5h1a: Difference between revisions
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==Crystal structure of an IclR homolog from Microbacterium sp. strain HM58-2== | |||
<StructureSection load='5h1a' size='340' side='right' caption='[[5h1a]], [[Resolution|resolution]] 2.10Å' scene=''> | |||
== Structural highlights == | |||
<table><tr><td colspan='2'>[[5h1a]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5H1A OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5H1A FirstGlance]. <br> | |||
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></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=5h1a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h1a OCA], [http://pdbe.org/5h1a PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5h1a RCSB], [http://www.ebi.ac.uk/pdbsum/5h1a PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5h1a ProSAT]</span></td></tr> | |||
</table> | |||
<div style="background-color:#fffaf0;"> | |||
== Publication Abstract from PubMed == | |||
The bacterial transcription factor IclR (isocitrate lyase regulator) is a member of a one-component signal transduction system, which shares the common motif of a helix-turn-helix (HTH)-type DNA-binding domain (DBD) connected to a substrate-binding domain (SBD). Here, the crystal structure of an IclR homologue (Mi-IclR) from Microbacterium sp. strain HM58-2, which catabolizes acylhydrazide as the sole carbon source, is reported. Mi-IclR is expected to regulate an operon responsible for acylhydrazide degradation as an initial step. Native single-wavelength anomalous diffraction (SAD) experiments were performed in combination with molecular replacement. CRANK2 from the CCP4 suite successfully phased and modelled the complete structure of a homotetramer composed of 1000 residues in an asymmetric unit, and the model was refined to 2.1 A resolution. The overall structure of Mi-IclR shared the same domain combination as other known IclR structures, but the relative geometry between the DBD and SBD differs. Accordingly, the geometry of the Mi-IclR tetramer was unique: the putative substrate-binding site in each subunit is accessible from the outside of the tetramer, as opposed to buried inside as in the previously known IclR structures. These differences in the domain geometry may contribute to the transcriptional regulation of IclRs. | |||
Crystal structure of an IclR homologue from Microbacterium sp. strain HM58-2.,Akiyama T, Yamada Y, Takaya N, Ito S, Sasaki Y, Yajima S Acta Crystallogr F Struct Biol Commun. 2017 Jan 1;73(Pt 1):16-23. doi:, 10.1107/S2053230X16019208. Epub 2017 Jan 1. PMID:28045389<ref>PMID:28045389</ref> | |||
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |||
[[Category: | </div> | ||
<div class="pdbe-citations 5h1a" style="background-color:#fffaf0;"></div> | |||
== References == | |||
<references/> | |||
__TOC__ | |||
</StructureSection> | |||
[[Category: Akiyama, T]] | |||
[[Category: Ito, S]] | |||
[[Category: Sasaki, Y]] | |||
[[Category: Takaya, N]] | |||
[[Category: Yajima, S]] | [[Category: Yajima, S]] | ||
[[Category: Yamada, Y]] | [[Category: Yamada, Y]] | ||
[[Category: Dna-binding]] | |||
[[Category: Transcription regulator]] | |||
Revision as of 19:21, 18 January 2017
Crystal structure of an IclR homolog from Microbacterium sp. strain HM58-2Crystal structure of an IclR homolog from Microbacterium sp. strain HM58-2
Structural highlights
Publication Abstract from PubMedThe bacterial transcription factor IclR (isocitrate lyase regulator) is a member of a one-component signal transduction system, which shares the common motif of a helix-turn-helix (HTH)-type DNA-binding domain (DBD) connected to a substrate-binding domain (SBD). Here, the crystal structure of an IclR homologue (Mi-IclR) from Microbacterium sp. strain HM58-2, which catabolizes acylhydrazide as the sole carbon source, is reported. Mi-IclR is expected to regulate an operon responsible for acylhydrazide degradation as an initial step. Native single-wavelength anomalous diffraction (SAD) experiments were performed in combination with molecular replacement. CRANK2 from the CCP4 suite successfully phased and modelled the complete structure of a homotetramer composed of 1000 residues in an asymmetric unit, and the model was refined to 2.1 A resolution. The overall structure of Mi-IclR shared the same domain combination as other known IclR structures, but the relative geometry between the DBD and SBD differs. Accordingly, the geometry of the Mi-IclR tetramer was unique: the putative substrate-binding site in each subunit is accessible from the outside of the tetramer, as opposed to buried inside as in the previously known IclR structures. These differences in the domain geometry may contribute to the transcriptional regulation of IclRs. Crystal structure of an IclR homologue from Microbacterium sp. strain HM58-2.,Akiyama T, Yamada Y, Takaya N, Ito S, Sasaki Y, Yajima S Acta Crystallogr F Struct Biol Commun. 2017 Jan 1;73(Pt 1):16-23. doi:, 10.1107/S2053230X16019208. Epub 2017 Jan 1. PMID:28045389[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. References
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