Zinc in PDB 8e3i: Cryo-Em Structure of the Human Mpsf in Complex with the Auuaaa Poly(A) Signal

The binding sites of Zinc atom in the Cryo-Em Structure of the Human Mpsf in Complex with the Auuaaa Poly(A) Signal (pdb code 8e3i). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Cryo-Em Structure of the Human Mpsf in Complex with the Auuaaa Poly(A) Signal, PDB code: 8e3i:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in the Cryo-Em Structure of the Human Mpsf in Complex with the Auuaaa Poly(A) Signal


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 the Human Mpsf in Complex with the Auuaaa Poly(A) Signal within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn301 b:90.5 occ:1.00 NE2 C:HIS59 2.1 67.2 1.0 SG C:CYS41 2.3 62.8 1.0 SG C:CYS49 2.3 73.5 1.0 SG C:CYS55 2.3 69.2 1.0 CE1 C:HIS59 3.0 67.2 1.0 CB C:CYS49 3.1 73.5 1.0 CD2 C:HIS59 3.1 67.2 1.0 CB C:CYS55 3.2 69.2 1.0 CB C:CYS41 3.3 62.8 1.0 ND1 C:HIS59 4.1 67.2 1.0 NE2 C:GLN22 4.2 61.1 1.0 CG C:HIS59 4.2 67.2 1.0 CB C:PHE44 4.3 67.6 1.0 CA C:CYS49 4.6 73.5 1.0 CA C:CYS55 4.6 69.2 1.0 OE1 C:GLN22 4.7 61.1 1.0 O C:PHE57 4.7 62.2 1.0 O C:LYS51 4.7 74.0 1.0 CA C:CYS41 4.7 62.8 1.0 N C:PHE44 4.9 67.6 1.0 CD C:GLN22 4.9 61.1 1.0 CB C:PHE57 5.0 62.2 1.0

Zinc binding site 2 out of 3 in the Cryo-Em Structure of the Human Mpsf in Complex with the Auuaaa Poly(A) Signal


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 the Human Mpsf in Complex with the Auuaaa Poly(A) Signal within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn302 b:78.2 occ:1.00 NE2 C:HIS86 2.1 59.9 1.0 SG C:CYS68 2.3 61.4 1.0 SG C:CYS76 2.3 57.3 1.0 SG C:CYS82 2.3 65.5 1.0 CB C:CYS68 3.0 61.4 1.0 CD2 C:HIS86 3.0 59.9 1.0 CE1 C:HIS86 3.1 59.9 1.0 CB C:CYS82 3.5 65.5 1.0 CB C:CYS76 3.6 57.3 1.0 ND1 C:HIS86 4.2 59.9 1.0 CG C:HIS86 4.2 59.9 1.0 O C:PHE84 4.2 62.9 1.0 CB C:TRP71 4.3 54.3 1.0 CA C:CYS68 4.5 61.4 1.0 CA C:CYS76 4.7 57.3 1.0 N C:TRP71 4.8 54.3 1.0 CB C:PHE84 4.8 62.9 1.0 CA C:CYS82 4.9 65.5 1.0

Zinc binding site 3 out of 3 in the Cryo-Em Structure of the Human Mpsf in Complex with the Auuaaa Poly(A) Signal


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Cryo-Em Structure of the Human Mpsf in Complex with the Auuaaa Poly(A) Signal within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn303 b:100.2 occ:1.00 NE2 C:HIS114 2.1 82.6 1.0 SG C:CYS105 2.3 83.8 1.0 SG C:CYS110 2.3 82.6 1.0 SG C:CYS96 2.3 76.9 1.0 CB C:CYS105 2.7 83.8 1.0 CE1 C:HIS114 2.9 82.6 1.0 CD2 C:HIS114 3.2 82.6 1.0 CB C:CYS96 3.5 76.9 1.0 CB C:CYS110 3.5 82.6 1.0 ND1 C:HIS114 4.1 82.6 1.0 CA C:CYS105 4.2 83.8 1.0 O C:ASN107 4.3 84.6 1.0 CG C:HIS114 4.3 82.6 1.0 N6 E:A5 4.3 70.2 1.0 CB C:TYR99 4.5 81.6 1.0 O C:PHE112 4.6 74.3 1.0 OD1 C:ASN107 4.6 84.6 1.0 CA C:CYS96 4.9 76.9 1.0 N C:TYR99 4.9 81.6 1.0 CA C:CYS110 4.9 82.6 1.0 CD1 C:TYR99 4.9 81.6 1.0

P.A.Gutierrez, J.Wei, Y.Sun, L.Tong. Molecular Basis For the Recognition of the Auuaaa Polyadenylation Signal By Mpsf. Rna V. 28 1534 2022.
ISSN: ESSN 1469-9001
PubMed: 36130077
DOI: 10.1261/RNA.079322.122