Cupriavidus basilensis strain DSM 11853 plasmid pRK1-5, complete sequence.
Bacteria; Pseudomonadota; Betaproteobacteria; Burkholderiales; Burkholderiaceae; Cupriavidus.
Complete genome sequence of Cupriavidus basilensis CCUG 49340T
Submitted (06-OCT-2020) Infectious Diseases, University of Gothenburg - CCUG, Guldhedsgatan 10, Box 7193, Gothenburg, Vastra Gotaland 40234, Sweden
Submitted (05-SEP-2019) Infectious Diseases, University of Gothenburg - CCUG, Guldhedsgatan 10, Box 7193, Gothenburg, Vastra Gotaland 40234, Sweden
REFSEQ INFORMATION: The reference sequence is identical to\nCP062809.1.\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 :: 21-SEP-2020\nAssembly Method :: Unicycler v. v0.4.7; Canu v. 1.5\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 633.0x\nSequencing Technology :: Oxford Nanopore MinION; Illumina\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 04/05/2023 05:40:10\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) :: 8,196\nCDSs (total) :: 8,104\nGenes (coding) :: 7,897\nCDSs (with protein) :: 7,897\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) :: 207\nCDSs (without protein) :: 207\nPseudo Genes (ambiguous residues) :: 0 of 207\nPseudo Genes (frameshifted) :: 74 of 207\nPseudo Genes (incomplete) :: 157 of 207\nPseudo Genes (internal stop) :: 27 of 207\nPseudo Genes (multiple problems) :: 46 of 207\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
Sediment of a freshwater pond enriched in a fixed-bed reactor with 2,6-dichlorophenol as sole carbon and energy source
COORDINATES: similar to AA sequence:RefSeq:WP_011255179.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
IS21-like element IS1600 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_011255145.1
IS21-like element IS1600 family helper ATPase IstB
COORDINATES: similar to AA sequence:RefSeq:WP_086558120.1
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_011798687.1
zincin-like metallopeptidase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006122510.1
COORDINATES: similar to AA sequence:RefSeq:WP_010676165.1
GO:0003917 - DNA topoisomerase type I (single strand cut, ATP-independent) activity [Evidence IEA]; GO:0098847 - sequence-specific single stranded DNA binding [Evidence IEA]
GO:0051304 - chromosome separation [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]; GO:0006265 - DNA topological change [Evidence IEA]; GO:0006261 - DNA-templated DNA replication [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_000086826.1
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_011655356.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_011137971.1
TraI/MobA(P) family conjugative relaxase
COORDINATES: similar to AA sequence:RefSeq:WP_000426567.1
conjugal transfer transcriptional regulator TraJ
COORDINATES: similar to AA sequence:RefSeq:WP_011798730.1
COORDINATES: similar to AA sequence:RefSeq:WP_012478175.1
COORDINATES: similar to AA sequence:RefSeq:WP_011304098.1
COORDINATES: similar to AA sequence:RefSeq:WP_000718516.1
COORDINATES: similar to AA sequence:RefSeq:WP_011798728.1
COORDINATES: similar to AA sequence:RefSeq:WP_011798727.1
COORDINATES: similar to AA sequence:RefSeq:WP_011342948.1
COORDINATES: similar to AA sequence:RefSeq:WP_017166876.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_011114061.1
COORDINATES: similar to AA sequence:RefSeq:WP_010890110.1
COORDINATES: protein motif:HMM:NF022412.2
COORDINATES: similar to AA sequence:RefSeq:WP_012478184.1
COORDINATES: similar to AA sequence:RefSeq:WP_015913627.1
COORDINATES: similar to AA sequence:RefSeq:WP_012478185.1
COORDINATES: similar to AA sequence:RefSeq:WP_011114068.1
COORDINATES: similar to AA sequence:RefSeq:WP_015913624.1
COORDINATES: similar to AA sequence:RefSeq:WP_011137973.1
COORDINATES: similar to AA sequence:RefSeq:WP_015913623.1
type II toxin-antitoxin system RelB/DinJ family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_011114071.1
type II toxin-antitoxin system YafQ family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_011114072.1
COORDINATES: similar to AA sequence:RefSeq:WP_011798708.1
COORDINATES: similar to AA sequence:RefSeq:WP_000283041.1
COORDINATES: similar to AA sequence:RefSeq:WP_000132020.1
COORDINATES: similar to AA sequence:RefSeq:WP_011114046.1
COORDINATES: similar to AA sequence:RefSeq:WP_010676131.1
COORDINATES: similar to AA sequence:RefSeq:WP_011013264.1
VirB4 family type IV secretion/conjugal transfer ATPase
COORDINATES: similar to AA sequence:RefSeq:WP_006122481.1
COORDINATES: similar to AA sequence:RefSeq:WP_000753228.1
GO:0009291 - unidirectional conjugation [Evidence IEA]
P-type conjugative transfer protein TrbG
COORDINATES: similar to AA sequence:RefSeq:WP_011798704.1
COORDINATES: similar to AA sequence:RefSeq:WP_011114050.1
COORDINATES: similar to AA sequence:RefSeq:WP_000836966.1
P-type conjugative transfer protein TrbJ
COORDINATES: similar to AA sequence:RefSeq:WP_000644148.1
GO:0005886 - plasma membrane [Evidence IEA]
GO:0009292 - horizontal gene transfer [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011114051.1
P-type conjugative transfer protein TrbL
COORDINATES: similar to AA sequence:RefSeq:WP_010890138.1
TrbM/KikA/MpfK family conjugal transfer protein
COORDINATES: similar to AA sequence:RefSeq:WP_011798698.1
transglycosylase SLT domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011798697.1
COORDINATES: similar to AA sequence:RefSeq:WP_011798696.1
COORDINATES: similar to AA sequence:RefSeq:WP_001665065.1
GO:0042834 - peptidoglycan binding [Evidence IEA]; GO:0015288 - porin activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013397084.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF012382.2
GO:0030170 - pyridoxal phosphate binding [Evidence IEA]; GO:0008483 - transaminase activity [Evidence IEA]
GO:0009058 - biosynthetic process [Evidence IEA]
pyridoxal phosphate-dependent aminotransferase
COORDINATES: similar to AA sequence:RefSeq:WP_013517882.1
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017452288.1
GO:0030554 - adenyl nucleotide binding [Evidence IEA]; GO:0018506 - maleylacetate reductase activity [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]
COORDINATES: protein motif:HMM:NF024109.2
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_020820199.1
COORDINATES: protein motif:HMM:NF013646.2
COORDINATES: similar to AA sequence:RefSeq:WP_003050075.1
COORDINATES: protein motif:HMM:NF015431.2
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_009551488.1
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]
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
SOS response-associated peptidase family protein
Tn3-like element IS1071 family transposase
COORDINATES: protein motif:HMM:NF013584.2
COORDINATES: similar to AA sequence:RefSeq:WP_011178398.1
LysR substrate-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011178393.1
COORDINATES: similar to AA sequence:RefSeq:WP_011178392.1
COORDINATES: similar to AA sequence:RefSeq:WP_011178390.1
COORDINATES: similar to AA sequence:RefSeq:WP_011255148.1
COORDINATES: similar to AA sequence:RefSeq:WP_011255149.1
COORDINATES: protein motif:HMM:NF015366.2
tripartite tricarboxylate transporter substrate binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_011255151.1
COORDINATES: similar to AA sequence:RefSeq:WP_011255152.1
COORDINATES: similar to AA sequence:RefSeq:WP_012250644.1
COORDINATES: protein motif:HMM:NF025878.2