5zeu

From Proteopedia

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Revision as of 07:34, 6 November 2019

M. smegmatis P/P state 30S ribosomal subunit

Structural highlights

5zeu is a 22 chain structure with sequence from Escherichia coli, Mycs2 and Mycobacterium smegmatis (strain atcc 700084 / mc(2)155). Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[RS17_MYCS2] One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA. [RS10_MYCS2] Involved in the binding of tRNA to the ribosomes. [RS3_MYCS2] Binds the lower part of the 30S subunit head. Binds mRNA in the 70S ribosome, positioning it for translation. [RS4_MYCS2] One of the primary rRNA binding proteins, it binds directly to 16S rRNA where it nucleates assembly of the body of the 30S subunit. With S5 and S12 plays an important role in translational accuracy. [RS14Z_MYCS2] Binds 16S rRNA, required for the assembly of 30S particles and may also be responsible for determining the conformation of the 16S rRNA at the A site. [RS19_MYCS2] Protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA.[HAMAP-Rule:MF_00531] [RS5_MYCS2] With S4 and S12 plays an important role in translational accuracy.[HAMAP-Rule:MF_01307] Located at the back of the 30S subunit body where it stabilizes the conformation of the head with respect to the body.[HAMAP-Rule:MF_01307] [RS12_MYCS2] With S4 and S5 plays an important role in translational accuracy. Interacts with and stabilizes bases of the 16S rRNA that are involved in tRNA selection in the A site and with the mRNA backbone. Located at the interface of the 30S and 50S subunits, it traverses the body of the 30S subunit contacting proteins on the other side and probably holding the rRNA structure together. The combined cluster of proteins S8, S12 and S17 appears to hold together the shoulder and platform of the 30S subunit (By similarity). [RS182_MYCS2] Binds as a heterodimer with protein S6 to the central domain of the 16S rRNA, where it helps stabilize the platform of the 30S subunit. [RS13_MYCS2] Located at the top of the head of the 30S subunit, it contacts several helices of the 16S rRNA. In the 70S ribosome it contacts the 23S rRNA (bridge B1a) and protein L5 of the 50S subunit (bridge B1b), connecting the 2 subunits; these bridges are implicated in subunit movement. Contacts the tRNAs in the A and P-sites. [RS20_MYCS2] Binds directly to 16S ribosomal RNA. [RS11_MYCS2] Located on the platform of the 30S subunit, it bridges several disparate RNA helices of the 16S rRNA. Forms part of the Shine-Dalgarno cleft in the 70S ribosome. [RS7_MYCS2] One of the primary rRNA binding proteins, it binds directly to 16S rRNA where it nucleates assembly of the head domain of the 30S subunit. Is located at the subunit interface close to the decoding center, probably blocks exit of the E-site tRNA. [A0A0D6J3X3_MYCSM] Binds together with S18 to 16S ribosomal RNA.[HAMAP-Rule:MF_00360][SAAS:SAAS00348112] [RS15_MYCS2] One of the primary rRNA binding proteins, it binds directly to 16S rRNA where it helps nucleate assembly of the platform of the 30S subunit by binding and bridging several RNA helices of the 16S rRNA.[HAMAP-Rule:MF_01343] Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome.[HAMAP-Rule:MF_01343] [RS8_MYCS2] One of the primary rRNA binding proteins, it binds directly to 16S rRNA central domain where it helps coordinate assembly of the platform of the 30S subunit.[HAMAP-Rule:MF_01302]

Publication Abstract from PubMed

Ribosomes are the dynamic protein synthesis machineries of the cell. They may exist in different functional states in the cell. Therefore, it is essential to have structural information on these different functional states of ribosomes to understand their mechanism of action. Here, we present single particle cryo-EM reconstructions of the Mycobacterium smegmatis 70S ribosomes in the hibernating state (with HPF), trans-translating state (with tmRNA), and the P/P state (with P-tRNA) resolved to 4.1, 12.5, and 3.4 A, respectively. A comparison of the P/P state with the hibernating state provides possible functional insights about the Mycobacteria-specific helix H54a rRNA segment. Interestingly, densities for all the four OB domains of bS1 protein is visible in the hibernating 70S ribosome displaying the molecular details of bS1-70S interactions. Our structural data shows a Mycobacteria-specific H54a-bS1 interaction which seems to prevent subunit dissociation and degradation during hibernation without the formation of 100S dimer. This indicates a new role of bS1 protein in 70S protection during hibernation in Mycobacteria in addition to its conserved function during translation initiation.

Structures of Mycobacterium smegmatis 70S ribosomes in complex with HPF, tmRNA, and P-tRNA.,Mishra S, Ahmed T, Tyagi A, Shi J, Bhushan S Sci Rep. 2018 Sep 11;8(1):13587. doi: 10.1038/s41598-018-31850-3. PMID:30206241^[1]

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

References

↑ Mishra S, Ahmed T, Tyagi A, Shi J, Bhushan S. Structures of Mycobacterium smegmatis 70S ribosomes in complex with HPF, tmRNA, and P-tRNA. Sci Rep. 2018 Sep 11;8(1):13587. doi: 10.1038/s41598-018-31850-3. PMID:30206241 doi:http://dx.doi.org/10.1038/s41598-018-31850-3

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/5zeu"

@@ Line 1: / Line 1: @@
 ==M. smegmatis P/P state 30S ribosomal subunit==
-<StructureSection load='5zeu' size='340' side='right' caption='[[5zeu]], [[Resolution|resolution]] 3.70&Aring;' scene=''>
+<StructureSection load='5zeu' size='340' side='right'caption='[[5zeu]], [[Resolution|resolution]] 3.70&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[5zeu]] is a 22 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli] and [http://en.wikipedia.org/wiki/Mycobacterium_smegmatis_(strain_atcc_700084_/_mc(2)155) Mycobacterium smegmatis (strain atcc 700084 / mc(2)155)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZEU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5ZEU FirstGlance]. <br>
+<table><tr><td colspan='2'>[[5zeu]] is a 22 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli], [http://en.wikipedia.org/wiki/Mycs2 Mycs2] and [http://en.wikipedia.org/wiki/Mycobacterium_smegmatis_(strain_atcc_700084_/_mc(2)155) Mycobacterium smegmatis (strain atcc 700084 / mc(2)155)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZEU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5ZEU FirstGlance]. <br>
 </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=5zeu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zeu OCA], [http://pdbe.org/5zeu PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5zeu RCSB], [http://www.ebi.ac.uk/pdbsum/5zeu PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5zeu ProSAT]</span></td></tr>
 </table>
@@ Line 22: / Line 22: @@
 </StructureSection>
 [[Category: Escherichia coli]]
+[[Category: Large Structures]]
+[[Category: Mycs2]]
 [[Category: Ahmed, T]]
 [[Category: Bhushan, S]]

5zeu

From Proteopedia

Revision as of 07:34, 6 November 2019

M. smegmatis P/P state 30S ribosomal subunit

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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