Cited by 156Protein Kinase Regulation and GTPase SignalingProtein Structure and DynamicsReceptor Mechanisms and Signaling

Structural and Energetic Mechanisms of Cooperative Autoinhibition and Activation of Vav1

Open access
Yu, Bingke, Martins, Ilídio R.S., Li, Pilong, Amarasinghe, Gaya K., Umetani, Junko, Fernandez-Zapico, Martin E., Billadeau, Daniel D., Machius, Mischa +2 more·2010·Cell

Abstract

Vav proteins are guanine nucleotide exchange factors (GEFs) for Rho family GTPases. They control processes including T cell activation, phagocytosis, and migration of normal and transformed cells. We report the structure and biophysical and cellular analyses of the five-domain autoinhibitory element of Vav1. The catalytic Dbl homology (DH) domain of Vav1 is controlled by two energetically coupled processes. The DH active site is directly, but weakly, inhibited by a helix from the adjacent Acidic domain. This core interaction is strengthened 10-fold by contacts of the calponin homology (CH) domain with the Acidic, pleckstrin homology, and DH domains. This construction enables efficient, stepwise relief of autoinhibition: initial phosphorylation events disrupt the modulatory CH contacts, facilitating phosphorylation of the inhibitory helix and consequent GEF activation. Our findings illustrate how the opposing requirements of strong suppression of activity and rapid kinetics of activation can be achieved in multidomain systems.

The claims and statistics of this paper haven’t been checked yet.

Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.

A few free checks a day · papers already verified open instantly · results are public

Integrity signals

Registry

Crossref · 10.1016/j.cell.2009.12.033

Cites

Statistics

Claims the paper makes

The claims and statistics of this paper haven’t been checked yet.

Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.

A few free checks a day · papers already verified open instantly · results are public

Claims other papers make about this one

Each is checked against this paper’s own text: does it say what the citing paper says it does?

  • In the Rho GEF proto-oncogene VAV1, autoinhibition is mediated by interactions involving its atypical C1 and calponin homology (CH) domains.

    “For instance, in the Rho GEF proto-oncogene VAV1, such autoinhibition is mediated by interactions involving its atypical C1 and calponin homology (CH) domains.33”

    From Structural basis of microtubule-mediated signal transduction (2026) · cites this paper as [33]

    The Introduction and Results (pages unavailable in our copy) show that CH-domain interactions strengthen Vav1 autoinhibition. But the Results describe the inhibitory contacts as involving the CH, Acidic, PH and DH regions, and explicitly state that the CH domain does not contact the zinc-finger domain; they do not establish the claimed involvement of an atypical C1 domain in those inhibitory interactions. (LLM, conf=0.86)

    Experimental — accuracy not yet measured
  • None of the EOM models showed a specific interaction between the C1 and DH-PH domains as seen in the autoinhibited VAV1 DH-PH-C1 structure, and SEC-MALS experiments did not find an interaction between C1 and DH-PH.

    “none of these models showed a specific interaction between the C1 and DH-PH domains, as seen in the autoinhibited VAV1 DH-PH-C1 structure.”

    From Structural basis of microtubule-mediated signal transduction (2026) · cites this paper as [33]

Self-check

Percentages, sums and reported differences re-computed from the paper’s own numbers.

The self-check needs the paper’s full text.

Cites

No references could be resolved yet.

