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Zinc in PDB 1qp9: Structure of HAP1-PC7 Complexed to the Uas of CYC7

Protein crystallography data

The structure of Structure of HAP1-PC7 Complexed to the Uas of CYC7, PDB code: 1qp9 was solved by A.Lukens, D.King, R.Marmorstein, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 8.00 / 2.80
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 85.900, 90.900, 96.500, 90.00, 90.00, 90.00
R / Rfree (%) 25.5 / 29.4

Zinc Binding Sites:

The binding sites of Zinc atom in the Structure of HAP1-PC7 Complexed to the Uas of CYC7 (pdb code 1qp9). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 9 binding sites of Zinc where determined in the Structure of HAP1-PC7 Complexed to the Uas of CYC7, PDB code: 1qp9:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Zinc binding site 1 out of 9 in 1qp9

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Zinc binding site 1 out of 9 in the Structure of HAP1-PC7 Complexed to the Uas of CYC7


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of HAP1-PC7 Complexed to the Uas of CYC7 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn131

b:24.3
occ:1.00
SG A:CYS67 2.3 23.7 1.0
SG A:CYS74 2.3 24.8 1.0
SG A:CYS81 2.3 22.7 1.0
SG A:CYS64 2.3 22.6 1.0
ZN A:ZN132 2.9 24.3 1.0
CB A:CYS67 3.2 19.9 1.0
CB A:CYS74 3.3 27.6 1.0
CB A:CYS81 3.4 27.7 1.0
CB A:CYS64 3.5 20.5 1.0
CA A:CYS74 4.0 27.5 1.0
CB A:GLN83 4.0 41.0 1.0
N A:CYS64 4.0 18.9 1.0
CA A:CYS67 4.3 20.2 1.0
N A:CYS67 4.3 18.9 1.0
CA A:CYS64 4.3 18.1 1.0
SG A:CYS84 4.4 25.8 1.0
CG A:GLN83 4.7 46.0 1.0
C A:CYS74 4.8 28.3 1.0
CA A:CYS81 4.8 28.9 1.0
SG A:CYS93 4.8 26.5 1.0
O A:CYS64 4.9 14.1 1.0
N A:ASP75 4.9 28.5 1.0
C A:CYS64 4.9 17.0 1.0

Zinc binding site 2 out of 9 in 1qp9

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Zinc binding site 2 out of 9 in the Structure of HAP1-PC7 Complexed to the Uas of CYC7


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of HAP1-PC7 Complexed to the Uas of CYC7 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn132

b:24.3
occ:1.00
SG A:CYS64 2.3 22.6 1.0
SG A:CYS93 2.3 26.5 1.0
SG A:CYS81 2.3 22.7 1.0
SG A:CYS84 2.4 25.8 1.0
ZN A:ZN131 2.9 24.3 1.0
CB A:CYS93 3.2 27.1 1.0
CB A:CYS64 3.2 20.5 1.0
CB A:CYS84 3.3 30.9 1.0
CB A:CYS81 3.7 27.7 1.0
N A:CYS81 4.0 28.8 1.0
CA A:CYS93 4.0 26.5 1.0
N A:CYS84 4.2 36.3 1.0
CA A:CYS81 4.4 28.9 1.0
CA A:CYS84 4.4 35.4 1.0
SG A:CYS67 4.6 23.7 1.0
O A:CYS81 4.7 30.2 1.0
CA A:CYS64 4.7 18.1 1.0
C A:CYS93 4.8 26.9 1.0
SG A:CYS74 4.8 24.8 1.0
C A:CYS81 4.9 30.5 1.0
N A:HIS94 4.9 27.2 1.0

Zinc binding site 3 out of 9 in 1qp9

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Zinc binding site 3 out of 9 in the Structure of HAP1-PC7 Complexed to the Uas of CYC7


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Structure of HAP1-PC7 Complexed to the Uas of CYC7 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn131

b:32.3
occ:1.00
SG B:CYS74 2.3 34.1 1.0
SG B:CYS81 2.3 30.2 1.0
SG B:CYS64 2.4 29.6 1.0
SG B:CYS67 2.4 32.2 1.0
ZN B:ZN132 2.9 31.0 1.0
CB B:CYS81 3.3 35.5 1.0
CB B:CYS74 3.3 34.6 1.0
CB B:CYS67 3.4 32.2 1.0
CB B:CYS64 3.5 29.2 1.0
CA B:CYS74 3.9 35.8 1.0
N B:CYS64 4.1 26.6 1.0
CB B:GLN83 4.1 39.0 1.0
CA B:CYS64 4.4 28.4 1.0
N B:CYS67 4.5 31.8 1.0
CA B:CYS67 4.5 32.3 1.0
SG B:CYS93 4.6 32.3 1.0
CG B:GLN83 4.7 40.1 1.0
SG B:CYS84 4.7 33.5 1.0
C B:CYS74 4.7 35.6 1.0
CA B:CYS81 4.8 37.0 1.0
O B:CYS64 4.8 29.9 1.0
N B:ASP75 4.8 34.7 1.0
OH B:TYR95 4.9 22.6 1.0
N B:CYS84 4.9 39.4 1.0
C B:CYS64 5.0 29.2 1.0

