Rhodococcus oxybenzonivorans strain S2-17 plasmid pRB11, complete sequence.
Bacteria; Actinomycetota; Actinomycetes; Mycobacteriales; Nocardiaceae; Rhodococcus.
Isolation of Rhodococcus sp. S2-17 biodegrading of BP-3
Submitted (17-MAY-2017) Life Science, Chung-Ang University, 84, Heukseok-ro, Dongjak-gu, Seoul 06974, South Korea
REFSEQ INFORMATION: The reference sequence is identical to\nCP021357.1.\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 :: 04-MAY-2017\nAssembly Method :: HGAP v. MAY-2017\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 81.0x\nSequencing Technology :: PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 02/06/2023 10:18:04\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) :: 7,507\nCDSs (total) :: 7,443\nGenes (coding) :: 7,064\nCDSs (with protein) :: 7,064\nGenes (RNA) :: 64\nrRNAs :: 4, 4, 4 (5S, 16S, 23S)\ncomplete rRNAs :: 4, 4, 4 (5S, 16S, 23S)\ntRNAs :: 49\nncRNAs :: 3\nPseudo Genes (total) :: 379\nCDSs (without protein) :: 379\nPseudo Genes (ambiguous residues) :: 0 of 379\nPseudo Genes (frameshifted) :: 215 of 379\nPseudo Genes (incomplete) :: 262 of 379\nPseudo Genes (internal stop) :: 28 of 379\nPseudo Genes (multiple problems) :: 117 of 379\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
type strain of Rhodococcus oxybenzonivorans
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_007618209.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_012689811.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_005571162.1
COORDINATES: similar to AA sequence:RefSeq:WP_005249415.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0003678 - DNA helicase activity [Evidence IEA]
GO:0006260 - DNA replication [Evidence IEA]
DnaB-like helicase N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_005518946.1
GO:0015035 - protein-disulfide reductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009475923.1
COORDINATES: similar to AA sequence:RefSeq:WP_007296772.1
rhodanese-like domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_005264365.1
COORDINATES: similar to AA sequence:RefSeq:WP_014878317.1
metal-sensitive transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_016881489.1
COORDINATES: similar to AA sequence:RefSeq:WP_005264360.1
sulfite exporter TauE/SafE family protein
COORDINATES: similar to AA sequence:RefSeq:WP_012687304.1
COORDINATES: similar to AA sequence:RefSeq:WP_012687303.1
COORDINATES: similar to AA sequence:RefSeq:WP_012687302.1
COORDINATES: similar to AA sequence:RefSeq:WP_011600421.1
COORDINATES: similar to AA sequence:RefSeq:WP_012691890.1
COORDINATES: similar to AA sequence:RefSeq:WP_011599299.1
COORDINATES: similar to AA sequence:RefSeq:WP_017045305.1
COORDINATES: similar to AA sequence:RefSeq:WP_016885069.1
COORDINATES: protein motif:HMM:NF012464.2
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_005565399.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011212402.1
COORDINATES: similar to AA sequence:RefSeq:WP_019750070.1
COORDINATES: similar to AA sequence:RefSeq:WP_011212400.1
COORDINATES: similar to AA sequence:RefSeq:WP_005570696.1
TetR/AcrR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_076612313.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011560572.1
COORDINATES: similar to AA sequence:RefSeq:WP_020552061.1
COORDINATES: similar to AA sequence:RefSeq:WP_020662081.1
COORDINATES: similar to AA sequence:RefSeq:WP_017985023.1
COORDINATES: similar to AA sequence:RefSeq:WP_007171194.1
COORDINATES: protein motif:HMM:NF014567.2
HAMP domain-containing sensor histidine kinase
COORDINATES: similar to AA sequence:RefSeq:WP_003354658.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_016889191.1
SCP2 sterol-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_018654375.1
COORDINATES: similar to AA sequence:RefSeq:WP_005201333.1
COORDINATES: similar to AA sequence:RefSeq:WP_007240546.1
COORDINATES: similar to AA sequence:RefSeq:WP_012686928.1
COORDINATES: similar to AA sequence:RefSeq:WP_007297933.1
COORDINATES: similar to AA sequence:RefSeq:WP_007297932.1
COORDINATES: similar to AA sequence:RefSeq:WP_012686927.1
COORDINATES: similar to AA sequence:RefSeq:WP_007297930.1
COORDINATES: similar to AA sequence:RefSeq:WP_007297929.1
COORDINATES: similar to AA sequence:RefSeq:WP_007297928.1
COORDINATES: similar to AA sequence:RefSeq:WP_007297927.1
COORDINATES: similar to AA sequence:RefSeq:WP_012686926.1
COORDINATES: similar to AA sequence:RefSeq:WP_007297926.1
bifunctional lytic transglycosylase/C40 family peptidase
COORDINATES: similar to AA sequence:RefSeq:WP_076611377.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
frameshifted; incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF024673.2
COORDINATES: protein motif:HMM:NF013677.2
COORDINATES: similar to AA sequence:RefSeq:WP_005086614.1
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]; GO:0043565 - sequence-specific DNA binding [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005086615.1
GO:0009055 - electron transfer activity [Evidence IEA]; GO:0051536 - iron-sulfur cluster binding [Evidence IEA]
2Fe-2S iron-sulfur cluster-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_007633706.1
GO:0020037 - heme binding [Evidence IEA]; GO:0005506 - iron ion binding [Evidence IEA]; GO:0016705 - oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008720359.1
COORDINATES: similar to AA sequence:RefSeq:WP_003937317.1
transglutaminase-like domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_013809070.1
BtrH N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_005560922.1
COORDINATES: similar to AA sequence:RefSeq:WP_007053875.1
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_006554887.1
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: protein motif:HMM:NF012403.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0140658 - ATP-dependent chromatin remodeler activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005255842.1
COORDINATES: similar to AA sequence:RefSeq:WP_009473298.1
COORDINATES: similar to AA sequence:RefSeq:WP_011599352.1
GO:0004540 - ribonuclease activity [Evidence IEA]; GO:0003723 - RNA binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005566945.1
COORDINATES: similar to AA sequence:RefSeq:WP_005566943.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
ParB/RepB/Spo0J family partition protein
COORDINATES: protein motif:HMM:NF014898.2
GO:0015074 - DNA integration [Evidence IEA]
COORDINATES: protein motif:HMM:NF012798.2
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005564153.1
COORDINATES: protein motif:HMM:NF036700.2
COORDINATES: protein motif:HMM:NF013793.2
COORDINATES: similar to AA sequence:RefSeq:WP_005259850.1
COORDINATES: similar to AA sequence:RefSeq:WP_005259851.1
winged helix-turn-helix domain-containing protein
COORDINATES: protein motif:HMM:TIGR00027.1
GO:0008168 - methyltransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012691828.1
COORDINATES: similar to AA sequence:RefSeq:WP_003941235.1
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003941211.1
COORDINATES: similar to AA sequence:RefSeq:WP_003944119.1
COORDINATES: similar to AA sequence:RefSeq:WP_003944115.1
COORDINATES: similar to AA sequence:RefSeq:WP_003944113.1
COORDINATES: similar to AA sequence:RefSeq:WP_003944120.1
peptidoglycan DD-metalloendopeptidase family protein
COORDINATES: protein motif:HMM:NF014581.2
TraM recognition domain-containing protein
COORDINATES: protein motif:HMM:NF017148.2
COORDINATES: protein motif:HMM:NF039733.1
COORDINATES: protein motif:HMM:NF041492.1