Nocardia farcinica IFM 10152 plasmid pNF2, complete sequence.
Bacteria; Actinomycetota; Actinomycetes; Mycobacteriales; Nocardiaceae; Nocardia.
The complete genomic sequence of Nocardia farcinica IFM 10152
Submitted (26-SEP-2003) Contact:Jun Ishikawa National Institute of Infectious Diseases; Toyama 1-23-1, Shinjuku, Tokyo 162-8640, Japan
REFSEQ INFORMATION: The reference sequence is identical to\nAP006620.1.\nThis work was done in collaboration with Jun Ishikawa, Yasutaka\nHoshino, Haruyo Kurita, Kunimoto Hotta (National Institute of\nInfectious Diseases) and Yuzuru Mikami (Research Center for\nPathogenic Fungi and Microbial Toxicoses, Chiba University), and\nsupported by the Research for the Future Program of the Japan\nSociety for the Promotion of Science.\nThe genomic sequence assembly and annotation was carried out by Jun\nIshikawa (jun@nih.go.jp). The complete and fully annotated genomic\nsequence is also available at http://nocardia.nih.go.jp/\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-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/24/2022 02:52:16\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) :: 6,050\nCDSs (total) :: 5,984\nGenes (coding) :: 5,938\nCDSs (with protein) :: 5,938\nGenes (RNA) :: 66\nrRNAs :: 3, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 3, 3, 3 (5S, 16S, 23S)\ntRNAs :: 54\nncRNAs :: 3\nPseudo Genes (total) :: 46\nCDSs (without protein) :: 46\nPseudo Genes (ambiguous residues) :: 0 of 46\nPseudo Genes (frameshifted) :: 12 of 46\nPseudo Genes (incomplete) :: 35 of 46\nPseudo Genes (internal stop) :: 3 of 46\nPseudo Genes (multiple problems) :: 4 of 46\nCRISPR Arrays :: 3\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_018784521.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF019322.2
COORDINATES: similar to AA sequence:RefSeq:WP_014353532.1
COORDINATES: protein motif:HMM:NF014520.2
COORDINATES: similar to AA sequence:RefSeq:WP_003983849.1
COORDINATES: protein motif:HMM:NF014581.2
TraM recognition domain-containing protein
COORDINATES: protein motif:HMM:NF027584.2
COORDINATES: protein motif:HMM:NF024755.2
COORDINATES: similar to AA sequence:RefSeq:WP_011212407.1
RRQRL motif-containing zinc-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_008744583.1
COORDINATES: similar to AA sequence:RefSeq:WP_020540399.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013138650.1
COORDINATES: similar to AA sequence:RefSeq:WP_019050311.1
metalloregulator ArsR/SmtB family transcription factor
COORDINATES: similar to AA sequence:RefSeq:WP_012687285.1
GO:0008490 - arsenite secondary active transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008376421.1
low molecular weight phosphatase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_005086294.1
COORDINATES: similar to AA sequence:RefSeq:WP_012687287.1
COORDINATES: similar to AA sequence:RefSeq:WP_019048892.1
COORDINATES: protein motif:HMM:NF012798.2
COORDINATES: similar to AA sequence:RefSeq:WP_004018622.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005570696.1
TetR/AcrR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_017681367.1
COORDINATES: similar to AA sequence:RefSeq:WP_014349826.1
COORDINATES: similar to AA sequence:RefSeq:WP_006553200.1
COORDINATES: protein motif:HMM:NF024108.2
COORDINATES: similar to AA sequence:RefSeq:WP_011212381.1
PLDc N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_014690695.1
COORDINATES: similar to AA sequence:RefSeq:WP_018252760.1
COORDINATES: protein motif:HMM:NF012792.2
GO:0008080 - N-acetyltransferase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF024431.2
GO:0006313 - transposition, DNA-mediated [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_006438312.1
COORDINATES: similar to AA sequence:RefSeq:WP_006438313.1
COORDINATES: similar to AA sequence:RefSeq:WP_017682183.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611184.1
GO:0015074 - DNA integration [Evidence IEA]
integrase core domain-containing protein
COORDINATES: nucleotide motif:Rfam:14.4:RF01734
Fluoride riboswitches increase expression of downstream genes that help mitigate the toxic effects of very high levels of fluoride; They are found in a wide variety of bacteria and archaea; Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: protein motif:HMM:NF024304.2
pyridoxamine 5'-phosphate oxidase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_014349827.1
COORDINATES: similar to AA sequence:RefSeq:WP_014349828.1
COORDINATES: similar to AA sequence:RefSeq:WP_014878317.1
metal-sensitive transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_004023086.1
COORDINATES: similar to AA sequence:RefSeq:WP_014349831.1
COORDINATES: similar to AA sequence:RefSeq:WP_014349832.1
COORDINATES: protein motif:HMM:NF022742.2
COORDINATES: similar to AA sequence:RefSeq:WP_005102056.1
COORDINATES: similar to AA sequence:RefSeq:WP_018845090.1
COORDINATES: protein motif:HMM:NF019146.2
COORDINATES: similar to AA sequence:RefSeq:WP_018556836.1
COORDINATES: protein motif:HMM:NF040299.1
COORDINATES: protein motif:HMM:NF015799.2
COORDINATES: similar to AA sequence:RefSeq:WP_006247679.1
COORDINATES: similar to AA sequence:RefSeq:WP_007168431.1
helix-turn-helix transcriptional regulator