Zinc in PDB 3jby: Cryo-Electron Microscopy Structure of Rag Paired Complex (C2 Symmetry)

The structure of Cryo-Electron Microscopy Structure of Rag Paired Complex (C2 Symmetry) also contains other interesting chemical elements:

Calcium

(Ca)

4 atoms

The binding sites of Zinc atom in the Cryo-Electron Microscopy Structure of Rag Paired Complex (C2 Symmetry) (pdb code 3jby). 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-Electron Microscopy Structure of Rag Paired Complex (C2 Symmetry), PDB code: 3jby:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Cryo-Electron Microscopy Structure of Rag Paired Complex (C2 Symmetry)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Cryo-Electron Microscopy Structure of Rag Paired Complex (C2 Symmetry) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1101 b:9.2 occ:1.00 CE1 A:HIS964 2.1 8.9 1.0 NE2 A:HIS959 2.1 8.5 1.0 SG A:CYS749 2.2 7.9 1.0 CB A:CYS752 2.4 10.2 1.0 CB A:CYS749 2.5 13.9 1.0 CE1 A:HIS959 2.6 9.2 1.0 NE2 A:HIS964 2.6 9.7 1.0 ND1 A:HIS964 3.3 8.3 1.0 CD2 A:HIS959 3.4 7.8 1.0 SG A:CYS752 3.6 16.7 1.0 CA A:CYS752 3.6 10.0 1.0 N A:CYS752 3.8 9.1 1.0 ND1 A:HIS959 3.9 9.0 1.0 CD2 A:HIS964 3.9 9.7 1.0 OG A:SER754 4.0 10.9 1.0 CA A:CYS749 4.0 9.9 1.0 C A:CYS752 4.2 10.2 1.0 CG A:HIS964 4.3 8.8 1.0 CD2 A:HIS766 4.3 12.0 1.0 CG A:HIS959 4.3 8.1 1.0 O A:CYS752 4.5 9.5 1.0 C A:LEU751 4.6 8.9 1.0 CG A:HIS766 4.6 12.0 1.0 CD1 A:ILE748 4.8 9.9 1.0 N A:CYS749 4.8 7.6 1.0 CB A:HIS766 4.8 11.9 1.0 C A:CYS749 4.9 9.1 1.0 N A:ASP753 5.0 11.1 1.0 NE2 A:HIS766 5.0 12.1 1.0

Zinc binding site 2 out of 2 in the Cryo-Electron Microscopy Structure of Rag Paired Complex (C2 Symmetry)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Cryo-Electron Microscopy Structure of Rag Paired Complex (C2 Symmetry) within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn1101 b:10.9 occ:1.00 SG C:CYS749 2.1 9.5 1.0 NE2 C:HIS959 2.3 10.0 1.0 CB C:CYS752 2.4 17.6 1.0 CB C:CYS749 2.4 13.9 1.0 NE2 C:HIS964 2.5 10.5 1.0 CE1 C:HIS959 2.6 10.8 1.0 CE1 C:HIS964 3.0 11.2 1.0 SG C:CYS752 3.4 23.1 1.0 CA C:CYS752 3.6 11.4 1.0 CD2 C:HIS959 3.6 9.3 1.0 CD2 C:HIS964 3.7 9.8 1.0 CD2 C:HIS766 3.8 13.6 1.0 N C:CYS752 3.9 10.4 1.0 CA C:CYS749 3.9 11.8 1.0 ND1 C:HIS959 3.9 10.6 1.0 C C:CYS752 4.1 11.5 1.0 ND1 C:HIS964 4.3 11.1 1.0 O C:CYS752 4.3 10.8 1.0 CB C:SER754 4.4 15.9 1.0 CG C:HIS959 4.4 9.6 1.0 CG C:HIS766 4.4 13.7 1.0 NE2 C:HIS766 4.5 13.8 1.0 N C:CYS749 4.5 8.8 1.0 CG C:HIS964 4.6 10.2 1.0 N C:SER754 4.7 12.8 1.0 C C:LEU751 4.8 10.2 1.0 CB C:HIS766 4.8 13.6 1.0 N C:ASP753 4.8 12.4 1.0 C C:CYS749 4.9 12.6 1.0

H.Ru, M.G.Chambers, T.M.Fu, A.B.Tong, M.Liao, H.Wu. Molecular Mechanism of V(D)J Recombination From Synaptic RAG1-RAG2 Complex Structures. Cell(Cambridge,Mass.) V. 163 1138 2015.
ISSN: ISSN 0092-8674
PubMed: 26548953
DOI: 10.1016/J.CELL.2015.10.055