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Crystal Structure of Archaeal Chromatin Protein Alba2-Double-stranded DNA Complex from Aeropyrum pernix K1
All thermophilic and hyperthermophilic archaea encode homologs of dimeric Alba (Sac10b) proteins that bind cooperatively at high density to DNA. Here, we report the 2.0 Å resolution crystal structure of an Alba2 (Ape10b2)-dsDNA complex from Aeropyrum pernix K1. A rectangular tube-like structure enco...
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| Published in: | The Journal of biological chemistry 2012-03, Vol.287 (13), p.10394-10402 |
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| container_end_page | 10402 |
| container_issue | 13 |
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| container_title | The Journal of biological chemistry |
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| creator | Tanaka, Tomoyuki Padavattan, Sivaraman Kumarevel, Thirumananseri |
| description | All thermophilic and hyperthermophilic archaea encode homologs of dimeric Alba (Sac10b) proteins that bind cooperatively at high density to DNA. Here, we report the 2.0 Å resolution crystal structure of an Alba2 (Ape10b2)-dsDNA complex from Aeropyrum pernix K1. A rectangular tube-like structure encompassing duplex DNA reveals the positively charged residues in the monomer-monomer interface of each dimer packing on either side of the bound dsDNA in successive minor grooves. The extended hairpin loop connecting strands β3 and β4 undergoes significant conformational changes upon DNA binding to accommodate the other Alba2 dimer during oligomerization. Mutational analysis of key interacting residues confirmed the specificity of Alba2-dsDNA interactions.
Alba is a dimeric, highly basic archaeal chromatin protein.
The crystal structure of the Alba2-dsDNA complex was determined.
Upon dsDNA binding, Alba undergoes a significant conformational change that is required for oligomerization.
This study provides the first structural insights into how the Alba dimer binds and packs the dsDNA. |
| doi_str_mv | 10.1074/jbc.M112.343210 |
| format | article |
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Alba is a dimeric, highly basic archaeal chromatin protein.
The crystal structure of the Alba2-dsDNA complex was determined.
Upon dsDNA binding, Alba undergoes a significant conformational change that is required for oligomerization.
This study provides the first structural insights into how the Alba dimer binds and packs the dsDNA.</description><identifier>ISSN: 0021-9258</identifier><identifier>EISSN: 1083-351X</identifier><identifier>DOI: 10.1074/jbc.M112.343210</identifier><identifier>PMID: 22334696</identifier><language>eng</language><publisher>United States: Elsevier Inc</publisher><subject>Aeropyrum - chemistry ; Aeropyrum - genetics ; Aeropyrum - metabolism ; Alba ; Ape1823 ; Archaea ; Archaeal Chromatin ; Archaeal Proteins - chemistry ; Archaeal Proteins - genetics ; Archaeal Proteins - metabolism ; Chromatin ; Crystallography, X-Ray ; DNA and Chromosomes ; DNA, Archaeal - chemistry ; DNA, Archaeal - genetics ; DNA, Archaeal - metabolism ; DNA-binding Protein ; DNA-Binding Proteins - chemistry ; DNA-Binding Proteins - genetics ; DNA-Binding Proteins - metabolism ; Nucleic Acid Structure ; Protein Structure, Secondary ; Protein Structure, Tertiary ; Sso10b ; Structural Biology</subject><ispartof>The Journal of biological chemistry, 2012-03, Vol.287 (13), p.10394-10402</ispartof><rights>2012 © 2012 ASBMB. Currently published by Elsevier Inc; originally published by American Society for Biochemistry and Molecular Biology.</rights><rights>2012 by The American Society for Biochemistry and Molecular Biology, Inc. 2012</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c442t-f4c9184f805ca0c31f54cdcc01b71db92e5039981357713e5047c8886247064b3</citedby><cites>FETCH-LOGICAL-c442t-f4c9184f805ca0c31f54cdcc01b71db92e5039981357713e5047c8886247064b3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC3322981/pdf/$$EPDF$$P50$$Gpubmedcentral$$H</linktopdf><linktohtml>$$Uhttps://www.sciencedirect.com/science/article/pii/S0021925820654497$$EHTML$$P50$$Gelsevier$$Hfree_for_read</linktohtml><link.rule.ids>230,314,727,780,784,885,3549,27924,27925,45780,53791,53793</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/22334696$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Tanaka, Tomoyuki</creatorcontrib><creatorcontrib>Padavattan, Sivaraman</creatorcontrib><creatorcontrib>Kumarevel, Thirumananseri</creatorcontrib><title>Crystal Structure of Archaeal Chromatin Protein Alba2-Double-stranded DNA Complex from Aeropyrum pernix K1</title><title>The Journal of biological chemistry</title><addtitle>J Biol Chem</addtitle><description>All thermophilic and hyperthermophilic archaea encode homologs of dimeric Alba (Sac10b) proteins that bind cooperatively at high density to DNA. Here, we report the 2.0 Å resolution crystal structure of an Alba2 (Ape10b2)-dsDNA complex from Aeropyrum pernix K1. A rectangular tube-like structure encompassing duplex DNA reveals the positively charged residues in the monomer-monomer interface of each dimer packing on either side of the bound dsDNA in successive minor grooves. The extended hairpin loop connecting strands β3 and β4 undergoes significant conformational changes upon DNA binding to accommodate the other Alba2 dimer during oligomerization. Mutational analysis of key interacting residues confirmed the specificity of Alba2-dsDNA interactions.
