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| | <SX load='6uz7' size='340' side='right' viewer='molstar' caption='[[6uz7]], [[Resolution|resolution]] 3.60Å' scene=''> | | <SX load='6uz7' size='340' side='right' viewer='molstar' caption='[[6uz7]], [[Resolution|resolution]] 3.60Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[6uz7]] is a 83 chain structure with sequence from [http://en.wikipedia.org/wiki/Kluyveromyces_lactis Kluyveromyces lactis] and [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6UZ7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6UZ7 FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[6uz7]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Kluyveromyces_lactis Kluyveromyces lactis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6UZ7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6UZ7 FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GCP:PHOSPHOMETHYLPHOSPHONIC+ACID+GUANYLATE+ESTER'>GCP</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr> | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution|Resolution]] 3.6Å</td></tr> |
| - | <tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=UNK:UNKNOWN'>UNK</scene></td></tr> | + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GCP:PHOSPHOMETHYLPHOSPHONIC+ACID+GUANYLATE+ESTER'>GCP</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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=6uz7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6uz7 OCA], [http://pdbe.org/6uz7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6uz7 RCSB], [http://www.ebi.ac.uk/pdbsum/6uz7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6uz7 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=6uz7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6uz7 OCA], [https://pdbe.org/6uz7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6uz7 RCSB], [https://www.ebi.ac.uk/pdbsum/6uz7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6uz7 ProSAT]</span></td></tr> |
| | </table> | | </table> |
| | == Function == | | == Function == |
| - | [[http://www.uniprot.org/uniprot/RSSA_KLULA RSSA_KLULA]] Required for the assembly and/or stability of the 40S ribosomal subunit. Required for the processing of the 20S rRNA-precursor to mature 18S rRNA in a late step of the maturation of 40S ribosomal subunits. [[http://www.uniprot.org/uniprot/RS21_KLULA RS21_KLULA]] Required for the processing of the 20S rRNA-precursor to mature 18S rRNA in a late step of the maturation of 40S ribosomal subunits. Has a physiological role leading to 18S rRNA stability (By similarity). [[http://www.uniprot.org/uniprot/RS27A_KLULA RS27A_KLULA]] Ubiquitin exists either covalently attached to another protein, or free (unanchored). When covalently bound, it is conjugated to target proteins via an isopeptide bond either as a monomer (monoubiquitin), a polymer linked via different Lys residues of the ubiquitin (polyubiquitin chains) or a linear polymer linked via the initiator Met of the ubiquitin (linear polyubiquitin chains). Polyubiquitin chains, when attached to a target protein, have different functions depending on the Lys residue of the ubiquitin that is linked: Lys-6-linked may be involved in DNA repair; Lys-11-linked is involved in ERAD (endoplasmic reticulum-associated degradation) and in cell-cycle regulation; Lys-29-linked is involved in lysosomal degradation; Lys-33-linked is involved in kinase modification; Lys-48-linked is involved in protein degradation via the proteasome; Lys-63-linked is involved in endocytosis, and DNA-damage responses. Linear polymer chains formed via attachment by the initiator Met lead to cell signaling. Ubiquitin is usually conjugated to Lys residues of target proteins, however, in rare cases, conjugation to Cys or Ser residues has been observed. When polyubiquitin is free (unanchored-polyubiquitin), it also has distinct roles, such as in activation of protein kinases, and in signaling (By similarity). Ribosomal protein S27a is a component of the 40S subunit of the ribosome. [[http://www.uniprot.org/uniprot/Q6CW89_KLULA Q6CW89_KLULA]] Ribosomal protein P0 is the functional equivalent of E.coli protein L10.[PIRNR:PIRNR039087] [[http://www.uniprot.org/uniprot/Q6CUW0_KLULA Q6CUW0_KLULA]] Binds to the 23S rRNA.[RuleBase:RU000576] | + | [https://www.uniprot.org/uniprot/Q6CU17_KLULA Q6CU17_KLULA] |
| - | <div style="background-color:#fffaf0;">
| + | |
| - | == Publication Abstract from PubMed ==
| + | |
| - | Translation initiation controls protein synthesis by regulating the delivery of the first aminoacyl-tRNA to messenger RNAs (mRNAs). In eukaryotes, initiation is sophisticated, requiring dozens of protein factors and 2 GTP-regulated steps. The GTPase eIF5B gates progression to elongation during the second GTP-regulated step. Using electron cryomicroscopy (cryo-EM), we imaged an in vitro initiation reaction which is set up with purified yeast components and designed to stall with eIF5B and a nonhydrolyzable GTP analog. A high-resolution reconstruction of a "dead-end" intermediate at 3.6 A allowed us to visualize eIF5B in its ribosome-bound conformation. We identified a stretch of residues in eIF5B, located close to the gamma-phosphate of GTP and centered around the universally conserved tyrosine 837 (Saccharomyces cerevisiae numbering), that contacts the catalytic histidine of eIF5B (H480). Site-directed mutagenesis confirmed the essential role that these residues play in regulating ribosome binding, GTP hydrolysis, and translation initiation both in vitro and in vivo. Our results illustrate how eIF5B transmits the presence of a properly delivered initiator aminoacyl-tRNA at the P site to the distant GTPase center through interdomain communications and underscore the importance of the multidomain architecture in translation factors to sense and communicate ribosomal states.
| + | |
| | | | |
| - | Long-range interdomain communications in eIF5B regulate GTP hydrolysis and translation initiation.,Huang BY, Fernandez IS Proc Natl Acad Sci U S A. 2020 Jan 21;117(3):1429-1437. doi:, 10.1073/pnas.1916436117. Epub 2020 Jan 3. PMID:31900355<ref>PMID:31900355</ref>
| + | ==See Also== |
| - | | + | *[[Ribosome 3D structures|Ribosome 3D structures]] |
| - | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
| + | |
| - | </div>
| + | |
| - | <div class="pdbe-citations 6uz7" style="background-color:#fffaf0;"></div>
| + | |
| - | == References == | + | |
| - | <references/>
| + | |
| | __TOC__ | | __TOC__ |
| | </SX> | | </SX> |
| | [[Category: Kluyveromyces lactis]] | | [[Category: Kluyveromyces lactis]] |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Saccharomyces cerevisiae]]
| + | [[Category: Fernandez IS]] |
| - | [[Category: Fernandez, I S]] | + | [[Category: Huang BY]] |
| - | [[Category: Huang, B Y]] | + | |
| - | [[Category: Eif5b]]
| + | |
| - | [[Category: Initiation]]
| + | |
| - | [[Category: Ribosome]]
| + | |
| - | [[Category: Translation]]
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