6I9J

Human transforming growth factor beta2 in a tetragonal crystal form


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.253 
  • R-Value Work: 0.217 
  • R-Value Observed: 0.218 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Recombinant production, purification, crystallization, and structure analysis of human transforming growth factor beta 2 in a new conformation.

Del Amo-Maestro, L.Marino-Puertas, L.Goulas, T.Gomis-Ruth, F.X.

(2019) Sci Rep 9: 8660-8660

  • DOI: 10.1038/s41598-019-44943-4
  • Primary Citation of Related Structures:  
    6I9J

  • PubMed Abstract: 
  • Transforming growth factor β is a disulfide-linked dimeric cytokine that occurs in three highly related isoforms (TGFβ1-TGFβ3) engaged in signaling functions through binding of cognate TGFβ receptors. To regulate this pathway, the cytokines are biosynthesized as inactive pro-TGFβs with an N-terminal latency-associated protein preceding the mature moieties ...

    Transforming growth factor β is a disulfide-linked dimeric cytokine that occurs in three highly related isoforms (TGFβ1-TGFβ3) engaged in signaling functions through binding of cognate TGFβ receptors. To regulate this pathway, the cytokines are biosynthesized as inactive pro-TGFβs with an N-terminal latency-associated protein preceding the mature moieties. Due to their pleiotropic implications in physiology and pathology, TGFβs are privileged objects of in vitro studies. However, such studies have long been limited by the lack of efficient human recombinant expression systems of native, glycosylated, and homogenous proteins. Here, we developed pro-TGFβ2 production systems based on human Expi293F cells, which yielded >2 mg of pure histidine- or Strep-tagged protein per liter of cell culture. We assayed this material biophysically and in crystallization assays and obtained a different crystal form of mature TGFβ2, which adopted a conformation deviating from previous structures, with a distinct dimeric conformation that would require significant rearrangement for binding of TGFβ receptors. This new conformation may be reversibly adopted by a certain fraction of the mature TGβ2 population and represent a hitherto undescribed additional level of activity regulation of the mature growth factor once the latency-associated protein has been separated.


    Related Citations: 
    • An unusual feature revealed by the crystal structure at 2.2 A resolution of human transforming growth factor-beta 2.
      Schlunegger, M.P., Grutter, M.G.
      (1992) Nature 358: 430
    • Crystal structure of transforming growth factor-beta 2: an unusual fold for the superfamily.
      Daopin, S., Piez, K.A., Ogawa, Y., Davies, D.R.
      (1992) Science 257: 369
    • Structures of a pan-specific antagonist antibody complexed to different isoforms of TGFbeta reveal structural plasticity of antibody-antigen interactions.
      Moulin, A., Mathieu, M., Lawrence, C., Bigelow, R., Levine, M., Hamel, C., Marquette, J.P., Le Parc, J., Loux, C., Ferrari, P., Capdevila, C., Dumas, J., Dumas, B., Rak, A., Bird, J., Qiu, H., Pan, C.Q., Edmunds, T., Wei, R.R.
      (2014) Protein Sci 23: 1698
    • An engineered transforming growth factor beta (TGF-beta) monomer that functions as a dominant negative to block TGF-beta signaling.
      Kim, S.K., Barron, L., Hinck, C.S., Petrunak, E.M., Cano, K.E., Thangirala, A., Iskra, B., Brothers, M., Vonberg, M., Leal, B., Richter, B., Kodali, R., Taylor, A.B., Du, S., Barnes, C.O., Sulea, T., Calero, G., Hart, P.J., Hart, M.J., Demeler, B., Hinck, A.P.
      (2017) J Biol Chem 292: 7173
    • Atomic-resolution structures from fragmented protein crystals with the cryoEM method MicroED.
      de la Cruz, M.J., Hattne, J., Shi, D., Seidler, P., Rodriguez, J., Reyes, F.E., Sawaya, M.R., Cascio, D., Weiss, S.C., Kim, S.K., Hinck, C.S., Hinck, A.P., Calero, G., Eisenberg, D., Gonen, T.
      (2017) Nat Methods 14: 399

    Organizational Affiliation

    Proteolysis Lab; Structural Biology Unit; "María-de-Maeztu" Unit of Excellence, Molecular Biology Institute of Barcelona (CSIC); Barcelona Science Park, c/Baldiri Reixac, 15-21, 08028, Barcelona, Catalonia, Spain. xgrcri@ibmb.csic.es.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Transforming growth factor beta-2 proproteinA112Homo sapiensMutation(s): 0 
Gene Names: TGFB2
UniProt & NIH Common Fund Data Resources
Find proteins for P61812 (Homo sapiens)
Explore P61812 
Go to UniProtKB:  P61812
PHAROS:  P61812
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP61812
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.253 
  • R-Value Work: 0.217 
  • R-Value Observed: 0.218 
  • Space Group: P 41 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 55.57α = 90
b = 55.57β = 90
c = 70.57γ = 90
Software Package:
Software NamePurpose
BUSTERrefinement
XDSdata reduction
XSCALEdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2019-07-03
    Type: Initial release