Zinc in PDB 2jmj: uc(Nmr) Solution Structure of the Phd Domain From the Yeast YNG1 Protein in Complex with H3(1-9)K4ME3 Peptide

The binding sites of Zinc atom in the uc(Nmr) Solution Structure of the Phd Domain From the Yeast YNG1 Protein in Complex with H3(1-9)K4ME3 Peptide (pdb code 2jmj). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the uc(Nmr) Solution Structure of the Phd Domain From the Yeast YNG1 Protein in Complex with H3(1-9)K4ME3 Peptide, PDB code: 2jmj:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the uc(Nmr) Solution Structure of the Phd Domain From the Yeast YNG1 Protein in Complex with H3(1-9)K4ME3 Peptide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of uc(Nmr) Solution Structure of the Phd Domain From the Yeast YNG1 Protein in Complex with H3(1-9)K4ME3 Peptide within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn201 b:12.5 occ:1.00 SG A:CYS73 1.3 12.5 1.0 SG A:CYS42 1.4 12.5 1.0 SG A:CYS69 1.5 100.0 1.0 SG A:CYS47 1.6 12.5 1.0 HB2 A:CYS69 2.3 0.0 1.0 CB A:CYS69 2.4 100.0 1.0 CB A:CYS73 2.6 12.5 1.0 HB2 A:CYS73 2.7 0.0 1.0 CB A:CYS47 2.7 12.5 1.0 CB A:CYS42 2.8 12.5 1.0 HA A:CYS47 2.8 0.0 1.0 HB3 A:CYS47 2.8 0.0 1.0 HB2 A:CYS42 2.9 0.0 1.0 HB3 A:CYS69 3.0 0.0 1.0 CA A:CYS47 3.2 12.5 1.0 HA A:CYS73 3.3 0.0 1.0 HB3 A:CYS73 3.3 0.0 1.0 HB3 A:CYS42 3.4 0.0 1.0 HZ A:PHE52 3.4 0.0 1.0 HD2 A:PRO48 3.5 0.0 1.0 CA A:CYS73 3.6 12.5 1.0 CZ A:PHE52 3.6 12.5 1.0 HB2 A:CYS47 3.6 0.0 1.0 CA A:CYS69 3.7 100.0 1.0 HA A:CYS42 3.8 0.0 1.0 H A:SER70 3.9 0.0 1.0 CA A:CYS42 3.9 12.5 1.0 C A:CYS47 4.0 12.5 1.0 H A:PHE49 4.0 0.0 1.0 H A:CYS69 4.0 0.0 1.0 CE1 A:PHE52 4.0 12.5 1.0 HB3 A:ASN44 4.0 0.0 1.0 N A:CYS69 4.1 100.0 1.0 HE1 A:PHE52 4.1 0.0 1.0 C A:CYS69 4.1 100.0 1.0 CE2 A:PHE52 4.1 12.5 1.0 O A:PHE49 4.1 12.5 1.0 HB2 A:SER70 4.1 0.0 1.0 N A:SER70 4.2 100.0 1.0 H A:CYS73 4.3 0.0 1.0 HE2 A:PHE52 4.3 0.0 1.0 CD A:PRO48 4.4 25.0 1.0 N A:PRO48 4.4 12.5 1.0 N A:CYS73 4.4 12.5 1.0 N A:CYS47 4.5 12.5 1.0 HA A:CYS69 4.5 0.0 1.0 O A:CYS47 4.6 12.5 1.0 HD21 A:ASN44 4.6 0.0 1.0 HD13 A:ILE76 4.7 0.0 1.0 C A:CYS73 4.7 12.5 1.0 H A:CYS47 4.8 0.0 1.0 CD1 A:PHE52 4.8 12.5 1.0 H A:CYS42 4.8 0.0 1.0 N A:CYS42 4.9 12.5 1.0 N A:PHE49 4.9 12.5 1.0 HD3 A:PRO48 4.9 0.0 1.0 HD11 A:ILE76 4.9 0.0 1.0 CB A:SER70 4.9 100.0 1.0 O A:CYS69 4.9 100.0 1.0 CD2 A:PHE52 4.9 12.5 1.0 C A:CYS42 4.9 12.5 1.0 HD1 A:TYR68 5.0 0.0 1.0 CB A:ASN44 5.0 12.5 1.0

