Novosphingobium resinovorum strain SA1 plasmid pSA4, complete sequence.
Novosphingobium resinovorum (Sphingomonas subarctica)
Bacteria; Pseudomonadota; Alphaproteobacteria; Sphingomonadales; Sphingomonadaceae; Novosphingobium.
Submitted (29-AUG-2016) Department of Biotechnology, University of Szeged, Kozep fasor 52., Szeged 6726, Hungary
REFSEQ INFORMATION: The reference sequence is identical to\nCP017079.1.\nBacteria available from Gabor Rakhely, University of Szeged\nDepartment of Biotechnology, Hungary.\nAnnotation modified by submitter.\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 :: CLC Genomics Workbench v. 7\nGenome Coverage :: 95.9x\nSequencing Technology :: Illumina\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 03/25/2023 20:33:14\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) :: 6,521\nCDSs (total) :: 6,450\nGenes (coding) :: 6,269\nCDSs (with protein) :: 6,269\nGenes (RNA) :: 71\nrRNAs :: 3, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 3, 3, 3 (5S, 16S, 23S)\ntRNAs :: 59\nncRNAs :: 3\nPseudo Genes (total) :: 181\nCDSs (without protein) :: 181\nPseudo Genes (ambiguous residues) :: 0 of 181\nPseudo Genes (frameshifted) :: 78 of 181\nPseudo Genes (incomplete) :: 134 of 181\nPseudo Genes (internal stop) :: 30 of 181\nPseudo Genes (multiple problems) :: 52 of 181\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_006961814.1
GO:0004803 - transposase activity [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_010482205.1
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_004213387.1
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_008831328.1
COORDINATES: similar to AA sequence:RefSeq:WP_004213383.1
COORDINATES: similar to AA sequence:RefSeq:WP_008831326.1
COORDINATES: similar to AA sequence:RefSeq:WP_013038659.1
COORDINATES: similar to AA sequence:RefSeq:WP_007685990.1
COORDINATES: similar to AA sequence:RefSeq:WP_007685989.1
COORDINATES: similar to AA sequence:RefSeq:WP_007685988.1
type II toxin-antitoxin system YafQ family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_017503755.1
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
type II toxin-antitoxin system RelB/DinJ family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_008831324.1
COORDINATES: similar to AA sequence:RefSeq:WP_012554518.1
COORDINATES: similar to AA sequence:RefSeq:WP_013041578.1
COORDINATES: similar to AA sequence:RefSeq:WP_008832586.1
COORDINATES: similar to AA sequence:RefSeq:WP_017501681.1
COORDINATES: similar to AA sequence:RefSeq:WP_013038680.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_007686155.1
COORDINATES: similar to AA sequence:RefSeq:WP_007686157.1
COORDINATES: similar to AA sequence:RefSeq:WP_004213319.1
COORDINATES: similar to AA sequence:RefSeq:WP_007686160.1
COORDINATES: similar to AA sequence:RefSeq:WP_007686162.1
COORDINATES: similar to AA sequence:RefSeq:WP_015449240.1
Ti-type conjugative transfer relaxase TraA
COORDINATES: similar to AA sequence:RefSeq:WP_007686165.1
COORDINATES: similar to AA sequence:RefSeq:WP_018075411.1
GO:0004620 - phospholipase activity [Evidence IEA]
GO:0006629 - lipid metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007686170.1
COORDINATES: similar to AA sequence:RefSeq:WP_007686172.1
SDR family NAD(P)-dependent oxidoreductase
COORDINATES: similar to AA sequence:RefSeq:WP_007686174.1
COORDINATES: protein motif:HMM:NF025605.2
TetR/AcrR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_006966681.1
GO:0005886 - plasma membrane [Evidence IEA]
GO:0009410 - response to xenobiotic stimulus [Evidence IEA]; GO:0006855 - xenobiotic transmembrane transport [Evidence IEA]
DHA2 family efflux MFS transporter permease subunit
COORDINATES: similar to AA sequence:RefSeq:WP_019847701.1
