Cupriavidus basilensis strain DSM 11853 plasmid pRK1-3, 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\nCP062807.1.\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: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF018290.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:TIGR00180.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
ParB/RepB/Spo0J family partition protein
COORDINATES: protein motif:HMM:NF039512.1
COORDINATES: protein motif:HMM:NF027824.2
COORDINATES: protein motif:HMM:NF024206.2
ankyrin repeat domain-containing protein
COORDINATES: protein motif:HMM:NF014581.2
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_011875688.1
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_009241675.1
COORDINATES: similar to AA sequence:RefSeq:WP_008645747.1
GO:0033573 - high-affinity iron permease complex [Evidence IEA]; GO:0016020 - membrane [Evidence IEA]
GO:0005381 - iron ion transmembrane transporter activity [Evidence IEA]
GO:0034755 - iron ion transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008645748.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]
GO:0045893 - positive regulation of DNA-templated transcription [Evidence IEA]
Cd(II)/Pb(II)-responsive transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_008434970.1
GO:0042625 - ATPase-coupled ion transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011229366.1
GO:0005886 - plasma membrane [Evidence IEA]
GO:0004190 - aspartic-type endopeptidase activity [Evidence IEA]
GO:0009306 - protein secretion [Evidence IEA]; GO:0006508 - proteolysis [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018003942.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011349284.1
GO:0004803 - transposase activity [Evidence IEA]
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_013209917.1
COORDINATES: similar to AA sequence:RefSeq:WP_011229360.1
IS30-like element ISRme10 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_018421954.1
COORDINATES: similar to AA sequence:RefSeq:WP_010955146.1
internal stop; 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:NF017528.2
IS66 family insertion sequence element accessory protein TnpB
COORDINATES: protein motif:HMM:NF013677.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004152391.1
frameshifted; 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.
COORDINATES: similar to AA sequence:RefSeq:WP_012435756.1
four-helix bundle copper-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_008650720.1
COORDINATES: similar to AA sequence:RefSeq:WP_008650714.1
COORDINATES: similar to AA sequence:RefSeq:WP_013587694.1
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_076611749.1
GO:0015074 - DNA integration [Evidence IEA]
integrase core domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008650722.1
COORDINATES: similar to AA sequence:RefSeq:WP_008650723.1
GO:0016757 - glycosyltransferase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF024183.2
COORDINATES: similar to AA sequence:RefSeq:WP_011514822.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]; GO:0019829 - ATPase-coupled monoatomic cation transmembrane transporter activity [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]; GO:0015662 - P-type ion transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008650726.1
GO:0009429 - bacterial-type flagellum basal body, proximal rod [Evidence IEA]
GO:0005198 - structural molecule activity [Evidence IEA]
GO:0001539 - cilium or flagellum-dependent cell motility [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011229350.1
GO:0009279 - cell outer membrane [Evidence IEA]
GO:0015288 - porin activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008646716.1
COORDINATES: similar to AA sequence:RefSeq:WP_011514820.1
COORDINATES: similar to AA sequence:RefSeq:WP_011229349.1
COORDINATES: similar to AA sequence:RefSeq:WP_011229348.1
heavy metal homeostasis two-component system response regulator CzcR
COORDINATES: similar to AA sequence:RefSeq:WP_004635344.1
GO:0008324 - monoatomic cation transmembrane transporter activity [Evidence IEA]
cation diffusion facilitator family transporter
COORDINATES: similar to AA sequence:RefSeq:WP_011229347.1
COORDINATES: similar to AA sequence:RefSeq:WP_004635340.1
COORDINATES: similar to AA sequence:RefSeq:WP_011514819.1
COORDINATES: similar to AA sequence:RefSeq:WP_011229345.1
CDF family cobalt-zinc-cadmium transporter CzcI
COORDINATES: similar to AA sequence:RefSeq:WP_011229344.1
COORDINATES: similar to AA sequence:RefSeq:WP_011229343.1
COORDINATES: similar to AA sequence:RefSeq:WP_004635326.1
COORDINATES: similar to AA sequence:RefSeq:WP_004635320.1
COORDINATES: similar to AA sequence:RefSeq:WP_020207000.1
COORDINATES: protein motif:HMM:NF022970.2
COORDINATES: similar to AA sequence:RefSeq:WP_008646539.1
COORDINATES: similar to AA sequence:RefSeq:WP_008646544.1
COORDINATES: similar to AA sequence:RefSeq:WP_012354834.1
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_014834018.1
COORDINATES: similar to AA sequence:RefSeq:WP_000147566.1
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_008652068.1
COORDINATES: similar to AA sequence:RefSeq:WP_003132004.1
COORDINATES: similar to AA sequence:RefSeq:WP_001277466.1
GO:0045892 - negative regulation of DNA-templated transcription [Evidence IEA]; GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013722692.1
GO:0016152 - mercury (II) reductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:YP_005229640.1
GO:0045340 - mercury ion binding [Evidence IEA]
mercury resistance system periplasmic binding protein MerP
COORDINATES: similar to AA sequence:RefSeq:YP_005229639.1
COORDINATES: similar to AA sequence:RefSeq:YP_005229638.1
mercury resistance transcriptional regulator MerR
COORDINATES: protein motif:HMM:NF039218.1
GO:0016747 - acyltransferase activity, transferring groups other than amino-acyl groups [Evidence IEA]
COORDINATES: protein motif:HMM:NF027613.2
GO:0004540 - ribonuclease activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013956221.1
COORDINATES: similar to AA sequence:RefSeq:WP_010814536.1
COORDINATES: similar to AA sequence:RefSeq:WP_009684357.1
COORDINATES: protein motif:HMM:NF020419.2
nucleotidyl transferase AbiEii/AbiGii toxin family protein
COORDINATES: similar to AA sequence:RefSeq:WP_011514788.1
COORDINATES: similar to AA sequence:RefSeq:WP_001021752.1
COORDINATES: similar to AA sequence:RefSeq:WP_076612154.1
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
IS3-like element ISRme13 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_011876212.1
COORDINATES: similar to AA sequence:RefSeq:WP_011296162.1
COORDINATES: similar to AA sequence:RefSeq:WP_006156725.1
COORDINATES: similar to AA sequence:RefSeq:WP_009242013.1
COORDINATES: protein motif:HMM:NF039499.1
COORDINATES: similar to AA sequence:RefSeq:WP_014089549.1
COORDINATES: protein motif:HMM:NF015397.2
TraI/MobA(P) family conjugative relaxase
COORDINATES: protein motif:HMM:NF021759.2
COORDINATES: protein motif:HMM:NF012774.2
COORDINATES: protein motif:HMM:NF023926.2
COORDINATES: similar to AA sequence:RefSeq:WP_013032312.1
helix-turn-helix domain-containing protein
COORDINATES: protein motif:HMM:NF022136.2
COORDINATES: protein motif:HMM:TIGR02520.1
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: protein motif:HMM:NF018562.2
COORDINATES: similar to AA sequence:RefSeq:WP_011544406.1
VirB3 family type IV secretion system protein
COORDINATES: similar to AA sequence:RefSeq:WP_006682250.1
COORDINATES: protein motif:HMM:TIGR02780.1
GO:0009291 - unidirectional conjugation [Evidence IEA]
P-type conjugative transfer protein TrbJ
COORDINATES: protein motif:HMM:TIGR02783.1
P-type conjugative transfer protein TrbL
COORDINATES: protein motif:HMM:NF016238.2
COORDINATES: protein motif:HMM:NF015487.2
P-type conjugative transfer protein TrbG
COORDINATES: protein motif:HMM:NF015688.2