Cupriavidus nantongensis strain X1 plasmid unnamed, complete sequence.
Bacteria; Pseudomonadota; Betaproteobacteria; Burkholderiales; Burkholderiaceae; Cupriavidus.
Complete genome sequence of a novel chlorpyrifos degrading bacterium, Cupriavidus nantongensis sp. X1
Submitted (21-MAR-2016) School of Resources and Environment, Anhui Agricultural University, No. 130 of Changjiang Road, Hefei, Anhui 230036, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP014846.1.\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 :: Hiseq2500 v. SOAPdenovo; Miseq v.\n SOAPdenovo\nGenome Coverage :: 200x\nSequencing Technology :: Illumina\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 02/05/2023 22:17:54\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) :: 6,597\nCDSs (total) :: 6,522\nGenes (coding) :: 6,449\nCDSs (with protein) :: 6,449\nGenes (RNA) :: 75\nrRNAs :: 5, 5, 5 (5S, 16S, 23S)\ncomplete rRNAs :: 5, 5, 5 (5S, 16S, 23S)\ntRNAs :: 56\nncRNAs :: 4\nPseudo Genes (total) :: 73\nCDSs (without protein) :: 73\nPseudo Genes (ambiguous residues) :: 0 of 73\nPseudo Genes (frameshifted) :: 24 of 73\nPseudo Genes (incomplete) :: 53 of 73\nPseudo Genes (internal stop) :: 6 of 73\nPseudo Genes (multiple problems) :: 10 of 73\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
isolated from sludge collected at the drain outlet of a chlorpyrifos manufacture plant
COORDINATES: similar to AA sequence:RefSeq:WP_086558120.1
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.
Tn3-like element IS1071 family transposase
COORDINATES: protein motif:HMM:NF015366.2
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
tripartite tricarboxylate transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_019653554.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF013828.2
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_011355622.1
COORDINATES: protein motif:HMM:NF017652.2
GO:0016740 - transferase activity [Evidence IEA]
GO:0019475 - L-lysine catabolic process to acetate [Evidence IEA]
3-keto-5-aminohexanoate cleavage protein
COORDINATES: protein motif:HMM:NF012655.2
TetR/AcrR family transcriptional regulator
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_016850415.1
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_003159187.1
COORDINATES: similar to AA sequence:RefSeq:WP_017172645.1
type II toxin-antitoxin system VapC family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_019334760.1
AbrB/MazE/SpoVT family DNA-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_009602860.1
COORDINATES: similar to AA sequence:RefSeq:WP_017173692.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011178411.1
COORDINATES: similar to AA sequence:RefSeq:WP_013397084.1
COORDINATES: similar to AA sequence:RefSeq:WP_001665065.1
COORDINATES: similar to AA sequence:RefSeq:WP_011798696.1
COORDINATES: similar to AA sequence:RefSeq:WP_011798697.1
COORDINATES: similar to AA sequence:RefSeq:WP_011798698.1
transglycosylase SLT domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_010890138.1
TrbM/KikA/MpfK family conjugal transfer protein
COORDINATES: similar to AA sequence:RefSeq:WP_011114051.1
GO:0009291 - unidirectional conjugation [Evidence IEA]
P-type conjugative transfer protein TrbL
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_000836966.1
P-type conjugative transfer protein TrbJ
COORDINATES: similar to AA sequence:RefSeq:WP_011114050.1
COORDINATES: similar to AA sequence:RefSeq:WP_011798704.1
COORDINATES: similar to AA sequence:RefSeq:WP_000753228.1
P-type conjugative transfer protein TrbG
COORDINATES: similar to AA sequence:RefSeq:WP_006122481.1
COORDINATES: similar to AA sequence:RefSeq:WP_011013264.1
VirB4 family type IV secretion/conjugal transfer ATPase
COORDINATES: similar to AA sequence:RefSeq:WP_010676131.1
COORDINATES: similar to AA sequence:RefSeq:WP_011114046.1
COORDINATES: similar to AA sequence:RefSeq:WP_000132020.1
COORDINATES: similar to AA sequence:RefSeq:WP_000283041.1
COORDINATES: similar to AA sequence:RefSeq:WP_011798708.1
COORDINATES: similar to AA sequence:RefSeq:WP_011114072.1
COORDINATES: similar to AA sequence:RefSeq:WP_011114071.1
type II toxin-antitoxin system YafQ family toxin
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_011137973.1
COORDINATES: similar to AA sequence:RefSeq:WP_015913624.1
COORDINATES: similar to AA sequence:RefSeq:WP_011114068.1
COORDINATES: similar to AA sequence:RefSeq:WP_012478185.1
COORDINATES: similar to AA sequence:RefSeq:WP_015913627.1
COORDINATES: similar to AA sequence:RefSeq:WP_012478184.1
COORDINATES: protein motif:HMM:NF022412.2
COORDINATES: similar to AA sequence:RefSeq:WP_010890110.1
COORDINATES: similar to AA sequence:RefSeq:WP_011114061.1
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_011342948.1
COORDINATES: similar to AA sequence:RefSeq:WP_011798727.1
COORDINATES: similar to AA sequence:RefSeq:WP_011798728.1
COORDINATES: similar to AA sequence:RefSeq:WP_000718516.1
COORDINATES: similar to AA sequence:RefSeq:WP_011304098.1
COORDINATES: similar to AA sequence:RefSeq:WP_012478175.1
COORDINATES: similar to AA sequence:RefSeq:WP_011798730.1
COORDINATES: similar to AA sequence:RefSeq:WP_000426567.1
conjugal transfer transcriptional regulator TraJ
COORDINATES: similar to AA sequence:RefSeq:WP_011137971.1
relaxase/mobilization nuclease domain-containing protein
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_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_010676165.1
COORDINATES: similar to AA sequence:RefSeq:WP_006122510.1
COORDINATES: similar to AA sequence:RefSeq:WP_011798687.1
zincin-like metallopeptidase domain-containing protein