4N9N Transcription date Oct 21, 2013
title Crystal Structure Of Saccharomyces Cerevisiae Upc2 Transcrip Factor Fused With T4 Lysozyme
authors H.Yang, Y.J.Im
compound source
Molecule: Sterol Uptake Control Protein 2, Lysozyme
Chain: A, B
Fragment: Residues 598-714 And 726-878 Of Q12151, Residues P00720;
Synonym: Upc2 Zinc Cluster Transcription Factor
Engineered: Yes
Mutation: Yes
Other_details: Chimera Of Sterol Uptake Control Protein 2 A Lysozyme
Organism_scientific: Saccharomyces Cerevisiae, Enterobacter T4;
Organism_taxid: 559292, 10665
Strain: S288c
Gene: Upc2, E
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28b
symmetry Space Group: P 32
R_factor 0.251 R_Free 0.272
length a length b length c angle alpha angle beta angle gamma
67.170 67.170 257.510 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.90 Å
ligand MSE enzyme
A, B

Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (145 Kb) [Save to disk]
  • Biological Unit Coordinates (4n9n.pdb1.gz) 138 Kb
  • LPC: Ligand-Protein Contacts for 4N9N
  • CSU: Contacts of Structural Units for 4N9N
  • Structure Factors (230 Kb)
  • Retrieve 4N9N in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4N9N from S2C, [Save to disk]
  • Re-refined 4n9n structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4N9N 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 4N9N
  • 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 4N9N, from MSDmotif at EBI
  • Fold representative 4n9n from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4n9n] [4n9n_B] [4n9n_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 4N9N
  • Community annotation for 4N9N at PDBWiki (http://pdbwiki.org)

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