LOCUS AFM04438.1 1341 aa PRT BCT 31-AUG-2017 DEFINITION Bernardetia litoralis DSM 6794 PAS domain S-box protein. ACCESSION CP003345-1926 PROTEIN_ID AFM04438.1 SOURCE Bernardetia litoralis DSM 6794 ORGANISM Bernardetia litoralis DSM 6794 Bacteria; Bacteroidota; Cytophagia; Cytophagales; Bernardetiaceae; Bernardetia. REFERENCE 1 (bases 1 to 4919337) AUTHORS Lucas,S., Copeland,A., Lapidus,A., Glavina del Rio,T., Dalin,E., Tice,H., Bruce,D., Goodwin,L., Pitluck,S., Peters,L., Ovchinnikova,G., Lu,M., Kyrpides,N., Mavromatis,K., Ivanova,N., Brettin,T., Detter,J.C., Han,C., Larimer,F., Land,M., Hauser,L., Markowitz,V., Cheng,J.-F., Hugenholtz,P., Woyke,T., Wu,D., Spring,S., Lang,E., Kopitz,M., Brambilla,E., Klenk,H.-P. and Eisen,J.A. CONSRTM US DOE Joint Genome Institute (JGI-PGF) TITLE The complete genome of Flexibacter litoralis DSM 6794 JOURNAL Unpublished REFERENCE 2 (bases 1 to 4919337) AUTHORS Lucas,S., Copeland,A., Lapidus,A., Glavina del Rio,T., Dalin,E., Tice,H., Bruce,D., Goodwin,L., Pitluck,S., Peters,L., Ovchinnikova,G., Lu,M., Kyrpides,N., Mavromatis,K., Ivanova,N., Brettin,T., Detter,J.C., Han,C., Larimer,F., Land,M., Hauser,L., Markowitz,V., Cheng,J.-F., Hugenholtz,P., Woyke,T., Wu,D., Spring,S., Lang,E., Kopitz,M., Brambilla,E., Klenk,H.-P. and Eisen,J.A. CONSRTM US DOE Joint Genome Institute (JGI-PGF) TITLE Direct Submission JOURNAL Submitted (05-JUN-2012) US DOE Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA 94598-1698, USA COMMENT URL -- http://www.jgi.doe.gov JGI Project ID: 4089456 Source DNA and organism available from Hans-Peter Klenk at the German Collection of Microorganisms and Cell Cultures (DSMZ) (hans-peter.klenk@dsmz.de) Contacts: Jonathan A. Eisen (jaeisen@ucdavis.edu) David Bruce (microbe@cuba.jgi-psf.org) Whole genome sequencing and draft assembly at JGI-PGF Finishing done by JGI-LANL Annotation by JGI-ORNL and JGI-PGF The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. It is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis. (http://www.genome.gov/page.cfm?pageID=10506376). ##MIGS-Data-START## investigation_type :: bacteria_archaea project_name :: Flexibacter litoralis DSM 6794 collection_date :: Missing lat_lon :: 32.840 -117.258 depth :: Missing alt_elev :: Missing country :: USA environment :: Marine num_replicons :: 1 ref_biomaterial :: DSM 6794, ATCC 23117, IFO 15988, NBRC 15988 biotic_relationship :: Free living trophic_level :: Missing rel_to_oxygen :: Aerobe isol_growth_condt :: Missing sequencing_meth :: WGS assembly :: Newbler v. 2.3 (pre-release) finishing_strategy :: Finished GOLD Stamp ID :: Gi04020 Type Strain :: Yes Funding Program :: DOE-GEBA 2009 Gene Calling