Burkholderia ubonensis subsp. mesacidophila strain ATCC 31433 plasmid pATCC31433, complete sequence.
Burkholderia ubonensis subsp. mesacidophila
Bacteria; Proteobacteria; Betaproteobacteria; Burkholderiales; Burkholderiaceae; Burkholderia; Burkholderia cepacia complex.
Reclassification of the specialized metabolite producer Pseudomonas mesoacidophila ATCC 31433 as a member of the Burkholderia cepacia complex
Submitted (07-APR-2017) Biosciences, Cardiff University, Museum Avenue, Cardiff CF10 3AT, United Kingdom
REFSEQ INFORMATION: The reference sequence is identical to\nCP020740.1.\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 :: OCT-2016\nAssembly Method :: Canu v. 1.3\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 150.0x\nSequencing Technology :: PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/19/2022 13:42:34\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) :: 7,180\nCDSs (total) :: 7,087\nGenes (coding) :: 6,976\nCDSs (with protein) :: 6,976\nGenes (RNA) :: 93\nrRNAs :: 6, 6, 6 (5S, 16S, 23S)\ncomplete rRNAs :: 6, 6, 6 (5S, 16S, 23S)\ntRNAs :: 71\nncRNAs :: 4\nPseudo Genes (total) :: 111\nCDSs (without protein) :: 111\nPseudo Genes (ambiguous residues) :: 0 of 111\nPseudo Genes (frameshifted) :: 49 of 111\nPseudo Genes (incomplete) :: 86 of 111\nPseudo Genes (internal stop) :: 18 of 111\nPseudo Genes (multiple problems) :: 37 of 111\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
type strain of Pseudomonas mesoacidophila
COORDINATES: similar to AA sequence:RefSeq:WP_011875564.1
GO:0051782 - negative regulation of cell division [Evidence IEA]; GO:0009432 - SOS response [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
translesion DNA synthesis-associated protein ImuA
COORDINATES: similar to AA sequence:RefSeq:WP_012211068.1
COORDINATES: similar to AA sequence:RefSeq:WP_012211067.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_012339756.1
COORDINATES: similar to AA sequence:RefSeq:WP_012218108.1
type VI secretion system Vgr family protein
COORDINATES: similar to AA sequence:RefSeq:WP_014615727.1
COORDINATES: similar to AA sequence:RefSeq:WP_011875560.1
COORDINATES: similar to AA sequence:RefSeq:WP_011875559.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006762585.1
COORDINATES: similar to AA sequence:RefSeq:WP_013700061.1
GO:0003824 - catalytic activity [Evidence IEA]
phosphoadenosine phosphosulfate reductase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_013700059.1
COORDINATES: similar to AA sequence:RefSeq:WP_006757240.1
COORDINATES: similar to AA sequence:RefSeq:WP_011875552.1
COORDINATES: similar to AA sequence:RefSeq:WP_011875551.1
COORDINATES: similar to AA sequence:RefSeq:WP_006757243.1
COORDINATES: similar to AA sequence:RefSeq:WP_006757244.1
COORDINATES: similar to AA sequence:RefSeq:WP_011875548.1
COORDINATES: similar to AA sequence:RefSeq:WP_018432949.1
COORDINATES: similar to AA sequence:RefSeq:WP_006757247.1
COORDINATES: similar to AA sequence:RefSeq:WP_012367426.1
COORDINATES: similar to AA sequence:RefSeq:WP_006757250.1
COORDINATES: similar to AA sequence:RefSeq:WP_012218015.1
COORDINATES: similar to AA sequence:RefSeq:WP_011875541.1
COORDINATES: similar to AA sequence:RefSeq:WP_006757253.1
COORDINATES: similar to AA sequence:RefSeq:WP_013094730.1
COORDINATES: similar to AA sequence:RefSeq:WP_006757255.1
GO:0003674 - molecular_function [Evidence IEA]
GO:0015074 - DNA integration [Evidence IEA]
Members of this protein family are the putative conjugative coupling factor, TraD, as the term is used for the SXT and TOL plasmid systems; Derived by automated computational analysis using gene prediction method: Protein Homology.
