4wf9 - Revision history

OCA at 10:42, 10 January 2024

OCA — Wed, 10 Jan 2024 10:42:30 GMT

←Older revision		Revision as of 10:42, 10 January 2024
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4wf9]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Staphylococcus_aureus_subsp._aureus_NCTC_8325 Staphylococcus aureus subsp. aureus NCTC 8325]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4WF9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4WF9 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4wf9]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Staphylococcus_aureus_subsp._aureus_NCTC_8325 Staphylococcus aureus subsp. aureus NCTC 8325]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4WF9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4WF9 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EOH:ETHANOL'>EOH</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=SPD:SPERMIDINE'>SPD</scene>, <scene name='pdbligand=TEL:TELITHROMYCIN'>TEL</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]] 3.427Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EOH:ETHANOL'>EOH</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=SPD:SPERMIDINE'>SPD</scene>, <scene name='pdbligand=TEL:TELITHROMYCIN'>TEL</scene></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=4wf9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4wf9 OCA], [https://pdbe.org/4wf9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4wf9 RCSB], [https://www.ebi.ac.uk/pdbsum/4wf9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4wf9 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=4wf9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4wf9 OCA], [https://pdbe.org/4wf9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4wf9 RCSB], [https://www.ebi.ac.uk/pdbsum/4wf9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4wf9 ProSAT]</span></td></tr>
	</table>		</table>

OCA at 07:05, 7 April 2023

OCA — Fri, 07 Apr 2023 07:05:51 GMT

←Older revision		Revision as of 07:05, 7 April 2023
Line 3:		Line 3:
	<StructureSection load='4wf9' size='340' side='right'caption='[[4wf9]], [[Resolution\|resolution]] 3.43Å' scene=''>		<StructureSection load='4wf9' size='340' side='right'caption='[[4wf9]], [[Resolution\|resolution]] 3.43Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4wf9]] is a 26 chain structure with sequence from [~~http://en.wikipedia.org/wiki/Staa3 Staa3], [http://en.wikipedia.org/wiki/Staa8 Staa8] and [http~~://en.wikipedia.org/wiki/Staphylococcus_aureus_subsp.~~_aureus_nctc_8325~~ Staphylococcus aureus subsp. aureus ~~nctc~~ 8325]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4WF9 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4WF9 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4wf9]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Staphylococcus_aureus_subsp._aureus_NCTC_8325 Staphylococcus aureus subsp. aureus NCTC 8325]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4WF9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4WF9 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EOH:ETHANOL'>EOH</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=SPD:SPERMIDINE'>SPD</scene>, <scene name='pdbligand=TEL:TELITHROMYCIN'>TEL</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EOH:ETHANOL'>EOH</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=SPD:SPERMIDINE'>SPD</scene>, <scene name='pdbligand=TEL:TELITHROMYCIN'>TEL</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4wce\|4wce]], [[4wfa\|4wfa]], [[4wfb\|4wfb]]~~</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=4wf9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4wf9 OCA], [https://pdbe.org/4wf9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4wf9 RCSB], [https://www.ebi.ac.uk/pdbsum/4wf9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4wf9 ProSAT]</span></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=4wf9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4wf9 OCA], [~~http~~://pdbe.org/4wf9 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4wf9 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4wf9 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4wf9 ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[[http://www.uniprot.org/uniprot/RL16_STAA8 RL16_STAA8]] Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs. [[http://www.uniprot.org/uniprot/RL6_STAA8 RL6_STAA8]] This protein binds to the 23S rRNA, and is important in its secondary structure. It is located near the subunit interface in the base of the L7/L12 stalk, and near the tRNA binding site of the peptidyltransferase center. [[http://www.uniprot.org/uniprot/RL22_STAA8 RL22_STAA8]] This protein binds specifically to 23S rRNA; its binding is stimulated by other ribosomal proteins, e.g. L4, L17, and L20. It is important during the early stages of 50S assembly. It makes multiple contacts with different domains of the 23S rRNA in the assembled 50S subunit and ribosome (By similarity). The globular domain of the protein is located near the polypeptide exit tunnel on the outside of the subunit, while an extended beta-hairpin is found that lines the wall of the exit tunnel in the center of the 70S ribosome. [[http://www.uniprot.org/uniprot/RL23_STAA8 RL23_STAA8]] One of the early assembly proteins it binds 23S rRNA. One of the proteins that surrounds the polypeptide exit tunnel on the outside of the ribosome. Forms the main docking site for trigger factor binding to the ribosome. [[http://www.uniprot.org/uniprot/RL21_STAA8 RL21_STAA8]] This protein binds to 23S rRNA in the presence of protein L20. [[http://www.uniprot.org/uniprot/RL18_STAA8 RL18_STAA8]] This is one of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance. [[http://www.uniprot.org/uniprot/RL5_STAA8 RL5_STAA8]] This is 1 of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance. In the 70S ribosome it contacts protein S13 of the 30S subunit (bridge B1b), connecting the 2 subunits; this bridge is implicated in subunit movement. Contacts the P site tRNA; the 5S rRNA and some of its associated proteins might help stabilize positioning of ribosome-bound tRNAs. [[http://www.uniprot.org/uniprot/RL2_STAA8 RL2_STAA8]] One of the primary rRNA binding proteins. Required for association of the 30S and 50S subunits to form the 70S ribosome, for tRNA binding and peptide bond formation. It has been suggested to have peptidyltransferase activity; this is somewhat controversial. Makes several contacts with the 16S rRNA in the 70S ribosome. [[http://www.uniprot.org/uniprot/RL14_STAA8 RL14_STAA8]] Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome. [[http://www.uniprot.org/uniprot/RL25_STAA3 RL25_STAA3]] This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance. [[http://www.uniprot.org/uniprot/RL19_STAA8 RL19_STAA8]] This protein is located at the 30S-50S ribosomal subunit interface and may play a role in the structure and function of the aminoacyl-tRNA binding site. [[http://www.uniprot.org/uniprot/RL20_STAA8 RL20_STAA8]] Binds directly to 23S ribosomal RNA and is necessary for the in vitro assembly process of the 50S ribosomal subunit. It is not involved in the protein synthesizing functions of that subunit. [[http://www.uniprot.org/uniprot/RL13_STAA8 RL13_STAA8]] This protein is one of the early assembly proteins of the 50S ribosomal subunit, although it is not seen to bind rRNA by itself. It is important during the early stages of 50S assembly. [[http://www.uniprot.org/uniprot/RL3_STAA8 RL3_STAA8]] One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit. [[http://www.uniprot.org/uniprot/RL24_STAA8 RL24_STAA8]] One of two assembly initiator proteins, it binds directly to the 5'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit. One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit. [[http://www.uniprot.org/uniprot/RL15_STAA8 RL15_STAA8]] Binds to the 23S rRNA. [[http://www.uniprot.org/uniprot/RL4_STAA8 RL4_STAA8]] One of the primary rRNA binding proteins, this protein initially binds near the 5'-end of the 23S rRNA. It is important during the early stages of 50S assembly. It makes multiple contacts with different domains of the 23S rRNA in the assembled 50S subunit and ribosome. Forms part of the polypeptide exit tunnel.	+	[https://www.uniprot.org/uniprot/RL2_STAA8 RL2_STAA8] One of the primary rRNA binding proteins. Required for association of the 30S and 50S subunits to form the 70S ribosome, for tRNA binding and peptide bond formation. It has been suggested to have peptidyltransferase activity; this is somewhat controversial. Makes several contacts with the 16S rRNA in the 70S ribosome.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 24:		Line 23:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Staa3]]~~	+	[[Category: Staphylococcus aureus subsp. aureus NCTC 8325]]
-	~~[[Category: Staa8]]~~	+	[[Category: Bashan A]]
-	[[Category: Staphylococcus aureus subsp. aureus ~~nctc~~ 8325]]	+	[[Category: Eyal Z]]
-	[[Category: Bashan, A]]	+	[[Category: Krupkin M]]
-	[[Category: Eyal, Z]]	+	[[Category: Matzov D]]
-	[[Category: Krupkin, M]]	+	[[Category: Rozenberg H]]
-	[[Category: Matzov, D]]	+	[[Category: Wekselman I]]
-	[[Category: Rozenberg, H]]	+	[[Category: Yonath AE]]
-	[[Category: Wekselman, I]]	+	[[Category: Zimmerman E]]
-	[[Category: Yonath~~, A E~~]]	+
-	[[Category: Zimmerman, E]]	+
-	~~[[Category: Bacteria]]~~	+
-	~~[[Category: Ribosome]]~~	+
-	~~[[Category: Rna~~]]	+

