Zinc in PDB 2ri7: Crystal Structure of Phd Finger-Linker-Bromodomain Y17E Mutant From Human Bptf in the H3(1-9)K4ME2 Bound State

The structure of Crystal Structure of Phd Finger-Linker-Bromodomain Y17E Mutant From Human Bptf in the H3(1-9)K4ME2 Bound State, PDB code: 2ri7 was solved by H.Li, D.J.Patel, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 1.45
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	38.249, 64.381, 85.558, 90.00, 90.00, 90.00
R / Rfree (%)	18.9 / 19.2

The binding sites of Zinc atom in the Crystal Structure of Phd Finger-Linker-Bromodomain Y17E Mutant From Human Bptf in the H3(1-9)K4ME2 Bound State (pdb code 2ri7). 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 Phd Finger-Linker-Bromodomain Y17E Mutant From Human Bptf in the H3(1-9)K4ME2 Bound State, PDB code: 2ri7:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of Phd Finger-Linker-Bromodomain Y17E Mutant From Human Bptf in the H3(1-9)K4ME2 Bound State


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 Phd Finger-Linker-Bromodomain Y17E Mutant From Human Bptf in the H3(1-9)K4ME2 Bound State within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn501 b:10.7 occ:1.00 ND1 A:HIS34 2.1 10.2 1.0 SG A:CYS11 2.3 9.1 1.0 SG A:CYS13 2.3 10.3 1.0 SG A:CYS37 2.3 10.7 1.0 CE1 A:HIS34 3.1 11.2 1.0 CG A:HIS34 3.1 9.7 1.0 CB A:CYS11 3.2 10.7 1.0 CB A:CYS37 3.3 10.5 1.0 CB A:CYS13 3.5 9.3 1.0 CB A:HIS34 3.5 9.3 1.0 N A:CYS13 4.0 10.2 1.0 O A:HOH572 4.2 19.4 1.0 N A:HIS34 4.2 9.2 1.0 NE2 A:HIS34 4.2 12.1 1.0 CD2 A:HIS34 4.3 11.1 1.0 CA A:CYS13 4.4 10.3 1.0 CA A:HIS34 4.4 9.1 1.0 CA A:CYS11 4.6 9.5 1.0 N A:ILE12 4.6 10.5 1.0 CA A:CYS37 4.7 11.2 1.0 CG1 A:ILE12 4.7 15.1 1.0 OG1 A:THR15 4.7 12.2 1.0 O A:HOH642 4.7 33.8 1.0 C A:CYS11 4.9 10.3 1.0 O A:HOH550 4.9 23.9 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of Phd Finger-Linker-Bromodomain Y17E Mutant From Human Bptf in the H3(1-9)K4ME2 Bound State


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 Phd Finger-Linker-Bromodomain Y17E Mutant From Human Bptf in the H3(1-9)K4ME2 Bound State within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn502 b:7.7 occ:1.00 SG A:CYS56 2.3 7.3 1.0 SG A:CYS53 2.3 6.8 1.0 SG A:CYS26 2.3 7.3 1.0 SG A:CYS29 2.4 7.7 1.0 CB A:CYS56 3.2 8.5 1.0 CB A:CYS26 3.2 7.3 1.0 CB A:CYS29 3.3 8.4 1.0 CB A:CYS53 3.5 6.6 1.0 N A:CYS29 3.7 7.3 1.0 N A:CYS53 4.0 7.7 1.0 OH A:TYR33 4.0 12.0 1.0 CA A:CYS29 4.1 8.2 1.0 CA A:CYS53 4.3 6.8 1.0 N A:CYS56 4.3 7.4 1.0 CA A:CYS56 4.3 7.4 1.0 CE2 A:TYR33 4.4 9.6 1.0 CB A:ARG28 4.5 8.1 1.0 CA A:CYS26 4.6 7.2 1.0 CZ A:TYR33 4.6 10.0 1.0 C A:ARG28 4.8 8.8 1.0 C A:CYS53 4.9 7.8 1.0 O A:CYS53 4.9 7.8 1.0 C A:CYS29 5.0 9.5 1.0

H.Li, W.Fischle, W.Wang, E.M.Duncan, L.Liang, S.Murakami-Ishibe, C.D.Allis, D.J.Patel. Structural Basis For Lower Lysine Methylation State-Specific Readout By Mbt Repeats of L3MBTL1 and An Engineered Phd Finger. Mol.Cell V. 28 677 2007.
ISSN: ISSN 1097-2765
PubMed: 18042461
DOI: 10.1016/J.MOLCEL.2007.10.023