conjugative transfer system coupling protein TraD
COORDINATES: similar to AA sequence:RefSeq:WP_006757256.1
COORDINATES: similar to AA sequence:RefSeq:WP_012367164.1
GO:0030255 - protein secretion by the type IV secretion system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012464924.1
COORDINATES: similar to AA sequence:RefSeq:WP_006757259.1
VirB4 family type IV secretion system protein
COORDINATES: similar to AA sequence:RefSeq:WP_012218006.1
VirB3 family type IV secretion system protein
COORDINATES: similar to AA sequence:RefSeq:WP_012218005.1
COORDINATES: protein motif:HMM:NF012652.2
COORDINATES: similar to AA sequence:RefSeq:WP_011875532.1
COORDINATES: similar to AA sequence:RefSeq:WP_012218003.1
COORDINATES: similar to AA sequence:RefSeq:WP_006757264.1
COORDINATES: similar to AA sequence:RefSeq:WP_013700032.1
COORDINATES: similar to AA sequence:RefSeq:WP_006757266.1
COORDINATES: similar to AA sequence:RefSeq:WP_006757267.1
COORDINATES: similar to AA sequence:RefSeq:WP_012217998.1
COORDINATES: similar to AA sequence:RefSeq:WP_012367179.1
COORDINATES: similar to AA sequence:RefSeq:WP_012217994.1
COORDINATES: similar to AA sequence:RefSeq:WP_006757274.1
COORDINATES: similar to AA sequence:RefSeq:WP_011875519.1
COORDINATES: similar to AA sequence:RefSeq:WP_011875518.1
COORDINATES: similar to AA sequence:RefSeq:WP_011875517.1
COORDINATES: similar to AA sequence:RefSeq:WP_008343166.1
COORDINATES: similar to AA sequence:RefSeq:WP_012217989.1
COORDINATES: similar to AA sequence:RefSeq:WP_012217988.1
COORDINATES: similar to AA sequence:RefSeq:WP_013094762.1
COORDINATES: similar to AA sequence:RefSeq:WP_012217986.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0008170 - N-methyltransferase activity [Evidence IEA]
GO:0006306 - DNA methylation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011875511.1
COORDINATES: similar to AA sequence:RefSeq:WP_012217982.1
COORDINATES: similar to AA sequence:RefSeq:WP_012217981.1
Lar family restriction alleviation protein
COORDINATES: protein motif:HMM:NF012534.2
COORDINATES: similar to AA sequence:RefSeq:WP_012367197.1
COORDINATES: similar to AA sequence:RefSeq:WP_006761116.1
COORDINATES: similar to AA sequence:RefSeq:WP_012217975.1
COORDINATES: similar to AA sequence:RefSeq:WP_012217974.1
COORDINATES: similar to AA sequence:RefSeq:WP_006761119.1
COORDINATES: similar to AA sequence:RefSeq:WP_012217973.1
COORDINATES: similar to AA sequence:RefSeq:WP_012217972.1
COORDINATES: similar to AA sequence:RefSeq:WP_012217971.1
COORDINATES: similar to AA sequence:RefSeq:WP_012217970.1
COORDINATES: similar to AA sequence:RefSeq:WP_012217969.1
COORDINATES: similar to AA sequence:RefSeq:WP_012217968.1
COORDINATES: similar to AA sequence:RefSeq:WP_012217967.1
nuclease-related domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011875495.1
COORDINATES: similar to AA sequence:RefSeq:WP_013699993.1
GO:0045893 - positive regulation of DNA-templated transcription [Evidence IEA]; GO:1902208 - regulation of bacterial-type flagellum assembly [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012217964.1
COORDINATES: similar to AA sequence:RefSeq:WP_012217963.1
COORDINATES: similar to AA sequence:RefSeq:WP_006760234.1
COORDINATES: similar to AA sequence:RefSeq:WP_012217959.1
COORDINATES: similar to AA sequence:RefSeq:WP_012217958.1
COORDINATES: similar to AA sequence:RefSeq:WP_006760238.1
COORDINATES: similar to AA sequence:RefSeq:WP_012367220.1
COORDINATES: similar to AA sequence:RefSeq:WP_012217955.1
COORDINATES: similar to AA sequence:RefSeq:WP_012217954.1
