Zinc in PDB 6pwv: Cryo-Em Structure of MLL1 in Complex with RBBP5 and WDR5 Bound to the Nucleosome

All present enzymatic activity of Cryo-Em Structure of MLL1 in Complex with RBBP5 and WDR5 Bound to the Nucleosome:
2.1.1.43;

The binding sites of Zinc atom in the Cryo-Em Structure of MLL1 in Complex with RBBP5 and WDR5 Bound to the Nucleosome (pdb code 6pwv). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Cryo-Em Structure of MLL1 in Complex with RBBP5 and WDR5 Bound to the Nucleosome, PDB code: 6pwv:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Cryo-Em Structure of MLL1 in Complex with RBBP5 and WDR5 Bound to the Nucleosome


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Cryo-Em Structure of MLL1 in Complex with RBBP5 and WDR5 Bound to the Nucleosome within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn4002 b:0.4 occ:1.01 ZN C:ZN4004 2.0 0.6 1.0 SG C:CYS3959 2.4 0.8 1.0 CB C:CYS3909 2.5 1.0 1.0 N C:CYS3909 2.7 1.0 1.0 SG C:CYS3964 3.0 0.0 1.0 CA C:CYS3909 3.1 1.0 1.0 CB C:CYS3964 3.3 0.0 1.0 CA C:CYS3964 3.4 0.0 1.0 CB C:CYS3959 3.6 0.8 1.0 SG C:CYS3957 3.7 0.6 1.0 C C:SER3908 3.9 0.3 1.0 SG C:CYS3909 4.1 1.0 1.0 N C:ARG3965 4.1 0.1 1.0 C C:CYS3964 4.3 0.0 1.0 CA C:SER3908 4.3 0.3 1.0 NE2 C:HIS3907 4.4 0.4 1.0 C C:CYS3909 4.4 1.0 1.0 N C:CYS3964 4.5 0.0 1.0 CB C:CYS3957 4.5 0.6 1.0 CD2 C:HIS3907 4.6 0.4 1.0 CB C:ALA3961 4.6 0.2 1.0 N C:GLU3910 4.8 0.3 1.0 O C:SER3908 4.9 0.3 1.0 CA C:CYS3959 4.9 0.8 1.0 N C:CYS3959 5.0 0.8 1.0

Zinc binding site 2 out of 2 in the Cryo-Em Structure of MLL1 in Complex with RBBP5 and WDR5 Bound to the Nucleosome


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Cryo-Em Structure of MLL1 in Complex with RBBP5 and WDR5 Bound to the Nucleosome within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn4004 b:0.6 occ:1.01 ZN C:ZN4002 2.0 0.4 1.0 N C:CYS3909 2.1 1.0 1.0 SG C:CYS3959 2.5 0.8 1.0 CA C:SER3908 2.6 0.3 1.0 CB C:CYS3959 2.6 0.8 1.0 C C:SER3908 2.6 0.3 1.0 CD2 C:HIS3907 3.2 0.4 1.0 SG C:CYS3957 3.3 0.6 1.0 CA C:CYS3909 3.3 1.0 1.0 N C:SER3908 3.4 0.3 1.0 NE2 C:HIS3907 3.5 0.4 1.0 O C:HIS3907 3.6 0.4 1.0 CB C:CYS3909 3.6 1.0 1.0 O C:SER3908 3.7 0.3 1.0 CB C:SER3908 3.7 0.3 1.0 C C:HIS3907 3.8 0.4 1.0 CA C:CYS3959 4.1 0.8 1.0 CG C:HIS3907 4.2 0.4 1.0 N C:CYS3959 4.5 0.8 1.0 C C:CYS3909 4.5 1.0 1.0 CE1 C:HIS3907 4.6 0.4 1.0 SG C:CYS3964 4.6 0.0 1.0 N C:GLU3910 4.7 0.3 1.0 N6 C:SAH4003 4.7 0.8 1.0 CB C:CYS3957 4.8 0.6 1.0 OG C:SER3908 4.8 0.3 1.0 ND1 C:HIS3907 4.9 0.4 1.0 C C:CYS3959 5.0 0.8 1.0

S.H.Park, A.Ayoub, Y.T.Lee, J.Xu, H.Kim, W.Zheng, B.Zhang, L.Sha, S.An, Y.Zhang, M.A.Cianfrocco, M.Su, Y.Dou, U.S.Cho. Cryo-Em Structure of the Human MLL1 Core Complex Bound to the Nucleosome. Nat Commun V. 10 5540 2019.
ISSN: ESSN 2041-1723
PubMed: 31804488
DOI: 10.1038/S41467-019-13550-2