2y8e

From Proteopedia

(Difference between revisions)

Revision as of 12:24, 27 April 2022

Crystal structure of D. melanogaster Rab6 GTPase bound to GMPPNP

Structural highlights

2y8e is a 2 chain structure with sequence from Drome. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:	, ,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[RAB6_DROME] Protein transport. Regulator of membrane traffic from the Golgi apparatus towards the endoplasmic reticulum (ER). Mediates membrane trafficking during egg chamber growth and organization, possibly upstream of exocyst component sec5. Also during oogenesis, plays a role, together with BicD but independently of sec5, in the polarization of the oocyte microtubule cytoskeleton, in the localization of oskar mRNA and in the anterodorsal secretion of grk. Required for anterograde opsin transport through the ER-Golgi complex. Plays a role, together with Rich, in regulating CadN transport in photoreceptor cells which is required for the formation of normal synaptic connections between axons from the inner photoreceptor cells in the eye and postsynaptic cells in the brain medulla layer M6. Necessary for proper development of bristle shafts of macrochaete and microchaete on the head, thorax and scutellum. Modulates Notch signaling. As a key regulator of vesicular traffic, plays a critical role in the regulation of actin organization and is required for normal rates of phagocytic uptake during phagocytosis involved in defense against viral and fungal infection.^[1] ^[2] ^[3] ^[4] ^[5] ^[6] ^[7]

Publication Abstract from PubMed

Rab6 is a small GTPase that belongs to the p21 Ras superfamily. It is involved in vesicle trafficking between the Golgi apparatus and endosomes/ER in eukaryotes. The GDP-bound inactive protein undergoes conformational changes when the nucleotide is exchanged to GTP, allowing Rab6 to interact with a variety of different effector proteins. To further understand how these changes affect downstream protein binding, the crystal structure of Rab6 from Drosophila melanogaster has been solved to 1.4 A resolution, the highest resolution for a Rab6 structure to date. The crystals belonged to space group C2, with unit-cell parameters a = 116.5, b = 42.71, c = 86.86 A, alpha = 90, beta = 133.12, gamma = 90 degrees . The model was refined to an R factor of 14.5% and an R(free) of 17.3%.

Structure of the Drosophila melanogaster Rab6 GTPase at 1.4 A resolution.,Walden M, Jenkins HT, Edwards TA Acta Crystallogr Sect F Struct Biol Cryst Commun. 2011 Jul 1;67(Pt, 7):744-8. Epub 2011 Jun 23. PMID:21795785^[8]

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

References

↑ Purcell K, Artavanis-Tsakonas S. The developmental role of warthog, the notch modifier encoding Drab6. J Cell Biol. 1999 Aug 23;146(4):731-40. PMID:10459009
↑ Coutelis JB, Ephrussi A. Rab6 mediates membrane organization and determinant localization during Drosophila oogenesis. Development. 2007 Apr;134(7):1419-30. Epub 2007 Feb 28. PMID:17329360 doi:http://dx.doi.org/10.1242/dev.02821
↑ Januschke J, Nicolas E, Compagnon J, Formstecher E, Goud B, Guichet A. Rab6 and the secretory pathway affect oocyte polarity in Drosophila. Development. 2007 Oct;134(19):3419-25. PMID:17827179 doi:http://dx.doi.org/10.1242/dev.008078
↑ Jin LH, Shim J, Yoon JS, Kim B, Kim J, Kim-Ha J, Kim YJ. Identification and functional analysis of antifungal immune response genes in Drosophila. PLoS Pathog. 2008 Oct 3;4(10):e1000168. doi: 10.1371/journal.ppat.1000168. PMID:18833296 doi:http://dx.doi.org/10.1371/journal.ppat.1000168
↑ Tong C, Ohyama T, Tien AC, Rajan A, Haueter CM, Bellen HJ. Rich regulates target specificity of photoreceptor cells and N-cadherin trafficking in the Drosophila visual system via Rab6. Neuron. 2011 Aug 11;71(3):447-59. doi: 10.1016/j.neuron.2011.06.040. PMID:21835342 doi:http://dx.doi.org/10.1016/j.neuron.2011.06.040
↑ Ye T, Tang W, Zhang X. Involvement of Rab6 in the regulation of phagocytosis against virus infection in invertebrates. J Proteome Res. 2012 Oct 5;11(10):4834-46. doi: 10.1021/pr300274k. Epub 2012 Sep , 12. PMID:22928698 doi:http://dx.doi.org/10.1021/pr300274k
↑ Shetty KM, Kurada P, O'Tousa JE. Rab6 regulation of rhodopsin transport in Drosophila. J Biol Chem. 1998 Aug 7;273(32):20425-30. PMID:9685396
↑ Walden M, Jenkins HT, Edwards TA. Structure of the Drosophila melanogaster Rab6 GTPase at 1.4 A resolution. Acta Crystallogr Sect F Struct Biol Cryst Commun. 2011 Jul 1;67(Pt, 7):744-8. Epub 2011 Jun 23. PMID:21795785 doi:10.1107/S1744309111017453

