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

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

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

Calcium

(Ca)

3 atoms

The binding sites of Zinc atom in the Cryo-Em Structure of Mouse RAG1/2 12RSS-Nfc/23RSS-Prc Complex (DNA1) (pdb code 6oep). 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-Nfc/23RSS-Prc Complex (DNA1), PDB code: 6oep:
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-Nfc/23RSS-Prc 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-Nfc/23RSS-Prc Complex (DNA1) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1102 b:0.2 occ:1.00 NE2 A:HIS942 2.1 85.6 1.0 NE2 A:HIS937 2.1 86.3 1.0 SG A:CYS730 2.4 93.7 1.0 SG A:CYS727 2.5 86.0 1.0 CE1 A:HIS937 2.6 86.3 1.0 CE1 A:HIS942 2.6 85.6 1.0 CB A:CYS727 3.1 86.0 1.0 CB A:CYS730 3.2 93.7 1.0 CD2 A:HIS942 3.4 85.6 1.0 CD2 A:HIS937 3.4 86.3 1.0 ND1 A:HIS937 3.9 86.3 1.0 ND1 A:HIS942 3.9 85.6 1.0 N A:CYS730 3.9 93.7 1.0 ND1 A:HIS744 4.0 95.1 1.0 CA A:CYS730 4.1 93.7 1.0 CG A:HIS942 4.3 85.6 1.0 CG A:HIS937 4.3 86.3 1.0 CB A:HIS744 4.4 95.1 1.0 O A:SER745 4.5 86.8 1.0 CG A:HIS744 4.6 95.1 1.0 CA A:CYS727 4.6 86.0 1.0 C A:CYS730 4.7 93.7 1.0 OG1 A:THR732 4.7 91.2 1.0 C A:LEU729 4.9 86.0 1.0 CE1 A:HIS744 4.9 95.1 1.0

Zinc binding site 2 out of 2 in the Cryo-Em Structure of Mouse RAG1/2 12RSS-Nfc/23RSS-Prc 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-Nfc/23RSS-Prc Complex (DNA1) within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn1102 b:83.2 occ:1.00 NE2 C:HIS937 2.1 90.2 1.0 NE2 C:HIS942 2.2 88.4 1.0 CD2 C:HIS942 2.4 88.4 1.0 SG C:CYS727 2.4 79.4 1.0 CD2 C:HIS937 2.4 90.2 1.0 SG C:CYS730 2.5 87.3 1.0 CB C:CYS727 2.7 79.4 1.0 CE1 C:HIS937 3.3 90.2 1.0 CE1 C:HIS942 3.4 88.4 1.0 CG C:HIS942 3.6 88.4 1.0 CG C:HIS937 3.7 90.2 1.0 CB C:CYS730 4.0 87.3 1.0 ND1 C:HIS937 4.0 90.2 1.0 ND1 C:HIS942 4.1 88.4 1.0 CA C:CYS727 4.2 79.4 1.0 N C:CYS730 4.3 87.3 1.0 CA C:CYS730 4.7 87.3 1.0 CB C:HIS942 4.8 88.4 1.0 CB C:LEU729 4.9 81.4 1.0 CB C:HIS937 4.9 90.2 1.0 CG C:LYS938 4.9 86.8 1.0 C C:CYS727 4.9 79.4 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