The structure of Sinorhizobium meliloti phage ΦM12, which has a novel T =19l triangulation number and is the founder of a new group of T4-superfamily phages
Abstract ΦM12 is the first example of a T =19l geometry capsid, encapsulating the recently sequenced genome. Here, we present structures determined by cryo-EM of full and empty capsids. The structure reveals the pattern for assembly of 1140 HK97-like capsid proteins, pointing to interactions at the...
Saved in:
| Published in | Virology (New York, N.Y.) Vol. 450; pp. 205 - 212 |
|---|---|
| Main Authors | , , , |
| Format | Journal Article |
| Language | English |
| Published |
United States
Elsevier Inc
01.02.2014
|
| Subjects | |
| Online Access | Get full text |
Cover
Loading…
| Abstract | Abstract ΦM12 is the first example of a T =19l geometry capsid, encapsulating the recently sequenced genome. Here, we present structures determined by cryo-EM of full and empty capsids. The structure reveals the pattern for assembly of 1140 HK97-like capsid proteins, pointing to interactions at the pseudo 3-fold symmetry axes that hold together the asymmetric unit. The particular smooth surface of the capsid, along with a lack of accessory coat proteins encoded by the genome, suggest that this interface is the primary mechanism for capsid assembly. Two-dimensional averages of the tail, including the neck and baseplate, reveal that ΦM12 has a relatively narrow neck that attaches the tail to the capsid, as well as a three-layer baseplate. When free from DNA, the icosahedral edges expand by about 5 nm, while the vertices stay at the same position, forming a similarly smooth, but bowed, T =19l icosahedral capsid. |
|---|---|
| AbstractList | ΦM12 is the first example of a T=19l geometry capsid, encapsulating the recently sequenced genome. Here, we present structures determined by cryo-EM of full and empty capsids. The structure reveals the pattern for assembly of 1140 HK97-like capsid proteins, pointing to interactions at the pseudo 3-fold symmetry axes that hold together the asymmetric unit. The particular smooth surface of the capsid, along with a lack of accessory coat proteins encoded by the genome, suggest that this interface is the primary mechanism for capsid assembly. Two-dimensional averages of the tail, including the neck and baseplate, reveal that ΦM12 has a relatively narrow neck that attaches the tail to the capsid, as well as a three-layer baseplate. When free from DNA, the icosahedral edges expand by about 5nm, while the vertices stay at the same position, forming a similarly smooth, but bowed, T=19l icosahedral capsid. Abstract ΦM12 is the first example of a T =19l geometry capsid, encapsulating the recently sequenced genome. Here, we present structures determined by cryo-EM of full and empty capsids. The structure reveals the pattern for assembly of 1140 HK97-like capsid proteins, pointing to interactions at the pseudo 3-fold symmetry axes that hold together the asymmetric unit. The particular smooth surface of the capsid, along with a lack of accessory coat proteins encoded by the genome, suggest that this interface is the primary mechanism for capsid assembly. Two-dimensional averages of the tail, including the neck and baseplate, reveal that ΦM12 has a relatively narrow neck that attaches the tail to the capsid, as well as a three-layer baseplate. When free from DNA, the icosahedral edges expand by about 5 nm, while the vertices stay at the same position, forming a similarly smooth, but bowed, T =19l icosahedral capsid. ΦM12 is the first example of a T=19l geometry capsid, encapsulating the recently sequenced genome. Here, we present structures determined by cryo-EM of full and empty capsids. The structure reveals the pattern for assembly of 1140 HK97-like capsid proteins, pointing to interactions at the pseudo 3-fold symmetry axes that hold together the asymmetric unit. The particular smooth surface of the capsid, along with a lack of accessory coat proteins encoded by the genome, suggest that this interface is the primary mechanism for capsid assembly. Two-dimensional averages of the tail, including the neck and baseplate, reveal that ΦM12 has a relatively narrow neck that attaches the tail to the capsid, as well as a three-layer baseplate. When free from DNA, the icosahedral edges expand by about 5nm, while the vertices stay at the same position, forming a similarly smooth, but bowed, T=19l icosahedral capsid. [Display omitted] •The first T=19l geometry icosahedral bacteriophage structure is reported.•The T=19l geometry creates a quite large internal volume for packing the dsDNA genome.•ΦM12's capsid bows at the icosahedral faces when not packed with DNA, similar to other dsDNA phages. |
| Author | Stroupe, M. Elizabeth Sousa, Duncan R Jones, Kathryn M Brewer, Tess E |
| Author_xml | – sequence: 1 fullname: Stroupe, M. Elizabeth – sequence: 2 fullname: Brewer, Tess E – sequence: 3 fullname: Sousa, Duncan R – sequence: 4 fullname: Jones, Kathryn M |
| BackLink | https://www.ncbi.nlm.nih.gov/pubmed/24503083$$D View this record in MEDLINE/PubMed |
| BookMark | eNqFks1uEzEUhUeoiKaFJ0BCXrJggq898cSLIqGKP6mIRcPacjx3Mg4eO9jjVOFd2PI4PBMOKSzYsLKOdY6Prr97UZ354LGqngKdAwXxcjvf2xjcnFHgc4A5BfmgmgGVoqa8gbNqRmnDarFk7Ly6SGlLi25b-qg6Z82Ccrrks-r7akCSppjNlCOS0JNb60Mc7LewtnkkIzrrwmTJbtAbJD9_fAT2gtwN1gxk0Ilo4sMeHVmRK5COTNFqv8lOTzZ44vO4xki074hNZCpNfci-K1elpyTxjmxiyLujXDV1yjuMvR6tO5zq0uPqYa9dwif352X1-e2b1fX7-ubTuw_Xr29qw9tG1hIQGtNy0enWSMloL7RgTLNuIXuzXDMuRC9AcAZa6G7BqSlq3S4bTQVSzi-r56d3dzF8zZgmNdpk0DntMeSkoJES2IIvoVj5yWpiSClir3bRjjoeFFB15KK26jcXdeSiAFThUlLP7gvyesTub-YPiGK4OhmwjLm3GFUyFr3BzkY0k-qC_U_Bq3_yxllvjXZf8IBpG3L05QcVqMQUVbfH1ThuBnBKBZeS_wLZnrbf |
| CitedBy_id | crossref_primary_10_3389_fmicb_2020_00022 crossref_primary_10_1128_spectrum_02827_23 crossref_primary_10_1016_j_csbj_2021_12_032 crossref_primary_10_1073_pnas_1807706115 crossref_primary_10_1099_jgv_0_001487 crossref_primary_10_1016_j_jsb_2017_08_005 crossref_primary_10_1128_JVI_01875_14 crossref_primary_10_1128_mBio_01579_17 crossref_primary_10_1128_JVI_01353_15 crossref_primary_10_1016_j_virol_2015_02_055 crossref_primary_10_1099_mgen_0_001063 crossref_primary_10_1128_JVI_01356_21 crossref_primary_10_3390_microorganisms8121944 |
| Cites_doi | 10.1371/journal.pone.0033227 10.1016/j.jmb.2006.02.058 10.1126/science.289.5487.2129 10.1016/j.jmb.2010.11.047 10.1016/j.jsb.2012.07.009 10.1006/jsbi.1999.4174 10.1128/MMBR.00014-11 10.1128/JVI.00407-12 10.1111/j.1462-2920.2010.02280.x 10.1016/j.virol.2013.11.027 10.1016/j.jmb.2009.06.035 10.1128/MMBR.67.1.86-156.2003 10.1016/j.ultramic.2005.07.007 10.1128/JB.187.9.3188-3200.2005 10.1006/jsbi.2001.4369 10.1016/j.cell.2004.07.022 10.1371/journal.pbio.0030144 10.1006/jsbi.2000.4314 10.1111/j.1462-2920.2011.02502.x 10.1002/jcc.20084 10.1016/j.jsb.2009.03.019 10.1006/jmbi.2000.3989 10.1016/S0022-2836(05)80143-3 10.1016/j.jsb.2006.05.004 10.1007/s00203-007-0238-5 10.1073/pnas.0502164102 10.1016/j.str.2006.05.007 10.1016/j.jsb.2009.01.002 10.1016/j.jmb.2003.09.035 10.1111/j.1462-2920.2007.01285.x 10.1016/j.ultramic.2005.02.004 10.1016/0022-2836(92)90871-G 10.1016/j.str.2009.10.009 10.1101/SQB.1962.027.001.005 10.1073/pnas.0400444101 10.1128/JVI.02203-10 |
| ContentType | Journal Article |
| Copyright | Elsevier Inc. 2013 Elsevier Inc. 2013 Elsevier Inc. All rights reserved. |
| Copyright_xml | – notice: Elsevier Inc. – notice: 2013 Elsevier Inc. – notice: 2013 Elsevier Inc. All rights reserved. |
| DBID | 6I. AAFTH CGR CUY CVF ECM EIF NPM AAYXX CITATION 7X8 |
| DOI | 10.1016/j.virol.2013.11.019 |
| DatabaseName | ScienceDirect Open Access Titles Elsevier:ScienceDirect:Open Access Medline MEDLINE MEDLINE (Ovid) MEDLINE MEDLINE PubMed CrossRef MEDLINE - Academic |
| DatabaseTitle | MEDLINE Medline Complete MEDLINE with Full Text PubMed MEDLINE (Ovid) CrossRef MEDLINE - Academic |
| DatabaseTitleList | MEDLINE - Academic MEDLINE |
| Database_xml | – sequence: 1 dbid: NPM name: PubMed url: https://proxy.k.utb.cz/login?url=http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed sourceTypes: Index Database – sequence: 2 dbid: EIF name: MEDLINE url: https://proxy.k.utb.cz/login?url=https://www.webofscience.com/wos/medline/basic-search sourceTypes: Index Database |
| DeliveryMethod | fulltext_linktorsrc |
| Discipline | Biology |
| EISSN | 1096-0341 |
| EndPage | 212 |
| ExternalDocumentID | 10_1016_j_virol_2013_11_019 24503083 S0042682213006399 1_s2_0_S0042682213006399 |
| Genre | Research Support, U.S. Gov't, Non-P.H.S Research Support, Non-U.S. Gov't Journal Article Research Support, N.I.H., Extramural |
| GrantInformation_xml | – fundername: NIGMS NIH HHS grantid: P41-GM103311 |
| GroupedDBID | --- --K --M -DZ -~X .1- .55 .FO .GJ .~1 0R~ 0SF 123 1B1 1P~ 1RT 1~. 1~5 29Q 3O- 4.4 457 4G. 53G 5RE 5VS 6I. 7-5 71M 8P~ 9JM AAAJQ AABNK AACTN AAEDT AAEDW AAFTH AAIKJ AAKOC AALRI AAOAW AAQFI AAQXK AARKO AAXKI AAXUO ABBQC ABEFU ABFNM ABFRF ABJNI ABMAC ABMZM ABVKL ABXDB ACDAQ ACGFO ACGFS ACRLP ADBBV ADEZE ADFGL ADMUD ADVLN AEBSH AEFWE AEKER AENEX AEVXI AEXQZ AFCTW AFFNX AFJKZ AFKWA AFRHN AFTJW AFXIZ AGEKW AGHFR AGUBO AGYEJ AHHHB AIEXJ AIKHN AITUG AJOXV AJRQY AJUYK AKRWK ALMA_UNASSIGNED_HOLDINGS AMFUW AMRAJ ANZVX ASPBG AVWKF AXJTR AZFZN BKOJK BLXMC BNPGV CAG CJTIS COF CS3 DM4 DU5 EBS EFBJH EJD EO8 EO9 EP2 EP3 F5P FA8 FDB FEDTE FGOYB FIRID FNPLU FYGXN G-2 G-Q GBLVA HEJ HMG HMK HMO HVGLF HX~ HZ~ H~9 IHE IXB J1W KOM LG5 LUGTX LZ5 M29 M41 MO0 MVM N9A NCXOZ O-L O9- OAUVE OD- OHT OK1 OO. OZT P-8 P-9 P2P PC. Q38 Q44 R2- RIG ROL RPZ SAE SCC SDF SDG SDP SES SEW SIN SSH SSI SSZ T5K TN5 UAP UQL WH7 WUQ X7M XOL XPP Y6R Z5R ZGI ZKB ZMT ZU3 ~G- ~KM AAIAV ABLVK ABYKQ AFDAS AFMIJ AHPSJ AJBFU EFLBG LCYCR CGR CUY CVF ECM EIF NPM AAYXX CITATION 7X8 |
| ID | FETCH-LOGICAL-c3749-91e14c736da7c9920f6a622a2d59fc8b2366f616321a6ad530c616b784a06e033 |
| IEDL.DBID | IXB |
| ISSN | 0042-6822 |
| IngestDate | Thu Oct 24 23:46:53 EDT 2024 Thu Sep 26 16:06:55 EDT 2024 Sat Sep 28 07:57:16 EDT 2024 Fri Feb 23 02:32:59 EST 2024 Tue Oct 15 22:55:35 EDT 2024 |
| IsDoiOpenAccess | true |
| IsOpenAccess | true |
| IsPeerReviewed | true |
| IsScholarly | true |
| Keywords | ΦM12 Icosahedral Bacteriophage Myovirus T=19 Sinorhizobium meliloti |
| Language | English |
| License | http://www.elsevier.com/open-access/userlicense/1.0 2013 Elsevier Inc. All rights reserved. |
| LinkModel | DirectLink |
| MergedId | FETCHMERGED-LOGICAL-c3749-91e14c736da7c9920f6a622a2d59fc8b2366f616321a6ad530c616b784a06e033 |
| Notes | ObjectType-Article-1 SourceType-Scholarly Journals-1 ObjectType-Feature-2 content type line 23 |
| OpenAccessLink | https://www.sciencedirect.com/science/article/pii/S0042682213006399 |
| PMID | 24503083 |
| PQID | 1499125381 |
| PQPubID | 23479 |
| PageCount | 8 |
| ParticipantIDs | proquest_miscellaneous_1499125381 crossref_primary_10_1016_j_virol_2013_11_019 pubmed_primary_24503083 elsevier_sciencedirect_doi_10_1016_j_virol_2013_11_019 elsevier_clinicalkeyesjournals_1_s2_0_S0042682213006399 |
| PublicationCentury | 2000 |
| PublicationDate | 2014-02-00 |
| PublicationDateYYYYMMDD | 2014-02-01 |
| PublicationDate_xml | – month: 02 year: 2014 text: 2014-02-00 |
| PublicationDecade | 2010 |
| PublicationPlace | United States |
| PublicationPlace_xml | – name: United States |
| PublicationTitle | Virology (New York, N.Y.) |
| PublicationTitleAlternate | Virology |
| PublicationYear | 2014 |
| Publisher | Elsevier Inc |
| Publisher_xml | – name: Elsevier Inc |
| References | Lander, Stagg, Voss, Cheng, Fellmann, Pulokas, Yoshioka, Irving, Mulder, Lau, Lyumkis, Potter, Carragher (bib15) 2009; 166 Ludtke, Baldwin, Chiu (bib19) 1999; 128 Duda, Hempel, Michel, Shabanowitz, Hunt, Hendrix (bib8) 1995; 247 in press. Leiman, Kostyuchenko, Shneider, Kurochkina, Mesyanzhinov, Rossmann (bib17) 2000; 301 Fokine, Leiman, Shneider, Ahvazi, Boeshans, Steven, Black, Mesyanzhinov, Rossmann (bib11) 2005; 102 Sullivan, Huang, Ignacio-Espinoza, Berlin, Kelly, Weigele, DeFrancesco, Kern, Thompson, Young, Yandava, Fu, Krastins, Chase, Sarracino, Osburne, Henn, Chisholm (bib31) 2010; 12 Leiman, Shneider, Mesyanzhinov, Rossmann (bib18) 2006; 358 Adriaenssens, Van Vaerenbergh, Vandenheuvel, Dunon, Ceyssens, De Proft, Kropinski, Noben, Maes, Lavigne (bib1) 2012; 7 Helgstrand, Wikoff, Duda, Hendrix, Johnson, Liljas (bib13) 2003; 334 Spilman, Dearborn, Chang, Damle, Christie, Dokland (bib28) 2011; 405 Mann, Clokie, Millard, Cook, Wilson, Wheatley, Letarov, Krisch (bib21) 2005; 187 Chen, Lin, Lin, Chang, Tseng, Weng (bib6) 2007; 188 Chang, Weigele, King, Chiu, Jiang (bib5) 2006; 14 Grigorieff (bib12) 2007; 157 Scheres, Melero, Valle, Carazo (bib25) 2009; 17 Sullivan, Coleman, Weigele, Rohwer, Chisholm (bib30) 2005; 3 Brewer, T., Stroupe, M., Jones, K.. The genome and phylogenetic analysis of Sinorhizobium meliloti phage φM12, the founder of a new group of T4-like Leiman, Chipman, Kostyuchenko, Mesyanzhinov, Rossmann (bib16) 2004; 118 Mallick, Carragher, Potter, Kriegman (bib20) 2005; 104 Pascual-Montano, Donate, Valle, Barcena, Pascual-Marqui, Carazo (bib23) 2001; 133 Fokine, Chipman, Leiman, Mesyanzhinov, Rao, Rossmann (bib10) 2004; 101 Winkler, Taylor (bib36) 2006; 106 Duda, Ross, Cheng, Firek, Hendrix, Conway, Steven (bib9) 2009; 391 Wikoff, Liljas, Duda, Tsuruta, Hendrix, Johnson (bib35) 2000; 289 Steven, Greenstone, Booy, Black, Ross (bib29) 1992; 228 Holmes (bib14) 2011; 85 Shen, Domek, Sanz-Garcia, Makaju, Taylor, Hoggan, Culumber, Oberg, Breakwell, Prince, Belnap (bib26) 2012; 86 Shrum, Woodruff, Stagg (bib27) 2012; 180 Caspar, D.L., Klug, A., 1962. Physical principles in the construction of regular viruses. Cold Spring Harbor Symp. Quant. Biol. 27, 1–24. Suloway, Shi, Cheng, Pulokas, Carragher, Potter, Zheng, Agard, Jensen (bib32) 2009; 167 Carragher, Kisseberth, Kriegman, Milligan, Potter, Pulokas, Reilein (bib3) 2000; 132 Dreher, Brown, Bozarth, Schwartz, Riscoe, Thrash, Bennett, Tzeng, Maier (bib7) 2011; 13 Pettersen, Goddard, Huang, Couch, Greenblatt, Meng, Ferrin (bib24) 2004; 25 Miller, Kutter, Mosig, Arisaka, Kunisawa, Ruger (bib22) 2003; 67 Veesler, Cambillau (bib33) 2011; 75 Weigele, Pope, Pedulla, Houtz, Smith, Conway, King, Hatfull, Lawrence, Hendrix (bib34) 2007; 9 Dreher (10.1016/j.virol.2013.11.019_bib7) 2011; 13 Holmes (10.1016/j.virol.2013.11.019_bib14) 2011; 85 Leiman (10.1016/j.virol.2013.11.019_bib16) 2004; 118 Ludtke (10.1016/j.virol.2013.11.019_bib19) 1999; 128 Mann (10.1016/j.virol.2013.11.019_bib21) 2005; 187 Miller (10.1016/j.virol.2013.11.019_bib22) 2003; 67 Helgstrand (10.1016/j.virol.2013.11.019_bib13) 2003; 334 Shrum (10.1016/j.virol.2013.11.019_bib27) 2012; 180 Shen (10.1016/j.virol.2013.11.019_bib26) 2012; 86 Fokine (10.1016/j.virol.2013.11.019_bib10) 2004; 101 Pascual-Montano (10.1016/j.virol.2013.11.019_bib23) 2001; 133 Suloway (10.1016/j.virol.2013.11.019_bib32) 2009; 167 Chen (10.1016/j.virol.2013.11.019_bib6) 2007; 188 Weigele (10.1016/j.virol.2013.11.019_bib34) 2007; 9 Wikoff (10.1016/j.virol.2013.11.019_bib35) 2000; 289 Adriaenssens (10.1016/j.virol.2013.11.019_bib1) 2012; 7 Leiman (10.1016/j.virol.2013.11.019_bib18) 2006; 358 Duda (10.1016/j.virol.2013.11.019_bib8) 1995; 247 Fokine (10.1016/j.virol.2013.11.019_bib11) 2005; 102 Sullivan (10.1016/j.virol.2013.11.019_bib31) 2010; 12 Veesler (10.1016/j.virol.2013.11.019_bib33) 2011; 75 Mallick (10.1016/j.virol.2013.11.019_bib20) 2005; 104 Carragher (10.1016/j.virol.2013.11.019_bib3) 2000; 132 Lander (10.1016/j.virol.2013.11.019_bib15) 2009; 166 Scheres (10.1016/j.virol.2013.11.019_bib25) 2009; 17 Chang (10.1016/j.virol.2013.11.019_bib5) 2006; 14 Duda (10.1016/j.virol.2013.11.019_bib9) 2009; 391 Leiman (10.1016/j.virol.2013.11.019_bib17) 2000; 301 10.1016/j.virol.2013.11.019_bib4 Grigorieff (10.1016/j.virol.2013.11.019_bib12) 2007; 157 Pettersen (10.1016/j.virol.2013.11.019_bib24) 2004; 25 10.1016/j.virol.2013.11.019_bib2 Steven (10.1016/j.virol.2013.11.019_bib29) 1992; 228 Sullivan (10.1016/j.virol.2013.11.019_bib30) 2005; 3 Spilman (10.1016/j.virol.2013.11.019_bib28) 2011; 405 Winkler (10.1016/j.virol.2013.11.019_bib36) 2006; 106 |
| References_xml | – volume: 106 start-page: 240 year: 2006 end-page: 254 ident: bib36 article-title: Accurate marker-free alignment with simultaneous geometry determination and reconstruction of tilt series in electron tomography publication-title: Ultramicroscopy contributor: fullname: Taylor – volume: 166 start-page: 95 year: 2009 end-page: 102 ident: bib15 article-title: Appion: an integrated, database-driven pipeline to facilitate EM image processing publication-title: J. Struct. Biol. contributor: fullname: Carragher – volume: 132 start-page: 33 year: 2000 end-page: 45 ident: bib3 article-title: Leginon: an automated system for acquisition of images from vitreous ice specimens publication-title: J. Struct. Biol. contributor: fullname: Reilein – volume: 358 start-page: 912 year: 2006 end-page: 921 ident: bib18 article-title: Evolution of bacteriophage tails: Structure of T4 gene product 10 publication-title: J. Mol. Biol. contributor: fullname: Rossmann – volume: 133 start-page: 233 year: 2001 end-page: 245 ident: bib23 article-title: A novel neural network technique for analysis and classification of EM single-particle images publication-title: J. Struct. Biol. contributor: fullname: Carazo – volume: 25 start-page: 1605 year: 2004 end-page: 1612 ident: bib24 article-title: UCSF Chimera--a visualization system for exploratory research and analysis publication-title: J. Comput. Chem. contributor: fullname: Ferrin – volume: 157 start-page: 117 year: 2007 end-page: 125 ident: bib12 article-title: FREALIGN: high-resolution refinement of single particle structures publication-title: J. Struct. Biol. contributor: fullname: Grigorieff – volume: 247 start-page: 618 year: 1995 end-page: 635 ident: bib8 article-title: Structural transitions during bacteriophage HK97 head assembly publication-title: J. Mol. Biol. contributor: fullname: Hendrix – volume: 75 start-page: 423 year: 2011 end-page: 433 ident: bib33 article-title: A common evolutionary origin for tailed-bacteriophage functional modules and bacterial machineries publication-title: Microbiol. Mol. Biol. Rev.: MMBR contributor: fullname: Cambillau – volume: 101 start-page: 6003 year: 2004 end-page: 6008 ident: bib10 article-title: Molecular architecture of the prolate head of bacteriophage T4 publication-title: Proc. Natl. Acad. Sci. U. S. A. contributor: fullname: Rossmann – volume: 86 start-page: 7907 year: 2012 end-page: 7917 ident: bib26 article-title: Sequence and structural characterization of great salt lake bacteriophage CW02, a member of the T7-like supergroup publication-title: J. Virol. contributor: fullname: Belnap – volume: 334 start-page: 885 year: 2003 end-page: 899 ident: bib13 article-title: The refined structure of a protein catenane: the HK97 bacteriophage capsid at 3.44 A resolution publication-title: J. Mol. Biol. contributor: fullname: Liljas – volume: 128 start-page: 82 year: 1999 end-page: 97 ident: bib19 article-title: EMAN: semiautomated software for high-resolution single-particle reconstructions publication-title: J. Struct. Biol. contributor: fullname: Chiu – volume: 17 start-page: 1563 year: 2009 end-page: 1572 ident: bib25 article-title: Averaging of electron subtomograms and random conical tilt reconstructions through likelihood optimization publication-title: Structure contributor: fullname: Carazo – volume: 3 start-page: e144 year: 2005 ident: bib30 article-title: Three Prochlorococcus cyanophage genomes: signature features and ecological interpretations publication-title: PLoS biology contributor: fullname: Chisholm – volume: 7 start-page: e33227 year: 2012 ident: bib1 article-title: T4-related bacteriophage LIMEstone isolates for the control of soft rot on potato caused by 'Dickeya solani' publication-title: PloS one contributor: fullname: Lavigne – volume: 187 start-page: 3188 year: 2005 end-page: 3200 ident: bib21 article-title: The genome of S-PM2, a “photosynthetic“ T4-type bacteriophage that infects marine Synechococcus strains publication-title: J. Bacteriol. contributor: fullname: Krisch – volume: 9 start-page: 1675 year: 2007 end-page: 1695 ident: bib34 article-title: Genomic and structural analysis of Syn9, a cyanophage infecting marine Prochlorococcus and Synechococcus publication-title: Environ. Microbiol. contributor: fullname: Hendrix – volume: 188 start-page: 191 year: 2007 end-page: 197 ident: bib6 article-title: Characterization of a novel T4-type Stenotrophomonas maltophilia virulent phage Smp14 publication-title: Arch. Microbiol. contributor: fullname: Weng – volume: 405 start-page: 863 year: 2011 end-page: 876 ident: bib28 article-title: A conformational switch involved in maturation of Staphylococcus aureus bacteriophage 80alpha capsids publication-title: J. Mol. Biol. contributor: fullname: Dokland – volume: 180 start-page: 254 year: 2012 end-page: 258 ident: bib27 article-title: Creating an infrastructure for high-throughput high-resolution cryogenic electron microscopy publication-title: J. Struct. Biol. contributor: fullname: Stagg – volume: 118 start-page: 419 year: 2004 end-page: 429 ident: bib16 article-title: Three-dimensional rearrangement of proteins in the tail of bacteriophage T4 on infection of its host publication-title: Cell contributor: fullname: Rossmann – volume: 301 start-page: 975 year: 2000 end-page: 985 ident: bib17 article-title: Structure of bacteriophage T4 gene product 11, the interface between the baseplate and short tail fibers publication-title: J. Mol. Biol. contributor: fullname: Rossmann – volume: 85 start-page: 5247 year: 2011 end-page: 5251 ident: bib14 article-title: What does virus evolution tell us about virus origins? publication-title: J. Virol. contributor: fullname: Holmes – volume: 12 start-page: 3035 year: 2010 end-page: 3056 ident: bib31 article-title: Genomic analysis of oceanic cyanobacterial myoviruses compared with T4-like myoviruses from diverse hosts and environments publication-title: Environ. Microbiol. contributor: fullname: Chisholm – volume: 228 start-page: 870 year: 1992 end-page: 884 ident: bib29 article-title: Conformational changes of a viral capsid protein. Thermodynamic rationale for proteolytic regulation of bacteriophage T4 capsid expansion, co-operativity, and super-stabilization by soc binding publication-title: J. Mol. Biol. contributor: fullname: Ross – volume: 102 start-page: 7163 year: 2005 end-page: 7168 ident: bib11 article-title: Structural and functional similarities between the capsid proteins of bacteriophages T4 and HK97 point to a common ancestry publication-title: Proc. Natl. Acad. Sci. U. S. A. contributor: fullname: Rossmann – volume: 14 start-page: 1073 year: 2006 end-page: 1082 ident: bib5 article-title: Cryo-EM asymmetric reconstruction of bacteriophage P22 reveals organization of its DNA packaging and infecting machinery publication-title: Structure contributor: fullname: Jiang – volume: 67 start-page: 86 year: 2003 end-page: 156 ident: bib22 article-title: Bacteriophage T4 genome publication-title: Microbiol. Mol. Biol. Rev.: MMBR contributor: fullname: Ruger – volume: 391 start-page: 471 year: 2009 end-page: 483 ident: bib9 article-title: Structure and energetics of encapsidated DNA in bacteriophage HK97 studied by scanning calorimetry and cryo-electron microscopy publication-title: J. Mol. Biol. contributor: fullname: Steven – volume: 13 start-page: 1858 year: 2011 end-page: 1874 ident: bib7 article-title: A freshwater cyanophage whose genome indicates close relationships to photosynthetic marine cyanomyophages publication-title: Environ. Microbiol. contributor: fullname: Maier – volume: 289 start-page: 2129 year: 2000 end-page: 2133 ident: bib35 article-title: Topologically linked protein rings in the bacteriophage HK97 capsid publication-title: Science contributor: fullname: Johnson – volume: 104 start-page: 8 year: 2005 end-page: 29 ident: bib20 article-title: ACE: automated CTF estimation publication-title: Ultramicroscopy contributor: fullname: Kriegman – volume: 167 start-page: 11 year: 2009 end-page: 18 ident: bib32 article-title: Fully automated, sequential tilt-series acquisition with Leginon publication-title: J. Struct. Biol. contributor: fullname: Jensen – volume: 7 start-page: e33227 year: 2012 ident: 10.1016/j.virol.2013.11.019_bib1 article-title: T4-related bacteriophage LIMEstone isolates for the control of soft rot on potato caused by 'Dickeya solani' publication-title: PloS one doi: 10.1371/journal.pone.0033227 contributor: fullname: Adriaenssens – volume: 358 start-page: 912 year: 2006 ident: 10.1016/j.virol.2013.11.019_bib18 article-title: Evolution of bacteriophage tails: Structure of T4 gene product 10 publication-title: J. Mol. Biol. doi: 10.1016/j.jmb.2006.02.058 contributor: fullname: Leiman – volume: 289 start-page: 2129 year: 2000 ident: 10.1016/j.virol.2013.11.019_bib35 article-title: Topologically linked protein rings in the bacteriophage HK97 capsid publication-title: Science doi: 10.1126/science.289.5487.2129 contributor: fullname: Wikoff – volume: 405 start-page: 863 year: 2011 ident: 10.1016/j.virol.2013.11.019_bib28 article-title: A conformational switch involved in maturation of Staphylococcus aureus bacteriophage 80alpha capsids publication-title: J. Mol. Biol. doi: 10.1016/j.jmb.2010.11.047 contributor: fullname: Spilman – volume: 180 start-page: 254 year: 2012 ident: 10.1016/j.virol.2013.11.019_bib27 article-title: Creating an infrastructure for high-throughput high-resolution cryogenic electron microscopy publication-title: J. Struct. Biol. doi: 10.1016/j.jsb.2012.07.009 contributor: fullname: Shrum – volume: 128 start-page: 82 year: 1999 ident: 10.1016/j.virol.2013.11.019_bib19 article-title: EMAN: semiautomated software for high-resolution single-particle reconstructions publication-title: J. Struct. Biol. doi: 10.1006/jsbi.1999.4174 contributor: fullname: Ludtke – volume: 75 start-page: 423 year: 2011 ident: 10.1016/j.virol.2013.11.019_bib33 article-title: A common evolutionary origin for tailed-bacteriophage functional modules and bacterial machineries publication-title: Microbiol. Mol. Biol. Rev.: MMBR doi: 10.1128/MMBR.00014-11 contributor: fullname: Veesler – volume: 86 start-page: 7907 year: 2012 ident: 10.1016/j.virol.2013.11.019_bib26 article-title: Sequence and structural characterization of great salt lake bacteriophage CW02, a member of the T7-like supergroup publication-title: J. Virol. doi: 10.1128/JVI.00407-12 contributor: fullname: Shen – volume: 12 start-page: 3035 year: 2010 ident: 10.1016/j.virol.2013.11.019_bib31 article-title: Genomic analysis of oceanic cyanobacterial myoviruses compared with T4-like myoviruses from diverse hosts and environments publication-title: Environ. Microbiol. doi: 10.1111/j.1462-2920.2010.02280.x contributor: fullname: Sullivan – ident: 10.1016/j.virol.2013.11.019_bib2 doi: 10.1016/j.virol.2013.11.027 – volume: 391 start-page: 471 year: 2009 ident: 10.1016/j.virol.2013.11.019_bib9 article-title: Structure and energetics of encapsidated DNA in bacteriophage HK97 studied by scanning calorimetry and cryo-electron microscopy publication-title: J. Mol. Biol. doi: 10.1016/j.jmb.2009.06.035 contributor: fullname: Duda – volume: 67 start-page: 86 year: 2003 ident: 10.1016/j.virol.2013.11.019_bib22 article-title: Bacteriophage T4 genome publication-title: Microbiol. Mol. Biol. Rev.: MMBR doi: 10.1128/MMBR.67.1.86-156.2003 contributor: fullname: Miller – volume: 106 start-page: 240 year: 2006 ident: 10.1016/j.virol.2013.11.019_bib36 article-title: Accurate marker-free alignment with simultaneous geometry determination and reconstruction of tilt series in electron tomography publication-title: Ultramicroscopy doi: 10.1016/j.ultramic.2005.07.007 contributor: fullname: Winkler – volume: 187 start-page: 3188 year: 2005 ident: 10.1016/j.virol.2013.11.019_bib21 article-title: The genome of S-PM2, a “photosynthetic“ T4-type bacteriophage that infects marine Synechococcus strains publication-title: J. Bacteriol. doi: 10.1128/JB.187.9.3188-3200.2005 contributor: fullname: Mann – volume: 133 start-page: 233 year: 2001 ident: 10.1016/j.virol.2013.11.019_bib23 article-title: A novel neural network technique for analysis and classification of EM single-particle images publication-title: J. Struct. Biol. doi: 10.1006/jsbi.2001.4369 contributor: fullname: Pascual-Montano – volume: 118 start-page: 419 year: 2004 ident: 10.1016/j.virol.2013.11.019_bib16 article-title: Three-dimensional rearrangement of proteins in the tail of bacteriophage T4 on infection of its host publication-title: Cell doi: 10.1016/j.cell.2004.07.022 contributor: fullname: Leiman – volume: 3 start-page: e144 year: 2005 ident: 10.1016/j.virol.2013.11.019_bib30 article-title: Three Prochlorococcus cyanophage genomes: signature features and ecological interpretations publication-title: PLoS biology doi: 10.1371/journal.pbio.0030144 contributor: fullname: Sullivan – volume: 132 start-page: 33 year: 2000 ident: 10.1016/j.virol.2013.11.019_bib3 article-title: Leginon: an automated system for acquisition of images from vitreous ice specimens publication-title: J. Struct. Biol. doi: 10.1006/jsbi.2000.4314 contributor: fullname: Carragher – volume: 13 start-page: 1858 year: 2011 ident: 10.1016/j.virol.2013.11.019_bib7 article-title: A freshwater cyanophage whose genome indicates close relationships to photosynthetic marine cyanomyophages publication-title: Environ. Microbiol. doi: 10.1111/j.1462-2920.2011.02502.x contributor: fullname: Dreher – volume: 25 start-page: 1605 year: 2004 ident: 10.1016/j.virol.2013.11.019_bib24 article-title: UCSF Chimera--a visualization system for exploratory research and analysis publication-title: J. Comput. Chem. doi: 10.1002/jcc.20084 contributor: fullname: Pettersen – volume: 167 start-page: 11 year: 2009 ident: 10.1016/j.virol.2013.11.019_bib32 article-title: Fully automated, sequential tilt-series acquisition with Leginon publication-title: J. Struct. Biol. doi: 10.1016/j.jsb.2009.03.019 contributor: fullname: Suloway – volume: 301 start-page: 975 year: 2000 ident: 10.1016/j.virol.2013.11.019_bib17 article-title: Structure of bacteriophage T4 gene product 11, the interface between the baseplate and short tail fibers publication-title: J. Mol. Biol. doi: 10.1006/jmbi.2000.3989 contributor: fullname: Leiman – volume: 247 start-page: 618 year: 1995 ident: 10.1016/j.virol.2013.11.019_bib8 article-title: Structural transitions during bacteriophage HK97 head assembly publication-title: J. Mol. Biol. doi: 10.1016/S0022-2836(05)80143-3 contributor: fullname: Duda – volume: 157 start-page: 117 year: 2007 ident: 10.1016/j.virol.2013.11.019_bib12 article-title: FREALIGN: high-resolution refinement of single particle structures publication-title: J. Struct. Biol. doi: 10.1016/j.jsb.2006.05.004 contributor: fullname: Grigorieff – volume: 188 start-page: 191 year: 2007 ident: 10.1016/j.virol.2013.11.019_bib6 article-title: Characterization of a novel T4-type Stenotrophomonas maltophilia virulent phage Smp14 publication-title: Arch. Microbiol. doi: 10.1007/s00203-007-0238-5 contributor: fullname: Chen – volume: 102 start-page: 7163 year: 2005 ident: 10.1016/j.virol.2013.11.019_bib11 article-title: Structural and functional similarities between the capsid proteins of bacteriophages T4 and HK97 point to a common ancestry publication-title: Proc. Natl. Acad. Sci. U. S. A. doi: 10.1073/pnas.0502164102 contributor: fullname: Fokine – volume: 14 start-page: 1073 year: 2006 ident: 10.1016/j.virol.2013.11.019_bib5 article-title: Cryo-EM asymmetric reconstruction of bacteriophage P22 reveals organization of its DNA packaging and infecting machinery publication-title: Structure doi: 10.1016/j.str.2006.05.007 contributor: fullname: Chang – volume: 166 start-page: 95 year: 2009 ident: 10.1016/j.virol.2013.11.019_bib15 article-title: Appion: an integrated, database-driven pipeline to facilitate EM image processing publication-title: J. Struct. Biol. doi: 10.1016/j.jsb.2009.01.002 contributor: fullname: Lander – volume: 334 start-page: 885 year: 2003 ident: 10.1016/j.virol.2013.11.019_bib13 article-title: The refined structure of a protein catenane: the HK97 bacteriophage capsid at 3.44 A resolution publication-title: J. Mol. Biol. doi: 10.1016/j.jmb.2003.09.035 contributor: fullname: Helgstrand – volume: 9 start-page: 1675 year: 2007 ident: 10.1016/j.virol.2013.11.019_bib34 article-title: Genomic and structural analysis of Syn9, a cyanophage infecting marine Prochlorococcus and Synechococcus publication-title: Environ. Microbiol. doi: 10.1111/j.1462-2920.2007.01285.x contributor: fullname: Weigele – volume: 104 start-page: 8 year: 2005 ident: 10.1016/j.virol.2013.11.019_bib20 article-title: ACE: automated CTF estimation publication-title: Ultramicroscopy doi: 10.1016/j.ultramic.2005.02.004 contributor: fullname: Mallick – volume: 228 start-page: 870 year: 1992 ident: 10.1016/j.virol.2013.11.019_bib29 article-title: Conformational changes of a viral capsid protein. Thermodynamic rationale for proteolytic regulation of bacteriophage T4 capsid expansion, co-operativity, and super-stabilization by soc binding publication-title: J. Mol. Biol. doi: 10.1016/0022-2836(92)90871-G contributor: fullname: Steven – volume: 17 start-page: 1563 year: 2009 ident: 10.1016/j.virol.2013.11.019_bib25 article-title: Averaging of electron subtomograms and