Zinc in PDB 6oer: Cryo-Em Structure of Mouse RAG1/2 Nfc Complex (DNA2)

All present enzymatic activity of Cryo-Em Structure of Mouse RAG1/2 Nfc Complex (DNA2):
2.3.2.27;

The structure of Cryo-Em Structure of Mouse RAG1/2 Nfc Complex (DNA2) also contains other interesting chemical elements:

Calcium

(Ca)

4 atoms

The binding sites of Zinc atom in the Cryo-Em Structure of Mouse RAG1/2 Nfc Complex (DNA2) (pdb code 6oer). 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 Nfc Complex (DNA2), PDB code: 6oer:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Cryo-Em Structure of Mouse RAG1/2 Nfc Complex (DNA2)


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 Nfc Complex (DNA2) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1101 b:88.0 occ:1.00 NE2 A:HIS937 2.0 56.2 1.0 NE2 A:HIS942 2.1 59.4 1.0 SG A:CYS727 2.2 60.6 1.0 SG A:CYS730 2.3 60.7 1.0 CD2 A:HIS937 2.3 56.2 1.0 CB A:CYS727 2.4 60.6 1.0 CD2 A:HIS942 2.9 59.4 1.0 CE1 A:HIS942 3.2 59.4 1.0 CE1 A:HIS937 3.3 56.2 1.0 CG A:HIS937 3.6 56.2 1.0 CB A:CYS730 3.7 60.7 1.0 CA A:CYS727 3.9 60.6 1.0 N A:CYS730 4.0 60.7 1.0 ND1 A:HIS937 4.0 56.2 1.0 CG A:HIS942 4.1 59.4 1.0 ND1 A:HIS942 4.2 59.4 1.0 O A:CYS730 4.3 60.7 1.0 CA A:CYS730 4.4 60.7 1.0 CG2 A:THR732 4.6 65.0 1.0 N A:CYS727 4.7 60.6 1.0 C A:CYS727 4.7 60.6 1.0 C A:CYS730 4.8 60.7 1.0 CB A:HIS937 4.8 56.2 1.0 CB A:HIS744 4.9 66.2 1.0 CB A:LEU729 4.9 57.8 1.0

Zinc binding site 2 out of 2 in the Cryo-Em Structure of Mouse RAG1/2 Nfc Complex (DNA2)


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 Nfc Complex (DNA2) within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn1101 b:99.5 occ:1.00 NE2 C:HIS937 2.0 67.9 1.0 NE2 C:HIS942 2.1 66.2 1.0 SG C:CYS727 2.2 63.8 1.0 SG C:CYS730 2.2 65.2 1.0 CB C:CYS727 2.4 63.8 1.0 CD2 C:HIS937 2.6 67.9 1.0 CD2 C:HIS942 3.0 66.2 1.0 CE1 C:HIS942 3.1 66.2 1.0 CE1 C:HIS937 3.1 67.9 1.0 CB C:CYS730 3.8 65.2 1.0 CG C:HIS937 3.8 67.9 1.0 CA C:CYS727 3.9 63.8 1.0 ND1 C:HIS937 4.1 67.9 1.0 N C:CYS730 4.1 65.2 1.0 CG C:HIS942 4.1 66.2 1.0 ND1 C:HIS942 4.2 66.2 1.0 O C:CYS730 4.2 65.2 1.0 CG2 C:THR732 4.3 65.3 1.0 CA C:CYS730 4.4 65.2 1.0 C C:CYS730 4.7 65.2 1.0 N C:CYS727 4.7 63.8 1.0 C C:CYS727 4.8 63.8 1.0 CB C:HIS744 4.8 73.2 1.0 CG C:HIS744 4.9 73.2 1.0 C C:LEU729 5.0 60.8 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