Research works printed but not linked: 42

  1. Abe K Whitehead IP O'Bryan JP Der CJ Involvement of NH(2)-terminal sequences in the negative regulation of Vav signaling and transforming activity The Journal of biological chemistry 1999 274 30410 30418 10521418
  2. Adams PD Grosse-Kunstleve RW Hung LW Ioerger TR McCoy AJ Moriarty NW Read RJ Sacchettini JC Sauter NK Terwilliger TC PHENIX: building new software for automated crystallographic structure determination Acta Crystallogr D Biol Crystallogr 2002 58 1948 1954 12393927
  3. Aghazadeh B Lowry WE Huang XY Rosen MK Structural basis for relief of autoinhibition of the Dbl homology domain of proto-oncogene Vav by tyrosine phosphorylation Cell 2000 102 625 633 11007481
  4. Amarasinghe GK Rosen MK Acidic region tyrosines provide access points for allosteric activation of the autoinhibited Vav1 Dbl homology domain Biochemistry 2005 44 15257 15268 16285729
  5. Bustelo XR Vav proteins, adaptors and cell signaling Oncogene 2001 20 6372 6381 11607839
  6. Chrencik JE Brooun A Zhang H Mathews II Hura GL Foster SA Perry JJ Streiff M Ramage P Widmer H Structural basis of guanine nucleotide exchange mediated by the T-cell essential Vav1 J Mol Biol 2008 380 828 843 18589439 PMC2620086
  7. Collaborative Computational Project, N The CCP4 suite: programs for protein crystallography Acta Crystallogr D Biol Crystallogr 1994 50 760 763 15299374
  8. Cowan CW Shao YR Sahin M Shamah SM Lin MZ Greer PL Gao S Griffith EC Brugge JS Greenberg ME Vav family GEFs link activated Ephs to endocytosis and axon guidance Neuron 2005 46 205 217 15848800
  9. DiNitto JP Delprato A Gabe Lee MT Cronin TC Huang S Guilherme A Czech MP Lambright DG Structural basis and mechanism of autoregulation in 3-phosphoinositide-dependent Grp1 family Arf GTPase exchange factors Molecular cell 2007 28 569 583 18042453 PMC2156038
  10. Dong Z Liu Y Lu S Wang A Lee K Wang LH Revelo M Lu S Vav3 oncogene is overexpressed and regulates cell growth and androgen receptor activity in human prostate cancer Mol Endocrinol 2006 20 2315 2325 16762975
  11. Emsley P Cowtan K Coot: model-building tools for molecular graphics Acta Crystallogr D Biol Crystallogr 2004 60 2126 2132 15572765
  12. Faraldo-Gomez JD Roux B On the importance of a funneled energy landscape for the assembly and regulation of multidomain Src tyrosine kinases Proc Natl Acad Sci U S A 2007 104 13643 13648 17699616 PMC1959435
  13. Hall AB Gakidis MA Glogauer M Wilsbacher JL Gao S Swat W Brugge JS Requirements for Vav guanine nucleotide exchange factors and Rho GTPases in FcgammaR- and complement-mediated phagocytosis Immunity 2006 24 305 316 16546099
  14. Han J Luby-Phelps K Das B Shu X Xia Y Mosteller RD Krishna UM Falck JR White MA Broek D Role of substrates and products of PI 3-kinase in regulating activation of Rac-related guanosine triphosphatases by Vav Science 1998 279 New York, NY 558 560 9438848
  15. Henzler-Wildman K Kern D Dynamic personalities of proteins Nature 2007 450 964 972 18075575
  16. Huse M Kuriyan J The conformational plasticity of protein kinases Cell 2002 109 275 282 12015977
  17. Katzav S Flesh and blood: the story of Vav1, a gene that signals in hematopoietic cells but can be transforming in human malignancies Cancer Lett 2007 255 241 254 17590270
  18. Katzav S Cleveland JL Heslop HE Pulido D Loss of the amino-terminal helix-loop-helix domain of the vav proto-oncogene activates its transforming potential Mol Cell Biol 1991 11 1912 1920 2005887 PMC359873
  19. Katzav S Martin-Zanca D Barbacid M vav, a novel human oncogene derived from a locus ubiquitously expressed in hematopoietic cells Embo J 1989 8 2283 2290 2477241 PMC401160
  20. Korzhnev DM Kloiber K Kanelis V Tugarinov V Kay LE Probing slow dynamics in high molecular weight proteins by methyl-TROSY NMR spectroscopy: application to a 723-residue enzyme J Am Chem Soc 2004 126 3964 3973 15038751
  21. Levinson NM Kuchment O Shen K Young MA Koldobskiy M Karplus M Cole PA Kuriyan J A Src-like inactive conformation in the abl tyrosine kinase domain PLoS Biol 2006 4 e144 16640460 PMC1450098
