Rhodococcus pseudokoreensis strain R79 plasmid unnamed1, complete sequence.
Bacteria; Actinomycetota; Actinomycetes; Mycobacteriales; Nocardiaceae; Rhodococcus.
Rhodococcus pseudokoreensis sp. nov. isolated from the rhizosphere of young M26 apple rootstocks
Complete Genome Sequences of Two Rhodococcus sp. Strains with Large and Linear Chromosomes, Isolated from Apple Rhizosphere
Microbiol Resour Announc 10 (24), e0015921 (2021)
Submitted (11-FEB-2021) Comparative Microbiome Analysis, Helmholtz Center Munich, Ingolstaedter Landstr. 1, Neuherberg 85764, Germany
REFSEQ INFORMATION: The reference sequence is identical to\nCP070618.1.\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 :: MAY-2020\nAssembly Method :: Microbial Assembly v. May-2020\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 142x\nSequencing Technology :: PacBio Sequel\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 03/20/2023 03:17:58\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) :: 9,074\nCDSs (total) :: 9,009\nGenes (coding) :: 8,806\nCDSs (with protein) :: 8,806\nGenes (RNA) :: 65\nrRNAs :: 4, 4, 4 (5S, 16S, 23S)\ncomplete rRNAs :: 4, 4, 4 (5S, 16S, 23S)\ntRNAs :: 50\nncRNAs :: 3\nPseudo Genes (total) :: 203\nCDSs (without protein) :: 203\nPseudo Genes (ambiguous residues) :: 0 of 203\nPseudo Genes (frameshifted) :: 107 of 203\nPseudo Genes (incomplete) :: 147 of 203\nPseudo Genes (internal stop) :: 18 of 203\nPseudo Genes (multiple problems) :: 62 of 203\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
rhizosphere of apple plantlets grown in replant diseased soil
type strain of Rhodococcus pseudokoreensis
COORDINATES: protein motif:HMM:NF013245.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_016884645.1
ATP-binding cassette domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007296057.1
COORDINATES: similar to AA sequence:RefSeq:WP_007296058.1
NAD(P)-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_005568906.1
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
metalloregulator ArsR/SmtB family transcription factor
COORDINATES: similar to AA sequence:RefSeq:WP_012687281.1
COORDINATES: similar to AA sequence:RefSeq:WP_011598768.1
COORDINATES: similar to AA sequence:RefSeq:WP_005567964.1
COORDINATES: similar to AA sequence:RefSeq:WP_005567961.1
GO:0008490 - arsenite secondary active transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012687286.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_005249896.1
COORDINATES: similar to AA sequence:RefSeq:WP_005195317.1
low molecular weight phosphatase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_005264409.1
arsenite efflux transporter metallochaperone ArsD
COORDINATES: similar to AA sequence:RefSeq:WP_012687290.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]; GO:0015446 - ATPase-coupled arsenite transmembrane transporter activity [Evidence IEA]
GO:0071722 - detoxification of arsenic-containing substance [Evidence IEA]
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_016880188.1
COORDINATES: similar to AA sequence:RefSeq:WP_013491709.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF025388.2
COORDINATES: protein motif:HMM:NF027613.2
COORDINATES: similar to AA sequence:RefSeq:WP_076612292.1
COORDINATES: protein motif:HMM:NF025056.2
GO:0005515 - protein binding [Evidence IEA]
GO:0007165 - signal transduction [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006934572.1
COORDINATES: similar to AA sequence:RefSeq:WP_005563120.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_009476026.1
COORDINATES: similar to AA sequence:RefSeq:WP_005572639.1
COORDINATES: similar to AA sequence:RefSeq:WP_009476019.1
COORDINATES: protein motif:HMM:NF020387.2
