5JJ3 Viral Protein date Apr 22, 2016
title Refined Structure Of The Mature Virion Conformation Of P22 P Protein
authors R.K.Lokareddy, R.S.Sankhala, G.Cingolani
compound source
Molecule: Portal Protein
Chain: A, B, C, D, E, F, G, H, I, J, K, L
Synonym: Gene Product 1,Gp1,Head-To-Tail Connector
Engineered: Yes
Organism_scientific: Enterobacteria Phage P22
Organism_taxid: 10754
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: I 4
R_factor 0.239 R_Free 0.260
crystal
cell
length a length b length c angle alpha angle beta angle gamma
409.043 409.043 260.000 90.00 90.00 90.00
method X-Ray Diffractionresolution 7.00 Å
Gene
Ontology
ChainFunctionProcessComponent
F, A, J, K, E, B, H, C, D, I, G, L


Primary referencePortal protein functions akin to a DNA-sensor that couples genome-packaging to icosahedral capsid maturation., Lokareddy RK, Sankhala RS, Roy A, Afonine PV, Motwani T, Teschke CM, Parent KN, Cingolani G, Nat Commun. 2017 Jan 30;8:14310. doi: 10.1038/ncomms14310. PMID:28134243
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (2801 Kb) [Save to disk]
  • Biological Unit Coordinates (5jj3.pdb1.gz) 2780 Kb
  • CSU: Contacts of Structural Units for 5JJ3
  • Structure Factors (1067 Kb)
  • Retrieve 5JJ3 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5JJ3 from S2C, [Save to disk]
  • Re-refined 5jj3 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5JJ3 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 5JJ3
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 5jj3 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5jj3_H] [5jj3_I] [5jj3_K] [5jj3_F] [5jj3_A] [5jj3_J] [5jj3] [5jj3_C] [5jj3_L] [5jj3_D] [5jj3_G] [5jj3_E] [5jj3_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5JJ3
  • Community annotation for 5JJ3 at PDBWiki (http://pdbwiki.org)

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