LOCUS AFM06104.1 1134 aa PRT BCT 31-AUG-2017
DEFINITION Bernardetia litoralis DSM 6794 DNA/RNA helicase, superfamily
II protein.
ACCESSION CP003345-3592
PROTEIN_ID AFM06104.1
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JOURNAL Unpublished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_3794"
/note="PFAM: Helicase conserved C-terminal domain; SNF2
family N-terminal domain"
/transl_table=11
/db_xref="InterPro:IPR000330"
/db_xref="InterPro:IPR001650"
/db_xref="InterPro:IPR014021"
BEGIN
1 MSNFITNSID GKSMQTRLQK LIPVSQELKF LVGFFYFSGW QEIYKHLEAN TEINLKILVG
61 LSVDKSVSGT LIEVGNFQEN QSREEVFSDF IKSLGKALNH SDMDTEIFHD QFDFFIKLIE
121 TGRLEIRKTQ KPNHAKIYLF AYNTAKADET EKKGQLITGS SNLTKAGLQG QEEFNVEIKD
181 YGFEEAEKYF DERWKTADSI TELEEDRNML IQFLKNQTQA ALITPFEAYA YILKTYLDLH
241 EIKNVGNYLD RLLLDADFQN YSYQKDAVGQ ALQVIEQHNG VIIADVVGLG KSVIASLIAK
301 QLRKRGLILC PPGLIGNAQQ KTGWHEYKHL FQLYDWDIES VGKVEEIAET IEDQNYDVII
361 VDEAHRFRNQ DTAMYEALAT ICKGKQIILL TATPFNNSPA DIFSLLKLFV IPGQSSLSIE
421 SDLEQLFKSY DYRFKRLSDI LKDYNSENDK KRKRVEKIYK DIFKKSSPID ISLVRSKVKF
481 IATQIKDTIK DVTIRRNRID LRQDIIYSKE VTNLSEVADP KEIFYELSEK QSEFYDKVIH
541 TYFGENGQFT GAIYRPSQYE KEEKEEGKKS EEENRIFQQQ NNLYGFMRRL LVKRFESSFG
601 SFEKSIKRFL KVNRMVKSFI EHSDKYILDR KVIEGIYNDE DEKDDFISEE IEKALIEFEK
661 NAQNKTSPKH TTIYDVNKFK FKTKFLEDIE NDITLFETIT QEIKKLDLIQ NDPKRKKIVE
721 TIKDVLKDSI TQNEGKNTPK RKVILFTEYT DTVRHLEEYF SKEFEGRVLF CDGSLSKKAQ
781 LELNSNFNAK YKSKEGKQKD DFDVLVTSDK LSEGFNLNRA GLIINYDIPW NPTRVIQRVG
841 RINRIGTKVF DMLYIYNFFP TLQGATIVKS REIAAQKMFL IHNALGEDAK IFDTSEVPSA
901 SSLFNKIGKY QEDDEISIDT FVRNEFAAIK ENHPEIIERI NNFPNRIKTA KIFEEENTLV
961 LRKKGTSIFP LVIDKDKNIE QKAFEEIVSL VKCSFETPAQ PLSKAFWKNY EEAKNYAPKN
1021 KRTSPQISIE QQALNSLRTL SKKHKEEVTL PQLEFINTLI QDLRNYKTLP TYTLRRLILI
1081 NNSKKGIKTT IENIEEVRRR LGNNYLKIIL KRVQNLEEDV IISVENQVKK ENLL
//