Pseudomonas furukawaii strain KF707 plasmid pKF707, complete sequence.
Bacteria; Proteobacteria; Gammaproteobacteria; Pseudomonadales; Pseudomonadaceae; Pseudomonas; Pseudomonas oleovorans/pseudoalcaligenes group.
Pseudomonas furukawaii sp. nov., a polychlorinated biphenyl-degrading bacterium isolated from biphenyl-contaminated soil in Japan
Submitted (15-MAY-2015) Contact:Nobutada Kimura National Institute of Advanced Industrial Science and Technology, Bioproduction Research Institute; Higashi 1-1-1, Tsukuba, Ibaraki 305-8566, Japan
REFSEQ INFORMATION: The reference sequence is identical to\nAP014863.1.\nPlease visit our web page\nURL:http://www.ddbj.nig.ac.jp/\nThe genome sequencing of strain KF707 was supported by National\nInstitute of Technology and Evaluation in Japan\nStrain KF707 (=NBRC 110670) is available from NBRC culture\ncollection (http://www.nbrc.nite.go.jp/e/).\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 :: Newbler v. 2.6\nGenome Coverage :: 124x\nSequencing Technology :: 454 GS FLX; Hiseq1000; Miseq\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/19/2022 13:40:29\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) :: 5,817\nCDSs (total) :: 5,725\nGenes (coding) :: 5,643\nCDSs (with protein) :: 5,643\nGenes (RNA) :: 92\nrRNAs :: 5, 5, 5 (5S, 16S, 23S)\ncomplete rRNAs :: 5, 5, 5 (5S, 16S, 23S)\ntRNAs :: 73\nncRNAs :: 4\nPseudo Genes (total) :: 82\nCDSs (without protein) :: 82\nPseudo Genes (ambiguous residues) :: 0 of 82\nPseudo Genes (frameshifted) :: 29 of 82\nPseudo Genes (incomplete) :: 62 of 82\nPseudo Genes (internal stop) :: 14 of 82\nPseudo Genes (multiple problems) :: 19 of 82\nCRISPR Arrays :: 1\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: ab initio prediction:GeneMarkS-2+
GO:0006402 - mRNA catabolic process [Evidence IEA]; GO:0006109 - regulation of carbohydrate metabolic process [Evidence IEA]
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF024835.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
helix-turn-helix domain-containing protein
COORDINATES: protein motif:HMM:NF015487.2
GO:0009291 - unidirectional conjugation [Evidence IEA]
P-type conjugative transfer protein TrbG
COORDINATES: similar to AA sequence:RefSeq:WP_003117047.1
GO:0019867 - outer membrane [Evidence IEA]
GO:0009297 - pilus assembly [Evidence IEA]; GO:0009306 - protein secretion [Evidence IEA]
PilN family type IVB pilus formation outer membrane protein
COORDINATES: similar to AA sequence:RefSeq:WP_016359351.1
COORDINATES: similar to AA sequence:RefSeq:WP_016359367.1
GO:0009297 - pilus assembly [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_016359308.1
COORDINATES: similar to AA sequence:RefSeq:WP_003230018.1
type II secretion system F family protein
COORDINATES: protein motif:HMM:NF020384.2
COORDINATES: similar to AA sequence:RefSeq:WP_003230021.1
COORDINATES: similar to AA sequence:RefSeq:WP_003230023.1
shufflon system plasmid conjugative transfer pilus tip adhesin PilV
COORDINATES: similar to AA sequence:RefSeq:WP_000089546.1
COORDINATES: similar to AA sequence:RefSeq:WP_016359338.1
COORDINATES: similar to AA sequence:RefSeq:WP_016981080.1
transglycosylase SLT domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_019109046.1
COORDINATES: similar to AA sequence:RefSeq:WP_002908165.1
COORDINATES: similar to AA sequence:RefSeq:WP_011945347.1
COORDINATES: similar to AA sequence:RefSeq:WP_011013264.1
type IV secretion system ATPase VirB4 family; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF016238.2
COORDINATES: similar to AA sequence:RefSeq:WP_011255078.1
COORDINATES: protein motif:HMM:NF018934.2
IncP-type conjugative transfer protein TrbH
COORDINATES: protein motif:HMM:NF015688.2
COORDINATES: protein motif:HMM:TIGR02783.1
P-type conjugative transfer protein TrbL
COORDINATES: similar to AA sequence:RefSeq:WP_003230045.1
TrbM/KikA/MpfK family conjugal transfer protein
COORDINATES: similar to AA sequence:RefSeq:WP_019406858.1
COORDINATES: similar to AA sequence:RefSeq:WP_006122509.1
zincin-like metallopeptidase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_013648941.1
COORDINATES: similar to AA sequence:RefSeq:WP_000210271.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003917 - DNA topoisomerase type I (single strand cut, ATP-independent) activity [Evidence IEA]
GO:0006260 - DNA replication [Evidence IEA]; GO:0006265 - DNA topological change [Evidence IEA]
COORDINATES: protein motif:HMM:NF021981.2
GO:0030288 - outer membrane-bounded periplasmic space [Evidence IEA]
GO:0008233 - peptidase activity [Evidence IEA]
conjugative transfer signal peptidase TraF
COORDINATES: similar to AA sequence:RefSeq:WP_011205817.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: protein motif:HMM:NF015397.2
relaxase/mobilization nuclease domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_020485822.1
conjugal transfer transcriptional regulator TraJ
COORDINATES: similar to AA sequence:RefSeq:WP_020485820.1
COORDINATES: protein motif:HMM:NF023087.2
COORDINATES: similar to AA sequence:RefSeq:WP_017926589.1
COORDINATES: similar to AA sequence:RefSeq:WP_019727115.1
COORDINATES: similar to AA sequence:RefSeq:WP_018267577.1
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_002727506.1
putative addiction module antidote protein
COORDINATES: protein motif:HMM:TIGR00180.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_017184079.1
COORDINATES: similar to AA sequence:RefSeq:WP_010393521.1
COORDINATES: similar to AA sequence:RefSeq:WP_020308165.1
COORDINATES: similar to AA sequence:RefSeq:WP_003453112.1
COORDINATES: similar to AA sequence:RefSeq:WP_017531156.1
COORDINATES: similar to AA sequence:RefSeq:WP_004636921.1