OCA at 09:12, 23 May 2019

OCA — Thu, 23 May 2019 09:12:33 GMT

←Older revision		Revision as of 09:12, 23 May 2019
Line 1:		Line 1:
		+
	==The crystal structure of the large ribosomal subunit of Staphylococcus aureus in complex with telithromycin==		==The crystal structure of the large ribosomal subunit of Staphylococcus aureus in complex with telithromycin==
-	<StructureSection load='4wf9' size='340' side='right' caption='[[4wf9]], [[Resolution\|resolution]] 3.43Å' scene=''>	+	<StructureSection load='4wf9' size='340' side='right'caption='[[4wf9]], [[Resolution\|resolution]] 3.43Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4wf9]] is a 26 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Staphylococcus_aureus_(strain_nctc_8325) Staphylococcus aureus (strain nctc 8325)~~], [http://en.wikipedia.org/wiki/~~Staphylococcus_aureus_(strain_usa300) Staphylococcus aureus (strain usa300)~~] and [http://en.wikipedia.org/wiki/Staphylococcus_aureus_subsp._aureus_nctc_8325 Staphylococcus aureus subsp. aureus nctc 8325]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4WF9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4WF9 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4wf9]] is a 26 chain structure with sequence from [http://en.wikipedia.org/wiki/Staa3 Staa3], [http://en.wikipedia.org/wiki/Staa8 Staa8] and [http://en.wikipedia.org/wiki/Staphylococcus_aureus_subsp._aureus_nctc_8325 Staphylococcus aureus subsp. aureus nctc 8325]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4WF9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4WF9 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EOH:ETHANOL'>EOH</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=SPD:SPERMIDINE'>SPD</scene>, <scene name='pdbligand=TEL:TELITHROMYCIN'>TEL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EOH:ETHANOL'>EOH</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=SPD:SPERMIDINE'>SPD</scene>, <scene name='pdbligand=TEL:TELITHROMYCIN'>TEL</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4wce\|4wce]], [[4wfa\|4wfa]], [[4wfb\|4wfb]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4wce\|4wce]], [[4wfa\|4wfa]], [[4wfb\|4wfb]]</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=4wf9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4wf9 OCA], [http://pdbe.org/4wf9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4wf9 RCSB], [http://www.ebi.ac.uk/pdbsum/4wf9 PDBsum]</span></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=4wf9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4wf9 OCA], [http://pdbe.org/4wf9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4wf9 RCSB], [http://www.ebi.ac.uk/pdbsum/4wf9 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4wf9 ProSAT]</span></td></tr>
	</table>		</table>
-	{{Large structure}}
	== Function ==		== Function ==
-	[[http://www.uniprot.org/uniprot/RL16_STAA8 RL16_STAA8]] Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs. [[http://www.uniprot.org/uniprot/RL6_STAA8 RL6_STAA8]] This protein binds to the 23S rRNA, and is important in its secondary structure. It is located near the subunit interface in the base of the L7/L12 stalk, and near the tRNA binding site of the peptidyltransferase center. [[http://www.uniprot.org/uniprot/RL22_STAA8 RL22_STAA8]] This protein binds specifically to 23S rRNA; its binding is stimulated by other ribosomal proteins, e.g. L4, L17, and L20. It is important during the early stages of 50S assembly. It makes multiple contacts with different domains of the 23S rRNA in the assembled 50S subunit and ribosome (By similarity). The globular domain of the protein is located near the polypeptide exit tunnel on the outside of the subunit, while an extended beta-hairpin is found that lines the wall of the exit tunnel in the center of the 70S ribosome. [[http://www.uniprot.org/uniprot/RL23_STAA8 RL23_STAA8]] One of the early assembly proteins it binds 23S rRNA. One of the proteins that surrounds the polypeptide exit tunnel on the outside of the ribosome. Forms the main docking site for trigger factor binding to the ribosome. [[http://www.uniprot.org/uniprot/RL18_STAA8 RL18_STAA8]] This is one of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance~~. [[http://www.uniprot.org/uniprot/RL21_STAA8 RL21_STAA8]] This protein binds to 23S rRNA in the presence of protein L20~~. [[http://www.uniprot.org/uniprot/RL5_STAA8 RL5_STAA8]] This is 1 of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance. In the 70S ribosome it contacts protein S13 of the 30S subunit (bridge B1b), connecting the 2 subunits; this bridge is implicated in subunit movement. Contacts the P site tRNA; the 5S rRNA and some of its associated proteins might help stabilize positioning of ribosome-bound tRNAs. [[http://www.uniprot.org/uniprot/RL2_STAA8 RL2_STAA8]] One of the primary rRNA binding proteins. Required for association of the 30S and 50S subunits to form the 70S ribosome, for tRNA binding and peptide bond formation. It has been suggested to have peptidyltransferase activity; this is somewhat controversial. Makes several contacts with the 16S rRNA in the 70S ribosome. [[http://www.uniprot.org/uniprot/RL14_STAA8 RL14_STAA8]] Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome. [[http://www.uniprot.org/uniprot/RL19_STAA8 RL19_STAA8]] This protein is located at the 30S-50S ribosomal subunit interface and may play a role in the structure and function of the aminoacyl-tRNA binding site. [[http://www.uniprot.org/uniprot/RL20_STAA8 RL20_STAA8]] Binds directly to 23S ribosomal RNA and is necessary for the in vitro assembly process of the 50S