5h0q

From Proteopedia

(Difference between revisions)

Revision as of 11:48, 2 August 2023

Crystal structure of lipid binding protein Nakanori at 1.5A

Structural highlights

5h0q is a 1 chain structure with sequence from Grifola frondosa. This structure supersedes the now removed PDB entry 5gnn. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 1.501Å
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

A0A1D5B380_GRIFR

Publication Abstract from PubMed

We identified a novel, nontoxic mushroom protein that specifically binds to a complex of sphingomyelin (SM), a major sphingolipid in mammalian cells, and cholesterol (Chol). The purified protein, termed nakanori, labeled cell surface domains in an SM- and Chol-dependent manner and decorated specific lipid domains that colocalized with inner leaflet small GTPase H-Ras, but not K-Ras. The use of nakanori as a lipid-domain-specific probe revealed altered distribution and dynamics of SM/Chol on the cell surface of Niemann-Pick type C fibroblasts, possibly explaining some of the disease phenotype. In addition, that nakanori treatment of epithelial cells after influenza virus infection potently inhibited virus release demonstrates the therapeutic value of targeting specific lipid domains for anti-viral treatment.-Makino, A., Abe, M., Ishitsuka, R., Murate, M., Kishimoto, T., Sakai, S., Hullin-Matsuda, F., Shimada, Y., Inaba, T., Miyatake, H., Tanaka, H., Kurahashi, A., Pack, C.-G., Kasai, R. S., Kubo, S., Schieber, N. L., Dohmae, N., Tochio, N., Hagiwara, K., Sasaki, Y., Aida, Y., Fujimori, F., Kigawa, T., Nishibori, K., Parton, R. G., Kusumi, A., Sako, Y., Anderluh G., Yamashita, M., Kobayashi, Te., Greimel, P., Kobayashi, To. A novel sphingomyelin/cholesterol domain-specific probe reveals the dynamics of the membrane domains during virus release and in Niemann-Pick type C.

A novel sphingomyelin/cholesterol domain-specific probe reveals the dynamics of the membrane domains during virus release and in Niemann-Pick type C.,Makino A, Abe M, Ishitsuka R, Murate M, Kishimoto T, Sakai S, Hullin-Matsuda F, Shimada Y, Inaba T, Miyatake H, Tanaka H, Kurahashi A, Pack CG, Kasai RS, Kubo S, Schieber NL, Dohmae N, Tochio N, Hagiwara K, Sasaki Y, Aida Y, Fujimori F, Kigawa T, Nishibori K, Parton RG, Kusumi A, Sako Y, Anderluh G, Yamashita M, Kobayashi T, Greimel P, Kobayashi T FASEB J. 2016 Aug 4. pii: fj.201500075R. PMID:27492925^[1]

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

References

↑ Makino A, Abe M, Ishitsuka R, Murate M, Kishimoto T, Sakai S, Hullin-Matsuda F, Shimada Y, Inaba T, Miyatake H, Tanaka H, Kurahashi A, Pack CG, Kasai RS, Kubo S, Schieber NL, Dohmae N, Tochio N, Hagiwara K, Sasaki Y, Aida Y, Fujimori F, Kigawa T, Nishibori K, Parton RG, Kusumi A, Sako Y, Anderluh G, Yamashita M, Kobayashi T, Greimel P, Kobayashi T. A novel sphingomyelin/cholesterol domain-specific probe reveals the dynamics of the membrane domains during virus release and in Niemann-Pick type C. FASEB J. 2016 Aug 4. pii: fj.201500075R. PMID:27492925 doi:http://dx.doi.org/10.1096/fj.201500075R

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

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/5h0q"

@@ Line 3: / Line 3: @@
 <StructureSection load='5h0q' size='340' side='right'caption='[[5h0q]], [[Resolution|resolution]] 1.50&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[5h0q]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Grifr Grifr]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=5gnn 5gnn]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5H0Q OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5H0Q FirstGlance]. <br>
+<table><tr><td colspan='2'>[[5h0q]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Grifola_frondosa Grifola frondosa]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=5gnn 5gnn]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5H0Q OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5H0Q FirstGlance]. <br>
-</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=5h0q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h0q OCA], [http://pdbe.org/5h0q PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5h0q RCSB], [http://www.ebi.ac.uk/pdbsum/5h0q PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5h0q ProSAT]</span></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]] 1.501&#8491;</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=5h0q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h0q OCA], [https://pdbe.org/5h0q PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5h0q RCSB], [https://www.ebi.ac.uk/pdbsum/5h0q PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5h0q ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/A0A1D5B380_GRIFR A0A1D5B380_GRIFR]
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 19: / Line 22: @@
 __TOC__
 </StructureSection>
-[[Category: Grifr]]
+[[Category: Grifola frondosa]]
 [[Category: Large Structures]]
-[[Category: Abe, M]]
+[[Category: Abe M]]
-[[Category: Aida, Y]]
+[[Category: Aida Y]]
-[[Category: Anderluh, G]]
+[[Category: Anderluh G]]
-[[Category: Dohmae, N]]
+[[Category: Dohmae N]]
-[[Category: Fujimori, F]]
+[[Category: Fujimori F]]
-[[Category: Greimel, P]]
+[[Category: Greimel P]]
-[[Category: Hagiwara, K]]
+[[Category: Hagiwara K]]
-[[Category: Hullin-Matsuda, F]]
+[[Category: Hullin-Matsuda F]]
-[[Category: Inaba, T]]
+[[Category: Inaba T]]
-[[Category: Ishitsuka, R]]
+[[Category: Ishitsuka R]]
-[[Category: Kasai, R S]]
+[[Category: Kasai RS]]
-[[Category: Kigawa, T]]
+[[Category: Kigawa T]]
-[[Category: Kishimoto, T]]
+[[Category: Kishimoto T]]
-[[Category: Kobayashi, T]]
+[[Category: Kobayashi T]]
-[[Category: Kubo, S]]
+[[Category: Kubo S]]
-[[Category: Kurahashi, A]]
+[[Category: Kurahashi A]]
-[[Category: Kusumi, A]]
+[[Category: Kusumi A]]
-[[Category: Makino, A]]
+[[Category: Makino A]]
-[[Category: Miyatake, H]]
+[[Category: Miyatake H]]
-[[Category: Murate, M]]
+[[Category: Murate M]]
-[[Category: Nishikori, K]]
+[[Category: Nishikori K]]
-[[Category: Pack, C G]]
+[[Category: Pack CG]]
-[[Category: Parton, R G]]
+[[Category: Parton RG]]
-[[Category: Sakai, S]]
+[[Category: Sakai S]]
-[[Category: Sako, Y]]
+[[Category: Sako Y]]
-[[Category: Sasaki, Y]]
+[[Category: Sasaki Y]]
-[[Category: Schieber, N L]]
+[[Category: Schieber NL]]
-[[Category: Shimada, Y]]
+[[Category: Shimada Y]]
-[[Category: Tanaka, H]]
+[[Category: Tanaka H]]
-[[Category: Tochio, N]]
+[[Category: Tochio N]]
-[[Category: Yamashita, M]]
+[[Category: Yamashita M]]
-[[Category: Cholesterol]]
-[[Category: Lipid binding protein]]
-[[Category: Sphingomyelin]]

5h0q

From Proteopedia

Revision as of 11:48, 2 August 2023

Crystal structure of lipid binding protein Nakanori at 1.5A

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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