Zinc binding site 4 out of 9 in 1qp9

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Zinc binding site 4 out of 9 in the Structure of HAP1-PC7 Complexed to the Uas of CYC7


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Structure of HAP1-PC7 Complexed to the Uas of CYC7 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn132

b:31.0
occ:1.00
SG B:CYS84 2.3 33.5 1.0
SG B:CYS81 2.3 30.2 1.0
SG B:CYS93 2.3 32.3 1.0
SG B:CYS64 2.3 29.6 1.0
ZN B:ZN131 2.9 32.3 1.0
CB B:CYS93 3.0 28.0 1.0
CB B:CYS64 3.3 29.2 1.0
CB B:CYS81 3.6 35.5 1.0
CB B:CYS84 3.6 39.0 1.0
N B:CYS81 4.0 36.4 1.0
CA B:CYS93 4.0 27.5 1.0
N B:CYS84 4.2 39.4 1.0
CA B:CYS81 4.3 37.0 1.0
O B:CYS81 4.4 39.8 1.0
CA B:CYS84 4.5 39.9 1.0
SG B:CYS67 4.5 32.2 1.0
C B:CYS81 4.7 38.9 1.0
CA B:CYS64 4.8 28.4 1.0
SG B:CYS74 4.8 34.1 1.0
C B:CYS93 4.8 27.2 1.0

Zinc binding site 5 out of 9 in 1qp9

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Zinc binding site 5 out of 9 in the Structure of HAP1-PC7 Complexed to the Uas of CYC7


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Structure of HAP1-PC7 Complexed to the Uas of CYC7 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn133

b:36.7
occ:1.00
ND1 B:HIS91 1.9 31.1 1.0
NE2 D:HIS80 1.9 22.4 1.0
NE2 B:HIS80 2.1 27.4 1.0
ND1 D:HIS91 2.2 37.1 1.0
CD2 D:HIS80 2.6 24.2 1.0
CE1 B:HIS91 2.8 31.9 1.0
CD2 B:HIS80 2.9 26.8 1.0
CG B:HIS91 3.0 30.3 1.0
CE1 D:HIS80 3.1 25.3 1.0
CG D:HIS91 3.1 35.1 1.0
CE1 D:HIS91 3.2 38.6 1.0
CE1 B:HIS80 3.3 28.5 1.0
CB D:HIS91 3.4 31.6 1.0
CB B:HIS91 3.5 25.9 1.0
CA D:HIS91 3.7 31.4 1.0
CA B:HIS91 3.8 27.6 1.0
CG D:HIS80 3.9 27.0 1.0
NE2 B:HIS91 3.9 32.7 1.0
CD2 B:HIS91 4.0 31.0 1.0
ND1 D:HIS80 4.1 25.8 1.0
CG B:HIS80 4.1 29.6 1.0
CD2 D:HIS91 4.2 36.3 1.0
NE2 D:HIS91 4.3 38.3 1.0
ND1 B:HIS80 4.3 27.0 1.0
N D:HIS91 4.5 30.9 1.0
C D:HIS91 4.7 30.9 1.0
N B:HIS91 4.7 27.2 1.0
O D:HIS91 4.7 32.9 1.0
O B:HIS91 4.8 29.2 1.0
C B:HIS91 4.8 28.3 1.0

Zinc binding site 6 out of 9 in 1qp9

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Zinc binding site 6 out of 9 in the Structure of HAP1-PC7 Complexed to the Uas of CYC7


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Structure of HAP1-PC7 Complexed to the Uas of CYC7 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn131

b:28.0
occ:1.00
SG C:CYS67 2.3 26.3 1.0
SG C:CYS81 2.3 25.0 1.0
SG C:CYS74 2.3 27.2 1.0
SG C:CYS64 2.4 24.3 1.0
ZN C:ZN132 3.0 26.4 1.0
CB C:CYS67 3.2 24.9 1.0
CB C:CYS74 3.3 27.3 1.0
CB C:CYS81 3.3 30.7 1.0
CB C:CYS64 3.6 25.4 1.0
CA C:CYS74 3.8 29.6 1.0
N C:CYS64 4.2 20.3 1.0
CA C:CYS67 4.3 26.0 1.0
N C:CYS67 4.3 25.6 1.0
CB C:GLN83 4.3 37.1 1.0
CA C:CYS64 4.4 22.7 1.0
SG C:CYS84 4.4 25.1 1.0
N C:ASP75 4.5 29.0 1.0
C C:CYS74 4.7 29.6 1.0
OD1 C:ASP75 4.7 28.2 1.0
O C:CYS64 4.7 27.0 1.0
CA C:CYS81 4.8 33.5 1.0
OH C:TYR95 4.8 26.2 1.0
SG C:CYS93 4.8 20.5 1.0
C C:CYS64 4.9 25.0 1.0
N C:CYS74 4.9 29.9 1.0
N C:CYS84 4.9 35.4 1.0