ribosomal subunit. It is not involved in the protein synthesizing functions of that subunit~~. [[http://www.uniprot.org/uniprot/RL25_STAA3 RL25_STAA3]] This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance~~. [[http://www.uniprot.org/uniprot/RL13_STAA8 RL13_STAA8]] This protein is one of the early assembly proteins of the 50S ribosomal subunit, although it is not seen to bind rRNA by itself. It is important during the early stages of 50S assembly. [[http://www.uniprot.org/uniprot/RL3_STAA8 RL3_STAA8]] One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit~~. [[http://www.uniprot.org/uniprot/RL15_STAA8 RL15_STAA8]] Binds to the 23S rRNA~~. [[http://www.uniprot.org/uniprot/RL24_STAA8 RL24_STAA8]] One of two assembly initiator proteins, it binds directly to the 5'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit. One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit. [[http://www.uniprot.org/uniprot/RL4_STAA8 RL4_STAA8]] One of the primary rRNA binding proteins, this protein initially binds near the 5'-end of the 23S rRNA. It is important during the early stages of 50S assembly. It makes multiple contacts with different domains of the 23S rRNA in the assembled 50S subunit and ribosome. Forms part of the polypeptide exit tunnel.	+	[[http://www.uniprot.org/uniprot/RL16_STAA8 RL16_STAA8]] Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs. [[http://www.uniprot.org/uniprot/RL6_STAA8 RL6_STAA8]] This protein binds to the 23S rRNA, and is important in its secondary structure. It is located near the subunit interface in the base of the L7/L12 stalk, and near the tRNA binding site of the peptidyltransferase center. [[http://www.uniprot.org/uniprot/RL22_STAA8 RL22_STAA8]] This protein binds specifically to 23S rRNA; its binding is stimulated by other ribosomal proteins, e.g. L4, L17, and L20. It is important during the early stages of 50S assembly. It makes multiple contacts with different domains of the 23S rRNA in the assembled 50S subunit and ribosome (By similarity). The globular domain of the protein is located near the polypeptide exit tunnel on the outside of the subunit, while an extended beta-hairpin is found that lines the wall of the exit tunnel in the center of the 70S ribosome. [[http://www.uniprot.org/uniprot/RL23_STAA8 RL23_STAA8]] One of the early assembly proteins it binds 23S rRNA. One of the proteins that surrounds the polypeptide exit tunnel on the outside of the ribosome. Forms the main docking site for trigger factor binding to the ribosome. [[http://www.uniprot.org/uniprot/RL21_STAA8 RL21_STAA8]] This protein binds to 23S rRNA in the presence of protein L20. [[http://www.uniprot.org/uniprot/RL18_STAA8 RL18_STAA8]] This is one of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance. [[http://www.uniprot.org/uniprot/RL5_STAA8 RL5_STAA8]] This is 1 of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance. In the 70S ribosome it contacts protein S13 of the 30S subunit (bridge B1b), connecting the 2 subunits; this bridge is implicated in subunit movement. Contacts the P site tRNA; the 5S rRNA and some of its associated proteins might help stabilize positioning of ribosome-bound tRNAs. [[http://www.uniprot.org/uniprot/RL2_STAA8 RL2_STAA8]] One of the primary rRNA binding proteins. Required for association of the 30S and 50S subunits to form the 70S ribosome, for tRNA binding and peptide bond formation. It has been suggested to have peptidyltransferase activity; this is somewhat controversial. Makes several contacts with the 16S rRNA in the 70S ribosome. [[http://www.uniprot.org/uniprot/RL14_STAA8 RL14_STAA8]] Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome. [[http://www.uniprot.org/uniprot/RL25_STAA3 RL25_STAA3]] This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance. [[http://www.uniprot.org/uniprot/RL19_STAA8 RL19_STAA8]] This protein is located at the 30S-50S ribosomal subunit interface and may play a role in the structure and function of the aminoacyl-tRNA binding site. [[http://www.uniprot.org/uniprot/RL20_STAA8 RL20_STAA8]] Binds directly to 23S ribosomal RNA and is necessary for the in vitro assembly process of the 50S ribosomal subunit. It is not involved in the protein synthesizing functions of that subunit. [[http://www.uniprot.org/uniprot/RL13_STAA8 RL13_STAA8]] This protein is one of the early assembly proteins of the 50S ribosomal subunit, although it is not seen to bind rRNA by itself. It is important during the early stages of 50S assembly. [[http://www.uniprot.org/uniprot/RL3_STAA8 RL3_STAA8]] One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit. [[http://www.uniprot.org/uniprot/RL24_STAA8 RL24_STAA8]] One of two assembly initiator proteins, it binds directly to the 5'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit. One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit. [[http://www.uniprot.org/uniprot/RL15_STAA8 RL15_STAA8]] Binds to the 23S rRNA. [[http://www.uniprot.org/uniprot/RL4_STAA8 RL4_STAA8]] One of the primary rRNA binding proteins, this protein initially binds near the 5'-end of the 23S rRNA. It is important during the early stages of 50S assembly. It makes multiple contacts with different domains of the 23S rRNA in the assembled 50S subunit and ribosome. Forms part of the polypeptide exit tunnel.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 23:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Staa3]]
		+	[[Category: Staa8]]
	[[Category: Staphylococcus aureus subsp. aureus nctc 8325]]		[[Category: Staphylococcus aureus subsp. aureus nctc 8325]]
	[[Category: Bashan, A]]		[[Category: Bashan, A]]

