LOCUS AFM04492.1 1076 aa PRT BCT 31-AUG-2017
DEFINITION Bernardetia litoralis DSM 6794 TonB-linked outer membrane
protein, SusC/RagA family protein.
ACCESSION CP003345-1980
PROTEIN_ID AFM04492.1
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JOURNAL Unpublished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_2110"
/note="PFAM: TonB-dependent Receptor Plug Domain; TonB
dependent receptor; TIGRFAM: TonB-dependent outer membrane
receptor, SusC/RagA subfamily, signature region;
TonB-linked outer membrane protein, SusC/RagA family"
/transl_table=11
/db_xref="InterPro:IPR000531"
/db_xref="InterPro:IPR008969"
/db_xref="InterPro:IPR012910"
/db_xref="InterPro:IPR014766"
BEGIN
1 MKRKLLLSML MSLMLIGSAW AQQTITGTVI DAAQGGLPGA TVQVKGTNTG TTTDLEGKYS
61 LVVPEGSEIL VFRFVGYASQ EVEIGNRTTI DVTLAEASEL ATVVVTAQNI SREKASLAYS
121 QQKLDGAEVS TVKETNFINS LSGKAAGVQV RQNNTMGGST NITIRGNSSF TSNQPLFVVD
181 GIPIGNNANN SASQEAGRGG YDYGNPASDI NPEDIASMSI LKGASATALY GSRGQNGVII
241 ITTKKGSKGK GIGVSISTGI TIGTIDKSTF AEYQDQYGAG YGAYYGSTGY FEDIDANGDG
301 VADLVVPTTE DGSYGGAFDP NLNVYYWDSF VPESDNYGQS RPWTAAENSP VEFFETQVMY
361 NNTVSLQGGN DNGTFRLSYN NLDQQGILPN SSLTKNTINF NGTLKLTEKL SSNVMFQYNK
421 QDVVGRYSTG YSDNIMSNFR QWWQVNTDVL ALKDIYDQTG KNYTWNAANP TDPETPIYWD
481 NPYWTRYENY NSDTRDRVIS KVGIDYKFTD WLNFSAFATI DGYTEVREER RAVGSVATSF
541 GVNLADESSG YQRTNIEQAE YNYNAILSVN KMLSDDFSLA GLVGFNLRKE RYQYSQQSTS
601 GGIAVPELYS LSNSVNSNPF PYEYLYEKEV YGYFANANLG YKGFLYLDGN YRVDVSSALP
661 TVNNQYDYYS IGLGFVFSEL INVDQINYGK IRASYGTVGN DTRALRVNDV YLRDNNFQGG
721 VLTTLPSTKN NSSLKPEITA ETELGLELSM FKRRLNVDFA VYNRETKNQL LSVQLSRATG
781 YNSTFINAGT IRNRGFELTL GGTAVKTAGF TYSPSVNFTL NRNKVLSLIG ETENYVIADF
841 QATTSNATVG QPLGVMRGTG YEYLDGERVV DENGYYVAVS DQIIGDPNPD WNMGINNMFT
901 YKNFKLSFLI DIQKGGDVFS LDMYYGSGVG LYPETAGTND LGNPVRDDVD AGGGVVLPGV
961 NSDGTPNTTY ADASYYGGAY YWGSQTRNPE ETHIYDASSV RLRELSLSYS LPKTIASKIK
1021 ATNIDFSIVG RNLWIISKNV PYADPESGLG VGTAQGYLSG SYPTVKTYGF KLDVSF
//