3UP1 Immune System date Nov 17, 2011
title Crystal Structure Of The Unliganded Human Interleukin-7 Rece Extracellular Domain
authors C.A.Mcelroy, P.J.Holland, S.T.R.Walsh
compound source
Molecule: Interleukin-7 Receptor Subunit Alpha
Chain: A, B
Synonym: Il-7 Receptor Subunit Alpha, Il-7r Subunit Alpha, Alpha, Il-7ra, Cdw127;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Il7r
Expression_system: Drosophila
Expression_system_taxid: 32281
Expression_system_strain: Schneider S2 Insect Cells
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pmt-Bipa
symmetry Space Group: I 2 2 2
R_factor 0.214 R_Free 0.257
crystal
cell
length a length b length c angle alpha angle beta angle gamma
81.424 101.259 151.994 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.15 Å
ligand FUC, GOL, NAG, NGA, SO4 enzyme
Primary referenceStructural reorganization of the interleukin-7 signaling complex., McElroy CA, Holland PJ, Zhao P, Lim JM, Wells L, Eisenstein E, Walsh ST, Proc Natl Acad Sci U S A. 2012 Feb 14;109(7):2503-8. Epub 2012 Jan 30. PMID:22308406
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (151 Kb) [Save to disk]
  • Biological Unit Coordinates (3up1.pdb1.gz) 143 Kb
  • LPC: Ligand-Protein Contacts for 3UP1
  • CSU: Contacts of Structural Units for 3UP1
  • Structure Factors (517 Kb)
  • Retrieve 3UP1 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3UP1 from S2C, [Save to disk]
  • Re-refined 3up1 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3UP1 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 3UP1
  • 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 3UP1, from MSDmotif at EBI
  • Fold representative 3up1 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3up1_A] [3up1_B] [3up1]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Alignments of the sequence of 3UP1 with the sequences similar proteins can be viewed for 3UP1's classification at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification at ProtoMap. Click on the Cluster number.
  • Other resources with information on 3UP1
  • Community annotation for 3UP1 at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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