Zinc binding site 7 out of 9 in 1qp9

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Zinc binding site 7 out of 9 in the Structure of HAP1-PC7 Complexed to the Uas of CYC7


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Structure of HAP1-PC7 Complexed to the Uas of CYC7 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn132

b:26.4
occ:1.00
SG C:CYS93 2.2 20.5 1.0
SG C:CYS84 2.3 25.1 1.0
SG C:CYS64 2.3 24.3 1.0
SG C:CYS81 2.3 25.0 1.0
ZN C:ZN131 3.0 28.0 1.0
CB C:CYS64 3.1 25.4 1.0
CB C:CYS93 3.2 23.7 1.0
CB C:CYS84 3.2 29.9 1.0
CB C:CYS81 3.4 30.7 1.0
CA C:CYS93 3.9 22.9 1.0
N C:CYS81 3.9 33.1 1.0
CA C:CYS81 4.2 33.5 1.0
CA C:CYS84 4.3 33.3 1.0
N C:CYS84 4.4 35.4 1.0
O C:CYS81 4.6 36.6 1.0
SG C:CYS67 4.6 26.3 1.0
CA C:CYS64 4.6 22.7 1.0
C C:CYS81 4.7 35.7 1.0
C C:CYS93 4.7 24.0 1.0
SG C:CYS74 4.8 27.2 1.0
N C:HIS94 4.8 24.0 1.0
CB C:ILE66 4.9 25.8 1.0
OH C:TYR95 4.9 26.2 1.0
N C:CYS93 5.0 22.1 1.0

Zinc binding site 8 out of 9 in 1qp9

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Zinc binding site 8 out of 9 in the Structure of HAP1-PC7 Complexed to the Uas of CYC7


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of Structure of HAP1-PC7 Complexed to the Uas of CYC7 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn131

b:33.3
occ:1.00
SG D:CYS64 2.3 32.2 1.0
SG D:CYS74 2.3 37.6 1.0
SG D:CYS67 2.3 36.1 1.0
SG D:CYS81 2.4 33.4 1.0
ZN D:ZN132 2.9 33.6 1.0
CB D:CYS74 3.3 39.0 1.0
CB D:CYS67 3.4 35.5 1.0
CB D:CYS81 3.4 36.7 1.0
CB D:CYS64 3.4 34.9 1.0
CA D:CYS74 3.8 41.6 1.0
CB D:GLN83 4.0 43.0 1.0
N D:CYS64 4.2 34.6 1.0
CA D:CYS64 4.3 33.8 1.0
N D:CYS67 4.5 37.2 1.0
CA D:CYS67 4.5 36.4 1.0
O D:CYS64 4.5 32.9 1.0
SG D:CYS84 4.5 37.9 1.0
SG D:CYS93 4.6 38.7 1.0
C D:CYS74 4.7 40.9 1.0
N D:ASP75 4.7 39.6 1.0
C D:CYS64 4.8 33.7 1.0
CA D:CYS81 4.8 37.7 1.0
N D:CYS74 4.9 43.7 1.0
CG D:GLN83 4.9 45.3 1.0
N D:CYS84 5.0 43.2 1.0

Zinc binding site 9 out of 9 in 1qp9

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Zinc binding site 9 out of 9 in the Structure of HAP1-PC7 Complexed to the Uas of CYC7


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 9 of Structure of HAP1-PC7 Complexed to the Uas of CYC7 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn132

b:33.6
occ:1.00
SG D:CYS93 2.3 38.7 1.0
SG D:CYS84 2.3 37.9 1.0
SG D:CYS81 2.3 33.4 1.0
SG D:CYS64 2.3 32.2 1.0
ZN D:ZN131 2.9 33.3 1.0
CB D:CYS93 3.2 32.7 1.0
CB D:CYS64 3.2 34.9 1.0
CB D:CYS84 3.2 40.3 1.0
CB D:CYS81 3.6 36.7 1.0
CA D:CYS93 4.0 30.0 1.0
N D:CYS84 4.1 43.2 1.0
CA D:CYS84 4.2 42.6 1.0
N D:CYS81 4.3 35.4 1.0
CA D:CYS81 4.4 37.7 1.0
SG D:CYS67 4.4 36.1 1.0
CA D:CYS64 4.7 33.8 1.0
C D:CYS81 4.8 39.8 1.0
SG D:CYS74 4.8 37.6 1.0
O D:CYS81 4.8 40.2 1.0
C D:CYS93 4.9 29.2 1.0
CB D:ILE66 4.9 32.7 1.0

Reference:

A.K.Lukens, D.A.King, R.Marmorstein. Structure of HAP1-PC7 Bound to Dna: Implications For Dna Recognition and Allosteric Effects of Dna-Binding on Transcriptional Activation. Nucleic Acids Res. V. 28 3853 2000.
ISSN: ISSN 0305-1048
PubMed: 11024163
DOI: 10.1093/NAR/28.20.3853
Page generated: Wed Dec 16 03:02:03 2020

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