2jph: Difference between revisions

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[[Image:2jph.png|left|200px]]


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==NMR solution structure of the Rho GTPase binding domain of human plexin-b1==
The line below this paragraph, containing "STRUCTURE_2jph", creates the "Structure Box" on the page.
<StructureSection load='2jph' size='340' side='right'caption='[[2jph]]' scene=''>
You may change the PDB parameter (which sets the PDB file loaded into the applet)
== Structural highlights ==
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
<table><tr><td colspan='2'>[[2jph]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2JPH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2JPH FirstGlance]. <br>
or leave the SCENE parameter empty for the default display.
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2jph FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2jph OCA], [https://pdbe.org/2jph PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2jph RCSB], [https://www.ebi.ac.uk/pdbsum/2jph PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2jph ProSAT]</span></td></tr>
{{STRUCTURE_2jph|  PDB=2jph  |  SCENE=  }}
</table>
== Function ==
[https://www.uniprot.org/uniprot/PLXB1_HUMAN PLXB1_HUMAN] Receptor for SEMA4D. Plays a role in RHOA activation and subsequent changes of the actin cytoskeleton. Plays a role in axon guidance, invasive growth and cell migration.<ref>PMID:12198496</ref> <ref>PMID:12196628</ref> <ref>PMID:15210733</ref> <ref>PMID:19843518</ref> <ref>PMID:20877282</ref> <ref>PMID:21912513</ref>
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
Check<jmol>
  <jmolCheckbox>
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/jp/2jph_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
    <text>to colour the structure by Evolutionary Conservation</text>
  </jmolCheckbox>
</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2jph ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The plexin family of transmembrane receptors are important for axon guidance, angiogenesis, but also in cancer. Recently, plexin-B1 somatic missense mutations were found in both primary tumors and metastases of breast and prostate cancers, with several mutations mapping to the Rho GTPase binding domain (RBD) in the cytoplasmic region of the receptor. Here we present the NMR solution structure of this domain, confirming that the protein has both a ubiquitin-like fold and surface features. Oncogenic mutations T1795A and T1802A are located in a loop region, perturb the average structure locally, and have no effect on Rho GTPase binding affinity. Mutations L1815F and L1815P are located at the Rho GTPase binding site and are associated with a complete loss of binding for Rac1 and Rnd1. Both are found to disturb the conformation of the beta3-beta4 sheet and the orientation of surrounding side chains. Our study suggests that the oncogenic behavior of the mutants can be rationalized with reference to the structure of the RBD of plexin-B1.


===NMR solution structure of the Rho GTPase binding domain of human plexin-b1===
Insights into oncogenic mutations of plexin-B1 based on the solution structure of the Rho GTPase binding domain.,Tong Y, Hota PK, Hamaneh MB, Buck M Structure. 2008 Feb;16(2):246-58. PMID:18275816<ref>PMID:18275816</ref>


From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 2jph" style="background-color:#fffaf0;"></div>


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==See Also==
The line below this paragraph, {{ABSTRACT_PUBMED_18275816}}, adds the Publication Abstract to the page
*[[Plexin 3D structures|Plexin 3D structures]]
(as it appears on PubMed at http://www.pubmed.gov), where 18275816 is the PubMed ID number.
== References ==
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<references/>
{{ABSTRACT_PUBMED_18275816}}
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</StructureSection>
==About this Structure==
2JPH is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2JPH OCA].
 
==Reference==
Insights into oncogenic mutations of plexin-B1 based on the solution structure of the Rho GTPase binding domain., Tong Y, Hota PK, Hamaneh MB, Buck M, Structure. 2008 Feb;16(2):246-58. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/18275816 18275816]
 
When monomers are preferred: a strategy for the identification and disruption of weakly oligomerized proteins., Tong Y, Hughes D, Placanica L, Buck M, Structure. 2005 Jan;13(1):7-15. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15642257 15642257]
 
1H, 15N and 13C Resonance assignments and secondary structure determination reveal that the minimal Rac1 GTPase binding domain of plexin-B1 has a ubiquitin fold., Tong Y, Buck M, J Biomol NMR. 2005 Apr;31(4):369-70. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15929008 15929008]
 
The Semaphorin 4D receptor Plexin-B1 is a GTPase activating protein for R-Ras., Oinuma I, Ishikawa Y, Katoh H, Negishi M, Science. 2004 Aug 6;305(5685):862-5. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15297673 15297673]
 
The semaphorin receptor plexin-B1 specifically interacts with active Rac in a ligand-dependent manner., Vikis HG, Li W, He Z, Guan KL, Proc Natl Acad Sci U S A. 2000 Nov 7;97(23):12457-62. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/11035813 11035813]
 
Plexin-B semaphorin receptors interact directly with active Rac and regulate the actin cytoskeleton by activating Rho., Driessens MH, Hu H, Nobes CD, Self A, Jordens I, Goodman CS, Hall A, Curr Biol. 2001 Mar 6;11(5):339-44. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/11267870 11267870]
 
