Shewanella baltica OS678 plasmid pSBAL67801, complete sequence.
Bacteria; Pseudomonadota; Gammaproteobacteria; Alteromonadales; Shewanellaceae; Shewanella.
Genome sequencing of five Shewanella baltica strains recovered from the oxic-anoxic interface of the Baltic Sea
Complete sequence of plasmid of Shewanella baltica OS678
Submitted (14-DEC-2010) US DOE Joint Genome Institute, 2800 Mitchell Drive B310, Walnut Creek, CA 94598-1698, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP002384.1.\nURL -- http://www.jgi.doe.gov\nJGI Project ID: 4088792\nSource DNA and organism available from Jennifer Auchtung\n(auchtun3@egr.msu.edu)\nContacts: Jennifer Auchtung (auchtun3@egr.msu.edu)\n Tanja Woyke (microbe@cuba.jgi-psf.org)\nAnnotation done by JGI-ORNL and JGI-PGF\nFinishing done by JGI-LANL\nThe JGI and collaborators endorse the principles for the\ndistribution and use of large scale sequencing data adopted by the\nlarger genome sequencing community and urge users of this data to\nfollow them. it is our intention to publish the work of this\nproject in a timely fashion and we welcome collaborative\ninteraction on the project and analysis.\n(http://www.genome.gov/page.cfm?pageID=10506376).\nThe annotation was added by the NCBI Prokaryotic Genome Annotation\nPipeline (PGAP). Information about PGAP can be found here:\nhttps://www.ncbi.nlm.nih.gov/genome/annotation_prok/\n\n##MIGS-Data-START##\ninvestigation_type :: bacteria_archaea\nproject_name :: Shewanella baltica OS678\ncollection_date :: Missing\nlat_lon :: Missing\ndepth :: Missing\nalt_elev :: Missing\ncountry :: Missing\nenvironment :: Marine\nnum_replicons :: 2\nref_biomaterial :: Missing\nbiotic_relationship :: Free living\ntrophic_level :: Heterotroph\nrel_to_oxygen :: Facultative\nisol_growth_condt :: Missing\nsequencing_meth :: WGS\nassembly :: Newbler v. 2.3 (pre-release)\nfinishing_strategy :: Finished\nGOLD Stamp ID :: Gi05345\nFunding Program :: DOE-CSP 2010\nCell Shape :: Rod-shaped\nMotility :: Motile\nSporulation :: Nonsporulating\nTemperature Range :: Mesophile\nTemperature Optimum :: 4C\nGram Staining :: Gram-\nDiseases :: None\n##MIGS-Data-END##\n\n##Genome-Assembly-Data-START##\nFinishing Goal :: Finished\nCurrent Finishing Status :: Finished\nAssembly Method :: Newbler v. 2.3\nGenome Coverage :: 30x\nSequencing Technology :: WGS\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 08/21/2022 09:40:24\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.2\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA;\n repeat_region\nGenes (total) :: 4,656\nCDSs (total) :: 4,515\nGenes (coding) :: 4,461\nCDSs (with protein) :: 4,461\nGenes (RNA) :: 141\nrRNAs :: 11, 10, 10 (5S, 16S, 23S)\ncomplete rRNAs :: 11, 10, 10 (5S, 16S, 23S)\ntRNAs :: 105\nncRNAs :: 5\nPseudo Genes (total) :: 54\nCDSs (without protein) :: 54\nPseudo Genes (ambiguous residues) :: 0 of 54\nPseudo Genes (frameshifted) :: 28 of 54\nPseudo Genes (incomplete) :: 33 of 54\nPseudo Genes (internal stop) :: 17 of 54\nPseudo Genes (multiple problems) :: 20 of 54\nCRISPR Arrays :: 1\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_006087379.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_014358132.1
conjugative transfer relaxase/helicase TraI
COORDINATES: similar to AA sequence:RefSeq:WP_014615244.1
COORDINATES: similar to AA sequence:RefSeq:WP_006087382.1
type IV conjugative transfer system coupling protein TraD
COORDINATES: similar to AA sequence:RefSeq:WP_012197958.1
excalibur calcium-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012589040.1
COORDINATES: similar to AA sequence:RefSeq:WP_014615453.1
conjugal transfer mating-pair stabilization protein TraG
COORDINATES: similar to AA sequence:RefSeq:WP_014615241.1
COORDINATES: similar to AA sequence:RefSeq:WP_012589037.1
COORDINATES: similar to AA sequence:RefSeq:WP_006087388.1
type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB
COORDINATES: similar to AA sequence:RefSeq:WP_012197962.1
type-F conjugative transfer system pilin assembly protein TraF
