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| | ==Crystal structure of the DNA-binding domain of AdpA, the global transcriptional factor, in complex with a target DNA== | | ==Crystal structure of the DNA-binding domain of AdpA, the global transcriptional factor, in complex with a target DNA== |
| - | <StructureSection load='3w6v' size='340' side='right' caption='[[3w6v]], [[Resolution|resolution]] 2.95Å' scene=''> | + | <StructureSection load='3w6v' size='340' side='right'caption='[[3w6v]], [[Resolution|resolution]] 2.95Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[3w6v]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/"actinomyces_griseus"_krainsky_1914 "actinomyces griseus" krainsky 1914]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3W6V OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3W6V FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[3w6v]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptomyces_griseus Streptomyces griseus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3W6V OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3W6V FirstGlance]. <br> |
| - | </td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">adpA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1911 "Actinomyces griseus" Krainsky 1914])</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]] 2.95Å</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=3w6v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3w6v OCA], [http://pdbe.org/3w6v PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3w6v RCSB], [http://www.ebi.ac.uk/pdbsum/3w6v PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3w6v ProSAT]</span></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=3w6v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3w6v OCA], [https://pdbe.org/3w6v PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3w6v RCSB], [https://www.ebi.ac.uk/pdbsum/3w6v PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3w6v ProSAT]</span></td></tr> |
| | </table> | | </table> |
| | + | == Function == |
| | + | [https://www.uniprot.org/uniprot/Q9S166_STRGR Q9S166_STRGR] |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
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| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Actinomyces griseus krainsky 1914]] | + | [[Category: Large Structures]] |
| - | [[Category: Miyazono, K]] | + | [[Category: Streptomyces griseus]] |
| - | [[Category: Nagata, K]] | + | [[Category: Miyazono K]] |
| - | [[Category: Ohnishi, Y]] | + | [[Category: Nagata K]] |
| - | [[Category: Ohtsuka, J]] | + | [[Category: Ohnishi Y]] |
| - | [[Category: Tanokura, M]] | + | [[Category: Ohtsuka J]] |
| - | [[Category: Yao, M D]] | + | [[Category: Tanokura M]] |
| - | [[Category: Dna-binding]]
| + | [[Category: Yao MD]] |
| - | [[Category: H-t-h motif]]
| + | |
| - | [[Category: Intracellular]]
| + | |
| - | [[Category: Sequence-specific dna binding transcription factor activity]]
| + | |
| - | [[Category: Transcription activator-dna complex]]
| + | |
| Structural highlights
Function
Q9S166_STRGR
Publication Abstract from PubMed
AdpA serves as the global transcription factor in the A-factor regulatory cascade, controlling the secondary metabolism and morphological differentiation of the filamentous bacterium Streptomyces griseus. AdpA binds to over 500 operator regions with the consensus sequence 5'-TGGCSNGWWY-3' (where S is G or C, W is A or T, Y is T or C, and N is any nucleotide). However, it is still obscure how AdpA can control hundreds of genes. To elucidate the structural basis of this tolerant DNA recognition by AdpA, we focused on the interaction between the DNA-binding domain of AdpA (AdpA-DBD), which consists of two helix-turn-helix motifs, and a target duplex DNA containing the consensus sequence 5'-TGGCGGGTTC-3'. The crystal structure of the AdpA-DBD-DNA complex and the mutant analysis of AdpA-DBD revealed its unique manner of DNA recognition, whereby only two arginine residues directly recognize the consensus sequence, explaining the strict recognition of G and C at positions 2 and 4, respectively, and the tolerant recognition of other positions of the consensus sequence. AdpA-DBD confers tolerant DNA sequence specificity to AdpA, allowing it to control hundreds of genes as a global transcription factor.
Complex Structure of the DNA-binding Domain of AdpA, the Global Transcription Factor in Streptomyces griseus, and a Target Duplex DNA Reveals the Structural Basis of Its Tolerant DNA Sequence Specificity.,Yao MD, Ohtsuka J, Nagata K, Miyazono K, Zhi Y, Ohnishi Y, Tanokura M J Biol Chem. 2013 Oct 25;288(43):31019-29. doi: 10.1074/jbc.M113.473611. Epub, 2013 Sep 9. PMID:24019524[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Yao MD, Ohtsuka J, Nagata K, Miyazono K, Zhi Y, Ohnishi Y, Tanokura M. Complex Structure of the DNA-binding Domain of AdpA, the Global Transcription Factor in Streptomyces griseus, and a Target Duplex DNA Reveals the Structural Basis of Its Tolerant DNA Sequence Specificity. J Biol Chem. 2013 Oct 25;288(43):31019-29. doi: 10.1074/jbc.M113.473611. Epub, 2013 Sep 9. PMID:24019524 doi:http://dx.doi.org/10.1074/jbc.M113.473611
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