3sb2: Difference between revisions

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<StructureSection load='3sb2' size='340' side='right'caption='[[3sb2]], [[Resolution|resolution]] 2.63&Aring;' scene=''>
<StructureSection load='3sb2' size='340' side='right'caption='[[3sb2]], [[Resolution|resolution]] 2.63&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[3sb2]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3SB2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3SB2 FirstGlance]. <br>
<table><tr><td colspan='2'>[[3sb2]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Herbaspirillum_seropedicae_SmR1 Herbaspirillum seropedicae SmR1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3SB2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3SB2 FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</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]] 2.6301&#8491;</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=3sb2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3sb2 OCA], [http://pdbe.org/3sb2 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3sb2 RCSB], [http://www.ebi.ac.uk/pdbsum/3sb2 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3sb2 ProSAT]</span></td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</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=3sb2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3sb2 OCA], [https://pdbe.org/3sb2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3sb2 RCSB], [https://www.ebi.ac.uk/pdbsum/3sb2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3sb2 ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
[[http://www.uniprot.org/uniprot/D8IZU6_HERSS D8IZU6_HERSS]] RNA chaperone that binds small regulatory RNA (sRNAs) and mRNAs to facilitate mRNA translational regulation in response to envelope stress, environmental stress and changes in metabolite concentrations. Also binds with high specificity to tRNAs (By similarity).[HAMAP-Rule:MF_00436][SAAS:SAAS001163_004_036087]  
[https://www.uniprot.org/uniprot/D8IZU6_HERSS D8IZU6_HERSS] RNA chaperone that binds small regulatory RNA (sRNAs) and mRNAs to facilitate mRNA translational regulation in response to envelope stress, environmental stress and changes in metabolite concentrations. Also binds with high specificity to tRNAs (By similarity).[HAMAP-Rule:MF_00436][SAAS:SAAS001163_004_036087]
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The RNA chaperone Hfq is a homohexamer protein identified as an E. coli host factor involved in phage Qbeta replication and it is an important posttranscriptional regulator of several types of RNA, affecting a plethora of bacterial functions. Although twenty Hfq crystal structures have already been reported in the Protein Data Bank (PDB), new insights into these protein structures can still be discussed. In this work, the structure of Hfq from the beta-proteobacterium Herbaspirillum seropedicae, a diazotroph associated with economically important agricultural crops, was determined by X-ray crystallography and small-angle X-ray scattering (SAXS). Biochemical assays such as exclusion chromatography and RNA-binding by the electrophoretic shift assay (EMSA) confirmed that the purified protein is homogeneous and active. The crystal structure revealed a conserved Sm topology, composed of one N-terminal alpha-helix followed by five twisted beta-strands, and a novel pi-pi stacking intra-subunit interaction of two histidine residues, absent in other Hfq proteins. Moreover, the calculated ab initio envelope based on small-angle X-ray scattering (SAXS) data agreed with the Hfq crystal structure, suggesting that the protein has the same folding structure in solution.


Structural characterization of the RNA chaperone Hfq from the nitrogen-fixing bacterium Herbaspirillum seropedicae SmR1.,Kadowaki MA, Iulek J, Barbosa JA, Pedrosa FD, de Souza EM, Chubatsu LS, Monteiro RA, de Oliveira MA, Steffens MB Biochim Biophys Acta. 2011 Dec 2;1824(2):359-365. PMID:22154803<ref>PMID:22154803</ref>
==See Also==
 
*[[Protein Hfq 3D structures|Protein Hfq 3D structures]]
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 3sb2" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Herbaspirillum seropedicae SmR1]]
[[Category: Large Structures]]
[[Category: Large Structures]]
[[Category: Barbosa, J A.R G]]
[[Category: Barbosa JARG]]
[[Category: Chubatsu, L S]]
[[Category: Chubatsu LS]]
[[Category: Iulek, J]]
[[Category: Iulek J]]
[[Category: Kadowaki, M A.S]]
[[Category: Kadowaki MAS]]
[[Category: Monteiro, R A]]
[[Category: Monteiro RA]]
[[Category: Pedrosa, F O]]
[[Category: Pedrosa FO]]
[[Category: Souza, E M]]
[[Category: Souza EM]]
[[Category: Steffens, M B.R]]
[[Category: Steffens MBR]]
[[Category: Chaperone]]
[[Category: Rna chaperone]]
[[Category: Sm-like]]

Latest revision as of 12:48, 1 March 2024

Crystal Structure of the RNA chaperone Hfq from Herbaspirillum seropedicae SMR1Crystal Structure of the RNA chaperone Hfq from Herbaspirillum seropedicae SMR1

Structural highlights

3sb2 is a 6 chain structure with sequence from Herbaspirillum seropedicae SmR1. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2.6301Å
Ligands:
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

D8IZU6_HERSS RNA chaperone that binds small regulatory RNA (sRNAs) and mRNAs to facilitate mRNA translational regulation in response to envelope stress, environmental stress and changes in metabolite concentrations. Also binds with high specificity to tRNAs (By similarity).[HAMAP-Rule:MF_00436][SAAS:SAAS001163_004_036087]

See Also

3sb2, resolution 2.63Å

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