Atomistry » Zinc » PDB 4ojp-4owf » 4ond
Atomistry »
  Zinc »
    PDB 4ojp-4owf »
      4ond »

Zinc in PDB 4ond: Ancestral Steroid Receptor 2 Dbd Helix Mutant - Ere Dna Complex

Protein crystallography data

The structure of Ancestral Steroid Receptor 2 Dbd Helix Mutant - Ere Dna Complex, PDB code: 4ond was solved by E.O.Ortlund, M.N.Murphy, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 37.56 / 2.25
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 48.272, 79.829, 116.782, 90.00, 96.75, 90.00
R / Rfree (%) 18.6 / 21.6

Zinc Binding Sites:

The binding sites of Zinc atom in the Ancestral Steroid Receptor 2 Dbd Helix Mutant - Ere Dna Complex (pdb code 4ond). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 8 binding sites of Zinc where determined in the Ancestral Steroid Receptor 2 Dbd Helix Mutant - Ere Dna Complex, PDB code: 4ond:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Zinc binding site 1 out of 8 in 4ond

Go back to Zinc Binding Sites List in 4ond
Zinc binding site 1 out of 8 in the Ancestral Steroid Receptor 2 Dbd Helix Mutant - Ere Dna Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Ancestral Steroid Receptor 2 Dbd Helix Mutant - Ere Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn101

b:39.3
occ:1.00
 SG A:CYS59 2.3 32.2 1.0
SG A:CYS43 2.3 35.3 1.0
SG A:CYS62 2.4 36.6 1.0
SG A:CYS49 2.5 42.5 1.0
CB A:CYS49 3.4 40.3 1.0
CB A:CYS43 3.4 34.5 1.0
CB A:CYS59 3.4 31.5 1.0
CB A:CYS62 3.5 31.4 1.0
O A:HOH206 3.9 42.6 1.0
CA A:CYS43 4.0 37.2 1.0
O A:HOH201 4.2 43.3 1.0
N A:CYS49 4.2 37.7 1.0
N A:CYS62 4.3 32.2 1.0
CA A:CYS49 4.4 41.9 1.0
CA A:CYS62 4.5 34.3 1.0
CA A:ASN47 4.5 40.4 1.0
N A:ASN47 4.6 35.9 1.0
N A:ALA44 4.7 31.5 1.0
N A:ASP48 4.8 39.2 1.0
N A:GLY45 4.8 43.9 1.0
C A:CYS43 4.8 34.0 1.0
CA A:CYS59 4.8 36.8 1.0
O A:HOH208 4.9 40.0 1.0
C A:ASN47 5.0 44.6 1.0

Zinc binding site 2 out of 8 in 4ond

Go back to Zinc Binding Sites List in 4ond
Zinc binding site 2 out of 8 in the Ancestral Steroid Receptor 2 Dbd Helix Mutant - Ere Dna Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Ancestral Steroid Receptor 2 Dbd Helix Mutant - Ere Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn102

b:42.5
occ:1.00
 SG A:CYS10 2.2 41.0 1.0
SG A:CYS24 2.3 41.9 1.0
SG A:CYS7 2.3 41.1 1.0
SG A:CYS27 2.3 42.4 1.0
CB A:CYS27 3.3 40.2 1.0
CB A:CYS7 3.3 48.2 1.0
CB A:CYS10 3.4 41.2 1.0
CB A:CYS24 3.6 37.0 1.0
N A:CYS10 3.7 40.9 1.0
N A:CYS24 3.9 43.9 1.0
NH1 A:ARG56 4.0 47.9 1.0
CA A:CYS10 4.1 39.9 1.0
N A:CYS27 4.2 38.6 1.0
CA A:CYS24 4.3 39.4 1.0
CA A:CYS27 4.4 38.6 1.0
CB A:ILE9 4.5 49.7 1.0
C A:ILE9 4.7 46.0 1.0
CA A:CYS7 4.8 45.3 1.0
C A:CYS10 4.8 50.5 1.0
N A:GLY11 4.9 48.5 1.0
CG2 A:ILE9 4.9 40.1 1.0
CA A:ILE9 4.9 47.8 1.0
N A:ILE9 5.0 35.7 1.0
NH2 A:ARG63 5.0 36.4 1.0
C A:CYS24 5.0 39.3 1.0
C A:THR23 5.0 46.8 1.0

