LOCUS AFM04365.1 1591 aa PRT BCT 31-AUG-2017
DEFINITION Bernardetia litoralis DSM 6794 PDK repeat-containing protein
protein.
ACCESSION CP003345-1853
PROTEIN_ID AFM04365.1
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JOURNAL Unpublished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_1980"
/note="PFAM: PKD domain"
/transl_table=11
/db_xref="InterPro:IPR000601"
BEGIN
1 MKKNLFLFYF LSILSLLVFM PLDVFGQKIA TDNQNHSEQT IAKAPKTKTP LTFIENKNQW
61 DNVVKYRASI PSGYLFIRQN SLQYSFYDGN ALKHGHEHGH EQDTSKETEE EHEKHKDKIK
121 AHSIEVEFEN ANPSPKIISQ ELHETKFNYF LGNDKNKWAE NARGFAELTY QELYPNINLH
181 LYLQEDQLKY DFIVDANADA SKIAMNYKYA DKVTLESGHL HIQTSVNKII EQAPYSYQII
241 NGQKIEVPSK FVLKQRKGKD KTPQVTFDFP EGYDKNYELI IDPILIFSTF SGSLEDNWGN
301 TATYDENGNL YSGGTVFGGA FPVTTGAFDV TFDGLVDVAI LKYNATGTGV FYATFLGGNS
361 SDIPSSMIVN SRNELIILGV TGSSNFPTVS AYDDSFNGGS TTAVLGGYEF DNGSDLFISK
421 LNSTGSNLIA STFLGGGGND GLNTQQLGGG TGTINNELLK NYGDEVRNEV ILDASDNIYI
481 ASSTNSNNFP MVSAHRTTFQ GRQEGVVAKL NPTLNSLLWS TYIGGNNLDA AFGIQISSAG
541 DIYVVGGTMS DDLITHGGTM QSNYRGEIDG FIVRYASNFA WQGASYLGTN AYDQAYYVDV
601 DLGDNVFVFG QTKGSQPVTN GVYFNDRGGL FIRKISPNLN TILMATTIGG RQFQPGITPT
661 AFMVNDCGNI YLAGWGSTNI YAGYPNHPTY LTGINVAGMP ITSNAIQSFT DIGGNDFYTM
721 ILSEDATDLV YGSFFGGTNY QREHVDGGTS RFDKKTGTIY QAVCACTGSN FTTTPGAFSN
781 TNNSANCNNA AFKIELGVLK ADFVSANSLR GCVPFTVNFL NQSVEGVTYE WDFGGLGTST
841 QNNPSFTFTE GGTYRVKLIA TNPFLCVKTD SAFLTITVSP ADFEISADTT ICKGQSVQLE
901 ASGGTSYSWT PSTGLSNPNI ANPVAIPTET TTYTLTTQNA AGCQKELTTT ITVLDELIPS
961 FTFNISDPCS ENPIITFINT SQNATSYLWD FGNGQTSTAI NPPAQNYTTG TYTIKLVAEN
1021 DICNDKDSIT QQIVIDPDVF TFNGDTTICF GQSVQFNVTG GTSYEWTPTT GLSDATIGNP
1081 IASPAQTTTY TVKVIGRNGC EEERQITMVV GEEIIPDFEI VQSNLCEEFP TVSIVNNTVG
1141 ATSYLWDFGN GQTSTSQNPT NLLYDSAGNY RIKLIVGNIA CSDSITKEFD YSTNNFFVSP
1201 DKSICLGQSL PLESGEGINF SWTPITGLSD PTISNPIASP TETTTYTVSI TTQNGCVKEE
1261 EVTITVLPEL TPDFDVNILD RCDKLPIVEI INNSVGATSF FWDFGDGRTS TVRNPAPFQY
1321 DSEGVYTITL RIENSLCQDS TSNNANSVID DNNIFLSTIR MPKSPTICRG QSTELNVIGG
1381 DNFEWTPTTG LSDPTIRNPI ASPDQTTIYN VRISNMDGGC FTDSTVTVTV VDKLVLDFEV
1441 THSPECGAPA TILFNSKNTG NGNWIWEMGN GDSINVSNPT EYTYTEAGTY TIKLKASNGV
1501 CDEEQTATVT VDNVLPPNVI TPNGDGLNET FVLDKANIGW KLKIYNRWGT EVFSADDYNN
1561 DWGNKAEPAM YYYYLTSPDG DTCRGWIHVL Q
//