Mycolicibacterium pallens strain JCM 16370 plasmid unnamed1, complete sequence.
Mycolicibacterium pallens (Mycobacterium pallens)
Bacteria; Actinomycetota; Actinomycetes; Mycobacteriales; Mycobacteriaceae; Mycolicibacterium.
Complete Genome Sequences of 14 Nontuberculous Mycobacteria Type Strains
Microbiol Resour Announc 12 (2), e0121422 (2023)
Submitted (27-JUL-2021) Department of Mycobacterium reference and research, Research Institute of Tuberculosis, 3-1-24 matsuyama, kiyose, tokyo 204-8533, Japan
REFSEQ INFORMATION: The reference sequence is identical to\nCP080334.1.\nBacteria and source DNA available from Japan Collection of\nMicroorganisms (JCM).\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 Method :: Flye v. 2.8.3\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 99.0x; 60.4\nSequencing Technology :: Illumina MiSeq; Oxford Nanopore MinION\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 06/25/2023 10:37:53\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.5\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 5,982\nCDSs (total) :: 5,926\nGenes (coding) :: 5,795\nCDSs (with protein) :: 5,795\nGenes (RNA) :: 56\nrRNAs :: 2, 2, 2 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 2, 2 (5S, 16S, 23S)\ntRNAs :: 47\nncRNAs :: 3\nPseudo Genes (total) :: 131\nCDSs (without protein) :: 131\nPseudo Genes (ambiguous residues) :: 0 of 131\nPseudo Genes (frameshifted) :: 63 of 131\nPseudo Genes (incomplete) :: 66 of 131\nPseudo Genes (internal stop) :: 17 of 131\nPseudo Genes (multiple problems) :: 13 of 131\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_020494960.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
SDR family NAD(P)-dependent oxidoreductase
COORDINATES: similar to AA sequence:RefSeq:WP_020668034.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF015799.2
COORDINATES: similar to AA sequence:RefSeq:WP_006940989.1
COORDINATES: similar to AA sequence:RefSeq:WP_007172441.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF013180.2
GO:0009975 - cyclase activity [Evidence IEA]
GO:0009966 - regulation of signal transduction [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017555467.1
COORDINATES: similar to AA sequence:RefSeq:WP_008264012.1
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005149445.1
COORDINATES: similar to AA sequence:RefSeq:WP_005149424.1
COORDINATES: similar to AA sequence:RefSeq:WP_005149425.1
COORDINATES: similar to AA sequence:RefSeq:WP_005088169.1
COORDINATES: similar to AA sequence:RefSeq:WP_019749855.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0000150 - DNA strand exchange activity [Evidence IEA]
GO:0006310 - DNA recombination [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_014711299.1
COORDINATES: protein motif:HMM:NF024908.2
COORDINATES: protein motif:HMM:NF014814.2
helix-turn-helix domain-containing protein
COORDINATES: protein motif:HMM:NF017148.2
COORDINATES: similar to AA sequence:RefSeq:WP_019857892.1
COORDINATES: similar to AA sequence:RefSeq:WP_011561819.1
GO:0005886 - plasma membrane [Evidence IEA]
GO:0005525 - GTP binding [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003896053.1
GO:0016020 - membrane [Evidence IEA]; GO:0005886 - plasma membrane [Evidence IEA]
GO:0006814 - sodium ion transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014712205.1
COORDINATES: similar to AA sequence:RefSeq:WP_020098986.1
COORDINATES: similar to AA sequence:RefSeq:WP_005142312.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - DNA transposition [Evidence IEA]
frameshifted; internal stop; 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_020549824.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
TetR/AcrR family transcriptional regulator