HlyD family efflux transporter periplasmic adaptor subunit
COORDINATES: similar to AA sequence:RefSeq:WP_018605020.1
GO:0009279 - cell outer membrane [Evidence IEA]
GO:0015288 - porin activity [Evidence IEA]
efflux transporter outer membrane subunit
COORDINATES: similar to AA sequence:RefSeq:WP_016554443.1
COORDINATES: similar to AA sequence:RefSeq:WP_006204986.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_004213344.1
COORDINATES: similar to AA sequence:RefSeq:WP_004212934.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [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_010399250.1
COORDINATES: similar to AA sequence:RefSeq:WP_015449303.1
COORDINATES: similar to AA sequence:RefSeq:WP_020819815.1
COORDINATES: similar to AA sequence:RefSeq:WP_004213191.1
COORDINATES: similar to AA sequence:RefSeq:WP_020819817.1
COORDINATES: similar to AA sequence:RefSeq:WP_006949645.1
COORDINATES: similar to AA sequence:RefSeq:WP_004213402.1
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_004213405.1
zincin-like metallopeptidase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006968047.1
COORDINATES: similar to AA sequence:RefSeq:WP_013054017.1
COORDINATES: similar to AA sequence:RefSeq:WP_004213313.1
COORDINATES: similar to AA sequence:RefSeq:WP_006953883.1
COORDINATES: similar to AA sequence:RefSeq:WP_004213311.1
COORDINATES: similar to AA sequence:RefSeq:WP_004213310.1
COORDINATES: similar to AA sequence:RefSeq:WP_013054019.1
COORDINATES: similar to AA sequence:RefSeq:WP_006953889.1
COORDINATES: similar to AA sequence:RefSeq:WP_006953891.1
COORDINATES: similar to AA sequence:RefSeq:WP_006953893.1
COORDINATES: similar to AA sequence:RefSeq:WP_006953895.1
COORDINATES: similar to AA sequence:RefSeq:WP_020820236.1
COORDINATES: similar to AA sequence:RefSeq:WP_006953897.1
COORDINATES: similar to AA sequence:RefSeq:WP_013054022.1
COORDINATES: similar to AA sequence:RefSeq:WP_007016086.1
COORDINATES: similar to AA sequence:RefSeq:WP_008831892.1
COORDINATES: similar to AA sequence:RefSeq:WP_020819825.1
COORDINATES: similar to AA sequence:RefSeq:WP_004213291.1
COORDINATES: similar to AA sequence:RefSeq:WP_008827849.1
COORDINATES: similar to AA sequence:RefSeq:WP_014194372.1
COORDINATES: similar to AA sequence:RefSeq:WP_013054029.1
helix-turn-helix transcriptional regulator
COORDINATES: protein motif:HMM:NF016432.2
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
GO:0006352 - DNA-templated transcription initiation [Evidence IEA]; GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
sigma factor-like helix-turn-helix DNA-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_004213279.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0000150 - DNA strand exchange activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004213277.1
COORDINATES: protein motif:HMM:NF024949.2
COORDINATES: similar to AA sequence:RefSeq:WP_004213276.1
COORDINATES: similar to AA sequence:RefSeq:WP_004213275.1
COORDINATES: similar to AA sequence:RefSeq:WP_006953923.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004213273.1
plasmid mobilization relaxosome protein MobC
COORDINATES: protein motif:HMM:NF015397.2
relaxase/mobilization nuclease domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007011060.1
IS21-like element ISSsp5 family helper ATPase IstB
COORDINATES: similar to AA sequence:RefSeq:WP_017502826.1
COORDINATES: similar to AA sequence:RefSeq:WP_006949650.1
VirB3 family type IV secretion system protein
COORDINATES: similar to AA sequence:RefSeq:WP_004213202.1
COORDINATES: similar to AA sequence:RefSeq:WP_004213200.1
lytic transglycosylase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_004213195.1
COORDINATES: similar to AA sequence:RefSeq:WP_006953933.1