Alba is a dimeric, highly basic archaeal chromatin protein.
The crystal structure of the Alba2-dsDNA complex was determined.
Upon dsDNA binding, Alba undergoes a significant conformational change that is required for oligomerization.
This study provides the first structural insights into how the Alba dimer binds and packs the dsDNA.</description><subject>Aeropyrum - chemistry</subject><subject>Aeropyrum - genetics</subject><subject>Aeropyrum - metabolism</subject><subject>Alba</subject><subject>Ape1823</subject><subject>Archaea</subject><subject>Archaeal Chromatin</subject><subject>Archaeal Proteins - chemistry</subject><subject>Archaeal Proteins - genetics</subject><subject>Archaeal Proteins - metabolism</subject><subject>Chromatin</subject><subject>Crystallography, X-Ray</subject><subject>DNA and Chromosomes</subject><subject>DNA, Archaeal - chemistry</subject><subject>DNA, Archaeal - genetics</subject><subject>DNA, Archaeal - metabolism</subject><subject>DNA-binding Protein</subject><subject>DNA-Binding Proteins - chemistry</subject><subject>DNA-Binding Proteins - genetics</subject><subject>DNA-Binding Proteins - metabolism</subject><subject>Nucleic Acid Structure</subject><subject>Protein Structure, Secondary</subject><subject>Protein Structure, Tertiary</subject><subject>Sso10b</subject><subject>Structural Biology</subject><issn>0021-9258</issn><issn>1083-351X</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2012</creationdate><recordtype>article</recordtype><recordid>eNp1kU1v1DAQhi0EosvCmRvyjVO2HtvZxBekKOVLLQUJkLhZjjNhvUriYCdV99_Xqy1VOTCX0djvvDOah5DXwDbACnm-b-zmCwDfCCk4sCdkBawUmcjh11OyYoxDpnhenpEXMe5ZCqngOTnjXAi5VdsV2dfhEGfT0-9zWOy8BKS-o1WwO4Pptd4FP5jZjfRb8DOmXPWN4dmFX5oeszgHM7bY0ovritZ-mHq8pV1qoRUGPx3CMtAJw-hu6SW8JM8600d8dZ_X5OeH9z_qT9nV14-f6-oqs1LyOeukVVDKrmS5NcwK6HJpW2sZNAW0jeKYM6FUCSIvChCpkoUty3LLZcG2shFr8u7kOy3NgK3FMW3Z6ym4wYSD9sbpf39Gt9O__Y0WgvOj75q8vTcI_s-CcdaDixb73ozol6iVLBVAkY64JucnpQ0-xoDdwxRg-ghIJ0D6CEifAKWON4-Xe9D_JZIE6iTAdKIbh0FH63C02LqAdtatd_81vwPjwJ-_</recordid><startdate>20120323</startdate><enddate>20120323</enddate><creator>Tanaka, Tomoyuki</creator><creator>Padavattan, Sivaraman</creator><creator>Kumarevel, Thirumananseri</creator><general>Elsevier Inc</general><general>American Society for Biochemistry and Molecular Biology</general><scope>6I.</scope><scope>AAFTH</scope><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7X8</scope><scope>5PM</scope></search><sort><creationdate>20120323</creationdate><title>Crystal Structure of Archaeal Chromatin Protein Alba2-Double-stranded DNA Complex from Aeropyrum pernix K1</title><author>Tanaka, Tomoyuki ; Padavattan, Sivaraman ; Kumarevel, Thirumananseri</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c442t-f4c9184f805ca0c31f54cdcc01b71db92e5039981357713e5047c8886247064b3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2012</creationdate><topic>Aeropyrum - chemistry</topic><topic>Aeropyrum - genetics</topic><topic>Aeropyrum - metabolism</topic><topic>Alba</topic><topic>Ape1823</topic><topic>Archaea</topic><topic>Archaeal Chromatin</topic><topic>Archaeal Proteins - chemistry</topic><topic>Archaeal Proteins - genetics</topic><topic>Archaeal Proteins - metabolism</topic><topic>Chromatin</topic><topic>Crystallography, X-Ray</topic><topic>DNA and Chromosomes</topic><topic>DNA, Archaeal - chemistry</topic><topic>DNA, Archaeal - genetics</topic><topic>DNA, Archaeal - metabolism</topic><topic>DNA-binding