  22. Li P Martins IR Amarasinghe GK Rosen MK Internal dynamics control activation and activity of the autoinhibited Vav DH domain Nat Struct Mol Biol 2008 15 613 618 18488041 PMC2512264
  23. Llorca O Arias-Palomo E Zugaza JL Bustelo XR Global conformational rearrangements during the activation of the GDP/GTP exchange factor Vav3 Embo J 2005 24 1330 1340 15775967 PMC1142542
  24. Lopez-Lago M Lee H Cruz C Movilla N Bustelo XR Tyrosine phosphorylation mediates both activation and downmodulation of the biological activity of Vav Mol Cell Biol 2000 20 1678 1691 10669745 PMC85351
  25. Masterson LR Mascioni A Traaseth NJ Taylor SS Veglia G Allosteric cooperativity in protein kinase A Proc Natl Acad Sci U S A 2008 105 506 511 18178622 PMC2206566
  26. Miletic AV Sakata-Sogawa K Hiroshima M Hamann MJ Gomez TS Ota N Kloeppel T Kanagawa O Tokunaga M Billadeau DD Vav1 acidic region tyrosine 174 is required for the formation of T cell receptor-induced microclusters and is essential in T cell development and activation The Journal of biological chemistry 2006 281 38257 38265 17050525 PMC1876972
  27. Minor W Cymborowski M Otwinowski Z Chruszcz M HKL-3000: the integration of data reduction and structure solution--from diffraction images to an initial model in minutes Acta Crystallogr D Biol Crystallogr 2006 62 859 866 16855301
  28. Moarefi I LaFevre-Bernt M Sicheri F Huse M Lee CH Kuriyan J Miller WT Activation of the Src-family tyrosine kinase Hck by SH3 domain displacement Nature 1997 385 650 653 9024665
  29. Morris RJ Zwart PH Cohen S Fernandez FJ Kakaris M Kirillova O Vonrhein C Perrakis A Lamzin VS Breaking good resolutions with ARP/wARP J Synchrotron Radiat 2004 11 56 59 14646134
  30. Otwinowski Z Wolf W Evans PR Leslie AGW Isomorphous Replacement and Anomalous Scattering Proceedings of CCP4 Study Weekend 1991 Warrington, UK 80 86
  31. Prehoda KE Scott JA Mullins RD Lim WA Integration of multiple signals through cooperative regulation of the N-WASP-Arp2/3 complex Science 2000 290 New York, NY 801 806 11052943
  32. Rapley J Tybulewicz VL Rittinger K Crucial structural role for the PH and C1 domains of the Vav1 exchange factor EMBO Rep 2008 9 655 661 18511940 PMC2427238
  33. Sauzeau V Sevilla MA Rivas-Elena JV de Alava E Montero MJ Lopez-Novoa JM Bustelo XR Vav3 proto-oncogene deficiency leads to sympathetic hyperactivity and cardiovascular dysfunction Nat Med 2006 12 841 845 16767097 PMC1997289
  34. Schindler T Bornmann W Pellicena P Miller WT Clarkson B Kuriyan J Structural mechanism for STI-571 inhibition of abelson tyrosine kinase Science 2000 289 New York, NY 1938 1942 10988075
  35. Schneider TR Sheldrick GM Substructure solution with SHELXD Acta Crystallogr D Biol Crystallogr 2002 58 1772 1779 12351820
  36. Sondermann H Soisson SM Boykevisch S Yang SS Bar-Sagi D Kuriyan J Structural analysis of autoinhibition in the Ras activator Son of sevenless Cell 2004 119 393 405 15507210
  37. Tybulewicz VL Vav-family proteins in T-cell signalling Curr Opin Immunol 2005 17 267 274 15886116
  38. Utomo A Cullere X Glogauer M Swat W Mayadas TN Vav proteins in neutrophils are required for FcgammaR-mediated signaling to Rac GTPases and nicotinamide adenine dinucleotide phosphate oxidase component p40(phox) J Immunol 2006 177 6388 6397 17056570
  39. Vajpai N Strauss A Fendrich G Cowan-Jacob SW Manley PW Grzesiek S Jahnke W Solution conformations and dynamics of ABL kinase-inhibitor complexes determined by NMR substantiate the different binding modes of imatinib/nilotinib and dasatinib The Journal of biological chemistry 2008 283 18292 18302 18434310
  40. Vogtherr M Saxena K Hoelder S Grimme S Betz M Schieborr U Pescatore B Robin M Delarbre L Langer T NMR characterization of kinase p38 dynamics in free and ligand-bound forms Angew Chem Int Ed Engl 2006 45 993 997 16374788
  41. Yohe ME Rossman K Sondek J Role of the C-terminal SH3 domain and N-terminal tyrosine phosphorylation in regulation of Tim and related Dbl-family proteins Biochemistry 2008 47 6827 6839 18537266 PMC2655348
  42. Young MA Gonfloni S Superti-Furga G Roux B Kuriyan J Dynamic coupling between the SH2 and SH3 domains of c-Src and Hck underlies their inactivation by C-terminal tyrosine phosphorylation Cell 2001 105 115 126 11301007