Method :: Prodigal, GenePRIMP Isolation Site :: Sea water aquarium outflow, La Jolla, California, U.S.A. Temperature Range :: Mesophile Gram Staining :: Gram- ##MIGS-Data-END## ##Genome-Assembly-Data-START## Finishing Goal :: Finished Current Finishing Status :: Finished Assembly Method :: Newbler v. 2.3 Genome Coverage :: 30x Sequencing Technology :: 454/Illumina ##Genome-Assembly-Data-END## FEATURES Qualifiers source /organism="Bernardetia litoralis DSM 6794" /mol_type="genomic DNA" /strain="DSM 6794" /isolation_source="sea water aquarium outflow" /culture_collection="DSM:6794" /type_material="type strain of Bernardetia litoralis" /db_xref="taxon:880071" /country="USA: La Jolla, CA" /lat_lon="32.840 N 117.258 W" protein /locus_tag="Fleli_2054" /note="PFAM: GAF domain; Stage II sporulation protein E (SpoIIE); PAS fold; TIGRFAM: PAS domain S-box" /transl_table=11 /db_xref="InterPro:IPR000014" /db_xref="InterPro:IPR000700" /db_xref="InterPro:IPR003018" /db_xref="InterPro:IPR010822" /db_xref="InterPro:IPR013656" /db_xref="InterPro:IPR013767" /db_xref="InterPro:IPR016132" BEGIN 1 MNKDITGNEL QLYKSFYVNY PDAILVLQDG VIIECNELGH AFFQIDDEQE LLDKKISDFL 61 APKKIEQTDL EHHFTKCLLE GKDTFEWVFQ NKKEKVTVTI FLSRVEVGAK TFIQVILRDI 121 TEYKKIEQGL KKSIEEVETE NTVFKLVVDN LPQGIFWKDL DCAYLGVNKL LAQIGGFKDT 181 KELIGKSDFD MPWTEEESMA YQKDDKDVMQ NDKAKLNIVE TQTNIDGEKT WLKTSKIPLK 241 DKKGDVFGLV GIFEDITDQK EIEQNNDFLV KELEEQNRKT SAITDVLDKS AIISMTDKKG 301 VIIKVNEEFC QVSKYSEEEL LGKTHSIVNS EYHDKEFWKS MWRDISKGKT WRADVKNKAK 361 DGSFYWVDTV INSIVDSEGK IEGYLSIRYL ITKRKQQEID LQIKHEQLAT TEEELRQNLE 421 ELEAQRDYIQ DVNEEIKLKS AALEKNSQAL LKLNKNPDIY TGNLDTAFEI ITQKIAKILD 481 IERVSIWKYD TTSEAKVICQ KKYEKTEENQ TFTKGMEIEQ KDVPIYFEKI IAEKNIIAEV 541 SQNNPALVEF IDNYLKPLKI KSVLNIPYYL DGGFAGVISC ETQAKHKKWT QEDVSFVKGI 601 SDAITLVIKT KQQLEEQEKV KQSEKLLFQF LEKIPIGISI IDSNKMMFYS NEILKNIFPN 661 GMNPKDGANT TNYKLNIAGT DTPYPKEKFP SSSVFKGITT SRDDIEVVRS DKRIPLEISA 721 SPVYSDTGEI IYAIATVQDI TERKAKELEV KAKNDDLTAT EEELRQNLEE LEATQESMRE 781 KQTLIEETKR ILEKQNTKLI SNEEILKKAF NKMKLQEKQL LESFNAVQAQ EEELRQNLEE 841 LETTQEALLK TQLEQEKLVS VIKNVDALIA ITDMEGNTEF LNDRGRILSG FNDNYLGRNI 901 SAFHNEEGAK IAQEVIIPIV MQNGFWKGEH QLQNYITKEL FQTLGNVFVI KNSLTQEPVG 961 LASVQLDITE QKQLEKSIQE QNERLQASEE ELRQNMEELE ATQEAMREKQ TLIEDAKLNL 1021 EKKNEKLASN EAVLKKAFQK MKKQDVQLRE NLGALQTQEE ELRQNMEELQ TTQEVMAYQK 1081 DILEVSNRQI TKSISYAETI QKAILPSKTL IKEVLPNSFV IYKPKDIVSG DFYWLSKHEN 1141 KTLIGVIDCT GHGVPGAFMS LVGSNILSEI INQRGILQPN LIFQELHNGV VKKLNQKEGA 1201 NNDGMDLTFC LIEEKSNGEN LLTFAGVKQN LYIVRDKELI ELKGNRRSIG GGKRDGERNY 1261 TQEEITLQKN DAVFLATDGY SDQANEERKS FSKKKFRELM IEVGHLSPKE QMKILEQRLT 1321 QHQKNTEQRD DITVFGFKIQ N //