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Zinc in PDB 2i7t: Structure of Human Cpsf-73

Protein crystallography data

The structure of Structure of Human Cpsf-73, PDB code: 2i7t was solved by C.R.Mandel, H.Zhang, L.Tong, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.42 / 2.10
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 58.834, 82.595, 103.705, 90.00, 90.00, 90.00
R / Rfree (%) 23.1 / 27.6

Zinc Binding Sites:

The binding sites of Zinc atom in the Structure of Human Cpsf-73 (pdb code 2i7t). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Structure of Human Cpsf-73, PDB code: 2i7t:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 2i7t

Go back to Zinc Binding Sites List in 2i7t
Zinc binding site 1 out of 2 in the Structure of Human Cpsf-73


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of Human Cpsf-73 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn481

b:37.6
occ:1.00
OD2 A:ASP179 2.2 24.5 1.0
NE2 A:HIS76 2.3 30.5 1.0
NE2 A:HIS418 2.3 24.4 1.0
O3 A:SO4491 2.3 41.9 1.0
OD1 A:ASP75 2.3 32.2 1.0
CD2 A:HIS76 3.0 28.4 1.0
CG A:ASP179 3.1 25.8 1.0
CG A:ASP75 3.1 33.0 1.0
CD2 A:HIS418 3.2 26.1 1.0
CE1 A:HIS418 3.2 26.9 1.0
OD2 A:ASP75 3.3 30.6 1.0
OD1 A:ASP179 3.3 27.9 1.0
ZN A:ZN482 3.4 38.3 1.0
S A:SO4491 3.4 52.7 1.0
CE1 A:HIS76 3.4 30.3 1.0
O2 A:SO4491 3.7 46.1 1.0
O4 A:SO4491 3.9 49.2 1.0
O A:HOH707 4.0 31.6 1.0
CG A:HIS76 4.2 30.2 1.0
ND1 A:HIS418 4.3 27.0 1.0
CG A:HIS418 4.3 25.9 1.0
NE2 A:HIS71 4.4 35.4 1.0
ND1 A:HIS76 4.4 29.5 1.0
CE1 A:HIS71 4.4 35.0 1.0
CB A:ASP179 4.5 25.3 1.0
CB A:ASP75 4.5 31.9 1.0
NE2 A:HIS396 4.6 32.1 1.0
O1 A:SO4491 4.7 47.2 1.0
ND1 A:HIS73 5.0 44.3 1.0

Zinc binding site 2 out of 2 in 2i7t

Go back to Zinc Binding Sites List in 2i7t
Zinc binding site 2 out of 2 in the Structure of Human Cpsf-73


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of Human Cpsf-73 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn482

b:38.3
occ:1.00
ND1 A:HIS73 2.2 44.3 1.0
NE2 A:HIS158 2.2 23.8 1.0
O2 A:SO4491 2.3 46.1 1.0
NE2 A:HIS71 2.3 35.4 1.0
OD2 A:ASP179 2.5 24.5 1.0
CE1 A:HIS73 3.0 45.5 1.0
CD2 A:HIS158 3.1 23.5 1.0
CE1 A:HIS158 3.2 25.3 1.0
CG A:HIS73 3.3 43.3 1.0
CD2 A:HIS71 3.3 34.8 1.0
CE1 A:HIS71 3.3 35.0 1.0
S A:SO4491 3.4 52.7 1.0
ZN A:ZN481 3.4 37.6 1.0
CG A:ASP179 3.4 25.8 1.0
O3 A:SO4491 3.6 41.9 1.0
CB A:ASP179 3.6 25.3 1.0
CB A:HIS73 3.7 39.8 1.0
O4 A:SO4491 3.8 49.2 1.0
NE2 A:HIS73 4.2 46.6 1.0
ND1 A:HIS158 4.2 27.2 1.0
CD2 A:HIS76 4.3 28.4 1.0
CG A:HIS158 4.3 24.3 1.0
NE2 A:HIS76 4.3 30.5 1.0
CD2 A:HIS73 4.3 45.6 1.0
ND1 A:HIS71 4.4 34.9 1.0
CG A:HIS71 4.5 34.5 1.0
NE2 A:HIS396 4.5 32.1 1.0
OD2 A:ASP75 4.5 30.6 1.0
OD1 A:ASP179 4.6 27.9 1.0
O1 A:SO4491 4.7 47.2 1.0
CE1 A:HIS396 5.0 31.0 1.0

Reference:

C.R.Mandel, S.Kaneko, H.Zhang, D.Gebauer, V.Vethantham, J.L.Manley, L.Tong. Polyadenylation Factor Cpsf-73 Is the Pre-Mrna 3'-End-Processing Endonuclease. Nature V. 444 953 2006.
ISSN: ISSN 0028-0836
PubMed: 17128255
DOI: 10.1038/NATURE05363
Page generated: Wed Dec 16 03:31:04 2020

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