COORDINATES: similar to AA sequence:RefSeq:WP_011875484.1
COORDINATES: similar to AA sequence:RefSeq:WP_012367224.1
toxin co-regulated pilus biosynthesis Q family protein
COORDINATES: similar to AA sequence:RefSeq:WP_011875482.1
lytic transglycosylase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006759128.1
TrbG/VirB9 family P-type conjugative transfer protein
COORDINATES: similar to AA sequence:RefSeq:WP_012217949.1
transglycosylase SLT domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012217948.1
COORDINATES: similar to AA sequence:RefSeq:WP_013699976.1
COORDINATES: similar to AA sequence:RefSeq:WP_012217946.1
COORDINATES: similar to AA sequence:RefSeq:WP_006752810.1
COORDINATES: similar to AA sequence:RefSeq:WP_013691735.1
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_014251549.1
COORDINATES: protein motif:HMM:NF012798.2
COORDINATES: similar to AA sequence:RefSeq:WP_013700281.1
COORDINATES: similar to AA sequence:RefSeq:WP_004526964.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009693043.1
Tn3 family transposase post-transcriptional regulator TnpC
COORDINATES: similar to AA sequence:RefSeq:WP_006755653.1
COORDINATES: similar to AA sequence:RefSeq:WP_007584520.1
COORDINATES: similar to AA sequence:RefSeq:WP_007584497.1
COORDINATES: similar to AA sequence:RefSeq:WP_007576655.1
type II toxin-antitoxin system HicB family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_012535885.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_018912943.1
COORDINATES: similar to AA sequence:RefSeq:WP_006157512.1
frameshifted; 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_010117690.1
COORDINATES: similar to AA sequence:RefSeq:WP_017335009.1
COORDINATES: similar to AA sequence:RefSeq:WP_012365717.1
COORDINATES: similar to AA sequence:RefSeq:WP_006480091.1
Crp/Fnr family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_010117692.1
COORDINATES: similar to AA sequence:RefSeq:WP_007584086.1
COORDINATES: similar to AA sequence:RefSeq:WP_018421954.1
HNH endonuclease signature motif containing protein
COORDINATES: protein motif:HMM:NF023898.2
COORDINATES: similar to AA sequence:RefSeq:WP_013699956.1
COORDINATES: similar to AA sequence:RefSeq:WP_009692918.1
COORDINATES: similar to AA sequence:RefSeq:WP_017335770.1
COORDINATES: similar to AA sequence:RefSeq:WP_011660160.1
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_013700073.1
frameshifted; internal stop; 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_004552333.1
COORDINATES: similar to AA sequence:RefSeq:WP_010095827.1
COORDINATES: similar to AA sequence:RefSeq:WP_010117669.1
COORDINATES: similar to AA sequence:RefSeq:WP_009945809.1
COORDINATES: similar to AA sequence:RefSeq:WP_010095824.1
COORDINATES: similar to AA sequence:RefSeq:WP_004558008.1
COORDINATES: similar to AA sequence:RefSeq:WP_004529608.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611734.1
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_011695150.1
COORDINATES: similar to AA sequence:RefSeq:WP_013691832.1
COORDINATES: similar to AA sequence:RefSeq:WP_006029257.1
COORDINATES: similar to AA sequence:RefSeq:WP_009917395.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006029600.1
COORDINATES: similar to AA sequence:RefSeq:WP_020203541.1
COORDINATES: similar to AA sequence:RefSeq:WP_012173302.1
COORDINATES: similar to AA sequence:RefSeq:WP_019140810.1
COORDINATES: similar to AA sequence:RefSeq:WP_003265798.1
COORDINATES: similar to AA sequence:RefSeq:WP_012464905.1
COORDINATES: similar to AA sequence:RefSeq:WP_015967370.1
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