Tardibacter chloracetimidivorans strain JJ-A5 plasmid pHSL1, 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\nCP018222.1.\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: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF015735.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:TIGR02534.1
GO:0018850 - chloromuconate cycloisomerase activity [Evidence IEA]; GO:0018849 - muconate cycloisomerase activity [Evidence IEA]
muconate/chloromuconate family cycloisomerase
COORDINATES: protein motif:HMM:NF019604.2
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013040719.1
non-heme iron oxygenase ferredoxin subunit
COORDINATES: similar to AA sequence:RefSeq:WP_008960021.1
COORDINATES: protein motif:HMM:NF013866.2
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011178386.1
COORDINATES: similar to AA sequence:RefSeq:WP_013690992.1
aromatic-ring-hydroxylating dioxygenase subunit beta
COORDINATES: similar to AA sequence:RefSeq:WP_011205697.1
aromatic ring-hydroxylating dioxygenase subunit alpha
COORDINATES: protein motif:HMM:NF015431.2
LysR substrate-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_013041695.1
TetR/AcrR family transcriptional regulator C-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_010948022.1
COORDINATES: similar to AA sequence:RefSeq:WP_013039125.1
COORDINATES: similar to AA sequence:RefSeq:WP_015343520.1
COORDINATES: protein motif:HMM:NF020918.2
COORDINATES: similar to AA sequence:RefSeq:WP_013041696.1
CerR family C-terminal domain-containing protein
COORDINATES: protein motif:HMM:NF024854.2
MarR family winged helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_007685280.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: protein motif:HMM:TIGR02970.1
GO:0045282 - plasma membrane succinate dehydrogenase complex [Evidence IEA]
GO:0000104 - succinate dehydrogenase activity [Evidence IEA]
GO:0006099 - tricarboxylic acid cycle [Evidence IEA]
succinate dehydrogenase, cytochrome b556 subunit
COORDINATES: protein motif:HMM:NF025605.2
COORDINATES: similar to AA sequence:RefSeq:WP_013041699.1
TetR/AcrR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_013041700.1
GO:0009279 - cell outer membrane [Evidence IEA]
GO:0015288 - porin activity [Evidence IEA]
efflux transporter outer membrane subunit
COORDINATES: similar to AA sequence:RefSeq:WP_013041701.1
HlyD family efflux transporter periplasmic adaptor subunit
COORDINATES: similar to AA sequence:RefSeq:WP_008214300.1
GO:0005886 - plasma membrane [Evidence IEA]
GO:0009410 - response to xenobiotic stimulus [Evidence IEA]; GO:0006855 - xenobiotic transmembrane transport [Evidence IEA]
DHA2 family efflux MFS transporter permease subunit
COORDINATES: similar to AA sequence:RefSeq:WP_020817748.1
COORDINATES: protein motif:HMM:NF014672.2
COORDINATES: similar to AA sequence:RefSeq:WP_020608027.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_018240728.1
COORDINATES: similar to AA sequence:RefSeq:WP_011347525.1
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012988260.1
COORDINATES: similar to AA sequence:RefSeq:WP_011950814.1
relaxase/mobilization nuclease domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_004212787.1
COORDINATES: protein motif:HMM:TIGR00180.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_012520561.1
COORDINATES: similar to AA sequence:RefSeq:WP_004212793.1
COORDINATES: protein motif:HMM:NF017103.2
COORDINATES: similar to AA sequence:RefSeq:WP_017980877.1
COORDINATES: similar to AA sequence:RefSeq:WP_011425264.1
COORDINATES: similar to AA sequence:RefSeq:WP_007427339.1
COORDINATES: similar to AA sequence:RefSeq:WP_012754168.1
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_007015545.1
COORDINATES: similar to AA sequence:RefSeq:WP_010218570.1
COORDINATES: similar to AA sequence:RefSeq:WP_010188201.1
COORDINATES: similar to AA sequence:RefSeq:WP_020820235.1
COORDINATES: similar to AA sequence:RefSeq:WP_006953897.1
COORDINATES: similar to AA sequence:RefSeq:WP_019054167.1
COORDINATES: similar to AA sequence:RefSeq:WP_017503677.1
COORDINATES: protein motif:HMM:NF037521.2
zincin-like metallopeptidase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_020818728.1
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: similar to AA sequence:RefSeq:WP_020820062.1
reverse transcriptase/maturase family protein
COORDINATES: protein motif:HMM:NF019997.2
COORDINATES: similar to AA sequence:RefSeq:WP_009762588.1
COORDINATES: similar to AA sequence:RefSeq:WP_010219237.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611117.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010338926.1
GO:0004620 - phospholipase activity [Evidence IEA]
GO:0006629 - lipid metabolic process [Evidence IEA]
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_008994521.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0016301 - kinase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010409027.1
COORDINATES: similar to AA sequence:RefSeq:WP_015074899.1
COORDINATES: similar to AA sequence:RefSeq:WP_006960595.1
COORDINATES: similar to AA sequence:RefSeq:WP_015449303.1
COORDINATES: protein motif:HMM:NF014273.2
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_006954994.1
COORDINATES: protein motif:HMM:NF012464.2
COORDINATES: similar to AA sequence:RefSeq:WP_010219642.1
COORDINATES: protein motif:HMM:NF040974.1
COORDINATES: similar to AA sequence:RefSeq:WP_013039072.1
COORDINATES: similar to AA sequence:RefSeq:WP_013039071.1
lytic transglycosylase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_013039070.1
COORDINATES: similar to AA sequence:RefSeq:WP_015449339.1
VirB3 family type IV secretion system protein
COORDINATES: similar to AA sequence:RefSeq:WP_007683400.1
VirB4 family type IV secretion/conjugal transfer ATPase
COORDINATES: similar to AA sequence:RefSeq:WP_008831141.1
COORDINATES: protein motif:HMM:NF033894.1
COORDINATES: similar to AA sequence:RefSeq:WP_011950748.1
GO:0030255 - protein secretion by the type IV secretion system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013039066.1
COORDINATES: similar to AA sequence:RefSeq:WP_013039065.1
COORDINATES: similar to AA sequence:RefSeq:WP_008830726.1
P-type conjugative transfer protein VirB9
COORDINATES: similar to AA sequence:RefSeq:WP_010218644.1
COORDINATES: similar to AA sequence:RefSeq:WP_007683413.1
GO:0043684 - type IV secretion system complex [Evidence IEA]
GO:0044097 - secretion by the type IV secretion system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007684604.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: protein motif:HMM:NF037421.2
COORDINATES: similar to AA sequence:RefSeq:WP_013849850.1
glutathione S-transferase family protein
COORDINATES: protein motif:HMM:NF016843.2
COORDINATES: similar to AA sequence:RefSeq:WP_017499285.1
GO:0016747 - acyltransferase activity, transferring groups other than amino-acyl groups [Evidence IEA]
GO:0019619 - 3,4-dihydroxybenzoate catabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018250968.1
GO:0008410 - CoA-transferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018250967.1
COORDINATES: similar to AA sequence:RefSeq:WP_041680902.1
COORDINATES: protein motif:HMM:NF012801.2
COORDINATES: protein motif:HMM:NF019335.2
TonB-dependent receptor plug domain-containing protein