5IOO Unknown Function date Mar 08, 2016
title Accommodation Of Massive Sequence Variation In Nanoarchaeota Type Lectin Fold
authors S.Handa, B.Paul, J.Miller, D.Valentine, P.Ghosh
compound source
Molecule: Avpa
Chain: A, B
Engineered: Yes
 Organism_scientific: Nanoarchaeota Archaeon Jgi Otu-1
Organism_taxid: 1379390
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3) Gold
symmetry Space Group: P 61
R_factor 0.202 R_Free 0.250
crystal
cell
length a length b length c angle alpha angle beta angle gamma
143.998 143.998 59.261 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.52 Å
ligand MG, MSE enzyme
Primary referenceConservation of the C-type lectin fold for accommodating massive sequence variation in archaeal diversity-generating retroelements., Handa S, Paul BG, Miller JF, Valentine DL, Ghosh P, BMC Struct Biol. 2016 Aug 31;16(1):13. doi: 10.1186/s12900-016-0064-6. PMID:27578274
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (76 Kb) [Save to disk]
  • Biological Unit Coordinates (5ioo.pdb1.gz) 37 Kb
  • Biological Unit Coordinates (5ioo.pdb2.gz) 36 Kb
  • LPC: Ligand-Protein Contacts for 5IOO
  • CSU: Contacts of Structural Units for 5IOO
  • Structure Factors (609 Kb)
  • Retrieve 5IOO in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5IOO from S2C, [Save to disk]
  • Re-refined 5ioo structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5IOO 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 5IOO
  • 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: [5ioo] [5ioo_A] [5ioo_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5IOO
  • Community annotation for 5IOO at PDBWiki (http://pdbwiki.org)

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