Zinc in PDB 2vpb: Decoding of Methylated Histone H3 Tail By the Pygo-BCL9 Wnt Signaling Complex

The structure of Decoding of Methylated Histone H3 Tail By the Pygo-BCL9 Wnt Signaling Complex, PDB code: 2vpb was solved by M.Fiedler, M.J.Sanchez-Barrena, M.Nekrasov, J.Mieszczanek, V.Rybin, J.Muller, P.Evans, M.Bienz, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	60.08 / 1.59
Space group	I 2 2 2
Cell size a, b, c (Å), α, β, γ (°)	32.100, 79.470, 91.830, 90.00, 90.00, 90.00
R / Rfree (%)	19.2 / 22.5

The structure of Decoding of Methylated Histone H3 Tail By the Pygo-BCL9 Wnt Signaling Complex also contains other interesting chemical elements:

Sodium

(Na)

2 atoms

The binding sites of Zinc atom in the Decoding of Methylated Histone H3 Tail By the Pygo-BCL9 Wnt Signaling Complex (pdb code 2vpb). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Decoding of Methylated Histone H3 Tail By the Pygo-BCL9 Wnt Signaling Complex, PDB code: 2vpb:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Decoding of Methylated Histone H3 Tail By the Pygo-BCL9 Wnt Signaling Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Decoding of Methylated Histone H3 Tail By the Pygo-BCL9 Wnt Signaling Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1400 b:17.2 occ:1.00 ND1 A:HIS368 2.1 19.1 1.0 SG A:CYS343 2.3 17.6 1.0 SG A:CYS371 2.3 16.9 1.0 SG A:CYS346 2.3 19.3 1.0 CB A:CYS343 3.0 23.0 1.0 CE1 A:HIS368 3.0 18.9 1.0 CG A:HIS368 3.1 16.8 1.0 CB A:CYS346 3.2 22.8 1.0 CB A:CYS371 3.4 15.8 1.0 CB A:HIS368 3.5 16.3 1.0 N A:CYS346 3.7 23.4 1.0 N A:HIS368 4.0 16.6 1.0 CA A:CYS346 4.0 23.3 1.0 NE2 A:HIS368 4.2 19.9 1.0 CD2 A:HIS368 4.2 20.2 1.0 CA A:HIS368 4.4 16.5 1.0 CA A:CYS343 4.5 23.4 1.0 CA A:CYS371 4.7 16.6 1.0 C A:CYS346 4.8 24.4 1.0 C A:ILE345 4.9 23.3 1.0 CB A:ILE345 4.9 22.2 1.0 O A:HIS368 4.9 16.6 1.0 N A:THR347 5.0 25.0 1.0

Zinc binding site 2 out of 2 in the Decoding of Methylated Histone H3 Tail By the Pygo-BCL9 Wnt Signaling Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Decoding of Methylated Histone H3 Tail By the Pygo-BCL9 Wnt Signaling Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1401 b:20.3 occ:1.00 SG A:CYS359 2.3 17.2 1.0 SG A:CYS395 2.4 22.2 1.0 SG A:CYS363 2.4 20.4 1.0 SG A:CYS392 2.4 19.9 1.0 CB A:CYS359 3.2 18.3 1.0 CB A:CYS395 3.3 23.3 1.0 CB A:CYS363 3.4 20.9 1.0 CB A:CYS392 3.5 17.5 1.0 N A:CYS363 3.7 21.4 1.0 N A:CYS392 4.0 16.4 1.0 CA A:CYS363 4.1 21.6 1.0 O A:HOH2033 4.1 35.0 1.0 N A:CYS395 4.2 23.5 1.0 CA A:CYS392 4.3 17.8 1.0 CA A:CYS395 4.3 23.8 1.0 CA A:CYS359 4.6 18.2 1.0 N A:SER362 4.7 22.2 1.0 N A:GLN364 4.8 21.4 1.0 C A:CYS363 4.8 21.5 1.0 O A:CYS392 4.9 18.7 1.0 C A:CYS392 4.9 19.1 1.0 CZ A:PHE367 4.9 15.6 1.0 C A:SER362 4.9 22.2 1.0 CE2 A:PHE367 5.0 16.1 1.0

M.Fiedler, M.J.Sanchez-Barrena, M.Nekrasov, J.Mieszczanek, V.Rybin, J.Muller, P.Evans, M.Bienz. Decoding of Methylated Histone H3 Tail By the Pygo- BCL9 Wnt Signaling Complex. Mol.Cell V. 30 507 2008.
ISSN: ISSN 1097-2765
PubMed: 18498752
DOI: 10.1016/J.MOLCEL.2008.03.011