6xnz

Electron Microscopy
3.8Å resolution

Structure of RAG1 (R848M/E649V)-RAG2-DNA Target Capture Complex

Released:

Function and Biology Details

Reaction catalysed:
S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine + [acceptor protein]-L-lysine = [E2 ubiquitin-conjugating enzyme]-L-cysteine + N(6)-ubiquitinyl-[acceptor protein]-L-lysine
Biochemical function:
Biological process:
Cellular component:

Structure analysis Details

Assembly composition:
hetero decamer (preferred)
PDBe Complex ID:
PDB-CPX-120972 (preferred)
Entry contents:
2 distinct polypeptide molecules
6 distinct DNA molecules
Macromolecules (8 distinct):
V(D)J recombination-activating protein 1 Chains: A, C
Molecule details ›
Chains: A, C
Length: 750 amino acids
Theoretical weight: 85.75 KDa
Source organism: Mus musculus
Expression system: Homo sapiens
UniProt:
  • Canonical: P15919 (Residues: 261-1008; Coverage: 72%)
Gene name: Rag1
Sequence domains:
V(D)J recombination-activating protein 2 Chains: B, D
Molecule details ›
Chains: B, D
Length: 363 amino acids
Theoretical weight: 40.42 KDa
Source organism: Mus musculus
Expression system: Homo sapiens
UniProt:
  • Canonical: P21784 (Residues: 3-361; Coverage: 68%)
Gene names: Rag-2, Rag2
Sequence domains: Recombination activating protein 2
Target DNA top strand (37-mer) Chain: I
Molecule details ›
Chain: I
Length: 37 nucleotides
Theoretical weight: 11.37 KDa
Target DNA bottom strand (37-mer) Chain: J
Molecule details ›
Chain: J
Length: 37 nucleotides
Theoretical weight: 11.41 KDa
12RSS integration strand (34-mer) Chain: x
Molecule details ›
Chain: x
Length: 34 nucleotides
Theoretical weight: 10.46 KDa
12RSS non-integration strand (34-mer) Chain: M
Molecule details ›
Chain: M
Length: 34 nucleotides
Theoretical weight: 10.46 KDa
23RSS integration strand (45-mer) Chain: y
Molecule details ›
Chain: y
Length: 45 nucleotides
Theoretical weight: 13.84 KDa
23RSS non-integration strand (45-mer) Chain: L
Molecule details ›
Chain: L
Length: 45 nucleotides
Theoretical weight: 13.88 KDa

Ligands and Environments

1 bound ligand:
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.8Å
Relevant EMDB volumes: EMD-22274
Expression system: Homo sapiens