OCA at 09:02, 20 January 2016

OCA — Wed, 20 Jan 2016 09:02:14 GMT

←Older revision		Revision as of 09:02, 20 January 2016
Line 9:		Line 9:
	{{Large structure}}		{{Large structure}}
	== Function ==		== Function ==
-	[[http://www.uniprot.org/uniprot/RL16_STAA8 RL16_STAA8]] Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs. [[http://www.uniprot.org/uniprot/RL6_STAA8 RL6_STAA8]] This protein binds to the 23S rRNA, and is important in its secondary structure. It is located near the subunit interface in the base of the L7/L12 stalk, and near the tRNA binding site of the peptidyltransferase center. [[http://www.uniprot.org/uniprot/RL22_STAA8 RL22_STAA8]] This protein binds specifically to 23S rRNA; its binding is stimulated by other ribosomal proteins, e.g. L4, L17, and L20. It is important during the early stages of 50S assembly. It makes multiple contacts with different domains of the 23S rRNA in the assembled 50S subunit and ribosome (By similarity). The globular domain of the protein is located near the polypeptide exit tunnel on the outside of the subunit, while an extended beta-hairpin is found that lines the wall of the exit tunnel in the center of the 70S ribosome. [[http://www.uniprot.org/uniprot/RL23_STAA8 RL23_STAA8]] One of the early assembly proteins it binds 23S rRNA. One of the proteins that surrounds the polypeptide exit tunnel on the outside of the ribosome. Forms the main docking site for trigger factor binding to the ribosome~~. [[http://www.uniprot.org/uniprot/RL21_STAA8 RL21_STAA8]] This protein binds to 23S rRNA in the presence of protein L20~~. [[http://www.uniprot.org/uniprot/RL18_STAA8 RL18_STAA8]] This is one of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance. [[http://www.uniprot.org/uniprot/RL5_STAA8 RL5_STAA8]] This is 1 of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance. In the 70S ribosome it contacts protein S13 of the 30S subunit (bridge B1b), connecting the 2 subunits; this bridge is implicated in subunit movement. Contacts the P site tRNA; the 5S rRNA and some of its associated proteins might help stabilize positioning of ribosome-bound tRNAs. [[http://www.uniprot.org/uniprot/RL2_STAA8 RL2_STAA8]] One of the primary rRNA binding proteins. Required for association of the 30S and 50S subunits to form the 70S ribosome, for tRNA binding and peptide bond formation. It has been suggested to have peptidyltransferase activity; this is somewhat controversial. Makes several contacts with the 16S rRNA in the 70S ribosome. [[http://www.uniprot.org/uniprot/RL14_STAA8 RL14_STAA8]] Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome~~. [[http://www.uniprot.org/uniprot/RL25_STAA3 RL25_STAA3]] This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance~~. [[http://www.uniprot.org/uniprot/RL19_STAA8 RL19_STAA8]] This protein is located at the 30S-50S ribosomal subunit interface and may play a role in the structure and function of the aminoacyl-tRNA binding site. [[http://www.uniprot.org/uniprot/RL20_STAA8 RL20_STAA8]] Binds directly to 23S ribosomal RNA and is necessary for the in vitro assembly process of the 50S ribosomal subunit. It is not involved in the protein synthesizing functions of that subunit. [[http://www.uniprot.org/uniprot/RL13_STAA8 RL13_STAA8]] This protein is one of the early assembly proteins of the 50S ribosomal subunit, although it is not seen to bind rRNA by itself. It is important during the early stages of 50S assembly. [[http://www.uniprot.org/uniprot/RL3_STAA8 RL3_STAA8]] One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit. [[http://www.uniprot.org/uniprot/RL24_STAA8 RL24_STAA8]] One of two assembly initiator proteins, it binds directly to the 5'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit. One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit~~. [[http://www.uniprot.org/uniprot/RL15_STAA8 RL15_STAA8]] Binds to the 23S rRNA~~. [[http://www.uniprot.org/uniprot/RL4_STAA8 RL4_STAA8]] One of the primary rRNA binding proteins, this protein initially binds near the 5'-end of the 23S rRNA. It is important during the early stages of 50S assembly. It makes multiple contacts with different domains of the 23S rRNA in the assembled 50S subunit and ribosome. Forms part of the polypeptide exit tunnel.	+	[[http://www.uniprot.org/uniprot/RL16_STAA8 RL16_STAA8]] Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs. [[http://www.uniprot.org/uniprot/RL6_STAA8 RL6_STAA8]] This protein binds to the 23S rRNA, and is important in its secondary structure. It is located near the subunit interface in the base of the L7/L12 stalk, and near the tRNA binding site of the peptidyltransferase center. [[http://www.uniprot.org/uniprot/RL22_STAA8 RL22_STAA8]] This protein binds specifically to 23S rRNA; its binding is stimulated by other ribosomal proteins, e.g. L4, L17, and L20. It is important during the early stages of 50S assembly. It makes multiple contacts with different domains of the 23S rRNA in the assembled 50S subunit and ribosome (By similarity). The globular domain of the protein is located near the polypeptide exit tunnel on the outside of the subunit, while an extended beta-hairpin is found that lines the wall of the exit tunnel in the center of the 70S ribosome. [[http://www.uniprot.org/uniprot/RL23_STAA8 RL23_STAA8]] One of the early assembly proteins it binds 23S rRNA. One of the proteins that surrounds the polypeptide exit tunnel on the outside of the ribosome. Forms the main docking site for trigger factor binding to the ribosome. [[http://www.uniprot.org/uniprot/RL18_STAA8 RL18_STAA8]] This is one of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance. [[http://www.uniprot.org/uniprot/RL21_STAA8 RL21_STAA8]] This protein binds to 23S rRNA in the presence of protein L20. [[http://www.uniprot.org/uniprot/RL5_STAA8 RL5_STAA8]] This is 1 of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance. In the 70S ribosome it contacts protein S13 of the 30S subunit (bridge B1b), connecting the 2 subunits; this bridge is implicated in subunit movement. Contacts the P site tRNA; the 5S rRNA and some of its associated proteins might help stabilize positioning of ribosome-bound tRNAs. [[http://www.uniprot.org/uniprot/RL2_STAA8 RL2_STAA8]] One of the primary rRNA binding proteins. Required for association of the 30S and 50S subunits to form the 70S ribosome, for tRNA binding and peptide bond formation. It has been suggested to have peptidyltransferase activity; this is somewhat controversial. Makes several contacts with the 16S rRNA in the 70S ribosome. [[http://www.uniprot.org/uniprot/RL14_STAA8 RL14_STAA8]] Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome. [[http://www.uniprot.org/uniprot/RL19_STAA8 RL19_STAA8]] This protein is located at the 30S-50S ribosomal subunit interface and may play a role in the structure and function of the aminoacyl-tRNA binding site. [[http://www.uniprot.org/uniprot/RL20_STAA8 RL20_STAA8]] Binds directly to 23S ribosomal RNA and is necessary for the in vitro assembly process of the 50S ribosomal subunit. It is not involved in the protein synthesizing functions of that subunit. [[http://www.uniprot.org/uniprot/RL25_STAA3 RL25_STAA3]] This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance. [[http://www.uniprot.org/uniprot/RL13_STAA8 RL13_STAA8]] This protein is one of the early assembly proteins of the 50S ribosomal subunit, although it is not seen to bind rRNA by itself. It is important during the early stages of 50S assembly. [[http://www.uniprot.org/uniprot/RL3_STAA8 RL3_STAA8]] One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit. [[http://www.uniprot.org/uniprot/RL15_STAA8 RL15_STAA8]] Binds to the 23S rRNA. [[http://www.uniprot.org/uniprot/RL24_STAA8 RL24_STAA8]] One of two assembly initiator proteins, it binds directly to the 5'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit. One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit. [[http://www.uniprot.org/uniprot/RL4_STAA8 RL4_STAA8]] One of the primary rRNA binding proteins, this protein initially binds near the 5'-end of the 23S rRNA. It is important during the early stages of 50S assembly. It makes multiple contacts with different domains of the 23S rRNA in the assembled 50S subunit and ribosome. Forms part of the polypeptide exit tunnel.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 22:13, 30 November 2015

