LOCUS AFM05418.1 1155 aa PRT BCT 31-AUG-2017
DEFINITION Bernardetia litoralis DSM 6794 PAS domain S-box protein.
ACCESSION CP003345-2906
PROTEIN_ID AFM05418.1
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JOURNAL Unpublished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_3078"
/note="PFAM: HAMP 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:IPR003660"
/db_xref="InterPro:IPR010822"
/db_xref="InterPro:IPR013656"
/db_xref="InterPro:IPR013767"
BEGIN
1 MLNRFSIRTK ITIRLLIVVL IAAFVLSGVS YNRGKEAIEQ RYWQNLKVIN TLKSKEIQGV
61 FSQINSHVSL LQGYSSVLQS LRKVNTIAEN KYTDTLKNQL NNKLNKSLLP FQKTYNYPNL
121 VLVNKDGRII YKTNPKADYL IFGRIYDRYQ EILTYAQDGI YFNEPRVAKE LSGNLSRMEA
181 IAPVYDPEQN GLKIGYIIVE LDMQVVYDVV SDTTGLGQTG EIVLGRQKSK TTLTFLNKLK
241 KQHHNTPKII GDGKAEGLER ALKEKTTGYG FSIDYKGSET LSAWNYIEPV GWGIVTQIDK
301 SAVDNDLNGL VMAFILTGGV IIIVAGGVVF GFSTVLTRPI ERLQVVLGIV AKGELPKEIK
361 KETNDEIGQM TEAVNNLVQA LKRTADFAYQ IGKGNYKASF KPMGDNDTFG NALITMRDSI
421 QDADSKDKQR NWIVSGVAEV GEILREYQTI EELSEKIIAF ITEKINAVQG SFYIVEEDEI
481 TQESSIVMRA TYAYHKRKYL KKSFRFAEGL VGQAAIEQDI ILRTEIPDNY MTISSGLLGE
541 QKPKALLIVP LITDEKVYGV LEFAGLSCFT DTEVNFVREI SIIIARTIFN IKINDRTISL
601 LQESQQMSEE LQLQQEVLRQ NAEEMESTQE ELRKSNARLE EQILEVNRTQ KRMQVLLENA
661 SEVITIYEKN GKVRYISPSI ESILGYEQSE LIGTNDVDNV QQGSKETFKQ LFENLLEHPD
721 ENITIQYEYR KKNGDPVWLE ATGTNRLSDP AIRGIVINSR DITERRRAEQ ESRMRGQMQA
781 LSENSPDLIM RINPEGKIFY VNPTIKNLTG LEPSLLTNKM MKGSELPIAI VNRIEEITDK
841 VNRTGNKVLR ELEIDSVAGE RVMQTTAIPE YNDQAYLESI LVVSHDITER KRNEFEVRET
901 NRKISESINY ARRIQSAILP ESRHLQSIFS DSFIFYKPRD IVSGDFPWYV QKGDDVYIAA
961 VDCTGHGVPG ALISLIGYFI LNEIISSSQT ILSPAQILDR LNKGVAQTLR QDTEGNTKDG
1021 MDIALCHINT KQNKVEFAGA HRPLYILPKE GDLIQIKGDR KPIGGGAIYN ASSDFSNHSQ
1081 TISEGDSIYI FSDGLPDQFG GEEDKKFSSK QIRELLIKNR TQNMEEMHTT FENRFEEWMG
1141 NNKQIDDILM IGIKF
//