Zinc binding site 2 out of 2 in the uc(Nmr) Solution Structure of the Phd Domain From the Yeast YNG1 Protein in Complex with H3(1-9)K4ME3 Peptide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of uc(Nmr) Solution Structure of the Phd Domain From the Yeast YNG1 Protein in Complex with H3(1-9)K4ME3 Peptide within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn401 b:12.5 occ:1.00 SG A:CYS56 1.3 12.5 1.0 SG A:CYS31 1.4 12.5 1.0 SG A:CYS29 1.5 12.5 1.0 CB A:CYS56 2.4 12.5 1.0 HB2 A:CYS56 2.4 0.0 1.0 HD22 A:ASN33 2.5 0.0 1.0 CB A:CYS31 2.5 12.5 1.0 HB2 A:CYS31 2.5 0.0 1.0 HH A:TYR36 2.6 0.0 1.0 HB3 A:CYS29 2.6 0.0 1.0 CB A:CYS29 2.7 12.5 1.0 CE1 A:HIS53 3.1 12.5 1.0 ND1 A:HIS53 3.1 12.5 1.0 HB3 A:CYS31 3.1 0.0 1.0 HB3 A:CYS56 3.1 0.0 1.0 H A:CYS31 3.2 0.0 1.0 NE2 A:HIS53 3.2 12.5 1.0 CG A:HIS53 3.2 12.5 1.0 CD2 A:HIS53 3.2 12.5 1.0 ND2 A:ASN33 3.3 50.0 1.0 HA A:CYS56 3.4 0.0 1.0 HB2 A:CYS29 3.4 0.0 1.0 CA A:CYS56 3.5 12.5 1.0 HD1 A:HIS53 3.5 0.0 1.0 OH A:TYR36 3.5 12.5 1.0 H A:HIS53 3.5 0.0 1.0 HE1 A:HIS53 3.6 0.0 1.0 H A:CYS29 3.6 0.0 1.0 HE2 A:HIS53 3.7 0.0 1.0 CA A:CYS29 3.7 12.5 1.0 HB2 A:HIS53 3.7 0.0 1.0 HD21 A:ASN33 3.7 0.0 1.0 CA A:CYS31 3.7 12.5 1.0 N A:CYS31 3.8 12.5 1.0 HD2 A:HIS53 3.8 0.0 1.0 C A:CYS29 3.9 12.5 1.0 N A:CYS29 3.9 12.5 1.0 O A:CYS29 4.0 12.5 1.0 CB A:HIS53 4.0 12.5 1.0 HE2 A:TYR36 4.0 0.0 1.0 H A:CYS56 4.2 0.0 1.0 N A:CYS56 4.2 12.5 1.0 CZ A:TYR36 4.2 12.5 1.0 CG A:ASN33 4.2 12.5 1.0 H A:ASN33 4.2 0.0 1.0 OD1 A:ASN33 4.3 50.0 1.0 CE2 A:TYR36 4.4 12.5 1.0 N A:HIS53 4.4 12.5 1.0 HA A:CYS31 4.5 0.0 1.0 H A:ARG32 4.5 0.0 1.0 C A:CYS31 4.6 12.5 1.0 HA A:CYS29 4.6 0.0 1.0 C A:CYS56 4.7 12.5 1.0 N A:PHE30 4.7 12.5 1.0 CA A:HIS53 4.7 12.5 1.0 O A:ASN33 4.9 12.5 1.0 N A:ARG32 4.9 12.5 1.0 HB3 A:HIS53 4.9 0.0 1.0 HA A:PHE52 4.9 0.0 1.0 O A:HIS53 5.0 12.5 1.0 H A:PHE30 5.0 0.0 1.0

S.D.Taverna, S.Ilin, R.S.Rogers, J.C.Tanny, H.Lavender, H.Li, L.Baker, J.Boyle, L.P.Blair, B.T.Chait, D.J.Patel, J.D.Aitchison, A.J.Tackett, C.D.Allis. YNG1 Phd Finger Binding to H3 Trimethylated at K4 Promotes NUA3 Hat Activity at K14 of H3 and Transcription at A Subset of Targeted Orfs Mol.Cell V. 24 785 2006.
ISSN: ISSN 1097-2765
PubMed: 17157260
DOI: 10.1016/J.MOLCEL.2006.10.026