Zinc in PDB 2i7v: Structure of Human Cpsf-73

The structure of Structure of Human Cpsf-73, PDB code: 2i7v 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)	29.25 / 2.10
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	58.500, 83.200, 104.950, 90.00, 90.00, 90.00
R / Rfree (%)	22.4 / 25.2

The binding sites of Zinc atom in the Structure of Human Cpsf-73 (pdb code 2i7v). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Structure of Human Cpsf-73, PDB code: 2i7v:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 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:38.3 occ:1.00 O A:HOH501 1.9 30.1 1.0 ND1 A:HIS73 2.1 40.5 1.0 NE2 A:HIS158 2.1 25.1 1.0 NE2 A:HIS71 2.3 31.9 1.0 OD2 A:ASP179 2.3 30.2 1.0 O2 A:SO4491 2.5 68.4 1.0 CE1 A:HIS73 3.0 42.3 1.0 CD2 A:HIS158 3.1 26.2 1.0 CD2 A:HIS71 3.1 33.9 1.0 CE1 A:HIS158 3.1 28.8 1.0 CG A:HIS73 3.2 40.7 1.0 CG A:ASP179 3.4 28.8 1.0 CE1 A:HIS71 3.4 32.4 1.0 ZN A:ZN482 3.4 38.4 1.0 S A:SO4491 3.5 71.8 1.0 O3 A:SO4491 3.6 68.7 1.0 CB A:HIS73 3.6 39.7 1.0 CB A:ASP179 3.7 27.6 1.0 NE2 A:HIS76 4.1 26.2 1.0 O4 A:SO4491 4.1 70.6 1.0 CD2 A:HIS76 4.1 24.8 1.0 NE2 A:HIS73 4.1 43.2 1.0 ND1 A:HIS158 4.2 28.1 1.0 CG A:HIS158 4.3 27.3 1.0 CD2 A:HIS73 4.3 42.6 1.0 CG A:HIS71 4.3 33.0 1.0 CE1 A:HIS396 4.4 30.3 1.0 ND1 A:HIS71 4.4 31.6 1.0 O A:HOH620 4.4 43.2 1.0 OD1 A:ASP179 4.5 28.3 1.0 OD1 A:ASP75 4.5 33.8 1.0 O1 A:SO4491 4.8 70.5 1.0 NE2 A:HIS396 4.9 29.8 1.0 OD2 A:ASP75 4.9 30.3 1.0

Zinc binding site 2 out of 4 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:38.4 occ:1.00 NE2 A:HIS76 2.1 26.2 1.0 OD2 A:ASP75 2.2 30.3 1.0 O A:HOH501 2.2 30.1 1.0 OD2 A:ASP179 2.2 30.2 1.0 O3 A:SO4491 2.3 68.7 1.0 NE2 A:HIS418 2.3 24.8 1.0 CD2 A:HIS76 2.9 24.8 1.0 CE1 A:HIS418 3.0 24.9 1.0 CG A:ASP75 3.1 34.7 1.0 CG A:ASP179 3.1 28.8 1.0 CE1 A:HIS76 3.2 23.7 1.0 OD1 A:ASP179 3.3 28.3 1.0 OD1 A:ASP75 3.4 33.8 1.0 CD2 A:HIS418 3.4 25.9 1.0 ZN A:ZN481 3.4 38.3 1.0 S A:SO4491 3.5 71.8 1.0 O2 A:SO4491 3.9 68.4 1.0 O4 A:SO4491 3.9 70.6 1.0 O A:HOH502 4.1 27.4 1.0 CG A:HIS76 4.1 27.6 1.0 ND1 A:HIS418 4.2 23.9 1.0 NE2 A:HIS71 4.2 31.9 1.0 ND1 A:HIS76 4.2 25.5 1.0 CE1 A:HIS71 4.4 32.4 1.0 CG A:HIS418 4.4 25.7 1.0 CB A:ASP75 4.5 33.3 1.0 CE1 A:HIS396 4.5 30.3 1.0 CB A:ASP179 4.5 27.6 1.0 O1 A:SO4491 4.7 70.5 1.0 OG A:SER26 4.9 25.5 1.0 ND1 A:HIS73 4.9 40.5 1.0

Zinc binding site 3 out of 4 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 3 of Structure of Human Cpsf-73 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn483 b:49.9 occ:1.00 OE2 A:GLU262 2.0 30.7 1.0 ND1 A:HIS260 2.2 34.8 1.0 CD A:GLU262 2.8 32.0 1.0 OE1 A:GLU262 3.0 33.0 1.0 CG A:HIS260 3.1 34.6 1.0 CE1 A:HIS260 3.1 34.3 1.0 O A:HOH692 3.2 64.1 1.0 CB A:HIS260 3.4 34.2 1.0 CA A:HIS260 3.9 35.9 1.0 NE2 A:HIS260 4.3 34.1 1.0 CG A:GLU262 4.3 30.5 1.0 CD2 A:HIS260 4.3 33.5 1.0 O A:ASN259 4.5 36.3 1.0 NE2 A:HIS227 4.6 30.1 1.0 C A:HIS260 4.8 36.9 1.0 N A:HIS260 5.0 36.8 1.0

Zinc binding site 4 out of 4 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 4 of Structure of Human Cpsf-73 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn484 b:98.9 occ:1.00 ND1 A:HIS442 2.0 69.1 1.0 OE2 A:GLU436 2.6 58.8 1.0 OE1 A:GLU436 2.9 57.9 1.0 CE1 A:HIS442 3.0 69.6 1.0 CD A:GLU436 3.0 57.2 1.0 CG A:HIS442 3.1 68.6 1.0 CB A:HIS442 3.5 66.2 1.0 CA A:HIS442 3.7 63.9 1.0 NE2 A:HIS442 4.1 69.8 1.0 CD2 A:HIS442 4.2 69.6 1.0 N A:ILE443 4.3 57.6 1.0 CG A:GLU436 4.4 55.6 1.0 C A:HIS442 4.5 61.6 1.0 O A:ILE443 4.6 50.1 1.0 O A:HOH691 4.7 75.2 1.0 N A:HIS442 4.8 65.8 1.0 O A:VAL441 4.9 67.2 1.0

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