Chlorine in PDB 5vmy: Kaiso (ZBTB33) Zinc Finger Dna Binding Domain in Complex with A Hemi Cpg-Methylated Dna Resembling the Specific Kaiso Binding Sequence (Kbs)

The structure of Kaiso (ZBTB33) Zinc Finger Dna Binding Domain in Complex with A Hemi Cpg-Methylated Dna Resembling the Specific Kaiso Binding Sequence (Kbs), PDB code: 5vmy was solved by E.N.Nikolova, R.L.Stanfield, M.A.Martinez-Yamout, H.J.Dyson, P.E.Wright, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	43.04 / 2.00
Space group	C 2 2 2
Cell size a, b, c (Å), α, β, γ (°)	44.276, 183.605, 105.033, 90.00, 90.00, 90.00
R / Rfree (%)	16.4 / 18.8

The structure of Kaiso (ZBTB33) Zinc Finger Dna Binding Domain in Complex with A Hemi Cpg-Methylated Dna Resembling the Specific Kaiso Binding Sequence (Kbs) also contains other interesting chemical elements:

Zinc

(Zn)

3 atoms

The binding sites of Chlorine atom in the Kaiso (ZBTB33) Zinc Finger Dna Binding Domain in Complex with A Hemi Cpg-Methylated Dna Resembling the Specific Kaiso Binding Sequence (Kbs) (pdb code 5vmy). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total only one binding site of Chlorine was determined in the Kaiso (ZBTB33) Zinc Finger Dna Binding Domain in Complex with A Hemi Cpg-Methylated Dna Resembling the Specific Kaiso Binding Sequence (Kbs), PDB code: 5vmy:

Chlorine binding site 1 out of 1 in the Kaiso (ZBTB33) Zinc Finger Dna Binding Domain in Complex with A Hemi Cpg-Methylated Dna Resembling the Specific Kaiso Binding Sequence (Kbs)


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Kaiso (ZBTB33) Zinc Finger Dna Binding Domain in Complex with A Hemi Cpg-Methylated Dna Resembling the Specific Kaiso Binding Sequence (Kbs) within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl704 b:32.8 occ:0.50 O A:HOH813 3.2 37.6 1.0 N A:ARG548 3.3 33.6 1.0 NH2 A:ARG590 3.8 33.5 1.0 CG A:GLU547 4.0 39.8 1.0 O A:ARG548 4.0 37.6 1.0 CA A:GLU547 4.1 31.1 1.0 CA A:ARG548 4.1 36.5 1.0 C A:GLU547 4.2 40.7 1.0 CB A:ARG548 4.2 38.6 1.0 C A:ARG548 4.3 37.4 1.0 NE A:ARG590 4.6 32.0 1.0 CZ A:ARG590 4.6 36.5 1.0 CB A:GLU547 4.6 37.7 1.0 O A:GLY546 5.0 37.8 1.0

E.N.Nikolova, R.L.Stanfield, H.J.Dyson, P.E.Wright. Ch···O Hydrogen Bonds Mediate Highly Specific Recognition of Methylated Cpg Sites By the Zinc Finger Protein Kaiso. Biochemistry V. 57 2109 2018.
ISSN: ISSN 1520-4995
PubMed: 29546986
DOI: 10.1021/ACS.BIOCHEM.8B00065