Zinc binding site 3 out of 8 in 4ond

Go back to Zinc Binding Sites List in 4ond
Zinc binding site 3 out of 8 in the Ancestral Steroid Receptor 2 Dbd Helix Mutant - Ere Dna Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Ancestral Steroid Receptor 2 Dbd Helix Mutant - Ere Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn101

b:41.8
occ:1.00
 SG B:CYS10 2.2 39.7 1.0
SG B:CYS24 2.3 41.7 1.0
SG B:CYS27 2.3 39.5 1.0
SG B:CYS7 2.4 38.6 1.0
CB B:CYS27 3.3 38.9 1.0
CB B:CYS7 3.3 49.1 1.0
CB B:CYS10 3.4 38.8 1.0
CB B:CYS24 3.6 37.8 1.0
N B:CYS10 3.7 38.2 1.0
NH1 B:ARG56 3.9 56.8 1.0
N B:CYS24 3.9 39.7 1.0
CA B:CYS10 4.1 44.2 1.0
CB B:ILE9 4.2 38.9 1.0
N B:CYS27 4.2 31.6 1.0
CA B:CYS24 4.3 37.8 1.0
CA B:CYS27 4.4 38.5 1.0
C B:ILE9 4.6 48.2 1.0
CB B:ASP12 4.6 54.0 1.0
CA B:CYS7 4.8 43.8 1.0
C B:CYS10 4.8 50.2 1.0
CA B:ILE9 4.8 46.8 1.0
N B:GLY11 4.9 44.3 1.0
CG2 B:ILE9 4.9 40.4 1.0
N B:ILE9 4.9 43.3 1.0
N B:ASP12 4.9 50.2 1.0
NH2 B:ARG63 4.9 32.0 1.0
C B:CYS24 5.0 41.5 1.0

Zinc binding site 4 out of 8 in 4ond

Go back to Zinc Binding Sites List in 4ond
Zinc binding site 4 out of 8 in the Ancestral Steroid Receptor 2 Dbd Helix Mutant - Ere Dna Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Ancestral Steroid Receptor 2 Dbd Helix Mutant - Ere Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn102

b:39.5
occ:1.00
 SG B:CYS59 2.2 35.1 1.0
SG B:CYS62 2.4 36.8 1.0
SG B:CYS43 2.4 39.5 1.0
SG B:CYS49 2.4 38.9 1.0
CB B:CYS49 3.2 34.9 1.0
CB B:CYS59 3.3 35.7 1.0
CB B:CYS43 3.4 26.7 1.0
CB B:CYS62 3.4 28.4 1.0
O B:HOH202 3.8 36.2 1.0
N B:CYS49 4.1 37.6 1.0
CA B:CYS43 4.1 36.9 1.0
N B:CYS62 4.2 31.6 1.0
CA B:CYS49 4.2 39.4 1.0
O B:HOH204 4.4 45.5 1.0
CA B:ASN47 4.4 51.2 1.0
CA B:CYS62 4.4 30.0 1.0
N B:ASN47 4.5 45.8 1.0
N B:GLY45 4.7 34.9 1.0
CA B:CYS59 4.7 34.6 1.0
N B:ASP48 4.7 44.5 1.0
N B:ALA44 4.7 37.0 1.0
C B:CYS43 4.9 43.9 1.0
C B:ASN47 4.9 50.7 1.0

Zinc binding site 5 out of 8 in 4ond

Go back to Zinc Binding Sites List in 4ond
Zinc binding site 5 out of 8 in the Ancestral Steroid Receptor 2 Dbd Helix Mutant - Ere Dna Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Ancestral Steroid Receptor 2 Dbd Helix Mutant - Ere Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Zn101

b:40.4
occ:1.00
 O E:HOH208 2.1 61.9 1.0
SG E:CYS59 2.3 38.5 1.0
SG E:CYS43 2.3 38.4 1.0
SG E:CYS62 2.4 39.3 1.0
SG E:CYS49 2.4 38.4 1.0
CB E:CYS49 3.2 42.6 1.0
CB E:CYS43 3.3 37.3 1.0
CB E:CYS59 3.3 32.9 1.0
CB E:CYS62 3.5 33.7 1.0
N E:CYS49 3.9 38.3 1.0
CA E:CYS43 4.0 34.4 1.0
O E:HOH203 4.2 35.2 1.0
CA E:CYS49 4.2 44.4 1.0
N E:CYS62 4.3 37.1 1.0
O E:HOH206 4.3 41.4 1.0
CA E:CYS62 4.5 41.6 1.0
CA E:ASN47 4.6 33.9 1.0
N E:ASP48 4.6 36.1 1.0
N E:ASN47 4.6 42.7 1.0
N E:ALA44 4.7 35.9 1.0
CA E:CYS59 4.8 34.8 1.0
C E:CYS43 4.8 38.5 1.0
O E:HOH216 4.8 53.3 1.0
C E:ASN47 4.9 36.5 1.0
N E:GLY45 4.9 38.3 1.0

