6DBU Cryo-EM structure of RAG in complex with 12-RSS and 23-RSS substrate DNAs date
authors Wu, H., Liao, M., Ru, H., Mi, W.
compound source
symmetry
R_factor
R_Free 0.4514
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 3.90
ligand CA, ZN enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, C
  • carbohydrate transmembrane t...


  • D, B


    Primary referenceDNA melting initiates the RAG catalytic pathway., Ru H, Mi W, Zhang P, Alt FW, Schatz DG, Liao M, Wu H, Nat Struct Mol Biol. 2018 Aug;25(8):732-742. doi: 10.1038/s41594-018-0098-5. Epub, 2018 Jul 30. PMID:30061602
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (362 Kb) [Save to disk]
  • Biological Unit Coordinates (6dbu.pdb1.gz) 348 Kb
  • LPC: Ligand-Protein Contacts for 6DBU
  • CSU: Contacts of Structural Units for 6DBU
  • Retrieve 6DBU in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6DBU from S2C, [Save to disk]
  • View 6DBU in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 6DBU
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6dbu_A] [6dbu_D] [6dbu_G] [6dbu_B] [6dbu_C] [6dbu_E] [6dbu_H] [6dbu_F]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6DBU
  • Community annotation for 6DBU at PDBWiki (http://pdbwiki.org)

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