Sphingomonas insulae strain KCTC 12872 plasmid unnamed1, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Sphingomonadales; Sphingomonadaceae; Sphingomonas.
Genome sequence of Sphingomonas insulae KCTC 12872
Submitted (06-JAN-2020) Agriculture & Life Science, Kyungpook National University, Daehak-ro 80, Daegu 41566, Korea, Republic of
REFSEQ INFORMATION: The reference sequence is identical to\nCP048419.1.\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 Date :: 06-JAN-2020\nAssembly Method :: HGAP v. 4\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 276.0x\nSequencing Technology :: PacBio RSII\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 03/25/2023 02:15:08\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.4\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 3,611\nCDSs (total) :: 3,546\nGenes (coding) :: 3,472\nCDSs (with protein) :: 3,472\nGenes (RNA) :: 65\nrRNAs :: 3, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 3, 3, 3 (5S, 16S, 23S)\ntRNAs :: 53\nncRNAs :: 3\nPseudo Genes (total) :: 74\nCDSs (without protein) :: 74\nPseudo Genes (ambiguous residues) :: 0 of 74\nPseudo Genes (frameshifted) :: 57 of 74\nPseudo Genes (incomplete) :: 18 of 74\nPseudo Genes (internal stop) :: 3 of 74\nPseudo Genes (multiple problems) :: 4 of 74\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_008071144.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_009573302.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_017503678.1
zincin-like metallopeptidase domain-containing protein
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_010666724.1
COORDINATES: similar to AA sequence:RefSeq:WP_010337663.1
COORDINATES: similar to AA sequence:RefSeq:WP_019368264.1
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_007406231.1
COORDINATES: similar to AA sequence:RefSeq:WP_017182407.1
COORDINATES: similar to AA sequence:RefSeq:WP_019368261.1
COORDINATES: similar to AA sequence:RefSeq:WP_017980819.1
COORDINATES: similar to AA sequence:RefSeq:WP_019368260.1
COORDINATES: similar to AA sequence:RefSeq:WP_010337670.1
GO:0003697 - single-stranded DNA binding [Evidence IEA]
GO:0006974 - cellular response to DNA damage stimulus [Evidence IEA]; GO:0018142 - protein-DNA covalent cross-linking [Evidence IEA]
SOS response-associated peptidase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_004434307.1
COORDINATES: similar to AA sequence:RefSeq:WP_012752932.1
COORDINATES: protein motif:HMM:NF021622.2
COORDINATES: protein motif:HMM:NF019348.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010399286.1
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_011996094.1
COORDINATES: similar to AA sequence:RefSeq:WP_010188133.1
COORDINATES: similar to AA sequence:RefSeq:WP_017500349.1
COORDINATES: similar to AA sequence:RefSeq:WP_019368234.1
COORDINATES: similar to AA sequence:RefSeq:WP_013836224.1
COORDINATES: similar to AA sequence:RefSeq:WP_019368230.1
COORDINATES: similar to AA sequence:RefSeq:WP_019368229.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019368228.1
COORDINATES: similar to AA sequence:RefSeq:WP_019368227.1
relaxase/mobilization nuclease domain-containing protein
COORDINATES: protein motif:HMM:NF017142.2
COORDINATES: protein motif:HMM:NF018305.2
GO:0000155 - phosphorelay sensor kinase activity [Evidence IEA]
GO:0000160 - phosphorelay signal transduction system [Evidence IEA]
COORDINATES: protein motif:HMM:NF012301.2
LytTR family DNA-binding domain-containing protein
COORDINATES: protein motif:HMM:NF014081.2
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF014566.2
CPBP family intramembrane metalloprotease
COORDINATES: similar to AA sequence:RefSeq:WP_009840077.1
COORDINATES: similar to AA sequence:RefSeq:WP_014037601.1
COORDINATES: protein motif:HMM:NF013413.2
GO:0070573 - metallodipeptidase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_002620359.1
COORDINATES: protein motif:HMM:NF013382.2
COORDINATES: similar to AA sequence:RefSeq:WP_011046026.1
GO:0008410 - CoA-transferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017963313.1
COORDINATES: similar to AA sequence:RefSeq:WP_017979539.1
COORDINATES: similar to AA sequence:RefSeq:WP_008830650.1
COORDINATES: similar to AA sequence:RefSeq:WP_008830651.1
COORDINATES: similar to AA sequence:RefSeq:WP_007406242.1
COORDINATES: similar to AA sequence:RefSeq:WP_011632198.1
COORDINATES: similar to AA sequence:RefSeq:WP_007254357.1
COORDINATES: protein motif:HMM:NF014373.2
COORDINATES: similar to AA sequence:RefSeq:WP_012452242.1
COORDINATES: similar to AA sequence:RefSeq:WP_012252042.1
COORDINATES: similar to AA sequence:RefSeq:WP_015669315.1
COORDINATES: similar to AA sequence:RefSeq:WP_011299921.1
COORDINATES: nucleotide motif:Rfam:14.4:RF01734
Fluoride riboswitches increase expression of downstream genes that help mitigate the toxic effects of very high levels of fluoride; They are found in a wide variety of bacteria and archaea; Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: similar to AA sequence:RefSeq:WP_007686136.1
voltage-gated chloride channel family protein
COORDINATES: similar to AA sequence:RefSeq:WP_007406288.1
COORDINATES: similar to AA sequence:RefSeq:WP_017664417.1
COORDINATES: similar to AA sequence:RefSeq:WP_019368225.1
COORDINATES: similar to AA sequence:RefSeq:WP_019368224.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_019368223.1
GO:0043684 - type IV secretion system complex [Evidence IEA]
GO:0044097 - secretion by the type IV secretion system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019368222.1
COORDINATES: similar to AA sequence:RefSeq:WP_019368221.1
TrbG/VirB9 family P-type conjugative transfer protein
COORDINATES: similar to AA sequence:RefSeq:WP_010339495.1
COORDINATES: similar to AA sequence:RefSeq:WP_019368219.1
COORDINATES: similar to AA sequence:RefSeq:WP_010339492.1
COORDINATES: similar to AA sequence:RefSeq:WP_019054157.1
VirB4 family type IV secretion/conjugal transfer ATPase
COORDINATES: similar to AA sequence:RefSeq:WP_019368216.1
VirB3 family type IV secretion system protein
COORDINATES: similar to AA sequence:RefSeq:WP_019368215.1
COORDINATES: similar to AA sequence:RefSeq:WP_017503479.1
lytic transglycosylase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008831136.1
COORDINATES: similar to AA sequence:RefSeq:WP_019368211.1
COORDINATES: similar to AA sequence:RefSeq:WP_019054163.1
COORDINATES: similar to AA sequence:RefSeq:WP_018482009.1