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Zinc in PDB 8rm7: Crystal Structure of Human Androgen Receptor Dna Binding Domain Bound to Its Response Element: Mmtv-177 Gre/Are

Protein crystallography data

The structure of Crystal Structure of Human Androgen Receptor Dna Binding Domain Bound to Its Response Element: Mmtv-177 Gre/Are, PDB code: 8rm7 was solved by X.Y.Lee, C.Helsen, W.Van Eynde, A.Voet, F.Claessens, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.17 / 2.25
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 137.91, 29.78, 112.609, 90, 124.91, 90
R / Rfree (%) 26.7 / 31

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Human Androgen Receptor Dna Binding Domain Bound to Its Response Element: Mmtv-177 Gre/Are (pdb code 8rm7). 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 Human Androgen Receptor Dna Binding Domain Bound to Its Response Element: Mmtv-177 Gre/Are, PDB code: 8rm7:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 8rm7

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Zinc binding site 1 out of 4 in the Crystal Structure of Human Androgen Receptor Dna Binding Domain Bound to Its Response Element: Mmtv-177 Gre/Are


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 Human Androgen Receptor Dna Binding Domain Bound to Its Response Element: Mmtv-177 Gre/Are within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn701

b:25.6
occ:1.00
SG B:CYS601 2.3 21.6 1.0
SG B:CYS595 2.3 35.4 1.0
SG B:CYS614 2.3 28.5 1.0
SG B:CYS611 2.3 23.3 1.0
CB B:CYS595 3.3 33.4 1.0
CB B:CYS601 3.3 29.7 1.0
CB B:CYS611 3.4 25.7 1.0
CB B:CYS614 3.4 27.5 1.0
O B:HOH802 3.8 42.0 1.0
N B:CYS601 3.9 33.2 1.0
O A:HOH809 3.9 25.8 1.0
CA B:CYS595 4.1 37.5 1.0
N B:CYS614 4.2 26.4 1.0
CA B:CYS601 4.2 31.1 1.0
CA B:ASN599 4.3 35.9 1.0
CA B:CYS614 4.4 26.1 1.0
N B:ASP600 4.4 31.3 1.0
N B:ASN599 4.4 41.1 1.0
C B:ASN599 4.7 34.0 1.0
CA B:CYS611 4.8 28.1 1.0
N B:ALA596 4.8 35.9 1.0
O B:HOH830 4.8 29.7 1.0
C B:CYS595 5.0 35.0 1.0
C B:ASP600 5.0 34.1 1.0

Zinc binding site 2 out of 4 in 8rm7

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Zinc binding site 2 out of 4 in the Crystal Structure of Human Androgen Receptor Dna Binding Domain Bound to Its Response Element: Mmtv-177 Gre/Are


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 Human Androgen Receptor Dna Binding Domain Bound to Its Response Element: Mmtv-177 Gre/Are within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn702

b:26.8
occ:1.00
SG B:CYS579 2.3 20.8 1.0
SG B:CYS559 2.3 21.8 1.0
SG B:CYS562 2.3 22.8 1.0
SG B:CYS576 2.3 20.2 1.0
CB B:CYS559 3.2 32.2 1.0
CB B:CYS579 3.2 24.9 1.0
CB B:CYS562 3.4 27.8 1.0
CB B:CYS576 3.6 29.7 1.0
N B:CYS562 3.8 30.0 1.0
N B:CYS576 4.0 32.8 1.0
CA B:CYS562 4.1 31.5 1.0
N B:CYS579 4.2 29.2 1.0
NH1 B:ARG608 4.2 37.4 1.0
CA B:CYS579 4.3 26.3 1.0
CA B:CYS576 4.3 32.0 1.0
CB B:ILE561 4.6 29.8 1.0
CB B:ASP564 4.6 40.8 1.0
CA B:CYS559 4.6 36.9 1.0
NH2 B:ARG615 4.7 21.5 1.0
N B:GLY563 4.7 35.6 1.0
C B:CYS562 4.7 29.2 1.0
C B:ILE561 4.8 33.2 1.0
N B:ASP564 4.9 35.6 1.0
CD B:ARG608 4.9 32.4 1.0
C B:CYS576 4.9 25.7 1.0
O B:CYS576 5.0 20.7 1.0
CG2 B:ILE561 5.0 26.2 1.0