Zinc binding site 6 out of 8 in 4ond

Go back to Zinc Binding Sites List in 4ond
Zinc binding site 6 out of 8 in the Ancestral Steroid Receptor 2 Dbd Helix Mutant - Ere Dna Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Ancestral Steroid Receptor 2 Dbd Helix Mutant - Ere Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Zn102

b:44.3
occ:1.00
 SG E:CYS10 2.2 40.6 1.0
SG E:CYS24 2.3 44.0 1.0
SG E:CYS7 2.4 45.5 1.0
SG E:CYS27 2.5 45.3 1.0
CB E:CYS10 3.3 43.7 1.0
CB E:CYS7 3.3 46.0 1.0
CB E:CYS27 3.4 43.6 1.0
N E:CYS10 3.6 43.2 1.0
CB E:CYS24 3.6 37.7 1.0
N E:CYS24 4.0 42.6 1.0
CA E:CYS10 4.0 47.8 1.0
NH1 E:ARG56 4.2 53.1 1.0
N E:CYS27 4.2 42.0 1.0
CB E:ILE9 4.3 53.6 1.0
CA E:CYS24 4.4 40.0 1.0
CA E:CYS27 4.4 48.9 1.0
CB E:ASP12 4.6 59.0 1.0
C E:ILE9 4.6 51.9 1.0
C E:CYS10 4.7 52.7 1.0
N E:GLY11 4.7 52.0 1.0
CA E:CYS7 4.8 48.6 1.0
N E:ASP12 4.8 56.6 1.0
CA E:ILE9 4.9 50.1 1.0
N E:ILE9 5.0 50.1 1.0
CG2 E:ILE9 5.0 57.4 1.0

Zinc binding site 7 out of 8 in 4ond

Go back to Zinc Binding Sites List in 4ond
Zinc binding site 7 out of 8 in the Ancestral Steroid Receptor 2 Dbd Helix Mutant - Ere Dna Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Ancestral Steroid Receptor 2 Dbd Helix Mutant - Ere Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Zn101

b:40.4
occ:1.00
 SG F:CYS59 2.3 36.3 1.0
SG F:CYS62 2.3 36.4 1.0
SG F:CYS49 2.4 38.0 1.0
SG F:CYS43 2.4 41.4 1.0
CB F:CYS49 3.2 39.1 1.0
CB F:CYS43 3.4 32.4 1.0
CB F:CYS59 3.4 38.7 1.0
CB F:CYS62 3.4 26.4 1.0
O F:HOH223 3.7 38.3 1.0
N F:CYS49 4.0 39.9 1.0
CA F:CYS43 4.1 37.7 1.0
N F:CYS62 4.2 31.4 1.0
O F:HOH204 4.2 40.5 1.0
CA F:CYS49 4.3 39.6 1.0
CA F:CYS62 4.4 36.6 1.0
CA F:ASN47 4.5 48.0 1.0
N F:ASP48 4.6 46.6 1.0
N F:ASN47 4.7 39.7 1.0
O F:HOH205 4.7 38.1 1.0
N F:ALA44 4.7 38.4 1.0
CA F:CYS59 4.8 42.8 1.0
C F:CYS43 4.8 40.7 1.0
N F:GLY45 4.8 39.4 1.0
C F:ASN47 4.9 49.7 1.0
O F:CYS59 5.0 33.6 1.0

Zinc binding site 8 out of 8 in 4ond

Go back to Zinc Binding Sites List in 4ond
Zinc binding site 8 out of 8 in the Ancestral Steroid Receptor 2 Dbd Helix Mutant - Ere Dna Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of Ancestral Steroid Receptor 2 Dbd Helix Mutant - Ere Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Zn102

b:36.8
occ:1.00
 SG F:CYS10 2.2 40.0 1.0
SG F:CYS24 2.3 38.1 1.0
SG F:CYS7 2.4 36.3 1.0
SG F:CYS27 2.4 40.6 1.0
CB F:CYS7 3.3 28.7 1.0
CB F:CYS27 3.3 32.5 1.0
CB F:CYS10 3.4 35.6 1.0
CB F:CYS24 3.5 31.0 1.0
N F:CYS10 3.7 40.1 1.0
N F:CYS24 3.9 33.1 1.0
NH1 F:ARG56 4.0 45.5 1.0
CA F:CYS10 4.1 37.2 1.0
N F:CYS27 4.2 28.0 1.0
CB F:ILE9 4.3 43.2 1.0
CA F:CYS24 4.3 30.1 1.0
CA F:CYS27 4.4 33.2 1.0
CB F:ASP12 4.6 39.6 1.0
C F:ILE9 4.6 38.7 1.0
C F:CYS10 4.8 36.6 1.0
CA F:CYS7 4.8 29.9 1.0
N F:GLY11 4.8 34.2 1.0
CA F:ILE9 4.9 40.1 1.0
N F:ASP12 4.9 33.4 1.0
C F:CYS24 4.9 38.9 1.0
CG2 F:ILE9 4.9 33.9 1.0
N F:ILE9 5.0 46.1 1.0

Reference:

A.N.Mckeown, J.T.Bridgham, D.W.Anderson, M.N.Murphy, E.A.Ortlund, J.W.Thornton. Evolution of Dna Specificity in A Transcription Factor Family Produced A New Gene Regulatory Module. Cell(Cambridge,Mass.) V. 159 58 2014.
ISSN: ISSN 0092-8674
PubMed: 25259920
DOI: 10.1016/J.CELL.2014.09.003
Page generated: Wed Dec 16 05:39:18 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy