Crystallization and X-ray analysis of 2-deoxy-scyllo-inosose synthase, the key enzyme in the biosynthesis of 2-deoxystreptamine-containing aminoglycoside antibiotics
A recombinant 2‐deoxy‐scyllo‐inosose synthase from Bacillus circulans has been crystallized at 277 K using PEG 4000 as precipitant. The diffraction pattern of the crystal extends to 2.30 Å resolution at 100 K using synchrotron radiation at the Photon Factory. The crystals are monoclinic and belong t...
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| Veröffentlicht in: | Acta crystallographica. Section F, Structural biology and crystallization communications Structural biology and crystallization communications, 2005-07, Vol.61 (7), p.709-711 |
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| container_title | Acta crystallographica. Section F, Structural biology and crystallization communications |
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| creator | Nango, Eriko Kumasaka, Takashi Sato, Takao Tanaka, Nobuo Kakinuma, Katsumi Eguchi, Tadashi |
| description | A recombinant 2‐deoxy‐scyllo‐inosose synthase from Bacillus circulans has been crystallized at 277 K using PEG 4000 as precipitant. The diffraction pattern of the crystal extends to 2.30 Å resolution at 100 K using synchrotron radiation at the Photon Factory. The crystals are monoclinic and belong to space group P21, with unit‐cell parameters a = 80.5, b = 70.4, c = 83.0 Å, β = 117.8°. The presence of two molecules per asymmetric unit gives a crystal volume per protein weight (VM) of 2.89 Å3 Da−1 and a solvent constant of 57.4% by volume. |
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The diffraction pattern of the crystal extends to 2.30 Å resolution at 100 K using synchrotron radiation at the Photon Factory. The crystals are monoclinic and belong to space group P21, with unit‐cell parameters a = 80.5, b = 70.4, c = 83.0 Å, β = 117.8°. The presence of two molecules per asymmetric unit gives a crystal volume per protein weight (VM) of 2.89 Å3 Da−1 and a solvent constant of 57.4% by volume.</description><identifier>ISSN: 1744-3091</identifier><identifier>EISSN: 1744-3091</identifier><identifier>DOI: 10.1107/S1744309105018841</identifier><identifier>PMID: 16511136</identifier><language>eng</language><publisher>5 Abbey Square, Chester, Cheshire CH1 2HU, England: Munksgaard International Publishers</publisher><subject>2-deoxystreptamine ; aminoglycoside antibiotics ; Aminoglycosides - chemistry ; Anti-Bacterial Agents - chemistry ; Bacillus - enzymology ; CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND SUPERFLUIDITY ; CRYSTALLIZATION ; Crystallization Communications ; Crystallography, X-Ray ; CRYSTALS ; dehydroquinate synthase ; DIFFRACTION ; Escherichia coli - metabolism ; Hexosamines - chemistry ; Lyases - chemistry ; Models, Chemical ; Models, Statistical ; MOLECULES ; Phosphorus-Oxygen Lyases - chemistry ; PHOTONS ; Polyethylene Glycols - chemistry ; Recombinant Proteins - chemistry ; RESOLUTION ; SOLVENTS ; SPACE GROUPS ; SYNCHROTRON RADIATION ; Synchrotrons ; Temperature ; WEIGHT</subject><ispartof>Acta crystallographica. Section F, Structural biology and crystallization communications, 2005-07, Vol.61 (7), p.709-711</ispartof><rights>International Union of Crystallography 2005 2005</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c6230-8c260a6b4de8673fbc6de5c9fb9facbb7eb4cb1315da6d201eb9201fdfe5530c3</citedby></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC1952460/pdf/$$EPDF$$P50$$Gpubmedcentral$$H</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC1952460/$$EHTML$$P50$$Gpubmedcentral$$H</linktohtml><link.rule.ids>230,314,723,776,780,881,1411,27901,27902,45550,45551,53766,53768</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/16511136$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink><backlink>$$Uhttps://www.osti.gov/biblio/22356145$$D View this record in Osti.gov$$Hfree_for_read</backlink></links><search><creatorcontrib>Nango, Eriko</creatorcontrib><creatorcontrib>Kumasaka, Takashi</creatorcontrib><creatorcontrib>Sato, Takao</creatorcontrib><creatorcontrib>Tanaka, Nobuo</creatorcontrib><creatorcontrib>Kakinuma, Katsumi</creatorcontrib><creatorcontrib>Eguchi, Tadashi</creatorcontrib><title>Crystallization and X-ray analysis of 2-deoxy-scyllo-inosose synthase, the key enzyme in the biosynthesis of 2-deoxystreptamine-containing aminoglycoside antibiotics</title><title>Acta crystallographica. Section F, Structural biology and crystallization communications</title><addtitle>Acta Cryst. F</addtitle><description>A recombinant 2‐deoxy‐scyllo‐inosose synthase from Bacillus circulans has been crystallized at 277 K using PEG 4000 as precipitant. The diffraction pattern of the crystal extends to 2.30 Å resolution at 100 K using synchrotron radiation at the Photon Factory. The crystals are monoclinic and belong to space group P21, with unit‐cell parameters a = 80.5, b = 70.4, c = 83.0 Å, β = 117.8°. The presence of two molecules per asymmetric unit gives a crystal volume per protein weight (VM) of 2.89 Å3 Da−1 and a solvent constant of 57.4% by volume.</description><subject>2-deoxystreptamine</subject><subject>aminoglycoside antibiotics</subject><subject>Aminoglycosides - chemistry</subject><subject>Anti-Bacterial Agents - chemistry</subject><subject>Bacillus - enzymology</subject><subject>CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND SUPERFLUIDITY</subject><subject>CRYSTALLIZATION</subject><subject>Crystallization Communications</subject><subject>Crystallography, X-Ray</subject><subject>CRYSTALS</subject><subject>dehydroquinate synthase</subject><subject>DIFFRACTION</subject><subject>Escherichia coli - metabolism</subject><subject>Hexosamines - chemistry</subject><subject>Lyases - chemistry</subject><subject>Models, Chemical</subject><subject>Models, Statistical</subject><subject>MOLECULES</subject><subject>Phosphorus-Oxygen Lyases - chemistry</subject><subject>PHOTONS</subject><subject>Polyethylene Glycols - chemistry</subject><subject>Recombinant Proteins - chemistry</subject><subject>RESOLUTION</subject><subject>SOLVENTS</subject><subject>SPACE GROUPS</subject><subject>SYNCHROTRON RADIATION</subject><subject>Synchrotrons</subject><subject>Temperature</subject><subject>WEIGHT</subject><issn>1744-3091</issn><issn>1744-3091</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2005</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqFUstu1DAUjRCIlsIHsEGRkLoiYMexk2yQqhEdEBXP8lpZjnMzY-qxh1wP1P0f_hNPMyqtWLCxr47POdfHvln2kJKnlJL62UdaVxUjLSWc0Kap6K1sfwsVW-z2tXovu4f4nRDGWtHczfao4JRSJvaz37MxYlDWmgsVjHe5cn3-tRhVTJWyEQ3mfsjLogd_HgvU0VpfGOfRI-QYXVgqhCd5WEJ-BjEHdxFXkBt3iXTGX1Lgpg2GEdZBrYyDQnsXlHHGLfIt4Bc2ao-mh9Q_mGQQjMb72Z1BWYQHu_0g-3T84nT2sjh5O381OzoptCgZKRpdCqJEV_XQiJoNnRY9cN0OXTso3XU1dJXuKKO8V6IvCYWuTevQD8A5I5odZM8n3_WmW0GvwYVRWbkezUqNUXpl5M0TZ5Zy4X9K2vKyEiQZPJ4MPAYjUZsAepkiOtBBliXjglY8sQ53bUb_YwMY5MqgBmuVA79BWRPKyppXiUgnoh494gjD1VUokdsRkP-MQNI8up7hr2L354nQToRfxkL8v6M8-nZcfv7ASbXNV0xagwHOr7RqPJPpwWsuv7yZy9fviWCn7-ayZX8A3k3R0A</recordid><startdate>200507</startdate><enddate>200507</enddate><creator>Nango, Eriko</creator><creator>Kumasaka, Takashi</creator><creator>Sato, Takao</creator><creator>Tanaka, Nobuo</creator><creator>Kakinuma, Katsumi</creator><creator>Eguchi, Tadashi</creator><general>Munksgaard International Publishers</general><general>International Union of Crystallography</general><scope>BSCLL</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>OTOTI</scope><scope>5PM</scope></search><sort><creationdate>200507</creationdate><title>Crystallization and X-ray analysis of 2-deoxy-scyllo-inosose synthase, the key enzyme in the biosynthesis of 2-deoxystreptamine-containing aminoglycoside antibiotics</title><author>Nango, Eriko ; Kumasaka, Takashi ; Sato, Takao ; Tanaka, Nobuo ; Kakinuma, Katsumi ; Eguchi, Tadashi</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c6230-8c260a6b4de8673fbc6de5c9fb9facbb7eb4cb1315da6d201eb9201fdfe5530c3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2005</creationdate><topic>2-deoxystreptamine</topic><topic>aminoglycoside