5PWX Transcription date Feb 08, 2017
title Pandda Analysis Group Deposition -- Crystal Structure Of Sp1 Initial Refinement With No Ligand Modelled (Structure 21)
authors N.M.Pearce, T.Krojer, R.Talon, A.R.Bradley, M.Fairhead, R.Sethi, N E.Maclean, P.Collins, J.Brandao-Neto, A.Douangamath, Z.Renjie, A J.Ng, P.E.Brennan, O.Cox, C.Bountra, C.H.Arrowsmith, A.Edwards, F Delft
compound source
Molecule: Nuclear Autoantigen Sp-100
Chain: A, B
Synonym: Nuclear Dot-Associated Sp100 Protein,Speckled 100
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Sp100
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: C 1 2 1
R_factor 0.172 R_Free 0.210
crystal
cell
length a length b length c angle alpha angle beta angle gamma
127.679 45.350 83.364 90.00 102.29 90.00
method X-Ray Diffractionresolution 1.69 Å
ligand EDO, MES, ZN enzyme
Primary referenceA multi-crystal method for extracting obscured crystallographic states from conventionally uninterpretable electron density., Pearce NM, Krojer T, Bradley AR, Collins P, Nowak RP, Talon R, Marsden BD, Kelm S, Shi J, Deane CM, von Delft F, Nat Commun. 2017 Apr 24;8:15123. doi: 10.1038/ncomms15123. PMID:28436492
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (79 Kb) [Save to disk]
  • Biological Unit Coordinates (5pwx.pdb1.gz) 39 Kb
  • Biological Unit Coordinates (5pwx.pdb2.gz) 36 Kb
  • LPC: Ligand-Protein Contacts for 5PWX
  • CSU: Contacts of Structural Units for 5PWX
  • Structure Factors (2234 Kb)
  • Retrieve 5PWX in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5PWX from S2C, [Save to disk]
  • Re-refined 5pwx structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5PWX 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 5PWX
  • 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
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5pwx_B] [5pwx_A] [5pwx]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5PWX
  • Community annotation for 5PWX at PDBWiki (http://pdbwiki.org)

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