Cited by

Sorted by citations

Authors
Yu, B., Martins, I. R. S., Li, P., Amarasinghe, G. K., Umetani, J., Fernandez-Zapico, M. E., Billadeau, D. D., Machius, M., Tomchick, D. R., & Rosen, M. K.
Affiliations
  • Howard Hughes Medical Institute (US)
  • The University of Texas Southwestern Medical Center (US)
  • Mayo Clinic (US)
Corresponding author
Rosen, Michael K.
Venue
Cell
Publisher
Elsevier BV
Published
2010-01
Volume
140
Issue
2
Pages
246-256
ISSN
0092-8674 (ISSN-L)
OpenAlex
W2160438933
Cited by
156
References
0
Citations by year
2026: 5 · 2025: 7 · 2024: 4 · 2023: 10 · 2022: 5 · 2021: 7 · 2020: 11 · 2019: 9 · 2018: 11 · 2017: 9 · 2016: 8 · 2015: 5 · 2014: 13 · 2013: 14 · 2012: 17
FWCI
6.31
Type
journal article
Language
en
Open access
Locations
  • Cell (publishedVersion)
  • PubMed (publishedVersion)
  • Europe PMC (PubMed Central) (acceptedVersion)
  • PubMed Central (acceptedVersion)
Funders
  • Howard Hughes Medical Institute
  • U.S. Department of Energy
  • Cancer Research Institute
  • Leukemia and Lymphoma Society
  • National Institutes of Health
  • National Cancer Institute (CA102721, P20CA102701, CA 136526, P50CA102701, R01CA136526)
  • National Institute of General Medical Sciences (GM066930, R01GM066930)
  • National Institute of Allergy and Infectious Diseases (AI065474, R01AI065474)
  • National Institute of Diabetes and Digestive and Kidney Diseases (P30DK084567)
Topics
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Protein Kinase Regulation and GTPase Signaling
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Protein Structure and Dynamics
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Receptor Mechanisms and Signaling
Keywords
Vav1, guanine nucleotide exchange factor, Rho GTPases, autoinhibition, cooperative activation, Dbl homology domain, calponin homology domain, pleckstrin homology domain, acidic domain, phosphorylation, protein structure
MeSH terms
Kinetics, Models, Molecular, Thermodynamics, Protein Structure, Tertiary, Crystallography, X-Ray, Proto-Oncogene Proteins c-vav

About these checks

Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.

Statistics and arithmetic are recomputed, not judged.

Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.

What counts as a claim ›How we measure confidence ›How we check this ›

Are you an author, or do you see a problem with this page? Request a review