COORDINATES: similar to AA sequence:RefSeq:WP_012197963.1
type-F conjugative transfer system mating-pair stabilization protein TraN
COORDINATES: similar to AA sequence:RefSeq:WP_012588995.1
type-F conjugative transfer system pilin assembly protein TrbC
COORDINATES: similar to AA sequence:RefSeq:WP_012589031.1
conjugal transfer pilus assembly protein TraU
COORDINATES: similar to AA sequence:RefSeq:WP_006087394.1
type-F conjugative transfer system protein TraW
COORDINATES: similar to AA sequence:RefSeq:WP_011979529.1
COORDINATES: similar to AA sequence:RefSeq:WP_012588994.1
COORDINATES: similar to AA sequence:RefSeq:WP_012589027.1
type IV conjugative transfer system lipoprotein TraV
COORDINATES: similar to AA sequence:RefSeq:WP_014615236.1
COORDINATES: similar to AA sequence:RefSeq:WP_012592947.1
type-F conjugative transfer system secretin TraK
COORDINATES: similar to AA sequence:RefSeq:WP_012197971.1
type IV conjugative transfer system protein TraE
COORDINATES: protein motif:HMM:TIGR02762.1
type IV conjugative transfer system protein TraL
COORDINATES: similar to AA sequence:RefSeq:WP_012592950.1
COORDINATES: similar to AA sequence:RefSeq:WP_012588990.1
COORDINATES: similar to AA sequence:RefSeq:WP_012197905.1
COORDINATES: similar to AA sequence:RefSeq:WP_011074385.1
COORDINATES: similar to AA sequence:RefSeq:WP_012197907.1
COORDINATES: similar to AA sequence:RefSeq:WP_011979537.1
COORDINATES: similar to AA sequence:RefSeq:WP_006958798.1
COORDINATES: similar to AA sequence:RefSeq:WP_006087336.1
COORDINATES: similar to AA sequence:RefSeq:WP_003185413.1
COORDINATES: protein motif:HMM:NF019371.2
COORDINATES: similar to AA sequence:RefSeq:WP_014615349.1
GO:0004803 - transposase activity [Evidence IEA]
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
IS3-like element ISSba5 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_011070736.1
frameshifted; incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_010555511.1
COORDINATES: similar to AA sequence:RefSeq:WP_011979498.1
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_006087334.1
COORDINATES: similar to AA sequence:RefSeq:WP_004636773.1
COORDINATES: similar to AA sequence:RefSeq:WP_006087332.1
frameshifted; incomplete; partial in the middle of a contig; missing N-terminus and C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_005392894.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]; GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017035583.1
COORDINATES: similar to AA sequence:RefSeq:WP_005392888.1
COORDINATES: similar to AA sequence:RefSeq:WP_009846891.1
COORDINATES: similar to AA sequence:RefSeq:WP_008486742.1
COORDINATES: similar to AA sequence:RefSeq:WP_011979501.1
COORDINATES: similar to AA sequence:RefSeq:WP_011979500.1
GO:0004089 - carbonate dehydratase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011979499.1
IS6-like element ISSba18 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_014620972.1
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
type I restriction endonuclease subunit R
COORDINATES: similar to AA sequence:RefSeq:WP_012277273.1
IS3-like element ISSba3 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_006087354.1
COORDINATES: similar to AA sequence:RefSeq:WP_006087358.1
GO:0004518 - nuclease activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006087359.1
COORDINATES: similar to AA sequence:RefSeq:WP_012589049.1
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_011979508.1
type II toxin-antitoxin system HicB family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_014615255.1
COORDINATES: similar to AA sequence:RefSeq:WP_011979510.1
COORDINATES: similar to AA sequence:RefSeq:WP_012589009.1
COORDINATES: similar to AA sequence:RefSeq:WP_011979512.1
COORDINATES: similar to AA sequence:RefSeq:WP_011979513.1
COORDINATES: similar to AA sequence:RefSeq:WP_011979514.1
COORDINATES: similar to AA sequence:RefSeq:WP_011979515.1
COORDINATES: similar to AA sequence:RefSeq:WP_011979516.1
zincin-like metallopeptidase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011979517.1