Zinc in PDB 2ivh: Crystal Structure of the Nuclease Domain of COLE7 (H545Q Mutant) in Complex with An 18-Bp Duplex Dna

The structure of Crystal Structure of the Nuclease Domain of COLE7 (H545Q Mutant) in Complex with An 18-Bp Duplex Dna, PDB code: 2ivh was solved by Y.T.Wang, W.J.Yang, C.L.Li, L.G.Doudeva, H.S.Yuan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	47.76 / 2.80
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	106.800, 106.800, 60.200, 90.00, 90.00, 90.00
R / Rfree (%)	19.3 / 26.5

The binding sites of Zinc atom in the Crystal Structure of the Nuclease Domain of COLE7 (H545Q Mutant) in Complex with An 18-Bp Duplex Dna (pdb code 2ivh). 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 the Nuclease Domain of COLE7 (H545Q Mutant) in Complex with An 18-Bp Duplex Dna, PDB code: 2ivh:

Zinc binding site 1 out of 1 in the Crystal Structure of the Nuclease Domain of COLE7 (H545Q Mutant) in Complex with An 18-Bp Duplex Dna


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 the Nuclease Domain of COLE7 (H545Q Mutant) in Complex with An 18-Bp Duplex Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1577 b:19.6 occ:1.00 OP1 B:DC11 1.8 22.9 1.0 NE2 A:HIS573 1.8 10.9 1.0 ND1 A:HIS544 2.0 15.6 1.0 NE2 A:HIS569 2.1 17.2 1.0 CE1 A:HIS573 2.8 21.5 1.0 CD2 A:HIS573 2.9 11.8 1.0 P B:DC11 3.0 30.5 1.0 CE1 A:HIS544 3.0 18.9 1.0 CD2 A:HIS569 3.0 22.2 1.0 CG A:HIS544 3.1 14.9 1.0 O3' B:DT10 3.2 22.4 1.0 CE1 A:HIS569 3.2 25.9 1.0 CB A:HIS544 3.5 13.7 1.0 O5' B:DC11 3.6 38.1 1.0 CA A:HIS544 3.7 19.7 1.0 ND1 A:HIS573 3.9 22.1 1.0 CG A:HIS573 4.0 14.6 1.0 N A:GLN545 4.1 21.1 1.0 NE2 A:HIS544 4.1 20.3 1.0 CD2 A:HIS544 4.2 22.1 1.0 CG A:HIS569 4.2 13.7 1.0 OP2 B:DC11 4.2 21.8 1.0 ND1 A:HIS569 4.3 22.1 1.0 C A:HIS544 4.4 22.6 1.0 C3' B:DT10 4.6 38.5 1.0 O A:GLN545 4.9 28.6 1.0 O A:LEU543 4.9 22.0 1.0 C5' B:DC11 4.9 33.2 1.0 N A:HIS544 4.9 15.3 1.0

Y.T.Wang, W.J.Yang, C.L.Li, L.G.Doudeva, H.S.Yuan. Structural Basis For Sequence-Dependent Dna Cleavage By Nonspecific Endonucleases. Nucleic Acids Res. V. 35 584 2007.
ISSN: ISSN 0305-1048
PubMed: 17175542
DOI: 10.1093/NAR/GKL621