2fmx: Difference between revisions

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==An open conformation of switch I revealed by Sar1-GDP crystal structure at low Mg(2+)==
==An open conformation of switch I revealed by Sar1-GDP crystal structure at low Mg(2+)==
<StructureSection load='2fmx' size='340' side='right' caption='[[2fmx]], [[Resolution|resolution]] 1.82&Aring;' scene=''>
<StructureSection load='2fmx' size='340' side='right'caption='[[2fmx]], [[Resolution|resolution]] 1.82&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[2fmx]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Cho_cell_lines Cho cell lines]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FMX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2FMX FirstGlance]. <br>
<table><tr><td colspan='2'>[[2fmx]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Cricetulus_griseus Cricetulus griseus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FMX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2FMX FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.82&#8491;</td></tr>
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[2fa9|2fa9]], [[1f6b|1f6b]]</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2fmx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fmx OCA], [http://pdbe.org/2fmx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2fmx RCSB], [http://www.ebi.ac.uk/pdbsum/2fmx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2fmx ProSAT]</span></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2fmx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fmx OCA], [https://pdbe.org/2fmx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2fmx RCSB], [https://www.ebi.ac.uk/pdbsum/2fmx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2fmx ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
[[http://www.uniprot.org/uniprot/SAR1B_CRIGR SAR1B_CRIGR]] Involved in transport from the endoplasmic reticulum to the Golgi apparatus. Activated by the guanine nucleotide exchange factor PREB. Involved in the selection of the protein cargo and the assembly of the COPII coat complex.<ref>PMID:8138575</ref> <ref>PMID:11149932</ref>
[https://www.uniprot.org/uniprot/SAR1B_CRIGR SAR1B_CRIGR] Involved in transport from the endoplasmic reticulum to the Golgi apparatus. Activated by the guanine nucleotide exchange factor PREB. Involved in the selection of the protein cargo and the assembly of the COPII coat complex.<ref>PMID:8138575</ref> <ref>PMID:11149932</ref>  
== Evolutionary Conservation ==
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
[[Image:Consurf_key_small.gif|200px|right]]
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</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=2fmx ConSurf].
</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=2fmx ConSurf].
<div style="clear:both"></div>
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Mg2+ is essential for guanosine triphosphatase activity and plays key roles in guanine nucleotide binding and preserving the structural integrity of GTP-binding proteins. To understand the structural basis for Mg2+ function during the GDP/GTP exchange process, we determined the crystal structure of Delta9-Sar1-GDP at low Mg2+ concentration at 1.8A. Two Sar1-GDP molecules in the crystal form a dimer with Mg2+ presenting only in molecule B but not in molecule A. The absence of Mg2+ induces significant conformational changes in the switch I region in molecule A that shows similarities with those of Ha-Ras bound to Sos. The current structure reveals an important regulatory role for Mg2+. We suggest that guanine nucleotide exchange factor may utilize this feature to generate an open conformation for GDP/GTP exchange. Furthermore, we propose a mechanism for COPII assembly and disassembly in which dimerization of Sar1 plays an important role.
An open conformation of switch I revealed by Sar1-GDP crystal structure at low Mg2+.,Rao Y, Bian C, Yuan C, Li Y, Chen L, Ye X, Huang Z, Huang M Biochem Biophys Res Commun. 2006 Sep 29;348(3):908-15. Epub 2006 Aug 1. PMID:16899220<ref>PMID:16899220</ref>
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 2fmx" style="background-color:#fffaf0;"></div>


==See Also==
==See Also==
*[[GTP-binding protein|GTP-binding protein]]
*[[GTP-binding protein 3D structures|GTP-binding protein 3D structures]]
== References ==
== References ==
<references/>
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Cho cell lines]]
[[Category: Cricetulus griseus]]
[[Category: Bian, C]]
[[Category: Large Structures]]
[[Category: Huang, M]]
[[Category: Bian C]]
[[Category: Li, Y]]
[[Category: Huang M]]
[[Category: Rao, Y]]
[[Category: Li Y]]
[[Category: Yuan, C]]
[[Category: Rao Y]]
[[Category: Cop ii assembly]]
[[Category: Yuan C]]
[[Category: Dimerization]]
[[Category: Protein transport]]
[[Category: Sar1]]

Latest revision as of 16:50, 13 March 2024

An open conformation of switch I revealed by Sar1-GDP crystal structure at low Mg(2+)An open conformation of switch I revealed by Sar1-GDP crystal structure at low Mg(2+)

Structural highlights

2fmx is a 2 chain structure with sequence from Cricetulus griseus. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 1.82Å
Ligands:, ,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

SAR1B_CRIGR Involved in transport from the endoplasmic reticulum to the Golgi apparatus. Activated by the guanine nucleotide exchange factor PREB. Involved in the selection of the protein cargo and the assembly of the COPII coat complex.[1] [2]

Evolutionary Conservation

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

See Also

References

  1. ↑ Kuge O, Dascher C, Orci L, Rowe T, Amherdt M, Plutner H, Ravazzola M, Tanigawa G, Rothman JE, Balch WE. Sar1 promotes vesicle budding from the endoplasmic reticulum but not Golgi compartments. J Cell Biol. 1994 Apr;125(1):51-65. PMID:8138575
  2. ↑ Aridor M, Fish KN, Bannykh S, Weissman J, Roberts TH, Lippincott-Schwartz J, Balch WE. The Sar1 GTPase coordinates biosynthetic cargo selection with endoplasmic reticulum export site assembly. J Cell Biol. 2001 Jan 8;152(1):213-29. PMID:11149932

2fmx, resolution 1.82Å

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