Roseobacter denitrificans strain FDAARGOS_309 plasmid unnamed2, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Rhodobacterales; Roseobacteraceae; Roseobacter.
FDA dAtabase for Regulatory Grade micrObial Sequences (FDA-ARGOS): Supporting development and validation of Infectious Disease Dx tests
Submitted (01-MAR-2018) Center for Devices and Radiological Health, US Food and Drug Administration, 10903 New Hampshire Avenue, Silver Spring, MD 20993-0002, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP027408.1.\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##Genome-Assembly-Data-START##\nAssembly Method :: CA v. 8.2\nGenome Coverage :: 409.207x\nSequencing Technology :: PacBio; Illumina\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 05/04/2023 04:21:46\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.5\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 4,046\nCDSs (total) :: 4,002\nGenes (coding) :: 3,968\nCDSs (with protein) :: 3,968\nGenes (RNA) :: 44\nrRNAs :: 1, 1, 1 (5S, 16S, 23S)\ncomplete rRNAs :: 1, 1, 1 (5S, 16S, 23S)\ntRNAs :: 38\nncRNAs :: 3\nPseudo Genes (total) :: 34\nCDSs (without protein) :: 34\nPseudo Genes (ambiguous residues) :: 0 of 34\nPseudo Genes (frameshifted) :: 18 of 34\nPseudo Genes (incomplete) :: 16 of 34\nPseudo Genes (internal stop) :: 10 of 34\nPseudo Genes (multiple problems) :: 9 of 34\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
Seaweed, Enteromorpha linza (coastal marine sediments), Aburatsubo Inlet, Australia
COORDINATES: similar to AA sequence:RefSeq:WP_013959973.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0004715 - non-membrane spanning protein tyrosine kinase activity [Evidence IEA]; GO:0004713 - protein tyrosine kinase activity [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
CpsD/CapB family tyrosine-protein kinase
COORDINATES: similar to AA sequence:RefSeq:WP_007204440.1
GO:0008830 - dTDP-4-dehydrorhamnose 3,5-epimerase 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_002724808.1
GO:0008460 - dTDP-glucose 4,6-dehydratase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013959943.1
GO:0008831 - dTDP-4-dehydrorhamnose reductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013959942.1
GO:0008879 - glucose-1-phosphate thymidylyltransferase activity [Evidence IEA]
glucose-1-phosphate thymidylyltransferase RfbA
COORDINATES: similar to AA sequence:RefSeq:WP_020040940.1
COORDINATES: protein motif:HMM:NF025736.2
COORDINATES: protein motif:HMM:TIGR01843.1
GO:0030253 - protein secretion by the type I secretion system [Evidence IEA]
HlyD family type I secretion periplasmic adaptor subunit
COORDINATES: protein motif:HMM:TIGR01842.1
COORDINATES: protein motif:HMM:NF024832.2
COORDINATES: similar to AA sequence:RefSeq:WP_019298140.1
COORDINATES: similar to AA sequence:RefSeq:WP_007811147.1
GO:0008146 - sulfotransferase activity [Evidence IEA]
sulfotransferase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007811149.1
GO:0016757 - glycosyltransferase activity [Evidence IEA]
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_007427747.1
COORDINATES: similar to AA sequence:RefSeq:WP_009830607.1
COORDINATES: similar to AA sequence:RefSeq:WP_007427742.1
GO:0003824 - catalytic activity [Evidence IEA]
NAD-dependent epimerase/dehydratase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_007427741.1
GO:0016491 - oxidoreductase activity [Evidence IEA]; GO:0016651 - oxidoreductase activity, acting on NAD(P)H [Evidence IEA]
COORDINATES: protein motif:HMM:NF015585.2
COORDINATES: similar to AA sequence:RefSeq:WP_008994567.1
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: protein motif:HMM:NF013884.2
GO:0016747 - acyltransferase activity, transferring groups other than amino-acyl groups [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_076611845.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
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_012755301.1
frameshifted; incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF012573.2
GO:0005509 - calcium ion binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011655510.1
COORDINATES: protein motif:HMM:NF012745.2
COORDINATES: similar to AA sequence:RefSeq:WP_013959979.1
COORDINATES: similar to AA sequence:RefSeq:WP_013959933.1
COORDINATES: similar to AA sequence:RefSeq:WP_013959934.1
ParB N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011655515.1
COORDINATES: similar to AA sequence:RefSeq:WP_011453203.1
COORDINATES: similar to AA sequence:RefSeq:WP_013959946.1
GO:0003978 - UDP-glucose 4-epimerase activity [Evidence IEA]
GO:0006012 - galactose metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007119340.1
WecB/TagA/CpsF family glycosyltransferase
COORDINATES: similar to AA sequence:RefSeq:WP_013959938.1
GO:0004197 - cysteine-type endopeptidase activity [Evidence IEA]
GO:0043687 - post-translational protein modification [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013959937.1
GO:0004476 - mannose-6-phosphate isomerase activity [Evidence IEA]
GO:0009103 - lipopolysaccharide biosynthetic process [Evidence IEA]
mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase
COORDINATES: similar to AA sequence:RefSeq:WP_013959935.1
VPLPA-CTERM sorting domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_013959936.1
COORDINATES: protein motif:HMM:NF025910.2
COORDINATES: protein motif:HMM:NF012321.2
COORDINATES: similar to AA sequence:RefSeq:WP_009825185.1
bifunctional sulfate adenylyltransferase/adenylylsulfate kinase
COORDINATES: similar to AA sequence:RefSeq:WP_013959978.1
GO:0004252 - serine-type endopeptidase activity [Evidence IEA]
rhomboid family intramembrane serine protease
COORDINATES: similar to AA sequence:RefSeq:WP_013959977.1
COORDINATES: similar to AA sequence:RefSeq:WP_013959976.1
GO:0016020 - membrane [Evidence IEA]; GO:0042597 - periplasmic space [Evidence IEA]
GO:0015159 - polysaccharide transmembrane transporter activity [Evidence IEA]
polysaccharide biosynthesis/export family protein
COORDINATES: similar to AA sequence:RefSeq:WP_013959975.1
COORDINATES: similar to AA sequence:RefSeq:WP_013959970.1
GO:0016740 - transferase activity [Evidence IEA]
GO:0006486 - protein glycosylation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013959971.1
COORDINATES: similar to AA sequence:RefSeq:WP_013959972.1