1qd7

From Proteopedia

(Difference between revisions)

Revision as of 08:21, 24 February 2018

PARTIAL MODEL FOR 30S RIBOSOMAL SUBUNIT

Structural highlights

1qd7 is a 10 chain structure with sequence from Thermus thermophilus. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
NonStd Res:	,
Related:	1pkp, 1ris, 1rss, 1a32
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[RS7_THET8] One of the primary rRNA binding proteins, it binds directly to 3'-end of the 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. Binds mRNA and the E site tRNA blocking its exit path in the ribosome. This blockage implies that this section of the ribosome must be able to move to release the deacetylated tRNA.[HAMAP-Rule:MF_00480_B] [RS4_GEOSE] One of the primary rRNA binding proteins, it binds directly to 16S rRNA where it nucleates assembly of the body of the 30S subunit (By similarity).[HAMAP-Rule:MF_01306_B] With S5 and S12 plays an important role in translational accuracy (By similarity).[HAMAP-Rule:MF_01306_B] [RS8_THETH] 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 (By similarity). [RS17_GEOSE] One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA.[HAMAP-Rule:MF_01345] [RS15_GEOSE] 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 (By similarity).[HAMAP-Rule:MF_01343] Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome (By similarity).[HAMAP-Rule:MF_01343] [RS5_GEOSE] With S4 and S12 plays an important role in translational accuracy (By similarity). Located at the back of the 30S subunit body where it stabilizes the conformation of the head with respect to the body (By similarity). [RS6_THETH] Located on the outer edge of the platform on the body of the 30S subunit (By similarity).

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

Publication Abstract from PubMed

The 30S ribosomal subunit binds messenger RNA and the anticodon stem-loop of transfer RNA during protein synthesis. A crystallographic analysis of the structure of the subunit from the bacterium Thermus thermophilus is presented. At a resolution of 5.5 A, the phosphate backbone of the ribosomal RNA is visible, as are the alpha-helices of the ribosomal proteins, enabling double-helical regions of RNA to be identified throughout the subunit, all seven of the small-subunit proteins of known crystal structure to be positioned in the electron density map, and the fold of the entire central domain of the small-subunit ribosomal RNA to be determined.

Structure of a bacterial 30S ribosomal subunit at 5.5 A resolution.,Clemons WM Jr, May JL, Wimberly BT, McCutcheon JP, Capel MS, Ramakrishnan V Nature. 1999 Aug 26;400(6747):833-40. PMID:10476960^[1]

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

References

↑ Clemons WM Jr, May JL, Wimberly BT, McCutcheon JP, Capel MS, Ramakrishnan V. Structure of a bacterial 30S ribosomal subunit at 5.5 A resolution. Nature. 1999 Aug 26;400(6747):833-40. PMID:10476960 doi:10.1038/23631

1 Structural highlights
2 Function
3 Evolutionary Conservation
4 Publication Abstract from PubMed
5 See Also
6 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/1qd7"

@@ Line 1: / Line 1: @@
 ==PARTIAL MODEL FOR 30S RIBOSOMAL SUBUNIT==
 <StructureSection load='1qd7' size='340' side='right' caption='[[1qd7]], [[Resolution|resolution]] 5.50&Aring;' scene=''>
@@ Line 5: / Line 6: @@
 </td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=N:ANY+5-MONOPHOSPHATE+NUCLEOTIDE'>N</scene>, <scene name='pdbligand=UNK:UNKNOWN'>UNK</scene></td></tr>
 <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1pkp|1pkp]], [[1ris|1ris]], [[1rss|1rss]], [[1a32|1a32]]</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=1qd7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1qd7 OCA], [http://pdbe.org/1qd7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1qd7 RCSB], [http://www.ebi.ac.uk/pdbsum/1qd7 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=1qd7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1qd7 OCA], [http://pdbe.org/1qd7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1qd7 RCSB], [http://www.ebi.ac.uk/pdbsum/1qd7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1qd7 ProSAT]</span></td></tr>
 </table>
 == Function ==
@@ Line 13: / Line 14: @@
 Check<jmol>
   <jmolCheckbox>
-    <scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/qd/1qd7_consurf.spt"</scriptWhenChecked>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/qd/1qd7_consurf.spt"</scriptWhenChecked>
     <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
     <text>to colour the structure by Evolutionary Conservation</text>
@@ Line 30: / Line 31: @@
 ==See Also==
-*[[Ribosomal protein S15|Ribosomal protein S15]]
-*[[Ribosomal protein S17|Ribosomal protein S17]]
-*[[Ribosomal protein S20|Ribosomal protein S20]]
-*[[Ribosomal protein S5|Ribosomal protein S5]]
-*[[Ribosomal protein S6|Ribosomal protein S6]]
-*[[Ribosomal protein S7|Ribosomal protein S7]]
-*[[Ribosomal protein S8|Ribosomal protein S8]]
 *[[Temperature color schemes|Temperature color schemes]]
 == References ==

1qd7

From Proteopedia

Revision as of 08:21, 24 February 2018

PARTIAL MODEL FOR 30S RIBOSOMAL SUBUNIT

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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