OCA — Mon, 30 Nov 2015 22:13:06 GMT

←Older revision		Revision as of 22:13, 30 November 2015
Line 9:		Line 9:
	{{Large structure}}		{{Large structure}}
	== Function ==		== Function ==
-	[[http://www.uniprot.org/uniprot/RL16_STAA8 RL16_STAA8]] Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs. [[http://www.uniprot.org/uniprot/RL6_STAA8 RL6_STAA8]] This protein binds to the 23S rRNA, and is important in its secondary structure. It is located near the subunit interface in the base of the L7/L12 stalk, and near the tRNA binding site of the peptidyltransferase center. [[http://www.uniprot.org/uniprot/RL22_STAA8 RL22_STAA8]] This protein binds specifically to 23S rRNA; its binding is stimulated by other ribosomal proteins, e.g. L4, L17, and L20. It is important during the early stages of 50S assembly. It makes multiple contacts with different domains of the 23S rRNA in the assembled 50S subunit and ribosome (By similarity). The globular domain of the protein is located near the polypeptide exit tunnel on the outside of the subunit, while an extended beta-hairpin is found that lines the wall of the exit tunnel in the center of the 70S ribosome. [[http://www.uniprot.org/uniprot/RL23_STAA8 RL23_STAA8]] One of the early assembly proteins it binds 23S rRNA. One of the proteins that surrounds the polypeptide exit tunnel on the outside of the ribosome. Forms the main docking site for trigger factor binding to the ribosome. [[http://www.uniprot.org/uniprot/RL18_STAA8 RL18_STAA8]] This is one of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance~~. [[http://www.uniprot.org/uniprot/RL21_STAA8 RL21_STAA8]] This protein binds to 23S rRNA in the presence of protein L20~~. [[http://www.uniprot.org/uniprot/RL5_STAA8 RL5_STAA8]] This is 1 of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance. In the 70S ribosome it contacts protein S13 of the 30S subunit (bridge B1b), connecting the 2 subunits; this bridge is implicated in subunit movement. Contacts the P site tRNA; the 5S rRNA and some of its associated proteins might help stabilize positioning of ribosome-bound tRNAs. [[http://www.uniprot.org/uniprot/RL2_STAA8 RL2_STAA8]] One of the primary rRNA binding proteins. Required for association of the 30S and 50S subunits to form the 70S ribosome, for tRNA binding and peptide bond formation. It has been suggested to have peptidyltransferase activity; this is somewhat controversial. Makes several contacts with the 16S rRNA in the 70S ribosome. [[http://www.uniprot.org/uniprot/RL14_STAA8 RL14_STAA8]] Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome. [[http://www.uniprot.org/uniprot/RL19_STAA8 RL19_STAA8]] This protein is located at the 30S-50S ribosomal subunit interface and may play a role in the structure and function of the aminoacyl-tRNA binding site. [[http://www.uniprot.org/uniprot/RL20_STAA8 RL20_STAA8]] Binds directly to 23S ribosomal RNA and is necessary for the in vitro assembly process of the 50S ribosomal subunit. It is not involved in the protein synthesizing functions of that subunit~~. [[http://www.uniprot.org/uniprot/RL25_STAA3 RL25_STAA3]] This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance~~. [[http://www.uniprot.org/uniprot/RL13_STAA8 RL13_STAA8]] This protein is one of the early assembly proteins of the 50S ribosomal subunit, although it is not seen to bind rRNA by itself. It is important during the early stages of 50S assembly. [[http://www.uniprot.org/uniprot/RL3_STAA8 RL3_STAA8]] One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit~~. [[http://www.uniprot.org/uniprot/RL15_STAA8 RL15_STAA8]] Binds to the 23S rRNA~~. [[http://www.uniprot.org/uniprot/RL24_STAA8 RL24_STAA8]] One of two assembly initiator proteins, it binds directly to the 5'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit. One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit. [[http://www.uniprot.org/uniprot/RL4_STAA8 RL4_STAA8]] One of the primary rRNA binding proteins, this protein initially binds near the 5'-end of the 23S rRNA. It is important during the early stages of 50S assembly. It makes multiple contacts with different domains of the 23S rRNA in the assembled 50S subunit and ribosome. Forms part of the polypeptide exit tunnel.	