4ujd: Difference between revisions

Latest revision as of 11:28, 22 March 2023

mammalian 80S HCV-IRES initiation complex with eIF5B PRE-like statemammalian 80S HCV-IRES initiation complex with eIF5B PRE-like state

4ujd, resolution 8.90Å

Structural highlights

4ujd is a 10 chain structure with sequence from Oryctolagus cuniculus. This structure supersedes the now removed PDB entries 4upw, 4upx, 4upy and 4uq5. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:
Experimental data:	Check
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Publication Abstract from PubMed

The universally conserved eukaryotic initiation factor (eIF) 5B, a translational GTPase, is essential for canonical translation initiation. It is also required for initiation facilitated by the internal ribosomal entry site (IRES) of hepatitis C virus (HCV) RNA. eIF5B promotes joining of 60S ribosomal subunits to 40S ribosomal subunits bound by initiator tRNA (Met-tRNAiMet). However, the exact molecular mechanism by which eIF5B acts has not been established. Here we present cryo-EM reconstructions of the mammalian 80S-HCV-IRES-Met-tRNAiMet-eIF5B-GMPPNP complex. We obtained two substates distinguished by the rotational state of the ribosomal subunits and the configuration of initiator tRNA in the peptidyl (P) site. Accordingly, a combination of conformational changes in the 80S ribosome and in initiator tRNA facilitates binding of the Met-tRNAiMet to the 60S P site and redefines the role of eIF5B as a tRNA-reorientation factor.

Structure of the mammalian 80S initiation complex with initiation factor 5B on HCV-IRES RNA.,Yamamoto H, Unbehaun A, Loerke J, Behrmann E, Collier M, Burger J, Mielke T, Spahn CM Nat Struct Mol Biol. 2014 Aug;21(8):721-727. doi: 10.1038/nsmb.2859. Epub 2014, Jul 27. PMID:25064512^[1]

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

References

↑ Yamamoto H, Unbehaun A, Loerke J, Behrmann E, Collier M, Burger J, Mielke T, Spahn CM. Structure of the mammalian 80S initiation complex with initiation factor 5B on HCV-IRES RNA. Nat Struct Mol Biol. 2014 Aug;21(8):721-727. doi: 10.1038/nsmb.2859. Epub 2014, Jul 27. PMID:25064512 doi:http://dx.doi.org/10.1038/nsmb.2859

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OCA

[1] Yamamoto H, Unbehaun A, Loerke J, Behrmann E, Collier M, Burger J, Mielke T, Spahn CM. Structure of the mammalian 80S initiation complex with initiation factor 5B on HCV-IRES RNA. Nat Struct Mol Biol. 2014 Aug;21(8):721-727. doi: 10.1038/nsmb.2859. Epub 2014, Jul 27. PMID:25064512 doi:http://dx.doi.org/10.1038/nsmb.2859

[1]

@@ Line 3: / Line 3: @@
 <SX load='4ujd' size='340' side='right' viewer='molstar' caption='[[4ujd]], [[Resolution|resolution]] 8.90&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4ujd]] is a 83 chain structure with sequence from [http://en.wikipedia.org/wiki/Hepatitis_c_virus Hepatitis c virus] and [http://en.wikipedia.org/wiki/Oryctolagus_cuniculus Oryctolagus cuniculus]. This structure supersedes the now removed PDB entries [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4upw 4upw], [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4upx 4upx], [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4upy 4upy] and [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4uq5 4uq5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UJD OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=4UJD FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4ujd]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Oryctolagus_cuniculus Oryctolagus cuniculus]. This structure supersedes the now removed PDB entries [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4upw 4upw], [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4upx 4upx], [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4upy 4upy] and [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4uq5 4uq5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UJD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4UJD 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></td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4upz|4upz]], [[4uq0|4uq0]], [[4uq1|4uq1]], [[4uq4|4uq4]]</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=4ujd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ujd OCA], [https://pdbe.org/4ujd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ujd RCSB], [https://www.ebi.ac.uk/pdbsum/4ujd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ujd ProSAT]</span></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=4ujd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ujd OCA], [http://pdbe.org/4ujd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4ujd RCSB], [http://www.ebi.ac.uk/pdbsum/4ujd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4ujd ProSAT]</span></td></tr>
 </table>
 <div style="background-color:#fffaf0;">
@@ Line 19: / Line 18: @@
 ==See Also==
-*[[Receptor for activated protein kinase C 1|Receptor for activated protein kinase C 1]]
 *[[Transfer RNA (tRNA)|Transfer RNA (tRNA)]]
+*[[3D sructureseceptor for activated protein kinase C 1|3D sructureseceptor for activated protein kinase C 1]]
 == References ==
 <references/>
 __TOC__
 </SX>
-[[Category: Hepatitis c virus]]
 [[Category: Large Structures]]
 [[Category: Oryctolagus cuniculus]]
-[[Category: Behrmann, E]]
+[[Category: Behrmann E]]
-[[Category: Burger, J]]
+[[Category: Burger J]]
-[[Category: Loerke, J]]
+[[Category: Loerke J]]
-[[Category: Marianne, C]]
+[[Category: Marianne C]]
-[[Category: Mielke, T]]
+[[Category: Mielke T]]
-[[Category: Spahn, C M.T]]
+[[Category: Spahn CMT]]
-[[Category: Unbehaun, A]]
+[[Category: Unbehaun A]]
-[[Category: Yamamoto, H]]
+[[Category: Yamamoto H]]
-[[Category: Eukaryotic initiation factor 5b]]
-[[Category: Hepatitis c virus internal ribosome entry site]]
-[[Category: Ribosome]]
-[[Category: Translation initiation]]

4ujd: Difference between revisions

Latest revision as of 11:28, 22 March 2023

mammalian 80S HCV-IRES initiation complex with eIF5B PRE-like statemammalian 80S HCV-IRES initiation complex with eIF5B PRE-like state

Structural highlights

Publication Abstract from PubMed

See Also

References

Contents

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4ujd: Difference between revisions

Latest revision as of 11:28, 22 March 2023

mammalian 80S HCV-IRES initiation complex with eIF5B PRE-like statemammalian 80S HCV-IRES initiation complex with eIF5B PRE-like state

Structural highlights

Publication Abstract from PubMed

See Also

References

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

Navigation menu

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