Tardibacter chloracetimidivorans strain JJ-A5 plasmid pHSL3, 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\nCP018224.1.\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_017161207.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_019053940.1
COORDINATES: similar to AA sequence:RefSeq:WP_019053941.1
COORDINATES: similar to AA sequence:RefSeq:WP_006954195.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_006954197.1
COORDINATES: similar to AA sequence:RefSeq:WP_020485815.1
COORDINATES: similar to AA sequence:RefSeq:WP_006954201.1
COORDINATES: similar to AA sequence:RefSeq:WP_006749863.1
COORDINATES: similar to AA sequence:RefSeq:WP_014579469.1
COORDINATES: similar to AA sequence:RefSeq:WP_006954207.1
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_017184087.1
COORDINATES: similar to AA sequence:RefSeq:WP_017184089.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012806830.1
COORDINATES: similar to AA sequence:RefSeq:WP_006964400.1
COORDINATES: similar to AA sequence:RefSeq:WP_017161247.1
COORDINATES: similar to AA sequence:RefSeq:WP_019053952.1
VirB4 family type IV secretion/conjugal transfer ATPase
COORDINATES: similar to AA sequence:RefSeq:WP_006964394.1
COORDINATES: similar to AA sequence:RefSeq:WP_006964392.1
GO:0009291 - unidirectional conjugation [Evidence IEA]
P-type conjugative transfer protein TrbG
COORDINATES: protein motif:HMM:NF018934.2
GO:0042834 - peptidoglycan binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006964383.1
COORDINATES: similar to AA sequence:RefSeq:WP_006964381.1
P-type conjugative transfer protein TrbJ
COORDINATES: protein motif:HMM:NF033894.1
COORDINATES: similar to AA sequence:RefSeq:WP_006964377.1
P-type conjugative transfer protein TrbL
COORDINATES: similar to AA sequence:RefSeq:WP_006964375.1
COORDINATES: similar to AA sequence:RefSeq:WP_013041567.1
COORDINATES: similar to AA sequence:RefSeq:WP_013041566.1
COORDINATES: similar to AA sequence:RefSeq:WP_006964370.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_013041565.1
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_076611117.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF033542.1
COORDINATES: similar to AA sequence:RefSeq:WP_006953933.1
COORDINATES: similar to AA sequence:RefSeq:WP_006961814.1
COORDINATES: similar to AA sequence:RefSeq:WP_019053417.1
COORDINATES: similar to AA sequence:RefSeq:WP_020819392.1
COORDINATES: similar to AA sequence:RefSeq:WP_010339728.1
COORDINATES: protein motif:HMM:NF014643.2
type II toxin-antitoxin system Phd/YefM family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_013053618.1
COORDINATES: similar to AA sequence:RefSeq:WP_001389365.1
IS6-like element IS6100 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_006954175.1
COORDINATES: similar to AA sequence:RefSeq:WP_019053930.1
COORDINATES: similar to AA sequence:RefSeq:WP_006954176.1
COORDINATES: similar to AA sequence:RefSeq:WP_006954178.1
COORDINATES: similar to AA sequence:RefSeq:WP_018075322.1
COORDINATES: protein motif:HMM:NF024835.2
COORDINATES: similar to AA sequence:RefSeq:WP_006954183.1
COORDINATES: similar to AA sequence:RefSeq:WP_020818728.1
zincin-like metallopeptidase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008068559.1
COORDINATES: similar to AA sequence:RefSeq:WP_017183284.1
COORDINATES: similar to AA sequence:RefSeq:WP_020818725.1
GO:0015074 - DNA integration [Evidence IEA]
COORDINATES: protein motif:HMM:NF037521.2
COORDINATES: similar to AA sequence:RefSeq:WP_007425104.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011930444.1
COORDINATES: similar to AA sequence:RefSeq:WP_011930445.1
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_005221527.1
COORDINATES: similar to AA sequence:RefSeq:WP_006954185.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003916 - DNA topoisomerase activity [Evidence IEA]
GO:0006265 - DNA topological change [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006954186.1
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_006954187.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_011255045.1
COORDINATES: protein motif:HMM:NF037421.2
COORDINATES: protein motif:HMM:NF015397.2
relaxase/mobilization nuclease domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_010188188.1