7JY9 Dna Binding Protein Dna date Aug 29, 2020
title Structure Of A 9 Base Pair Reca-D Loop Complex
authors N.P.Pavletich
compound source
Molecule: Protein Reca
Chain: A, B, C, D, E, F, G, H, I
Synonym: Recombinase A
Engineered: Yes
Organism_scientific: Escherichia Coli
Organism_taxid: 562
Gene: Reca, Nctc11341_01072
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna (42-Mer)
Chain: T
Engineered: Yes

Synthetic: Yes
Organism_scientific: Escherichia Coli
Organism_taxid: 562

Molecule: Dna (42-Mer)
Chain: U
Engineered: Yes

Synthetic: Yes
Organism_scientific: Escherichia Coli
Organism_taxid: 562

Molecule: Dna (27-Mer)
Chain: S
Engineered: Yes

Synthetic: Yes
Organism_scientific: Escherichia Coli
Organism_taxid: 562
symmetry Space Group: P 1
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
1.000 1.000 1.000 90.00 90.00 90.00
method Electron Microscopyresolution 2.80 Å
ligand AGS, MG enzyme
Primary referenceMechanism of strand exchange from RecA-DNA synaptic and D-loop structures., Yang H, Zhou C, Dhar A, Pavletich NP, Nature. 2020 Oct;586(7831):801-806. doi: 10.1038/s41586-020-2820-9. Epub 2020 Oct, 14. PMID:33057191
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (2002 Kb) [Save to disk]
  • Biological Unit Coordinates (7jy9.pdb1.gz) 1944 Kb
  • LPC: Ligand-Protein Contacts for 7JY9
  • CSU: Contacts of Structural Units for 7JY9
  • Retrieve 7JY9 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 7JY9 from S2C, [Save to disk]
  • View 7JY9 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 7JY9
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 7jy9 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [7jy9_E] [7jy9_B] [7jy9_U] [7jy9_A] [7jy9_S] [7jy9_T] [7jy9_F] [7jy9_G] [7jy9_C] [7jy9_I] [7jy9_H] [7jy9_D]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 7JY9
  • Community annotation for 7JY9 at PDBWiki (http://pdbwiki.org)

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