Zinc in PDB 2g6q: Crystal Structure of ING2 Phd Finger in Complex with H3K4ME3 Peptide

The structure of Crystal Structure of ING2 Phd Finger in Complex with H3K4ME3 Peptide, PDB code: 2g6q was solved by P.V.Pena, R.Zhao, T.G.Kutateladze, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	30.00 / 2.00
Space group	P 32 2 1
Cell size a, b, c (Å), α, β, γ (°)	49.176, 49.176, 52.645, 90.00, 90.00, 120.00
R / Rfree (%)	22.3 / 23.1

The binding sites of Zinc atom in the Crystal Structure of ING2 Phd Finger in Complex with H3K4ME3 Peptide (pdb code 2g6q). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of ING2 Phd Finger in Complex with H3K4ME3 Peptide, PDB code: 2g6q:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of ING2 Phd Finger in Complex with H3K4ME3 Peptide


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 ING2 Phd Finger in Complex with H3K4ME3 Peptide within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn300 b:22.5 occ:1.00 ND1 A:HIS240 2.2 20.6 1.0 SG A:CYS243 2.3 26.7 1.0 SG A:CYS218 2.4 23.8 1.0 SG A:CYS216 2.5 20.4 1.0 CB A:CYS216 3.0 22.4 1.0 CE1 A:HIS240 3.1 20.5 1.0 CG A:HIS240 3.3 19.6 1.0 CB A:CYS243 3.3 25.1 1.0 CB A:CYS218 3.5 28.4 1.0 CB A:HIS240 3.6 19.4 1.0 O A:HOH11 3.6 47.0 1.0 N A:HIS240 4.0 17.6 1.0 N A:CYS218 4.1 29.6 1.0 NE2 A:HIS240 4.3 19.6 1.0 CD2 A:HIS240 4.3 19.0 1.0 OH A:TYR223 4.4 20.9 1.0 CA A:CYS218 4.4 29.7 1.0 CA A:CYS216 4.4 25.3 1.0 CA A:HIS240 4.4 17.5 1.0 N A:LEU217 4.5 27.8 1.0 CA A:CYS243 4.7 24.8 1.0 C A:CYS216 4.8 26.1 1.0 O A:TYR215 4.9 26.8 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of ING2 Phd Finger in Complex with H3K4ME3 Peptide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of ING2 Phd Finger in Complex with H3K4ME3 Peptide within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn400 b:18.9 occ:1.00 SG A:CYS229 2.3 18.8 1.0 SG A:CYS256 2.4 18.3 1.0 SG A:CYS234 2.4 18.9 1.0 SG A:CYS259 2.4 19.8 1.0 CB A:CYS229 3.1 16.7 1.0 CB A:CYS234 3.2 21.3 1.0 CB A:CYS259 3.2 19.9 1.0 CB A:CYS256 3.4 19.9 1.0 N A:CYS256 4.0 19.6 1.0 CA A:CYS234 4.2 23.1 1.0 N A:CYS259 4.2 23.0 1.0 CA A:CYS256 4.3 20.6 1.0 CA A:CYS259 4.3 23.2 1.0 CB A:ASN231 4.5 18.2 1.0 CA A:CYS229 4.6 18.4 1.0 CZ A:PHE239 4.6 17.8 1.0 CE1 A:PHE239 4.7 18.1 1.0 O A:CYS256 4.9 21.9 1.0 C A:CYS256 4.9 21.4 1.0 ND2 A:ASN231 5.0 18.6 1.0

P.V.Pena, F.Davrazou, X.Shi, K.L.Walter, V.V.Verkhusha, O.Gozani, R.Zhao, T.G.Kutateladze. Molecular Mechanism of Histone H3K4ME3 Recognition By Plant Homeodomain of ING2. Nature V. 442 100 2006.
ISSN: ISSN 0028-0836
PubMed: 16728977
DOI: 10.1038/NATURE04814