Zinc in PDB 3i2d: Crystal Structure of S. Cerevisiae Sumo E3 Ligase SIZ1

The structure of Crystal Structure of S. Cerevisiae Sumo E3 Ligase SIZ1, PDB code: 3i2d was solved by C.D.Lima, A.A.Yunus, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	34.02 / 2.60
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	44.487, 88.980, 105.598, 90.00, 90.00, 90.00
R / Rfree (%)	21.1 / 25.9

The binding sites of Zinc atom in the Crystal Structure of S. Cerevisiae Sumo E3 Ligase SIZ1 (pdb code 3i2d). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Crystal Structure of S. Cerevisiae Sumo E3 Ligase SIZ1, PDB code: 3i2d:

Zinc binding site 1 out of 1 in the Crystal Structure of S. Cerevisiae Sumo E3 Ligase SIZ1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of S. Cerevisiae Sumo E3 Ligase SIZ1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1 b:57.2 occ:1.00 NE2 A:HIS379 2.1 55.8 1.0 SG A:CYS377 2.1 74.9 1.0 SG A:CYS403 2.3 58.5 1.0 SG A:CYS400 2.3 62.0 1.0 CD2 A:HIS379 3.0 58.2 1.0 CB A:CYS400 3.1 55.0 1.0 CE1 A:HIS379 3.2 59.7 1.0 CB A:CYS377 3.2 70.3 1.0 CB A:CYS403 3.5 50.5 1.0 N A:CYS403 3.9 53.1 1.0 CA A:CYS377 4.1 68.6 1.0 CG A:HIS379 4.2 55.6 1.0 ND1 A:HIS379 4.2 55.3 1.0 CA A:CYS403 4.3 54.7 1.0 CB A:VAL402 4.6 51.2 1.0 CA A:CYS400 4.6 52.3 1.0 CG1 A:ILE405 4.7 56.1 1.0 CD1 A:ILE405 4.9 54.8 1.0 C A:VAL402 4.9 53.4 1.0 C A:CYS403 5.0 57.3 1.0

A.A.Yunus, C.D.Lima. Structure of the Siz/Pias Sumo E3 Ligase SIZ1 and Determinants Required For Sumo Modification of Pcna. Mol.Cell V. 35 669 2009.
ISSN: ISSN 1097-2765
PubMed: 19748360
DOI: 10.1016/J.MOLCEL.2009.07.013