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 See Also
5 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/2y8e"

@@ Line 3: / Line 3: @@
 <StructureSection load='2y8e' size='340' side='right'caption='[[2y8e]], [[Resolution|resolution]] 1.39&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[2y8e]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Drome Drome]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Y8E OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2Y8E FirstGlance]. <br>
+<table><tr><td colspan='2'>[[2y8e]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Drome Drome]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Y8E OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2Y8E FirstGlance]. <br>
 </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GNP:PHOSPHOAMINOPHOSPHONIC+ACID-GUANYLATE+ESTER'>GNP</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://proteopedia.org/fgij/fg.htm?mol=2y8e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2y8e OCA], [http://pdbe.org/2y8e PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2y8e RCSB], [http://www.ebi.ac.uk/pdbsum/2y8e PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2y8e 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=2y8e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2y8e OCA], [https://pdbe.org/2y8e PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2y8e RCSB], [https://www.ebi.ac.uk/pdbsum/2y8e PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2y8e ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/RAB6_DROME RAB6_DROME]] Protein transport. Regulator of membrane traffic from the Golgi apparatus towards the endoplasmic reticulum (ER). Mediates membrane trafficking during egg chamber growth and organization, possibly upstream of exocyst component sec5. Also during oogenesis, plays a role, together with BicD but independently of sec5, in the polarization of the oocyte microtubule cytoskeleton, in the localization of oskar mRNA and in the anterodorsal secretion of grk. Required for anterograde opsin transport through the ER-Golgi complex. Plays a role, together with Rich, in regulating CadN transport in photoreceptor cells which is required for the formation of normal synaptic connections between axons from the inner photoreceptor cells in the eye and postsynaptic cells in the brain medulla layer M6. Necessary for proper development of bristle shafts of macrochaete and microchaete on the head, thorax and scutellum. Modulates Notch signaling. As a key regulator of vesicular traffic, plays a critical role in the regulation of actin organization and is required for normal rates of phagocytic uptake during phagocytosis involved in defense against viral and fungal infection.<ref>PMID:10459009</ref> <ref>PMID:17329360</ref> <ref>PMID:17827179</ref> <ref>PMID:18833296</ref> <ref>PMID:21835342</ref> <ref>PMID:22928698</ref> <ref>PMID:9685396</ref>
+[[https://www.uniprot.org/uniprot/RAB6_DROME RAB6_DROME]] Protein transport. Regulator of membrane traffic from the Golgi apparatus towards the endoplasmic reticulum (ER). Mediates membrane trafficking during egg chamber growth and organization, possibly upstream of exocyst component sec5. Also during oogenesis, plays a role, together with BicD but independently of sec5, in the polarization of the oocyte microtubule cytoskeleton, in the localization of oskar mRNA and in the anterodorsal secretion of grk. Required for anterograde opsin transport through the ER-Golgi complex. Plays a role, together with Rich, in regulating CadN transport in photoreceptor cells which is required for the formation of normal synaptic connections between axons from the inner photoreceptor cells in the eye and postsynaptic cells in the brain medulla layer M6. Necessary for proper development of bristle shafts of macrochaete and microchaete on the head, thorax and scutellum. Modulates Notch signaling. As a key regulator of vesicular traffic, plays a critical role in the regulation of actin organization and is required for normal rates of phagocytic uptake during phagocytosis involved in defense against viral and fungal infection.<ref>PMID:10459009</ref> <ref>PMID:17329360</ref> <ref>PMID:17827179</ref> <ref>PMID:18833296</ref> <ref>PMID:21835342</ref> <ref>PMID:22928698</ref> <ref>PMID:9685396</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 18: / Line 18: @@
 </div>
 <div class="pdbe-citations 2y8e" style="background-color:#fffaf0;"></div>
+==See Also==
+*[[Ras-related protein Rab 3D structures|Ras-related protein Rab 3D structures]]
 == References ==
 <references/>

2y8e

From Proteopedia

Revision as of 12:24, 27 April 2022

Crystal structure of D. melanogaster Rab6 GTPase bound to GMPPNP

Structural highlights

Function

Publication Abstract from PubMed

See Also

References

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