COORDINATES: similar to AA sequence:RefSeq:WP_007296749.1
COORDINATES: similar to AA sequence:RefSeq:WP_007296750.1
COORDINATES: similar to AA sequence:RefSeq:WP_009476100.1
COORDINATES: protein motif:HMM:NF013715.2
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013678754.1
COORDINATES: protein motif:HMM:NF012711.2
class I adenylate-forming enzyme family protein
COORDINATES: similar to AA sequence:RefSeq:WP_011730560.1
COORDINATES: similar to AA sequence:RefSeq:WP_005242712.1
COORDINATES: similar to AA sequence:RefSeq:WP_016881095.1
frameshifted; 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_013678753.1
COORDINATES: protein motif:HMM:NF019310.2
COORDINATES: similar to AA sequence:RefSeq:WP_006144243.1
GO:0004030 - aldehyde dehydrogenase [NAD(P)+] activity [Evidence IEA]
NADP-dependent succinic semialdehyde dehydrogenase
COORDINATES: similar to AA sequence:RefSeq:WP_008712947.1
COORDINATES: similar to AA sequence:RefSeq:WP_011595887.1
COORDINATES: similar to AA sequence:RefSeq:WP_016883045.1
GO:0003824 - catalytic activity [Evidence IEA]; GO:0050660 - flavin adenine dinucleotide binding [Evidence IEA]
FAD-linked oxidase C-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_003896873.1
COORDINATES: similar to AA sequence:RefSeq:WP_011595289.1
GO:0008679 - 2-hydroxy-3-oxopropionate reductase activity [Evidence IEA]
GO:0019580 - galactarate metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011595288.1
GO:0009028 - tartronate-semialdehyde synthase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019744794.1
COORDINATES: similar to AA sequence:RefSeq:WP_011595880.1
GO:0004743 - pyruvate kinase activity [Evidence IEA]
GO:0006096 - glycolytic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011595879.1
COORDINATES: similar to AA sequence:RefSeq:WP_013676848.1
heterodisulfide reductase-related iron-sulfur binding cluster
COORDINATES: protein motif:HMM:NF013714.2
GO:0050660 - flavin adenine dinucleotide binding [Evidence IEA]; GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019818572.1
COORDINATES: similar to AA sequence:RefSeq:WP_013678756.1
COORDINATES: similar to AA sequence:RefSeq:WP_013678755.1
COORDINATES: similar to AA sequence:RefSeq:WP_019928428.1
COORDINATES: similar to AA sequence:RefSeq:WP_017933422.1
TetR/AcrR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_008355947.1
COORDINATES: similar to AA sequence:RefSeq:WP_007729572.1
COORDINATES: similar to AA sequence:RefSeq:WP_011756792.1
SDR family NAD(P)-dependent oxidoreductase
COORDINATES: similar to AA sequence:RefSeq:WP_018789340.1
COORDINATES: similar to AA sequence:RefSeq:WP_015064417.1
COORDINATES: similar to AA sequence:RefSeq:WP_013678741.1
PAS domain-containing sensor histidine kinase
COORDINATES: similar to AA sequence:RefSeq:WP_013678742.1
GO:0016627 - oxidoreductase activity, acting on the CH-CH group of donors [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_020748561.1
COORDINATES: similar to AA sequence:RefSeq:WP_005263081.1
crotonase/enoyl-CoA hydratase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_011519516.1
GO:0070403 - NAD+ binding [Evidence IEA]
GO:0006631 - fatty acid metabolic process [Evidence IEA]
3-hydroxyacyl-CoA dehydrogenase NAD-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007296512.1
COORDINATES: similar to AA sequence:RefSeq:WP_013678748.1
COORDINATES: similar to AA sequence:RefSeq:WP_005573537.1
COORDINATES: similar to AA sequence:RefSeq:WP_005263069.1
COORDINATES: similar to AA sequence:RefSeq:WP_005466189.1
GO:0016747 - acyltransferase activity, transferring groups other than amino-acyl groups [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003939067.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0003676 - nucleic acid binding [Evidence IEA]
