2dog

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (06:39, 1 May 2024) (edit) (undo)
 
(12 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:2dog.gif|left|200px]]
 
-
{{Structure
+
==Solution structure of the N-terminal domain of RimM from Thermus thermophilus HB8==
-
|PDB= 2dog |SIZE=350|CAPTION= <scene name='initialview01'>2dog</scene>
+
<StructureSection load='2dog' size='340' side='right'caption='[[2dog]]' scene=''>
-
|SITE=
+
== Structural highlights ==
-
|LIGAND=
+
<table><tr><td colspan='2'>[[2dog]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus_HB8 Thermus thermophilus HB8]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DOG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2DOG FirstGlance]. <br>
-
|ACTIVITY=
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
-
|GENE= rimM ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=274 Thermus thermophilus])
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2dog FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dog OCA], [https://pdbe.org/2dog PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2dog RCSB], [https://www.ebi.ac.uk/pdbsum/2dog PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2dog ProSAT], [https://www.topsan.org/Proteins/RSGI/2dog TOPSAN]</span></td></tr>
-
|DOMAIN=
+
</table>
-
|RELATEDENTRY=
+
== Function ==
-
|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2dog FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dog OCA], [http://www.ebi.ac.uk/pdbsum/2dog PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2dog RCSB]</span>
+
[https://www.uniprot.org/uniprot/RIMM_THET8 RIMM_THET8] An accessory protein needed during the final step in the assembly of 30S ribosomal subunit, possibly for assembly of the head region. Probably interacts with S19. Essential for efficient processing of 16S rRNA. May be needed both before and after RbfA during the maturation of 16S rRNA. It has affinity for free ribosomal 30S subunits but not for 70S ribosomes (By similarity).
-
}}
+
== Evolutionary Conservation ==
-
 
+
[[Image:Consurf_key_small.gif|200px|right]]
-
'''Solution structure of the N-terminal domain of RimM from Thermus thermophilus HB8'''
+
Check<jmol>
-
 
+
<jmolCheckbox>
-
 
+
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/do/2dog_consurf.spt"</scriptWhenChecked>
-
==Overview==
+
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
-
The RimM protein has been implicated in the maturation of the 30S ribosomal subunit. It binds to ribosomal protein S19, located in the head domain of the 30S subunit. Multiple sequence alignments predicted that RimM possesses two domains in its N- and C-terminal regions. In the present study, we have produced Thermus thermophilus RimM in both the full-length form (162 residues) and its N-terminal fragment, spanning residues 1 to 85, as soluble proteins in Escherichia coli and have performed structural analyses by nuclear magnetic resonance spectroscopy. Residues 1 to 80 of the RimM protein fold into a single structural domain adopting a six-stranded beta-barrel fold. On the other hand, the C-terminal region of RimM (residues 81 to 162) is partly folded in solution. Analyses of 1H-15N heteronuclear single quantum correlation spectra revealed that a wide range of residues in the C-terminal region, as well as the residues in the vicinity of a hydrophobic patch in the N-terminal domain, were dramatically affected upon complex formation with ribosomal protein S19.
+
<text>to colour the structure by Evolutionary Conservation</text>
-
 
+
</jmolCheckbox>
-
==About this Structure==
+
</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2dog ConSurf].
-
2DOG is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DOG OCA].
+
<div style="clear:both"></div>
-
 
+
__TOC__
-
==Reference==
+
</StructureSection>
-
Structural characterization of the ribosome maturation protein, RimM., Suzuki S, Tatsuguchi A, Matsumoto E, Kawazoe M, Kaminishi T, Shirouzu M, Muto Y, Takemoto C, Yokoyama S, J Bacteriol. 2007 Sep;189(17):6397-406. Epub 2007 Jul 6. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/17616598 17616598]
+
[[Category: Large Structures]]
-
[[Category: Single protein]]
+
[[Category: Thermus thermophilus HB8]]
-
[[Category: Thermus thermophilus]]
+
[[Category: Kaminishi T]]
-
[[Category: Kaminishi, T.]]
+
[[Category: Kawazoe M]]
-
[[Category: Kawazoe, M.]]
+
[[Category: Matsumoto E]]
-
[[Category: Matsumoto, E.]]
+
[[Category: Muto Y]]
-
[[Category: Muto, Y.]]
+
[[Category: Shirouzu M]]
-
[[Category: RSGI, RIKEN Structural Genomics/Proteomics Initiative.]]
+
[[Category: Suzuki S]]
-
[[Category: Shirouzu, M.]]
+
[[Category: Takemoto C]]
-
[[Category: Suzuki, S.]]
+
[[Category: Tatsuguchi A]]
-
[[Category: Takemoto, C.]]
+
[[Category: Yokoyama S]]
-
[[Category: Tatsuguchi, A.]]
+
-
[[Category: Yokoyama, S.]]
+
-
[[Category: beta barrel]]
+
-
[[Category: national project on protein structural and functional analyse]]
+
-
[[Category: nppsfa]]
+
-
[[Category: riken structural genomics/proteomics initiative]]
+
-
[[Category: rsgi]]
+
-
[[Category: structural genomic]]
+
-
[[Category: unknown function]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 02:37:22 2008''
+

Current revision

Solution structure of the N-terminal domain of RimM from Thermus thermophilus HB8

PDB ID 2dog

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/2dog"
Personal tools