+	[[http://www.uniprot.org/uniprot/RL16_STAA8 RL16_STAA8]] Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs. [[http://www.uniprot.org/uniprot/RL6_STAA8 RL6_STAA8]] This protein binds to the 23S rRNA, and is important in its secondary structure. It is located near the subunit interface in the base of the L7/L12 stalk, and near the tRNA binding site of the peptidyltransferase center. [[http://www.uniprot.org/uniprot/RL22_STAA8 RL22_STAA8]] This protein binds specifically to 23S rRNA; its binding is stimulated by other ribosomal proteins, e.g. L4, L17, and L20. It is important during the early stages of 50S assembly. It makes multiple contacts with different domains of the 23S rRNA in the assembled 50S subunit and ribosome (By similarity). The globular domain of the protein is located near the polypeptide exit tunnel on the outside of the subunit, while an extended beta-hairpin is found that lines the wall of the exit tunnel in the center of the 70S ribosome. [[http://www.uniprot.org/uniprot/RL23_STAA8 RL23_STAA8]] One of the early assembly proteins it binds 23S rRNA. One of the proteins that surrounds the polypeptide exit tunnel on the outside of the ribosome. Forms the main docking site for trigger factor binding to the ribosome. [[http://www.uniprot.org/uniprot/RL21_STAA8 RL21_STAA8]] This protein binds to 23S rRNA in the presence of protein L20. [[http://www.uniprot.org/uniprot/RL18_STAA8 RL18_STAA8]] This is one of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance. [[http://www.uniprot.org/uniprot/RL5_STAA8 RL5_STAA8]] This is 1 of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance. In the 70S ribosome it contacts protein S13 of the 30S subunit (bridge B1b), connecting the 2 subunits; this bridge is implicated in subunit movement. Contacts the P site tRNA; the 5S rRNA and some of its associated proteins might help stabilize positioning of ribosome-bound tRNAs. [[http://www.uniprot.org/uniprot/RL2_STAA8 RL2_STAA8]] One of the primary rRNA binding proteins. Required for association of the 30S and 50S subunits to form the 70S ribosome, for tRNA binding and peptide bond formation. It has been suggested to have peptidyltransferase activity; this is somewhat controversial. Makes several contacts with the 16S rRNA in the 70S ribosome. [[http://www.uniprot.org/uniprot/RL14_STAA8 RL14_STAA8]] Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome. [[http://www.uniprot.org/uniprot/RL25_STAA3 RL25_STAA3]] This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance. [[http://www.uniprot.org/uniprot/RL19_STAA8 RL19_STAA8]] This protein is located at the 30S-50S ribosomal subunit interface and may play a role in the structure and function of the aminoacyl-tRNA binding site. [[http://www.uniprot.org/uniprot/RL20_STAA8 RL20_STAA8]] Binds directly to 23S ribosomal RNA and is necessary for the in vitro assembly process of the 50S ribosomal subunit. It is not involved in the protein synthesizing functions of that subunit. [[http://www.uniprot.org/uniprot/RL13_STAA8 RL13_STAA8]] This protein is one of the early assembly proteins of the 50S ribosomal subunit, although it is not seen to bind rRNA by itself. It is important during the early stages of 50S assembly. [[http://www.uniprot.org/uniprot/RL3_STAA8 RL3_STAA8]] One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit. [[http://www.uniprot.org/uniprot/RL24_STAA8 RL24_STAA8]] One of two assembly initiator proteins, it binds directly to the 5'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit. One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit. [[http://www.uniprot.org/uniprot/RL15_STAA8 RL15_STAA8]] Binds to the 23S rRNA. [[http://www.uniprot.org/uniprot/RL4_STAA8 RL4_STAA8]] One of the primary rRNA binding proteins, this protein initially binds near the 5'-end of the 23S rRNA. It is important during the early stages of 50S assembly. It makes multiple contacts with different domains of the 23S rRNA in the assembled 50S subunit and ribosome. Forms part of the polypeptide exit tunnel.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The emergence of bacterial multidrug resistance to antibiotics threatens to cause regression to the preantibiotic era. Here we present the crystal structure of the large ribosomal subunit from Staphylococcus aureus, a versatile Gram-positive aggressive pathogen, and its complexes with the known antibiotics linezolid and telithromycin, as well as with a new, highly potent pleuromutilin derivative, BC-3205. These crystal structures shed light on specific structural motifs of the S. aureus ribosome and the binding modes of the aforementioned antibiotics. Moreover, by analyzing the ribosome structure and comparing it with those of nonpathogenic bacterial models, we identified some unique internal and peripheral structural motifs that may be potential candidates for improving known antibiotics and for use in the design of selective antibiotic drugs against S. aureus.
		+
		+	Structural insights into species-specific features of the ribosome from the pathogen Staphylococcus aureus.,Eyal Z, Matzov D, Krupkin M, Wekselman I, Paukner S, Zimmerman E, Rozenberg H, Bashan A, Yonath A Proc Natl Acad Sci U S A. 2015 Oct 27;112(43):E5805-14. doi:, 10.1073/pnas.1517952112. Epub 2015 Oct 13. PMID:26464510<ref>PMID:26464510</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 4wf9" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 05:30, 22 October 2015

