4X7C Viral Protein date Dec 09, 2014
title Crystal Structure Of Saga-2006 Gii.4 P Domain In Complex Wit
authors A.D.Koromyslova, G.S.Hansman
compound source
Molecule: Vp1
Chain: A, B
Fragment: Unp Residues 225-530
Engineered: Yes
Organism_scientific: Norovirus Hugii-4saga12006jp
Organism_taxid: 546980
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pmbp

Molecule: Nano-85 Nanobody
Chain: C, D
Fragment: Vhh
Engineered: Yes

Organism_scientific: Vicugna Pacos
Organism_taxid: 30538
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Wk6
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Phen6c
symmetry Space Group: P 2 21 21
R_factor 0.166 R_Free 0.218
crystal
cell
length a length b length c angle alpha angle beta angle gamma
50.150 125.230 133.040 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.00 Å
Primary referenceNanobody binding to a conserved epitope promoted human norovirus particle disassembly., Koromyslova AD, Hansman GS, J Virol. 2014 Dec 17. pii: JVI.03176-14. PMID:25520510
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (286 Kb) [Save to disk]
  • Biological Unit Coordinates (4x7c.pdb1.gz) 277 Kb
  • CSU: Contacts of Structural Units for 4X7C
  • Structure Factors (494 Kb)
  • Retrieve 4X7C in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4X7C from S2C, [Save to disk]
  • Re-refined 4x7c structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4X7C 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 4X7C
  • 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
  • 3D motif for 4X7C, from MSDmotif at EBI
  • Fold representative 4x7c from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4x7c_A] [4x7c_D] [4x7c] [4x7c_B] [4x7c_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4X7C: [IGv ] by SMART
  • Other resources with information on 4X7C
  • Community annotation for 4X7C at PDBWiki (http://pdbwiki.org)

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