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Zinc in PDB 2qfi: Structure of the Zinc Transporter Yiip

Protein crystallography data

The structure of Structure of the Zinc Transporter Yiip, PDB code: 2qfi was solved by M.Lu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 12.00 / 3.80
Space group P 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 106.660, 110.839, 130.662, 90.00, 90.00, 90.00
R / Rfree (%) 32.2 / 32.9

Zinc Binding Sites:

The binding sites of Zinc atom in the Structure of the Zinc Transporter Yiip (pdb code 2qfi). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 7 binding sites of Zinc where determined in the Structure of the Zinc Transporter Yiip, PDB code: 2qfi:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7;

Zinc binding site 1 out of 7 in 2qfi

Go back to Zinc Binding Sites List in 2qfi
Zinc binding site 1 out of 7 in the Structure of the Zinc Transporter Yiip


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of the Zinc Transporter Yiip within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn301

b:25.9
occ:1.00
CE1 B:HIS232 1.5 43.1 1.0
NE2 B:HIS232 1.9 44.3 1.0
ND1 B:HIS232 2.3 44.9 1.0
CD2 B:HIS232 2.8 49.1 1.0
OD2 B:ASP285 2.9 43.2 1.0
CG B:HIS232 3.1 58.9 1.0
CG2 B:ILE245 3.2 62.7 1.0
CG2 B:VAL289 3.5 0.2 1.0
CD1 B:ILE245 3.6 65.4 1.0
CG B:ASP285 3.8 46.5 1.0
CB B:ASP285 4.1 53.0 1.0
ZN B:ZN304 4.2 8.7 1.0
CB B:ILE245 4.3 65.7 1.0
CB B:HIS232 4.4 72.5 1.0
CG1 B:ILE245 4.5 66.5 1.0
OD1 B:ASP285 4.9 35.9 1.0
NE2 B:HIS283 5.0 56.0 1.0

Zinc binding site 2 out of 7 in 2qfi

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Zinc binding site 2 out of 7 in the Structure of the Zinc Transporter Yiip


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of the Zinc Transporter Yiip within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn302

b:29.0
occ:1.00
CE1 A:HIS261 2.2 63.8 1.0
NE2 A:HIS261 2.3 62.5 1.0
ND1 A:HIS261 3.5 66.8 1.0
OD1 A:ASP265 3.5 65.2 1.0
ZN A:ZN306 3.6 28.6 1.0
CD2 A:HIS261 3.7 64.0 1.0
CG A:HIS261 4.2 68.5 1.0
CG A:ASP265 4.3 62.6 1.0
OE1 A:GLU268 4.4 67.0 1.0
CB A:ASP265 4.8 61.2 1.0

Zinc binding site 3 out of 7 in 2qfi

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Zinc binding site 3 out of 7 in the Structure of the Zinc Transporter Yiip


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Structure of the Zinc Transporter Yiip within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn303

b:26.5
occ:1.00
OD2 A:ASP207 4.3 66.7 1.0

Zinc binding site 4 out of 7 in 2qfi

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Zinc binding site 4 out of 7 in the Structure of the Zinc Transporter Yiip


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Structure of the Zinc Transporter Yiip within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn304

b:8.7
occ:1.00
NE2 B:HIS283 2.0 56.0 1.0
OD1 B:ASP285 2.2 35.9 1.0
OD2 B:ASP285 2.2 43.2 1.0
CG B:ASP285 2.4 46.5 1.0
CE1 B:HIS283 2.7 54.1 1.0
CD2 B:HIS283 3.1 56.4 1.0
CB B:ASP285 3.9 53.0 1.0
ND1 B:HIS283 3.9 54.6 1.0
CG B:HIS283 4.1 52.1 1.0
ZN B:ZN301 4.2 25.9 1.0
CG2 B:ILE245 4.4 62.7 1.0
CE1 B:HIS232 4.4 43.1 1.0
CD1 B:ILE245 4.6 65.4 1.0
NE2 B:HIS232 4.7 44.3 1.0
CA B:ASP285 4.9 52.2 1.0

Zinc binding site 5 out of 7 in 2qfi

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Zinc binding site 5 out of 7 in the Structure of the Zinc Transporter Yiip


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Structure of the Zinc Transporter Yiip within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn305

b:77.6
occ:1.00
OD2 B:ASP207 4.4 0.3 1.0

Zinc binding site 6 out of 7 in 2qfi

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Zinc binding site 6 out of 7 in the Structure of the Zinc Transporter Yiip


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Structure of the Zinc Transporter Yiip within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn306

b:28.6
occ:1.00
ZN A:ZN302 3.6 29.0 1.0

Zinc binding site 7 out of 7 in 2qfi

Go back to Zinc Binding Sites List in 2qfi
Zinc binding site 7 out of 7 in the Structure of the Zinc Transporter Yiip


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Structure of the Zinc Transporter Yiip within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn307

b:0.6
occ:1.00
OD2 A:ASP157 1.5 0.2 1.0
OD2 A:ASP45 1.9 1.0 1.0
OD2 A:ASP49 2.1 0.7 1.0
CG A:ASP157 2.3 0.6 1.0
OD1 A:ASP157 2.9 0.3 1.0
CG A:ASP45 3.0 0.3 1.0
CG A:ASP49 3.0 0.4 1.0
CB A:ASP157 3.2 0.4 1.0
OD1 A:ASP49 3.2 0.5 1.0
OD1 A:ASP45 3.4 0.6 1.0
O A:ASP45 3.8 0.5 1.0
O A:ASP157 4.1 0.7 1.0
NE2 A:HIS153 4.1 0.9 1.0
CB A:ASP45 4.2 0.4 1.0
CA A:ASP157 4.3 0.3 1.0
CB A:ASP49 4.4 0.3 1.0
CD2 A:HIS153 4.5 1.0 1.0
C A:ASP157 4.6 0.6 1.0
CE2 A:TYR154 4.7 0.8 1.0
CD2 A:TYR154 4.7 0.4 1.0
C A:ASP45 4.9 0.6 1.0

Reference:

M.Lu, D.Fu. Structure of the Zinc Transporter Yiip. Science V. 317 1746 2007.
ISSN: ISSN 0036-8075
PubMed: 17717154
DOI: 10.1126/SCIENCE.1143748
Page generated: Wed Dec 16 03:50:17 2020

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