OCA — Thu, 22 Oct 2015 05:30:00 GMT

←Older revision		Revision as of 05:30, 22 October 2015
Line 1:		Line 1:
-	'''~~Unreleased structure~~'''	+	==The crystal structure of the large ribosomal subunit of Staphylococcus aureus in complex with telithromycin==
-		+	<StructureSection load='4wf9' size='340' side='right' caption='[[4wf9]], [[Resolution\|resolution]] 3.43Å' scene=''>
-	~~The entry~~ 4wf9 is ~~ON HOLD until Paper Publication~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[4wf9]] is a 26 chain structure with sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus_(strain_nctc_8325) Staphylococcus aureus (strain nctc 8325)], [http://en.wikipedia.org/wiki/Staphylococcus_aureus_(strain_usa300) Staphylococcus aureus (strain usa300)] and [http://en.wikipedia.org/wiki/Staphylococcus_aureus_subsp._aureus_nctc_8325 Staphylococcus aureus subsp. aureus nctc 8325]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4WF9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4WF9 FirstGlance]. <br>
-	~~Authors~~: ~~Eyal~~, Z., ~~Matzov~~, D., ~~Krupkin~~, M., ~~Wekselman~~, I., ~~Zimmerman~~, E., ~~Rozenberg~~, H., ~~Bashan~~, A., ~~Yonath~~, A.E.	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EOH:ETHANOL'>EOH</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=SPD:SPERMIDINE'>SPD</scene>, <scene name='pdbligand=TEL:TELITHROMYCIN'>TEL</scene></td></tr>
-		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4wce\|4wce]], [[4wfa\|4wfa]], [[4wfb\|4wfb]]</td></tr>
-	~~Description~~:	+	<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=4wf9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4wf9 OCA], [http://pdbe.org/4wf9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4wf9 RCSB], [http://www.ebi.ac.uk/pdbsum/4wf9 PDBsum]</span></td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	</table>
-	[[Category: ~~Eyal, Z~~]]	+	{{Large structure}}
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/RL16_STAA8 RL16_STAA8]] Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs. [[http://www.uniprot.org/uniprot/RL6_STAA8 RL6_STAA8]] This protein binds to the 23S rRNA, and is important in its secondary structure. It is located near the subunit interface in the base of the L7/L12 stalk, and near the tRNA binding site of the peptidyltransferase center. [[http://www.uniprot.org/uniprot/RL22_STAA8 RL22_STAA8]] This protein binds specifically to 23S rRNA; its binding is stimulated by other ribosomal proteins, e.g. L4, L17, and L20. It is important during the early stages of 50S assembly. It makes multiple contacts with different domains of the 23S rRNA in the assembled 50S subunit and ribosome (By similarity). The globular domain of the protein is located near the polypeptide exit tunnel on the outside of the subunit, while an extended beta-hairpin is found that lines the wall of the exit tunnel in the center of the 70S ribosome. [[http://www.uniprot.org/uniprot/RL23_STAA8 RL23_STAA8]] One of the early assembly proteins it binds 23S rRNA. One of the proteins that surrounds the polypeptide exit tunnel on the outside of the ribosome. Forms the main docking site for trigger factor binding to the ribosome. [[http://www.uniprot.org/uniprot/RL18_STAA8 RL18_STAA8]] This is one of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance. [[http://www.uniprot.org/uniprot/RL21_STAA8 RL21_STAA8]] This protein binds to 23S rRNA in the presence of protein L20. [[http://www.uniprot.org/uniprot/RL5_STAA8 RL5_STAA8]] This is 1 of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance. In the 70S ribosome it contacts protein S13 of the 30S subunit (bridge B1b), connecting the 2 subunits; this bridge is implicated in subunit movement. Contacts the P site tRNA; the 5S rRNA and some of its associated proteins might help stabilize positioning of ribosome-bound tRNAs. [[http://www.uniprot.org/uniprot/RL2_STAA8 RL2_STAA8]] One of the primary rRNA binding proteins. Required for association of the 30S and 50S subunits to form the 70S ribosome, for tRNA binding and