random conical tilt reconstructions through likelihood optimization publication-title: Structure doi: 10.1016/j.str.2009.10.009 contributor: fullname: Scheres – ident: 10.1016/j.virol.2013.11.019_bib4 doi: 10.1101/SQB.1962.027.001.005 – volume: 101 start-page: 6003 year: 2004 ident: 10.1016/j.virol.2013.11.019_bib10 article-title: Molecular architecture of the prolate head of bacteriophage T4 publication-title: Proc. Natl. Acad. Sci. U. S. A. doi: 10.1073/pnas.0400444101 contributor: fullname: Fokine – volume: 85 start-page: 5247 year: 2011 ident: 10.1016/j.virol.2013.11.019_bib14 article-title: What does virus evolution tell us about virus origins? publication-title: J. Virol. doi: 10.1128/JVI.02203-10 contributor: fullname: Holmes |
| SSID | ssj0004770 |
| Score | 2.2350764 |
| Snippet | Abstract ΦM12 is the first example of a T =19l geometry capsid, encapsulating the recently sequenced genome. Here, we present structures determined by cryo-EM... ΦM12 is the first example of a T=19l geometry capsid, encapsulating the recently sequenced genome. Here, we present structures determined by cryo-EM of full... |
| SourceID | proquest crossref pubmed elsevier |
| SourceType | Aggregation Database Index Database Publisher |
| StartPage | 205 |
| SubjectTerms | Amino Acid Sequence Bacteriophage Bacteriophage T4 - genetics Bacteriophage T4 - isolation & purification Bacteriophage T4 - ultrastructure Capsid - metabolism Capsid - ultrastructure Capsid Proteins - chemistry Capsid Proteins - genetics Cryoelectron Microscopy Icosahedral Infectious Disease Models, Molecular Molecular Sequence Data Myovirus Sequence Alignment Sinorhizobium meliloti Sinorhizobium meliloti - virology T=19 ΦM12 |
| Title | The structure of Sinorhizobium meliloti phage ΦM12, which has a novel T =19l triangulation number and is the founder of a new group of T4-superfamily phages |
| URI | https://www.clinicalkey.es/playcontent/1-s2.0-S0042682213006399 https://dx.doi.org/10.1016/j.virol.2013.11.019 https://www.ncbi.nlm.nih.gov/pubmed/24503083 https://search.proquest.com/docview/1499125381 |
| Volume | 450 |
| hasFullText | 1 |
| inHoldings | 1 |
| isFullTextHit | |
| isPrint | |
| link | http://utb.summon.serialssolutions.com/2.0.0/link/0/eLvHCXMwnV1Lb9QwELZKERKXivLcQleDxLFp40fszYFDW1EtlPbCFu3NchKbTbVNVptuKy78Es78HH4T4zhZhHgcOEWOYk3iGc-MM_PNEPIKbVxhOE1Q--VJJLjlUZa7PDI-hIUOKnPSY4fPzuX4QrybJtMNctxjYXxaZaf7g05vtXV356BbzYNFWXqML1oXtG8-IOPtLOphntAWxDc9-omNVGoNQ_FP95WH2hwvDyXz8QfK930pT19u58_W6W_eZ2uFTh6Qrc59hMPwhttkw1YPyb3QUPLzI_IVuQ6hJOxqaaF28KGs6qXPq8vK1RVc2Xk5r69LWMxQj8D3b2eU7cHtrMxnMDMNGKjqGzuHyWuazsF39Kg-df29IPQOAVMVUDaAfiM435IJbyEZnGhvoYWI-OFERM1qYZfh90mg1jwmFydvJsfjqOu_EOVciRT1oKUiV1wWRuVpymLkm2TMsCJJXT7KGJfSSXToGDXSFAmPcxxlaiRMLG3M-ROyWdWVfUaAqdQlTLjCKipsbFI7MlI5y-OMp9xlA7LXr7tehDIbus8_u9Qtm7RnEx5YNLJpQFTPG90jSFHn2abbgI2mumE61r8JyYDI9cxf5EyjCfk3yZe9DGjcgT6sYipbr5AUHhrRTUTXZ0CeBuFYfwMTiS8IxHf-l-xzch9HIuSJvyCbKEF2F92g62xI7ux_oUNy9_Do4-l7f317Oj4fttL_A1DiCXY |
| link.rule.ids | 315,783,787,3513,4509,24128,27581,27936,27937,45597,45675,45691,45886 |
| linkProvider | Elsevier |
| linkToHtml | http://utb.summon.serialssolutions.com/2.0.0/link/0/eLvHCXMwnV1LT9wwELYoqGovVd9d-ppKPZKS2I69OXBAqGgp7F66SNwsx7HZVEuy2rCg_hfO_Jz-JsZxslXVx6HHOHIm8YxnPmdehHxEG1dolqSo_UwacWZZlBtnIu1dWAhQqRM-d3g8EaNT_uUsPdsgB30ujA-r7HR_0Omttu5GdrvV3F2Upc_xReuC9s07ZLydvUe28PEZ7s6t_aPj0eRneqSU60wUP6EvPtSGeflsMu-CSNgnX83TV9z5s4H6GwBtDdHhY_KoQ5CwH17yCdmw1VNyP_SU_P6M3CDjIVSFXS0t1A6-llW99KF1ebm6gAs7L-f1ZQmLGaoS-HE7TugOXM9KM4OZbkBDVV_ZOUz3kmwOvqlHdd61-ILQPgR0VUDZAEJHcL4rEw4hGZxor6HNEvGXUx41q4Vdhj8ogVrznJwefp4ejKKuBUNkmOQZqkKbcCOZKLQ0WUZjZJ2gVNMizZwZ5pQJ4QRiOppooYuUxQavcjnkOhY2ZuwF2azqyr4iQGXmUspdYWXCbawzO9RCOsvinGXM5QOy06-7WoRKG6oPQfumWjYpzyY8syhk04DInjeqTyJFtWebbg82KlENVbH6TU4GRKxn_iJqCq3Iv0l-6GVA4Sb0nhVd2XqFpPDciEgR0c-AvAzCsf4GylNfE4ht_y_Z9-TBaDo-USdHk-PX5CHe4SFs_A3ZRGmybxEVXebvOqm_A-HXCZM |
| openUrl | ctx_ver=Z39.88-2004&ctx_enc=info%3Aofi%2Fenc%3AUTF-8&rfr_id=info%3Asid%2Fsummon.serialssolutions.com&rft_val_fmt=info%3Aofi%2Ffmt%3Akev%3Amtx%3Ajournal&rft.genre=article&rft.atitle=The+structure+of+Sinorhizobium+meliloti+phage+%CE%A6M12%2C+which+has+a+novel+T+%3D19l+triangulation+number+and+is+the+founder+of+a+new+group+of+T4-superfamily+phages&rft.jtitle=Virology+%28New+York%2C+N.Y.%29&rft.au=Stroupe%2C+M.+Elizabeth&rft.au=Brewer%2C+Tess+E&rft.au=Sousa%2C+Duncan+R&rft.au=Jones%2C+Kathryn+M&rft.date=2014-02-01&rft.issn=0042-6822&rft.volume=450&rft.spage=205&rft.epage=212&rft_id=info:doi/10.1016%2Fj.virol.2013.11.019&rft.externalDBID=ECK1-s2.0-S0042682213006399&rft.externalDocID=1_s2_0_S0042682213006399 |
| thumbnail_m | http://utb.summon.serialssolutions.com/2.0.0/image/custom?url=https%3A%2F%2Fcdn.clinicalkey.com%2Fck-thumbnails%2F00426822%2FS0042682213X00236%2Fcov150h.gif |