Zinc in PDB 6oeq: Cryo-Em Structure of Mouse RAG1/2 12RSS-Prc/23RSS-Nfc Complex (DNA1)

All present enzymatic activity of Cryo-Em Structure of Mouse RAG1/2 12RSS-Prc/23RSS-Nfc Complex (DNA1):
2.3.2.27;

The structure of Cryo-Em Structure of Mouse RAG1/2 12RSS-Prc/23RSS-Nfc Complex (DNA1) also contains other interesting chemical elements:

Calcium

(Ca)

2 atoms

The binding sites of Zinc atom in the Cryo-Em Structure of Mouse RAG1/2 12RSS-Prc/23RSS-Nfc Complex (DNA1) (pdb code 6oeq). 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 Mouse RAG1/2 12RSS-Prc/23RSS-Nfc Complex (DNA1), PDB code: 6oeq:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Cryo-Em Structure of Mouse RAG1/2 12RSS-Prc/23RSS-Nfc Complex (DNA1)


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 Mouse RAG1/2 12RSS-Prc/23RSS-Nfc Complex (DNA1) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1101 b:0.5 occ:1.00 NE2 A:HIS937 2.3 0.9 1.0 CE1 A:HIS942 2.3 0.1 1.0 SG A:CYS730 2.4 0.5 1.0 SG A:CYS727 2.4 0.7 1.0 N A:CYS730 2.5 0.5 1.0 NE2 A:HIS942 2.5 0.1 1.0 CB A:CYS730 2.7 0.5 1.0 CA A:CYS730 3.0 0.5 1.0 CE1 A:HIS937 3.0 0.9 1.0 CB A:CYS727 3.3 0.7 1.0 CD2 A:HIS937 3.4 0.9 1.0 C A:LEU729 3.5 0.0 1.0 ND1 A:HIS942 3.5 0.1 1.0 C A:CYS730 3.6 0.5 1.0 CD2 A:HIS942 3.8 0.1 1.0 O A:CYS730 3.9 0.5 1.0 N A:LEU729 4.1 0.0 1.0 CA A:LEU729 4.1 0.0 1.0 CB A:LEU729 4.1 0.0 1.0 ND1 A:HIS937 4.1 0.9 1.0 CG A:HIS942 4.3 0.1 1.0 CG A:HIS937 4.3 0.9 1.0 N A:ASP731 4.5 0.3 1.0 O A:LEU729 4.5 0.0 1.0 CA A:CYS727 4.7 0.7 1.0 CG2 A:THR732 4.8 0.1 1.0 N A:THR728 4.9 0.3 1.0

Zinc binding site 2 out of 2 in the Cryo-Em Structure of Mouse RAG1/2 12RSS-Prc/23RSS-Nfc Complex (DNA1)


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 Mouse RAG1/2 12RSS-Prc/23RSS-Nfc Complex (DNA1) within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn1103 b:77.3 occ:1.00 NE2 C:HIS942 2.1 72.0 1.0 NE2 C:HIS937 2.2 80.0 1.0 SG C:CYS730 2.4 68.6 1.0 SG C:CYS727 2.4 70.2 1.0 CB C:CYS730 2.6 68.6 1.0 CE1 C:HIS937 2.9 80.0 1.0 CB C:CYS727 2.9 70.2 1.0 CE1 C:HIS942 3.0 72.0 1.0 CD2 C:HIS942 3.2 72.0 1.0 CD2 C:HIS937 3.3 80.0 1.0 N C:CYS730 3.5 68.6 1.0 CA C:CYS730 3.6 68.6 1.0 ND1 C:HIS937 4.1 80.0 1.0 ND1 C:HIS942 4.1 72.0 1.0 OG1 C:THR732 4.2 70.5 1.0 CG C:HIS942 4.3 72.0 1.0 CB C:HIS744 4.3 73.7 1.0 C C:CYS730 4.3 68.6 1.0 CG C:HIS744 4.3 73.7 1.0 CG C:HIS937 4.3 80.0 1.0 CD2 C:HIS744 4.4 73.7 1.0 CA C:CYS727 4.4 70.2 1.0 C C:LEU729 4.7 66.0 1.0 O C:CYS730 4.8 68.6 1.0 N C:ASP731 4.9 68.2 1.0

X.Chen, Y.Cui, Z.H.Zhou, W.Yang, M.Gellert. Cutting Antiparallel Dna Strands in A Single Active Site Nat.Struct.Mol.Biol. 2020.
ISSN: ESSN 1545-9985