Zinc binding site 3 out of 4 in 8rm7

Go back to Zinc Binding Sites List in 8rm7
Zinc binding site 3 out of 4 in the Crystal Structure of Human Androgen Receptor Dna Binding Domain Bound to Its Response Element: Mmtv-177 Gre/Are


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 Human Androgen Receptor Dna Binding Domain Bound to Its Response Element: Mmtv-177 Gre/Are within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn701

b:29.9
occ:1.00
SG A:CYS601 2.3 33.1 1.0
SG A:CYS611 2.3 33.1 1.0
SG A:CYS595 2.3 35.8 1.0
SG A:CYS614 2.3 37.0 1.0
CB A:CYS601 3.2 33.5 1.0
CB A:CYS611 3.3 31.4 1.0
CB A:CYS595 3.3 36.7 1.0
CB A:CYS614 3.4 37.3 1.0
N A:CYS601 3.9 48.4 1.0
CA A:CYS595 4.2 35.4 1.0
O A:HOH812 4.2 27.6 1.0
CA A:CYS601 4.2 35.2 1.0
N A:CYS614 4.2 36.4 1.0
CA A:ASN599 4.3 46.8 1.0
CA A:CYS614 4.4 37.1 1.0
N A:ASN599 4.4 43.5 1.0
N A:ASP600 4.5 53.7 1.0
O A:HOH803 4.5 42.7 1.0
C A:ASN599 4.7 47.4 1.0
CA A:CYS611 4.7 35.5 1.0
N A:ALA596 4.9 33.1 1.0
C A:CYS595 4.9 35.7 1.0
CB A:SER597 5.0 34.3 1.0

Zinc binding site 4 out of 4 in 8rm7

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Zinc binding site 4 out of 4 in the Crystal Structure of Human Androgen Receptor Dna Binding Domain Bound to Its Response Element: Mmtv-177 Gre/Are


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 Human Androgen Receptor Dna Binding Domain Bound to Its Response Element: Mmtv-177 Gre/Are within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn702

b:32.5
occ:0.85
SG A:CYS562 2.3 39.9 1.0
SG A:CYS579 2.3 35.7 1.0
SG A:CYS576 2.3 45.9 1.0
SG A:CYS559 2.3 44.1 1.0
CB A:CYS559 3.2 50.3 1.0
CB A:CYS579 3.2 37.5 1.0
CB A:CYS562 3.3 44.4 1.0
CB A:CYS576 3.7 44.3 1.0
N A:CYS562 3.7 50.2 1.0
N A:CYS576 3.9 44.4 1.0
CA A:CYS562 4.1 45.1 1.0
N A:CYS579 4.1 41.2 1.0
CA A:CYS579 4.3 43.6 1.0
NH1 A:ARG608 4.3 38.0 1.0
CA A:CYS576 4.4 42.4 1.0
CB A:ASP564 4.6 48.3 1.0
CB A:ILE561 4.6 42.9 1.0
CA A:CYS559 4.7 49.0 1.0
N A:GLY563 4.7 48.4 1.0
C A:CYS562 4.7 47.7 1.0
C A:ILE561 4.8 47.7 1.0
N A:ASP564 4.8 47.9 1.0
NH2 A:ARG615 4.8 36.7 1.0
CD A:ARG608 5.0 34.5 1.0
CG2 A:ILE561 5.0 45.8 1.0
C A:THR575 5.0 48.9 1.0
C A:CYS576 5.0 41.0 1.0

Reference:

X.Y.Lee, W.Van Eynde, C.Helsen, H.Willems, K.Peperstraete, S.De Block, A.Voet, F.Claessens. Structural Mechanism Underlying Variations in Dna Binding By the Androgen Receptor. J.Steroid Biochem.Mol.Biol. V. 241 06499 2024.
ISSN: ISSN 0960-0760
PubMed: 38604378
DOI: 10.1016/J.JSBMB.2024.106499
Page generated: Thu Oct 31 10:33:35 2024

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