Rhodococcus pseudokoreensis strain R79 plasmid unnamed3, 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\nCP070616.1.\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:NF012312.2
incomplete; too short partial abutting assembly gap; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF013706.2
GO:0003824 - catalytic activity [Evidence IEA]
fumarylacetoacetate hydrolase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_018335478.1
COORDINATES: similar to AA sequence:RefSeq:WP_016693473.1
COORDINATES: similar to AA sequence:RefSeq:WP_016693472.1
COORDINATES: protein motif:HMM:NF017760.2
COORDINATES: protein motif:HMM:NF024988.2
COORDINATES: similar to AA sequence:RefSeq:NP_215563.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
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_007295706.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_086557958.1
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_014378547.1
GO:0008168 - methyltransferase activity [Evidence IEA]
methyltransferase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_017586283.1
COORDINATES: protein motif:HMM:NF012955.2
COORDINATES: similar to AA sequence:RefSeq:WP_005249348.1
COORDINATES: similar to AA sequence:RefSeq:WP_016880208.1
COORDINATES: similar to AA sequence:RefSeq:WP_012687123.1
COORDINATES: similar to AA sequence:RefSeq:WP_007299559.1
COORDINATES: similar to AA sequence:RefSeq:WP_005248515.1
GO:0004806 - triglyceride lipase activity [Evidence IEA]
GO:0016042 - lipid catabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005568592.1
COORDINATES: similar to AA sequence:RefSeq:WP_005255834.1
COORDINATES: similar to AA sequence:RefSeq:WP_011600533.1
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
phosphatidylserine/phosphatidylglycerophosphate/ cardiolipin synthase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_005261449.1
COORDINATES: similar to AA sequence:RefSeq:WP_007299565.1
COORDINATES: similar to AA sequence:RefSeq:WP_005261446.1
phosphoadenosine phosphosulfate reductase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_007299567.1
COORDINATES: similar to AA sequence:RefSeq:WP_007299568.1
COORDINATES: similar to AA sequence:RefSeq:WP_011600286.1
RAMP superfamily CRISPR-associated protein
COORDINATES: similar to AA sequence:RefSeq:WP_007299570.1
COORDINATES: similar to AA sequence:RefSeq:WP_005570148.1
COORDINATES: similar to AA sequence:RefSeq:WP_007298675.1
COORDINATES: similar to AA sequence:RefSeq:WP_005260812.1
COORDINATES: similar to AA sequence:RefSeq:WP_006946726.1
COORDINATES: similar to AA sequence:RefSeq:WP_005571992.1
COORDINATES: similar to AA sequence:RefSeq:WP_007300023.1
COORDINATES: similar to AA sequence:RefSeq:WP_015804711.1
COORDINATES: similar to AA sequence:RefSeq:WP_010315148.1
COORDINATES: similar to AA sequence:RefSeq:WP_010229146.1
GO:0008442 - 3-hydroxyisobutyrate dehydrogenase activity [Evidence IEA]
GO:0006574 - valine catabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012689547.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010315153.1
COORDINATES: similar to AA sequence:RefSeq:WP_017983614.1
COORDINATES: similar to AA sequence:RefSeq:WP_010148902.1
COORDINATES: similar to AA sequence:RefSeq:WP_010315157.1
GO:0009055 - electron transfer activity [Evidence IEA]; GO:0051536 - iron-sulfur cluster binding [Evidence IEA]
GO:0019516 - lactate oxidation [Evidence IEA]
LutB/LldF family L-lactate oxidation iron-sulfur protein
COORDINATES: similar to AA sequence:RefSeq:WP_005445746.1
COORDINATES: similar to AA sequence:RefSeq:WP_017983615.1
COORDINATES: similar to AA sequence:RefSeq:WP_005264264.1
GO:0004672 - protein kinase activity [Evidence IEA]
GO:0006468 - protein phosphorylation [Evidence IEA]
COORDINATES: protein motif:HMM:NF014520.2
COORDINATES: similar to AA sequence:RefSeq:WP_010240892.1
COORDINATES: similar to AA sequence:RefSeq:WP_010687139.1
COORDINATES: similar to AA sequence:RefSeq:WP_010315161.1
COORDINATES: similar to AA sequence:RefSeq:WP_011493472.1
COORDINATES: similar to AA sequence:RefSeq:WP_017983619.1
COORDINATES: similar to AA sequence:RefSeq:WP_017983618.1
COORDINATES: similar to AA sequence:RefSeq:WP_010315142.1
COORDINATES: similar to AA sequence:RefSeq:WP_006901619.1
COORDINATES: similar to AA sequence:RefSeq:WP_005254036.1
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_005255121.1
COORDINATES: similar to AA sequence:RefSeq:WP_012691715.1
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_014134731.1
COORDINATES: protein motif:HMM:NF021498.2
incomplete; too short partial abutting assembly gap; missing C-terminus; Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.