2PJY Cytokine Cytokine Receptor date Apr 16, 2007
title Structural Basis For Cooperative Assembly Of The Tgf-Beta Si Complex
authors J.Groppe, C.Zubieta
compound source
Molecule: Transforming Growth Factor Beta-3
Chain: A
Synonym: Tgf-Beta-3
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Tgfb3
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Tgf-Beta Receptor Type-2
Chain: B
Fragment: Extracellular Domain
Synonym: Tgf-Beta Receptor Type II, Tgfr-2, Tgf-Beta Type I Receptor, Transforming Growth Factor-Beta Receptor Type II, II;
Ec: 2.7.11.30
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Tgfbr2
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Tgf-Beta Receptor Type-1
Chain: C
Fragment: Extracellular Domain
Synonym: Tgf-Beta Receptor Type I, Tgfr-1, Tgf-Beta Type I Transforming Growth Factor-Beta Receptor Type I, Tbetar-I, Serinethreonine-Protein Kinase Receptor R4, Skr4, Activin Like Kinase 5, Alk-5;
Ec: 2.7.11.30
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Tgfbr1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 65 2 2
R_factor 0.242 R_Free 0.297
crystal
cell
length a length b length c angle alpha angle beta angle gamma
66.920 66.920 254.360 90.00 90.00 120.00
method X-Ray Diffractionresolution 3.00 Å
ligand
enzyme Transferase E.C.2.7.11.30 BRENDA
note 2PJY is a representative structure
Primary referenceCooperative assembly of TGF-beta superfamily signaling complexes is mediated by two disparate mechanisms and distinct modes of receptor binding., Groppe J, Hinck CS, Samavarchi-Tehrani P, Zubieta C, Schuermann JP, Taylor AB, Schwarz PM, Wrana JL, Hinck AP, Mol Cell. 2008 Feb 1;29(2):157-68. PMID:18243111
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (53 Kb) [Save to disk]
  • Biological Unit Coordinates (2pjy.pdb1.gz) 91 Kb
  • CSU: Contacts of Structural Units for 2PJY
  • Likely Quarternary Molecular Structure file(s) for 2PJY
  • Structure Factors (55 Kb)
  • Retrieve 2PJY in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2PJY from S2C, [Save to disk]
  • Re-refined 2pjy structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 2PJY 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.
  • On AstexViewer, from MSD-EBI (viewer documentation).
  • On RasMol (Install RasMol freeware) Here's help on how to use RasMol.
    • Visual 3D analysis of 2PJY
  • 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 2PJY, from MSDmotif at EBI
  • Fold representative 2pjy from FSSP and Dali (Families of Structurally Similar Proteins)
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2pjy_A] [2pjy_B] [2pjy_C]
  • SWISS-PROT database: [P10600] [P36897] [P37173]
  • Domain organization of [TGFB3_HUMAN] [TGFR1_HUMAN] [TGFR2_HUMAN] by SWISSPFAM
  • Domain found in 2PJY: [TGFB ] by SMART
  • Alignments of the sequence of 2PJY with the sequences similar proteins can be viewed for 2PJY's classification [TGFB3_HUMAN] [TGFR1_HUMAN] [TGFR2_HUMAN] 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 [TGFB3_HUMAN] [TGFR1_HUMAN] [TGFR2_HUMAN] at ProtoMap. Click on the Cluster number.
    • Other resources with information on 2PJY
  • Community annotation for 2PJY 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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