB A:CYS457 3.3 28.4 1.0
H A:CYS460 3.4 0.0 1.0
H A:CYS443 3.5 0.0 1.0
HH21 A:ARG489 3.5 0.0 1.0
CB A:CYS440 3.6 29.1 1.0
N A:CYS457 3.6 25.9 1.0
N A:CYS443 4.0 25.4 1.0
H A:ASP445 4.0 0.0 1.0
CA A:CYS443 4.0 23.3 1.0
NH2 A:ARG489 4.0 27.1 1.0
CA A:CYS457 4.1 25.6 1.0
HH22 A:ARG489 4.1 0.0 1.0
HH12 A:ARG496 4.1 0.0 1.0
N A:CYS460 4.2 24.6 1.0
CA A:CYS460 4.3 22.3 1.0
HG A:SER459 4.3 0.0 1.0
CB A:ASP445 4.4 29.4 1.0
HH11 A:ARG496 4.4 0.0 1.0
NH1 A:ARG496 4.6 20.1 1.0
C A:CYS443 4.6 23.2 1.0
C A:THR456 4.7 25.6 1.0
C A:CYS457 4.8 23.1 1.0
N A:ASP445 4.9 25.2 1.0
H A:SER444 4.9 0.0 1.0
CA A:THR456 4.9 25.7 1.0
CA A:CYS440 4.9 30.3 1.0
CZ A:ARG489 5.0 23.4 1.0

Zinc binding site 2 out of 4 in 1r4r

Go back to Zinc Binding Sites List in 1r4r
Zinc binding site 2 out of 4 in the Crystallographic Analysis of the Interaction of the Glucocorticoid Receptor with Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystallographic Analysis of the Interaction of the Glucocorticoid Receptor with Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn527

b:20.0
occ:1.00
SG A:CYS492 2.3 18.7 1.0
SG A:CYS495 2.3 25.1 1.0
SG A:CYS482 2.3 17.5 1.0
SG A:CYS476 2.3 18.9 1.0
CB A:CYS492 3.1 17.9 1.0
CB A:CYS495 3.3 22.2 1.0
H A:CYS495 3.4 0.0 1.0
CB A:CYS476 3.4 19.6 1.0
CB A:CYS482 3.5 19.6 1.0
H A:CYS482 3.7 0.0 1.0
H A:ALA477 3.9 0.0 1.0
CA A:CYS476 4.1 22.2 1.0
N A:CYS495 4.1 24.9 1.0
HD21 A:ASN480 4.2 0.0 1.0
CA A:CYS495 4.3 24.2 1.0
H A:ASP481 4.4 0.0 1.0
H A:ASN480 4.4 0.0 1.0
N A:CYS482 4.5 21.9 1.0
CA A:CYS492 4.5 18.9 1.0
H A:GLY478 4.5 0.0 1.0
CA A:CYS482 4.6 21.5 1.0
N A:ALA477 4.7 22.2 1.0
CA A:ASN480 4.9 24.0 1.0
C A:CYS476 4.9 23.4 1.0

Zinc binding site 3 out of 4 in 1r4r

Go back to Zinc Binding Sites List in 1r4r
Zinc binding site 3 out of 4 in the Crystallographic Analysis of the Interaction of the Glucocorticoid Receptor with Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystallographic Analysis of the Interaction of the Glucocorticoid Receptor with Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn526

b:24.6
occ:1.00
SG B:CYS460 2.2 23.6 1.0
SG B:CYS443 2.3 24.8 1.0
SG B:CYS457 2.3 26.5 1.0
SG B:CYS440 2.3 29.0 1.0
H B:CYS443 2.8 0.0 1.0
H B:CYS457 3.0 0.0 1.0
CB B:CYS443 3.2 23.6 1.0
CB B:CYS440 3.4 27.1 1.0
CB B:CYS460 3.4 21.9 1.0
H B:CYS460 3.4 0.0 1.0
CB B:CYS457 3.5 27.2 1.0
N B:CYS443 3.6 24.8 1.0
H B:SER444 3.7 0.0 1.0
N B:CYS457 3.8 23.9 1.0
CA B:CYS443 4.0 24.1 1.0
N B:CYS460 4.2 22.9 1.0
H B:ASP445 4.3 0.0 1.0
CB B:VAL442 4.3 25.8 1.0
CA B:CYS457 4.3 25.4 1.0
CA B:CYS460 4.4 21.0 1.0
N B:SER444 4.5 22.1 1.0
HH11 B:ARG489 4.6 0.0 1.0
H B:VAL442 4.6 0.0 1.0
HG B:SER459 4.7 0.0 1.0
C B:VAL442 4.7 26.1 1.0
CG1 B:VAL442 4.8 23.8 1.0
C B:CYS443 4.8 24.5 1.0
CA B:CYS440 4.8 27.5 1.0
NH1 B:ARG489 4.9 25.7 1.0
C B:THR456 4.9 20.9 1.0
CB B:ASP445 4.9 26.1 1.0
N B:ASP445 5.0 21.4 1.0
CA B:VAL442 5.0 25.2 1.0

Zinc binding site 4 out of 4 in 1r4r

Go back to Zinc Binding Sites List in 1r4r
Zinc binding site 4 out of 4 in the Crystallographic Analysis of the Interaction of the Glucocorticoid Receptor with Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystallographic Analysis of the Interaction of the Glucocorticoid Receptor with Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn527

b:15.4
occ:1.00
SG B:CYS482 2.2 17.8 1.0
SG B:CYS476 2.3 13.0 1.0
SG B:CYS492 2.3 20.5 1.0
SG B:CYS495 2.3 30.1 1.0
CB B:CYS492 3.2 17.8 1.0
CB B:CYS482 3.3 23.0 1.0
CB B:CYS476 3.3 14.6 1.0
CB B:CYS495 3.5 22.6 1.0
H B:CYS482 3.7 0.0 1.0
H B:ALA477 3.8 0.0 1.0
H B:CYS495 3.9 0.0 1.0
CA B:CYS476 3.9 15.1 1.0
H B:GLY478 4.2 0.0 1.0
H B:ASP481 4.3 0.0 1.0
N B:CYS495 4.3 27.2 1.0
N B:ALA477 4.3 14.9 1.0
N B:CYS482 4.4 23.2 1.0
CA B:CYS482 4.4 21.9 1.0
HD21 B:ASN480 4.5 0.0 1.0
C B:CYS476 4.5 15.7 1.0
CA B:CYS495 4.5 26.3 1.0
H B:ASN480 4.5 0.0 1.0
CA B:CYS492 4.6 19.4 1.0
N B:GLY478 4.7 15.2 1.0
O B:CYS492 4.9 21.5 1.0
CA B:ASN480 4.9 25.9 1.0
N B:ASP481 4.9 25.4 1.0
H B:ALA494 5.0 0.0 1.0
N B:ASN480 5.0 27.4 1.0

Reference:

B.F.Luisi, W.X.Xu, Z.Otwinowski, L.P.Freedman, K.R.Yamamoto, P.B.Sigler. Crystallographic Analysis of the Interaction of the Glucocorticoid Receptor with Dna Nature V. 352 497 1991.
ISSN: ISSN 0028-0836
PubMed: 1865905
DOI: 10.1038/352497A0
Page generated: Wed Dec 16 03:02:31 2020

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