Hirschia baltica ATCC 49814 plasmid pHbal01, complete sequence.
Bacteria; Proteobacteria; Alphaproteobacteria; Hyphomonadales; Hyphomonadaceae; Hirschia.
Complete genome sequence of Hirschia baltica type strain (IFAM 1418(T))
Submitted (14-JUL-2009) US DOE Joint Genome Institute, 2800 Mitchell Drive B310, Walnut Creek, CA 94598-1698, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP001679.1.\nURL -- http://www.jgi.doe.gov\nJGI Project ID: 4085752\nSource DNA available from Yves V. Brun (ybrun@indiana.edu)\nOrganism available from ATCC: ATCC 49814\nContacts: Yves V. Brun (ybrun@indiana.edu)\n David Bruce (microbe@cuba.jgi-psf.org)\nAnnotation done by JGI-ORNL and JGI-PGF\nFinishing done by JGI-LANL\nFinished microbial genomes have been curated to close all gaps with\ngreater than 98% coverage of at least two independent clones. Each\nbase pair has a minimum q (quality) value of 30 and the total error\nrate is less than one per 50000.\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##Metadata-START##\nOrganism Display Name :: Hirschia baltica ATCC 49814\nCulture Collection ID :: ATCC 49814, IFAM 1418, DSM 5838\nGOLD Stamp ID :: Gi03286\nGreengenes ID :: 43442\nOxygen Requirement :: Aerobe\nCell Shape :: Rod-shaped\nMotility :: Motile\nSporulation :: Nonsporulating\nTemperature Range :: Mesophile\nGram Staining :: gram-\nBiotic Relationship :: Free living\nDiseases :: None\nHabitat :: Marine\n##Metadata-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/07/2022 16:16:31\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.3\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 3,240\nCDSs (total) :: 3,192\nGenes (coding) :: 3,182\nCDSs (with protein) :: 3,182\nGenes (RNA) :: 48\nrRNAs :: 2, 2, 2 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 2, 2 (5S, 16S, 23S)\ntRNAs :: 38\nncRNAs :: 4\nPseudo Genes (total) :: 10\nCDSs (without protein) :: 10\nPseudo Genes (ambiguous residues) :: 0 of 10\nPseudo Genes (frameshifted) :: 0 of 10\nPseudo Genes (incomplete) :: 10 of 10\nPseudo Genes (internal stop) :: 1 of 10\nPseudo Genes (multiple problems) :: 1 of 10\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: protein motif:HMM:NF025072.2
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_018998427.1
GO:0008460 - dTDP-glucose 4,6-dehydratase activity [Evidence IEA]
GO:0019305 - dTDP-rhamnose biosynthetic process [Evidence IEA]; GO:0009243 - O antigen biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018998426.1
GO:0008830 - dTDP-4-dehydrorhamnose 3,5-epimerase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019962221.1
GO:0008879 - glucose-1-phosphate thymidylyltransferase activity [Evidence IEA]
glucose-1-phosphate thymidylyltransferase RfbA
COORDINATES: similar to AA sequence:RefSeq:WP_018998416.1
COORDINATES: similar to AA sequence:RefSeq:WP_014132593.1
COORDINATES: similar to AA sequence:RefSeq:WP_011038808.1
COORDINATES: protein motif:HMM:NF002363.0
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_008191513.1
COORDINATES: protein motif:HMM:NF025687.2
COORDINATES: protein motif:HMM:NF013884.2
COORDINATES: protein motif:HMM:NF015431.2
COORDINATES: similar to AA sequence:RefSeq:WP_018998418.1
COORDINATES: similar to AA sequence:RefSeq:WP_010477625.1
COORDINATES: similar to AA sequence:RefSeq:WP_018998419.1
COORDINATES: similar to AA sequence:RefSeq:WP_018998420.1
COORDINATES: similar to AA sequence:RefSeq:WP_018998422.1
COORDINATES: similar to AA sequence:RefSeq:WP_018998423.1
COORDINATES: similar to AA sequence:RefSeq:WP_018998424.1
COORDINATES: protein motif:HMM:NF017470.2
COORDINATES: similar to AA sequence:RefSeq:WP_018998431.1
COORDINATES: protein motif:HMM:NF019843.2
COORDINATES: protein motif:HMM:NF019421.2
type II toxin-antitoxin system HipA family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_011084786.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008547595.1
COORDINATES: similar to AA sequence:RefSeq:WP_014286583.1
3-deoxy-manno-octulosonate cytidylyltransferase
COORDINATES: similar to AA sequence:RefSeq:WP_018997012.1
GO:0004315 - 3-oxoacyl-[acyl-carrier-protein] synthase activity [Evidence IEA]
GO:0006633 - fatty acid biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007621179.1
GO:0000160 - phosphorelay signal transduction system [Evidence IEA]
COORDINATES: protein motif:HMM:TIGR00229.1
HAMP domain-containing sensor histidine kinase
COORDINATES: similar to AA sequence:RefSeq:WP_018998434.1
COORDINATES: similar to AA sequence:RefSeq:WP_018998435.1
COORDINATES: similar to AA sequence:RefSeq:WP_012967597.1
GO:0051287 - NAD binding [Evidence IEA]; GO:0016616 - oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Evidence IEA]; GO:0003979 - UDP-glucose 6-dehydrogenase activity [Evidence IEA]
GO:0000271 - polysaccharide biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018998437.1
COORDINATES: protein motif:HMM:NF024629.2
COORDINATES: similar to AA sequence:RefSeq:WP_018998438.1
GO:0016853 - isomerase activity [Evidence IEA]
GO:0005975 - carbohydrate metabolic process [Evidence IEA]
KpsF/GutQ family sugar-phosphate isomerase
COORDINATES: similar to AA sequence:RefSeq:WP_018998503.1
GO:0003978 - UDP-glucose 4-epimerase activity [Evidence IEA]
GO:0006012 - galactose metabolic process [Evidence IEA]
COORDINATES: protein motif:HMM:NF012311.2
GO:0008236 - serine-type peptidase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011645244.1
COORDINATES: similar to AA sequence:RefSeq:WP_018996982.1
GO:0005215 - transporter activity [Evidence IEA]
efflux RND transporter periplasmic adaptor subunit
COORDINATES: protein motif:HMM:NF012692.2
COORDINATES: similar to AA sequence:RefSeq:WP_016956696.1
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017667712.1
LacI family DNA-binding transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_017667710.1
COORDINATES: similar to AA sequence:RefSeq:WP_017667711.1
COORDINATES: similar to AA sequence:RefSeq:WP_004141949.1
COORDINATES: protein motif:HMM:NF012745.2
COORDINATES: protein motif:HMM:NF016060.2
COORDINATES: similar to AA sequence:RefSeq:WP_008331957.1
COORDINATES: similar to AA sequence:RefSeq:WP_008448861.1
COORDINATES: similar to AA sequence:RefSeq:WP_008448863.1
phosphatidylinositol-specific phospholipase C/glycerophosphodiester phosphodiesterase family protein
COORDINATES: protein motif:HMM:NF012697.2
COORDINATES: similar to AA sequence:RefSeq:WP_019846283.1
COORDINATES: protein motif:HMM:NF024880.2
COORDINATES: similar to AA sequence:RefSeq:WP_019846278.1
COORDINATES: protein motif:HMM:NF012804.2
class II aldolase/adducin family protein
COORDINATES: protein motif:HMM:NF025025.2
COORDINATES: protein motif:HMM:NF013245.2
COORDINATES: similar to AA sequence:RefSeq:WP_012288923.1
COORDINATES: protein motif:HMM:NF022436.2