Tardibacter chloracetimidivorans strain JJ-A5 plasmid pHSL2, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Sphingomonadales; Sphingomonadaceae; Tardibacter.
Complete Genome Sequence of alachlor-degrading Sphingomonas sp. strain JJ-A5
Submitted (29-NOV-2016) Department of Applied Biology and Chemistry, College of Agriculture and Life Science, Seoul National University, San 56-1, Sillimdong, Gwanakgu, Seoul 151-742, Republic of Korea
REFSEQ INFORMATION: The reference sequence is identical to\nCP018223.1.\nBacteria and source DNA available from Environmental Microbiology\nLaboratory, Department of Agricultural Biotechnology and Research\nInstitute of Agriculture and Life Sciences, Seoul National\nUniversity, Seoul 151-742, Republic of Korea.\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-OCT-2016\nAssembly Method :: celera assembler v. Oct-2016\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 215.0x\nSequencing Technology :: PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 02/06/2023 02:51:27\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) :: 3,995\nCDSs (total) :: 3,944\nGenes (coding) :: 3,864\nCDSs (with protein) :: 3,864\nGenes (RNA) :: 51\nrRNAs :: 2, 2, 2 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 2, 2 (5S, 16S, 23S)\ntRNAs :: 44\nncRNAs :: 1\nPseudo Genes (total) :: 80\nCDSs (without protein) :: 80\nPseudo Genes (ambiguous residues) :: 0 of 80\nPseudo Genes (frameshifted) :: 21 of 80\nPseudo Genes (incomplete) :: 68 of 80\nPseudo Genes (internal stop) :: 5 of 80\nPseudo Genes (multiple problems) :: 12 of 80\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
type material of Tardibacter chloracetimidivorans Lee et al. 2018
COORDINATES: similar to AA sequence:RefSeq:WP_020820684.1
GO:0004803 - transposase activity [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF012792.2
GO:0008080 - N-acetyltransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007016056.1
COORDINATES: similar to AA sequence:RefSeq:WP_020819815.1
COORDINATES: similar to AA sequence:RefSeq:WP_007016055.1
COORDINATES: similar to AA sequence:RefSeq:WP_020819817.1
COORDINATES: similar to AA sequence:RefSeq:WP_006949645.1
COORDINATES: similar to AA sequence:RefSeq:WP_004213402.1
ParB/RepB/Spo0J family partition protein
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_004213405.1
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
ArdC-like ssDNA-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_020820062.1
reverse transcriptase/maturase family protein
COORDINATES: protein motif:HMM:NF037521.2
zincin-like metallopeptidase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006968047.1
COORDINATES: similar to AA sequence:RefSeq:WP_013054017.1
COORDINATES: similar to AA sequence:RefSeq:WP_004213313.1
COORDINATES: similar to AA sequence:RefSeq:WP_006953883.1
COORDINATES: similar to AA sequence:RefSeq:WP_004213311.1
COORDINATES: similar to AA sequence:RefSeq:WP_020819821.1
COORDINATES: similar to AA sequence:RefSeq:WP_013054019.1
COORDINATES: similar to AA sequence:RefSeq:WP_006953891.1
COORDINATES: similar to AA sequence:RefSeq:WP_006953893.1
COORDINATES: similar to AA sequence:RefSeq:WP_006953895.1
COORDINATES: similar to AA sequence:RefSeq:WP_017980877.1
COORDINATES: similar to AA sequence:RefSeq:WP_006953897.1
COORDINATES: similar to AA sequence:RefSeq:WP_013054022.1
COORDINATES: similar to AA sequence:RefSeq:WP_013054023.1
COORDINATES: similar to AA sequence:RefSeq:WP_004213412.1
COORDINATES: similar to AA sequence:RefSeq:WP_020819825.1
COORDINATES: similar to AA sequence:RefSeq:WP_017500338.1
COORDINATES: similar to AA sequence:RefSeq:WP_004213291.1
COORDINATES: similar to AA sequence:RefSeq:WP_008827849.1
COORDINATES: similar to AA sequence:RefSeq:WP_014194372.1
COORDINATES: similar to AA sequence:RefSeq:WP_013054029.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_004213281.1
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
GO:0006352 - DNA-templated transcription initiation [Evidence IEA]; GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
sigma factor-like helix-turn-helix DNA-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_004213279.1
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_004213277.1
COORDINATES: protein motif:HMM:NF024949.2
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_004213276.1
COORDINATES: similar to AA sequence:RefSeq:WP_006953921.1
COORDINATES: similar to AA sequence:RefSeq:WP_006953923.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004213273.1
plasmid mobilization relaxosome protein MobC
COORDINATES: similar to AA sequence:RefSeq:WP_004213271.1
relaxase/mobilization nuclease domain-containing protein
COORDINATES: protein motif:HMM:NF033545.0
COORDINATES: similar to AA sequence:RefSeq:WP_001389365.1
COORDINATES: protein motif:HMM:NF016777.2
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013849070.1
COORDINATES: protein motif:HMM:NF024966.2
nuclear transport factor 2 family protein
COORDINATES: protein motif:HMM:NF012517.2
LLM class flavin-dependent oxidoreductase
COORDINATES: similar to AA sequence:RefSeq:WP_020818008.1
COORDINATES: similar to AA sequence:RefSeq:WP_002735616.1
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_015210192.1
COORDINATES: similar to AA sequence:RefSeq:WP_008386469.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_019726278.1
MarR family winged helix-turn-helix transcriptional regulator
COORDINATES: protein motif:HMM:NF012602.2
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011952458.1
COORDINATES: similar to AA sequence:RefSeq:WP_006958365.1
COORDINATES: similar to AA sequence:RefSeq:WP_012778770.1
COORDINATES: protein motif:HMM:NF019845.2
COORDINATES: similar to AA sequence:RefSeq:WP_013590543.1
COORDINATES: similar to AA sequence:RefSeq:WP_015765153.1
COORDINATES: similar to AA sequence:RefSeq:WP_018110789.1
COORDINATES: protein motif:HMM:NF015445.2
GO:0055085 - transmembrane transport [Evidence IEA]
TRAP transporter substrate-binding protein DctP
COORDINATES: similar to AA sequence:RefSeq:WP_076611716.1
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_014235144.1
GO:0018784 - (S)-2-haloacid dehalogenase activity [Evidence IEA]
GO:0006805 - xenobiotic metabolic process [Evidence IEA]
COORDINATES: protein motif:HMM:NF015431.2
LysR substrate-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006400358.1
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013517338.1
GO:0033819 - lipoyl(octanoyl) transferase activity [Evidence IEA]
GO:0009249 - protein lipoylation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003596510.1
IS6-like element IS6100 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_007686931.1
IS66 family insertion sequence element accessory protein TnpB
COORDINATES: similar to AA sequence:RefSeq:WP_014188732.1
TnpB, as the term is used for proteins encoded by IS66 family insertion elements, is considered an accessory protein, since TnpC, encoded by a neighboring gene, is a DDE family transposase; Derived by automated computational analysis using gene prediction method: Protein Homology.