antibiotics</topic><topic>Aminoglycosides - chemistry</topic><topic>Anti-Bacterial Agents - chemistry</topic><topic>Bacillus - enzymology</topic><topic>CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND SUPERFLUIDITY</topic><topic>CRYSTALLIZATION</topic><topic>Crystallization Communications</topic><topic>Crystallography, X-Ray</topic><topic>CRYSTALS</topic><topic>dehydroquinate synthase</topic><topic>DIFFRACTION</topic><topic>Escherichia coli - metabolism</topic><topic>Hexosamines - chemistry</topic><topic>Lyases - chemistry</topic><topic>Models, Chemical</topic><topic>Models, Statistical</topic><topic>MOLECULES</topic><topic>Phosphorus-Oxygen Lyases - chemistry</topic><topic>PHOTONS</topic><topic>Polyethylene Glycols - chemistry</topic><topic>Recombinant Proteins - chemistry</topic><topic>RESOLUTION</topic><topic>SOLVENTS</topic><topic>SPACE GROUPS</topic><topic>SYNCHROTRON RADIATION</topic><topic>Synchrotrons</topic><topic>Temperature</topic><topic>WEIGHT</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Nango, Eriko</creatorcontrib><creatorcontrib>Kumasaka, Takashi</creatorcontrib><creatorcontrib>Sato, Takao</creatorcontrib><creatorcontrib>Tanaka, Nobuo</creatorcontrib><creatorcontrib>Kakinuma, Katsumi</creatorcontrib><creatorcontrib>Eguchi, Tadashi</creatorcontrib><collection>Istex</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>OSTI.GOV</collection><collection>PubMed Central (Full Participant titles)</collection><jtitle>Acta crystallographica. Section F, Structural biology and crystallization communications</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Nango, Eriko</au><au>Kumasaka, Takashi</au><au>Sato, Takao</au><au>Tanaka, Nobuo</au><au>Kakinuma, Katsumi</au><au>Eguchi, Tadashi</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Crystallization and X-ray analysis of 2-deoxy-scyllo-inosose synthase, the key enzyme in the biosynthesis of 2-deoxystreptamine-containing aminoglycoside antibiotics</atitle><jtitle>Acta crystallographica. Section F, Structural biology and crystallization communications</jtitle><addtitle>Acta Cryst. F</addtitle><date>2005-07</date><risdate>2005</risdate><volume>61</volume><issue>7</issue><spage>709</spage><epage>711</epage><pages>709-711</pages><issn>1744-3091</issn><eissn>1744-3091</eissn><abstract>A recombinant 2‐deoxy‐scyllo‐inosose synthase from Bacillus circulans has been crystallized at 277 K using PEG 4000 as precipitant. The diffraction pattern of the crystal extends to 2.30 Å resolution at 100 K using synchrotron radiation at the Photon Factory. The crystals are monoclinic and belong to space group P21, with unit‐cell parameters a = 80.5, b = 70.4, c = 83.0 Å, β = 117.8°. The presence of two molecules per asymmetric unit gives a crystal volume per protein weight (VM) of 2.89 Å3 Da−1 and a solvent constant of 57.4% by volume.</abstract><cop>5 Abbey Square, Chester, Cheshire CH1 2HU, England</cop><pub>Munksgaard International Publishers</pub><pmid>16511136</pmid><doi>10.1107/S1744309105018841</doi><tpages>3</tpages><oa>free_for_read</oa></addata></record> |
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| subjects | 2-deoxystreptamine aminoglycoside antibiotics Aminoglycosides - chemistry Anti-Bacterial Agents - chemistry Bacillus - enzymology CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND SUPERFLUIDITY CRYSTALLIZATION Crystallization Communications Crystallography, X-Ray CRYSTALS dehydroquinate synthase DIFFRACTION Escherichia coli - metabolism Hexosamines - chemistry Lyases - chemistry Models, Chemical Models, Statistical MOLECULES Phosphorus-Oxygen Lyases - chemistry PHOTONS Polyethylene Glycols - chemistry Recombinant Proteins - chemistry RESOLUTION SOLVENTS SPACE GROUPS SYNCHROTRON RADIATION Synchrotrons Temperature WEIGHT |
| title | Crystallization and X-ray analysis of 2-deoxy-scyllo-inosose synthase, the key enzyme in the biosynthesis of 2-deoxystreptamine-containing aminoglycoside antibiotics |
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