Protein</topic><topic>DNA-Binding Proteins - chemistry</topic><topic>DNA-Binding Proteins - genetics</topic><topic>DNA-Binding Proteins - metabolism</topic><topic>Nucleic Acid Structure</topic><topic>Protein Structure, Secondary</topic><topic>Protein Structure, Tertiary</topic><topic>Sso10b</topic><topic>Structural Biology</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Tanaka, Tomoyuki</creatorcontrib><creatorcontrib>Padavattan, Sivaraman</creatorcontrib><creatorcontrib>Kumarevel, Thirumananseri</creatorcontrib><collection>ScienceDirect Open Access Titles</collection><collection>Elsevier:ScienceDirect:Open Access</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>MEDLINE - Academic</collection><collection>PubMed Central (Full Participant titles)</collection><jtitle>The Journal of biological chemistry</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Tanaka, Tomoyuki</au><au>Padavattan, Sivaraman</au><au>Kumarevel, Thirumananseri</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Crystal Structure of Archaeal Chromatin Protein Alba2-Double-stranded DNA Complex from Aeropyrum pernix K1</atitle><jtitle>The Journal of biological chemistry</jtitle><addtitle>J Biol Chem</addtitle><date>2012-03-23</date><risdate>2012</risdate><volume>287</volume><issue>13</issue><spage>10394</spage><epage>10402</epage><pages>10394-10402</pages><issn>0021-9258</issn><eissn>1083-351X</eissn><abstract>All thermophilic and hyperthermophilic archaea encode homologs of dimeric Alba (Sac10b) proteins that bind cooperatively at high density to DNA. Here, we report the 2.0 Å resolution crystal structure of an Alba2 (Ape10b2)-dsDNA complex from Aeropyrum pernix K1. A rectangular tube-like structure encompassing duplex DNA reveals the positively charged residues in the monomer-monomer interface of each dimer packing on either side of the bound dsDNA in successive minor grooves. The extended hairpin loop connecting strands β3 and β4 undergoes significant conformational changes upon DNA binding to accommodate the other Alba2 dimer during oligomerization. Mutational analysis of key interacting residues confirmed the specificity of Alba2-dsDNA interactions.
Alba is a dimeric, highly basic archaeal chromatin protein.
The crystal structure of the Alba2-dsDNA complex was determined.
Upon dsDNA binding, Alba undergoes a significant conformational change that is required for oligomerization.
This study provides the first structural insights into how the Alba dimer binds and packs the dsDNA.</abstract><cop>United States</cop><pub>Elsevier Inc</pub><pmid>22334696</pmid><doi>10.1074/jbc.M112.343210</doi><tpages>9</tpages><oa>free_for_read</oa></addata></record> |
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| subjects | Aeropyrum - chemistry Aeropyrum - genetics Aeropyrum - metabolism Alba Ape1823 Archaea Archaeal Chromatin Archaeal Proteins - chemistry Archaeal Proteins - genetics Archaeal Proteins - metabolism Chromatin Crystallography, X-Ray DNA and Chromosomes DNA, Archaeal - chemistry DNA, Archaeal - genetics DNA, Archaeal - metabolism DNA-binding Protein DNA-Binding Proteins - chemistry DNA-Binding Proteins - genetics DNA-Binding Proteins - metabolism Nucleic Acid Structure Protein Structure, Secondary Protein Structure, Tertiary Sso10b Structural Biology |
| title | Crystal Structure of Archaeal Chromatin Protein Alba2-Double-stranded DNA Complex from Aeropyrum pernix K1 |
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