Binding of Rac1, Rnd1, and RhoD to a novel Rho GTPase interaction motif destabilizes dimerization of the plexin-B1 effector domain., Tong Y, Chugha P, Hota PK, Alviani RS, Li M, Tempel W, Shen L, Park HW, Buck M, J Biol Chem. 2007 Dec 21;282(51):37215-24. Epub 2007 Oct 4. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/17916560 17916560]
[[Category: Homo sapiens]]
[[Category: Homo sapiens]]
[[Category: Single protein]]
[[Category: Large Structures]]
[[Category: Buck, M.]]
[[Category: Buck M]]
[[Category: Tong, Y.]]
[[Category: Tong Y]]
[[Category: Protein]]
[[Category: Protein binding]]
[[Category: Signaling protein]]
[[Category: Ubiquitin fold]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 29 05:51:53 2008''

Latest revision as of 13:10, 20 December 2023

NMR solution structure of the Rho GTPase binding domain of human plexin-b1NMR solution structure of the Rho GTPase binding domain of human plexin-b1

Structural highlights

2jph is a 1 chain structure with sequence from Homo sapiens. Full experimental information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:Solution NMR
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

PLXB1_HUMAN Receptor for SEMA4D. Plays a role in RHOA activation and subsequent changes of the actin cytoskeleton. Plays a role in axon guidance, invasive growth and cell migration.[1] [2] [3] [4] [5] [6]

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

Publication Abstract from PubMed

The plexin family of transmembrane receptors are important for axon guidance, angiogenesis, but also in cancer. Recently, plexin-B1 somatic missense mutations were found in both primary tumors and metastases of breast and prostate cancers, with several mutations mapping to the Rho GTPase binding domain (RBD) in the cytoplasmic region of the receptor. Here we present the NMR solution structure of this domain, confirming that the protein has both a ubiquitin-like fold and surface features. Oncogenic mutations T1795A and T1802A are located in a loop region, perturb the average structure locally, and have no effect on Rho GTPase binding affinity. Mutations L1815F and L1815P are located at the Rho GTPase binding site and are associated with a complete loss of binding for Rac1 and Rnd1. Both are found to disturb the conformation of the beta3-beta4 sheet and the orientation of surrounding side chains. Our study suggests that the oncogenic behavior of the mutants can be rationalized with reference to the structure of the RBD of plexin-B1.

Insights into oncogenic mutations of plexin-B1 based on the solution structure of the Rho GTPase binding domain.,Tong Y, Hota PK, Hamaneh MB, Buck M Structure. 2008 Feb;16(2):246-58. PMID:18275816[7]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

See Also

References

  1. ↑ Giordano S, Corso S, Conrotto P, Artigiani S, Gilestro G, Barberis D, Tamagnone L, Comoglio PM. The semaphorin 4D receptor controls invasive growth by coupling with Met. Nat Cell Biol. 2002 Sep;4(9):720-4. PMID:12198496 doi:10.1038/ncb843
  2. ↑ Aurandt J, Vikis HG, Gutkind JS, Ahn N, Guan KL. The semaphorin receptor plexin-B1 signals through a direct interaction with the Rho-specific nucleotide exchange factor, LARG. Proc Natl Acad Sci U S A. 2002 Sep 17;99(19):12085-90. Epub 2002 Aug 26. PMID:12196628 doi:10.1073/pnas.142433199
  3. ↑ Swiercz JM, Kuner R, Offermanns S. Plexin-B1/RhoGEF-mediated RhoA activation involves the receptor tyrosine kinase ErbB-2. J Cell Biol. 2004 Jun 21;165(6):869-80. PMID:15210733 doi:10.1083/jcb.200312094
  4. ↑ Tong Y, Hota PK, Penachioni JY, Hamaneh MB, Kim S, Alviani RS, Shen L, He H, Tempel W, Tamagnone L, Park HW, Buck M. Structure and function of the intracellular region of the plexin-b1 transmembrane receptor. J Biol Chem. 2009 Dec 18;284(51):35962-72. Epub . PMID:19843518 doi:10.1074/jbc.M109.056275
  5. ↑ Janssen BJ, Robinson RA, Perez-Branguli F, Bell CH, Mitchell KJ, Siebold C, Jones EY. Structural basis of semaphorin-plexin signalling. Nature. 2010 Sep 26. PMID:20877282 doi:10.1038/nature09468
  6. ↑ Bell CH, Aricescu AR, Jones EY, Siebold C. A Dual Binding Mode for RhoGTPases in Plexin Signalling. PLoS Biol. 2011 Aug;9(8):e1001134. Epub 2011 Aug 30. PMID:21912513 doi:10.1371/journal.pbio.1001134
  7. ↑ Tong Y, Hota PK, Hamaneh MB, Buck M. Insights into oncogenic mutations of plexin-B1 based on the solution structure of the Rho GTPase binding domain. Structure. 2008 Feb;16(2):246-58. PMID:18275816 doi:10.1016/j.str.2007.12.012
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