Paraburkholderia hospita strain DSM 17164 plasmid pEMT1, complete sequence.
Bacteria; Pseudomonadota; Betaproteobacteria; Burkholderiales; Burkholderiaceae; Paraburkholderia.
Species boundaries and ecological features among Paraburkholderia terrae DSMZ17804T, P. hospita DSMZ17164T and P. caribensis DSMZ13236T
Submitted (17-JAN-2018) Microbial Ecology group, University of Groningen, Nijenborgh 7, Groningen, Groningen 9747 AG, Netherlands
REFSEQ INFORMATION: The reference sequence is identical to\nCP026110.1.\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 :: HGAP v. .3\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 51.59x\nSequencing Technology :: PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 04/23/2023 04:26:43\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) :: 10,523\nCDSs (total) :: 10,431\nGenes (coding) :: 10,088\nCDSs (with protein) :: 10,088\nGenes (RNA) :: 92\nrRNAs :: 7, 7, 7 (5S, 16S, 23S)\ncomplete rRNAs :: 7, 7, 7 (5S, 16S, 23S)\ntRNAs :: 67\nncRNAs :: 4\nPseudo Genes (total) :: 343\nCDSs (without protein) :: 343\nPseudo Genes (ambiguous residues) :: 0 of 343\nPseudo Genes (frameshifted) :: 154 of 343\nPseudo Genes (incomplete) :: 267 of 343\nPseudo Genes (internal stop) :: 46 of 343\nPseudo Genes (multiple problems) :: 109 of 343\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_011875715.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_008344246.1
COORDINATES: similar to AA sequence:RefSeq:WP_007183091.1
COORDINATES: similar to AA sequence:RefSeq:WP_005918230.1
COORDINATES: similar to AA sequence:RefSeq:WP_008344241.1
COORDINATES: similar to AA sequence:RefSeq:WP_007183087.1
COORDINATES: similar to AA sequence:RefSeq:WP_007180433.1
COORDINATES: similar to AA sequence:RefSeq:WP_018311698.1
COORDINATES: similar to AA sequence:RefSeq:WP_004152392.1
GO:0004803 - transposase activity [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: protein motif:HMM:NF020897.2
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
helix-turn-helix domain-containing protein
COORDINATES: protein motif:HMM:NF039236.1
aromatic ring-hydroxylating dioxygenase subunit alpha
COORDINATES: protein motif:HMM:NF013920.2
COORDINATES: similar to AA sequence:RefSeq:WP_018458926.1
COORDINATES: protein motif:HMM:NF009071.0
COORDINATES: similar to AA sequence:RefSeq:WP_011178399.1
alpha-ketoglutarate-dependent 2,4-dichlorophenoxyacetate dioxygenase
COORDINATES: similar to AA sequence:RefSeq:WP_011178398.1
LysR substrate-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006053140.1
IclR family transcriptional regulator C-terminal domain-containing protein
COORDINATES: protein motif:HMM:NF012596.2
GO:0003824 - catalytic activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011296185.1
GO:0001216 - DNA-binding transcription activator activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011178386.1
COORDINATES: similar to AA sequence:RefSeq:WP_011178385.1
COORDINATES: similar to AA sequence:RefSeq:WP_011178384.1
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011178383.1
GO:0030554 - adenyl nucleotide binding [Evidence IEA]; GO:0018506 - maleylacetate reductase activity [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011178382.1
COORDINATES: similar to AA sequence:RefSeq:WP_011872570.1
frameshifted; incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_076611102.1
COORDINATES: similar to AA sequence:RefSeq:WP_032492145.1
aminoglycoside O-phosphotransferase APH(3')-Ia
COORDINATES: similar to AA sequence:RefSeq:NP_414878.1
COORDINATES: similar to AA sequence:RefSeq:NP_415776.1
GO:0004834 - tryptophan synthase activity [Evidence IEA]
GO:0006568 - tryptophan metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007180429.1
COORDINATES: similar to AA sequence:RefSeq:WP_007183082.1
COORDINATES: similar to AA sequence:RefSeq:WP_011798656.1
GO:0003886 - DNA (cytosine-5-)-methyltransferase activity [Evidence IEA]; GO:0008168 - methyltransferase activity [Evidence IEA]; GO:1904047 - S-adenosyl-L-methionine binding [Evidence IEA]
GO:0006304 - DNA modification [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011875745.1
COORDINATES: similar to AA sequence:RefSeq:WP_007183079.1
COORDINATES: similar to AA sequence:RefSeq:WP_007183078.1
COORDINATES: similar to AA sequence:RefSeq:WP_008344230.1
COORDINATES: similar to AA sequence:RefSeq:WP_011875751.1
COORDINATES: similar to AA sequence:RefSeq:WP_008344229.1
COORDINATES: similar to AA sequence:RefSeq:WP_007183074.1
COORDINATES: similar to AA sequence:RefSeq:WP_008344226.1
COORDINATES: similar to AA sequence:RefSeq:WP_008344224.1
COORDINATES: protein motif:HMM:NF015397.2
incomplete; partial in the middle of a contig; missing N-terminus and C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
relaxase/mobilization nuclease domain-containing protein
COORDINATES: protein motif:HMM:NF037421.2
COORDINATES: similar to AA sequence:RefSeq:WP_007183072.1
Members of this family include DotD of type IVB secretion systems and TraH of plasmid conjugative plasmid systems, both lipoproteins; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_011875756.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_008344220.1
COORDINATES: similar to AA sequence:RefSeq:WP_008344218.1
COORDINATES: similar to AA sequence:RefSeq:WP_008344214.1
COORDINATES: similar to AA sequence:RefSeq:WP_008344212.1
COORDINATES: similar to AA sequence:RefSeq:WP_007183065.1
COORDINATES: similar to AA sequence:RefSeq:WP_004666779.1
COORDINATES: similar to AA sequence:RefSeq:WP_008344206.1
COORDINATES: similar to AA sequence:RefSeq:WP_007183062.1
COORDINATES: similar to AA sequence:RefSeq:WP_011875770.1
COORDINATES: similar to AA sequence:RefSeq:WP_011875771.1
TraM recognition domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008344196.1
GO:0003896 - DNA primase activity [Evidence IEA]
GO:0006269 - DNA replication, synthesis of RNA primer [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007183058.1
COORDINATES: similar to AA sequence:RefSeq:WP_008344192.1
COORDINATES: similar to AA sequence:RefSeq:WP_007183056.1
lytic transglycosylase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008344184.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003917 - DNA topoisomerase type I (single strand cut, ATP-independent) activity [Evidence IEA]
GO:0006265 - DNA topological change [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007183055.1
COORDINATES: similar to AA sequence:RefSeq:WP_007183054.1
COORDINATES: similar to AA sequence:RefSeq:WP_008344177.1
COORDINATES: similar to AA sequence:RefSeq:WP_008344175.1
COORDINATES: similar to AA sequence:RefSeq:WP_007183051.1
GO:0008657 - DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) inhibitor activity [Evidence IEA]; GO:0042803 - protein homodimerization activity [Evidence IEA]
GO:0030541 - plasmid partitioning [Evidence IEA]; GO:0051290 - protein heterotetramerization [Evidence IEA]; GO:0009432 - SOS response [Evidence IEA]
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_007183050.1
COORDINATES: similar to AA sequence:RefSeq:WP_007183049.1
COORDINATES: similar to AA sequence:RefSeq:WP_011875783.1
COORDINATES: similar to AA sequence:RefSeq:WP_008344166.1
COORDINATES: similar to AA sequence:RefSeq:WP_008344165.1
COORDINATES: similar to AA sequence:RefSeq:WP_011875688.1
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_007183045.1
COORDINATES: similar to AA sequence:RefSeq:WP_011875690.1
COORDINATES: similar to AA sequence:RefSeq:WP_011875691.1
COORDINATES: similar to AA sequence:RefSeq:WP_011486259.1
COORDINATES: similar to AA sequence:RefSeq:WP_008344347.1
COORDINATES: similar to AA sequence:RefSeq:WP_008344345.1
COORDINATES: similar to AA sequence:RefSeq:WP_008344343.1
COORDINATES: similar to AA sequence:RefSeq:WP_007183112.1
COORDINATES: similar to AA sequence:RefSeq:WP_011875696.1
COORDINATES: similar to AA sequence:RefSeq:WP_007183110.1
COORDINATES: similar to AA sequence:RefSeq:WP_007183109.1
COORDINATES: similar to AA sequence:RefSeq:WP_005933813.1
COORDINATES: similar to AA sequence:RefSeq:WP_007183107.1
COORDINATES: similar to AA sequence:RefSeq:WP_007183106.1
COORDINATES: similar to AA sequence:RefSeq:WP_008344329.1
COORDINATES: similar to AA sequence:RefSeq:WP_008344326.1
COORDINATES: similar to AA sequence:RefSeq:WP_007183103.1
COORDINATES: similar to AA sequence:RefSeq:WP_007183102.1
COORDINATES: similar to AA sequence:RefSeq:WP_007183101.1
COORDINATES: similar to AA sequence:RefSeq:WP_008344318.1
COORDINATES: similar to AA sequence:RefSeq:WP_008344316.1
COORDINATES: similar to AA sequence:RefSeq:WP_017461384.1
DotH/IcmK family type IV secretion protein
COORDINATES: similar to AA sequence:RefSeq:WP_011875711.1
COORDINATES: similar to AA sequence:RefSeq:WP_007183096.1