Zinc in PDB 6xnx: Structure of RAG1 (R848M/E649V)-RAG2-Dna Strand Transfer Complex (Dynamic-Form)

All present enzymatic activity of Structure of RAG1 (R848M/E649V)-RAG2-Dna Strand Transfer Complex (Dynamic-Form):
2.3.2.27;

The structure of Structure of RAG1 (R848M/E649V)-RAG2-Dna Strand Transfer Complex (Dynamic-Form) also contains other interesting chemical elements:

Magnesium

(Mg)

4 atoms

The binding sites of Zinc atom in the Structure of RAG1 (R848M/E649V)-RAG2-Dna Strand Transfer Complex (Dynamic-Form) (pdb code 6xnx). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Structure of RAG1 (R848M/E649V)-RAG2-Dna Strand Transfer Complex (Dynamic-Form), PDB code: 6xnx:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Structure of RAG1 (R848M/E649V)-RAG2-Dna Strand Transfer Complex (Dynamic-Form)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of RAG1 (R848M/E649V)-RAG2-Dna Strand Transfer Complex (Dynamic-Form) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1103 b:51.9 occ:1.00 NE2 A:HIS942 2.0 38.9 1.0 NE2 A:HIS937 2.0 39.3 1.0 SG A:CYS730 2.1 40.1 1.0 CB A:CYS727 2.1 41.0 1.0 SG A:CYS727 2.2 41.0 1.0 CE1 A:HIS942 2.7 38.9 1.0 N A:CYS730 2.8 40.1 1.0 CB A:CYS730 2.9 40.1 1.0 CD2 A:HIS937 3.0 39.3 1.0 CE1 A:HIS937 3.1 39.3 1.0 CD2 A:HIS942 3.2 38.9 1.0 CA A:CYS730 3.3 40.1 1.0 CA A:CYS727 3.6 41.0 1.0 O A:CYS730 3.8 40.1 1.0 ND1 A:HIS942 3.8 38.9 1.0 C A:LEU729 3.9 39.4 1.0 CB A:LEU729 3.9 39.4 1.0 C A:CYS730 3.9 40.1 1.0 CG A:HIS942 4.1 38.9 1.0 CG A:HIS937 4.1 39.3 1.0 ND1 A:HIS937 4.1 39.3 1.0 N A:LEU729 4.1 39.4 1.0 CA A:LEU729 4.2 39.4 1.0 C A:CYS727 4.3 41.0 1.0 N A:CYS727 4.4 41.0 1.0 CG2 A:THR732 4.6 41.6 1.0 O A:CYS727 4.8 41.0 1.0 CD1 A:LEU729 4.8 39.4 1.0 O A:LEU729 4.9 39.4 1.0 N A:THR728 4.9 39.4 1.0 CG A:LEU729 4.9 39.4 1.0

Zinc binding site 2 out of 2 in the Structure of RAG1 (R848M/E649V)-RAG2-Dna Strand Transfer Complex (Dynamic-Form)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of RAG1 (R848M/E649V)-RAG2-Dna Strand Transfer Complex (Dynamic-Form) within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn1102 b:51.7 occ:1.00 CB C:CYS727 2.0 40.6 1.0 NE2 C:HIS942 2.0 38.9 1.0 NE2 C:HIS937 2.0 38.9 1.0 SG C:CYS730 2.1 40.2 1.0 SG C:CYS727 2.2 40.6 1.0 CE1 C:HIS942 2.8 38.9 1.0 CD2 C:HIS937 2.8 38.9 1.0 N C:CYS730 2.9 40.2 1.0 CD2 C:HIS942 3.0 38.9 1.0 CB C:CYS730 3.1 40.2 1.0 CE1 C:HIS937 3.2 38.9 1.0 CA C:CYS730 3.5 40.2 1.0 CA C:CYS727 3.5 40.6 1.0 CB C:LEU729 3.8 39.5 1.0 ND1 C:HIS942 3.9 38.9 1.0 C C:LEU729 3.9 39.5 1.0 O C:CYS730 3.9 40.2 1.0 N C:LEU729 4.0 39.5 1.0 CG C:HIS942 4.0 38.9 1.0 CG C:HIS937 4.1 38.9 1.0 C C:CYS730 4.1 40.2 1.0 CA C:LEU729 4.1 39.5 1.0 ND1 C:HIS937 4.2 38.9 1.0 C C:CYS727 4.3 40.6 1.0 N C:CYS727 4.3 40.6 1.0 N C:THR728 4.7 39.6 1.0 CD1 C:LEU729 4.7 39.5 1.0 CG2 C:THR732 4.7 41.5 1.0 CG C:LEU729 4.9 39.5 1.0 O C:CYS727 4.9 40.6 1.0 O C:LEU729 4.9 39.5 1.0

Y.Zhang, E.Corbett, S.Wu, D.G.Schatz. Structural Basis For the Activation and Suppression of Transposition During Evolution of the Rag Recombinase. Embo J. V. 39 05857 2020.
ISSN: ESSN 1460-2075
PubMed: 32945578
DOI: 10.15252/EMBJ.2020105857