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_005245238.1
COORDINATES: similar to AA sequence:RefSeq:WP_011600533.1
COORDINATES: similar to AA sequence:RefSeq:WP_009478649.1
COORDINATES: similar to AA sequence:RefSeq:WP_016880208.1
COORDINATES: similar to AA sequence:RefSeq:WP_007727410.1
COORDINATES: similar to AA sequence:RefSeq:WP_007915608.1
COORDINATES: similar to AA sequence:RefSeq:WP_019664169.1
GO:0050532 - 2-phosphosulfolactate phosphatase activity [Evidence IEA]; GO:0000287 - magnesium ion binding [Evidence IEA]
COORDINATES: protein motif:HMM:TIGR00797.1
GO:0042910 - xenobiotic transmembrane transporter activity [Evidence IEA]
GO:0009410 - response to xenobiotic stimulus [Evidence IEA]; GO:0006855 - xenobiotic transmembrane transport [Evidence IEA]
COORDINATES: protein motif:HMM:NF012792.2
COORDINATES: similar to AA sequence:RefSeq:WP_018470061.1
COORDINATES: similar to AA sequence:RefSeq:WP_014181582.1
aminoglycoside phosphotransferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_011600421.1
COORDINATES: similar to AA sequence:RefSeq:WP_012686994.1
COORDINATES: similar to AA sequence:RefSeq:WP_007297360.1
COORDINATES: similar to AA sequence:RefSeq:WP_005575104.1
COORDINATES: similar to AA sequence:RefSeq:WP_005256402.1
COORDINATES: similar to AA sequence:RefSeq:WP_016882020.1
COORDINATES: similar to AA sequence:RefSeq:WP_009473570.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
saccharopine dehydrogenase NADP-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_005574599.1
ADP-ribosylglycohydrolase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_005574598.1
COORDINATES: similar to AA sequence:RefSeq:WP_005574146.1
GO:0005576 - extracellular region [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011599471.1
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_016881293.1
COORDINATES: similar to AA sequence:RefSeq:WP_015890735.1
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_005245092.1
COORDINATES: similar to AA sequence:RefSeq:WP_011600535.1
COORDINATES: protein motif:HMM:NF036700.2
COORDINATES: protein motif:HMM:NF013793.2
COORDINATES: similar to AA sequence:RefSeq:WP_007728248.1
COORDINATES: similar to AA sequence:RefSeq:WP_005564117.1
COORDINATES: similar to AA sequence:RefSeq:WP_005245104.1
COORDINATES: similar to AA sequence:RefSeq:WP_005245105.1
COORDINATES: similar to AA sequence:RefSeq:WP_005245106.1
COORDINATES: similar to AA sequence:RefSeq:WP_005254303.1
COORDINATES: similar to AA sequence:RefSeq:WP_016881266.1
COORDINATES: similar to AA sequence:RefSeq:WP_016884302.1
COORDINATES: similar to AA sequence:RefSeq:WP_016884303.1
COORDINATES: similar to AA sequence:RefSeq:WP_016884304.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011600556.1
TnsA-like heteromeric transposase endonuclease subunit
COORDINATES: similar to AA sequence:RefSeq:WP_005573952.1
peptidoglycan DD-metalloendopeptidase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_005254300.1
COORDINATES: similar to AA sequence:RefSeq:WP_005573950.1
COORDINATES: similar to AA sequence:RefSeq:WP_005254298.1
COORDINATES: similar to AA sequence:RefSeq:WP_005245113.1
COORDINATES: similar to AA sequence:RefSeq:WP_005254297.1
COORDINATES: similar to AA sequence:RefSeq:WP_005245115.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]; GO:0000166 - nucleotide binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005245116.1
COORDINATES: similar to AA sequence:RefSeq:WP_005245117.1
COORDINATES: similar to AA sequence:RefSeq:WP_005570654.1
COORDINATES: similar to AA sequence:RefSeq:WP_005570653.1
COORDINATES: similar to AA sequence:RefSeq:WP_005254292.1
COORDINATES: similar to AA sequence:RefSeq:WP_005254291.1