3L5O Crystal structure of protein with unknown function from DUF364 family (ZP_00559375.1) from Desulfitobacterium hafniense DCB-2 at 2.01 A resolution date
authors Genomics, Joint.Center.for.Structural., JCSG, Joint.Center.for.Structural.Genomics.
compound source
symmetry
R_factor
R_Free 0.215
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.01
ligand CL, EDO, IMD, MSE enzyme
note 3L5O supersedes 2H1Q
Gene DHAF
Primary referenceStructure of the first representative of Pfam family PF04016 (DUF364) reveals enolase and Rossmann-like folds that combine to form a unique active site with a possible role in heavy-metal chelation., Miller MD, Aravind L, Bakolitsa C, Rife CL, Carlton D, Abdubek P, Astakhova T, Axelrod HL, Chiu HJ, Clayton T, Deller MC, Duan L, Feuerhelm J, Grant JC, Han GW, Jaroszewski L, Jin KK, Klock HE, Knuth MW, Kozbial P, Krishna SS, Kumar A, Marciano D, McMullan D, Morse AT, Nigoghossian E, Okach L, Reyes R, van den Bedem H, Weekes D, Xu Q, Hodgson KO, Wooley J, Elsliger MA, Deacon AM, Godzik A, Lesley SA, Wilson IA, Acta Crystallogr Sect F Struct Biol Cryst Commun. 2010 Oct 1;66(Pt, 10):1167-73. Epub 2010 Jul 6. PMID:20944207
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (88 Kb) [Save to disk]
  • Biological Unit Coordinates (3l5o.pdb1.gz) 42 Kb
  • Biological Unit Coordinates (3l5o.pdb2.gz) 42 Kb
  • Biological Unit Coordinates (3l5o.pdb3.gz) 80 Kb
  • LPC: Ligand-Protein Contacts for 3L5O
  • CSU: Contacts of Structural Units for 3L5O
  • Structure Factors (4346 Kb)
  • Retrieve 3L5O in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3L5O from S2C, [Save to disk]
  • Re-refined 3l5o structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3L5O 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 3L5O
  • 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
  • 3D motif for 3L5O, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3l5o_A] [3l5o_B] [3l5o]
  • SWISS-PROT database: [B8FUJ5]
  • Domain organization of [B8FUJ5_DESHD] by SWISSPFAM
    • Other resources with information on 3L5O
  • Community annotation for 3L5O at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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