peptide bond formation. It has been suggested to have peptidyltransferase activity; this is somewhat controversial. Makes several contacts with the 16S rRNA in the 70S ribosome. [[http://www.uniprot.org/uniprot/RL14_STAA8 RL14_STAA8]] Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome. [[http://www.uniprot.org/uniprot/RL19_STAA8 RL19_STAA8]] This protein is located at the 30S-50S ribosomal subunit interface and may play a role in the structure and function of the aminoacyl-tRNA binding site. [[http://www.uniprot.org/uniprot/RL20_STAA8 RL20_STAA8]] Binds directly to 23S ribosomal RNA and is necessary for the in vitro assembly process of the 50S ribosomal subunit. It is not involved in the protein synthesizing functions of that subunit. [[http://www.uniprot.org/uniprot/RL25_STAA3 RL25_STAA3]] This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance. [[http://www.uniprot.org/uniprot/RL13_STAA8 RL13_STAA8]] This protein is one of the early assembly proteins of the 50S ribosomal subunit, although it is not seen to bind rRNA by itself. It is important during the early stages of 50S assembly. [[http://www.uniprot.org/uniprot/RL3_STAA8 RL3_STAA8]] One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit. [[http://www.uniprot.org/uniprot/RL15_STAA8 RL15_STAA8]] Binds to the 23S rRNA. [[http://www.uniprot.org/uniprot/RL24_STAA8 RL24_STAA8]] One of two assembly initiator proteins, it binds directly to the 5'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit. One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit. [[http://www.uniprot.org/uniprot/RL4_STAA8 RL4_STAA8]] One of the primary rRNA binding proteins, this protein initially binds near the 5'-end of the 23S rRNA. It is important during the early stages of 50S assembly. It makes multiple contacts with different domains of the 23S rRNA in the assembled 50S subunit and ribosome. Forms part of the polypeptide exit tunnel.
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Staphylococcus aureus subsp. aureus nctc 8325]]
	[[Category: Bashan, A]]		[[Category: Bashan, A]]
-	[[Category: ~~Wekselman~~, I]]	+	[[Category: Eyal, Z]]
	[[Category: Krupkin, M]]		[[Category: Krupkin, M]]
		+	[[Category: Matzov, D]]
	[[Category: Rozenberg, H]]		[[Category: Rozenberg, H]]
-	[[Category: Yonath, A.E]]	+	[[Category: Wekselman, I]]
		+	[[Category: Yonath, A E]]
	[[Category: Zimmerman, E]]		[[Category: Zimmerman, E]]
-	[[Category: ~~Matzov, D~~]]	+	[[Category: Bacteria]]
		+	[[Category: Ribosome]]
		+	[[Category: Rna]]

OCA at 09:18, 15 July 2015

OCA — Wed, 15 Jul 2015 09:18:34 GMT

←Older revision		Revision as of 09:18, 15 July 2015
Line 3:		Line 3:
	The entry 4wf9 is ON HOLD until Paper Publication		The entry 4wf9 is ON HOLD until Paper Publication

-	Authors: Yonath, A.E.	+	Authors: Eyal, Z., Matzov, D., Krupkin, M., Wekselman, I., Zimmerman, E., Rozenberg, H., Bashan, A., Yonath, A.E.

	Description:		Description:
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
		+	[[Category: Eyal, Z]]
		+	[[Category: Bashan, A]]
		+	[[Category: Wekselman, I]]
		+	[[Category: Krupkin, M]]
		+	[[Category: Rozenberg, H]]
	[[Category: Yonath, A.E]]		[[Category: Yonath, A.E]]
		+	[[Category: Zimmerman, E]]
		+	[[Category: Matzov, D]]

OCA at 19:26, 24 December 2014

OCA — Wed, 24 Dec 2014 19:26:06 GMT

←Older revision		Revision as of 19:26, 24 December 2014
Line 5:		Line 5:
	Authors: Yonath, A.E.		Authors: Yonath, A.E.

-	Description:	+	Description:
		+	[[Category: Unreleased Structures]]
		+	[[Category: Yonath, A.E]]

OCA at 23:31, 1 October 2014

OCA — Wed, 01 Oct 2014 23:31:14 GMT

←Older revision		Revision as of 23:31, 1 October 2014
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4wf9 is ON HOLD	+	The entry 4wf9 is ON HOLD until Paper Publication

	Authors: Yonath, A.E.		Authors: Yonath, A.E.

	Description:		Description:

OCA: Protected "4wf9" [edit=sysop:move=sysop]

OCA — Wed, 24 Sep 2014 09:13:25 GMT

Protected "4wf9" [edit=sysop:move=sysop]

←Older revision

Revision as of 09:13, 24 September 2014