Thermobifida halotolerans strain DSM 44931 plasmid pTH1, complete sequence.
Bacteria; Actinomycetota; Actinomycetes; Streptosporangiales; Nocardiopsaceae; Thermobifida.
De novo genome project of the cellulose decomposer Thermobifida halotolerans type strain
Submitted (14-OCT-2020) NGS Platform, Seqomics Ltd., Vallakozok u. 7., Morahalom 6782, Hungary
Submitted (14-OCT-2014) Bioinformatics Department, Seqomics Ltd, Vallalkozok 7, Morahalom, Csongrad 6782, Hungary
REFSEQ INFORMATION: The reference sequence is identical to\nCP063197.1.\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 Method :: Ra v. v0.2.1; Geneious Prime v. 2020.2.4\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 158.0x\nSequencing Technology :: Illumina MiSeq; PacBio Sequel\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 04/18/2023 08:12:27\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) :: 4,873\nCDSs (total) :: 4,805\nGenes (coding) :: 4,740\nCDSs (with protein) :: 4,740\nGenes (RNA) :: 68\nrRNAs :: 4, 4, 4 (5S, 16S, 23S)\ncomplete rRNAs :: 4, 4, 4 (5S, 16S, 23S)\ntRNAs :: 53\nncRNAs :: 3\nPseudo Genes (total) :: 65\nCDSs (without protein) :: 65\nPseudo Genes (ambiguous residues) :: 0 of 65\nPseudo Genes (frameshifted) :: 18 of 65\nPseudo Genes (incomplete) :: 52 of 65\nPseudo Genes (internal stop) :: 4 of 65\nPseudo Genes (multiple problems) :: 9 of 65\nCRISPR Arrays :: 18\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
type strain of Thermobifida halotolerans
COORDINATES: ab initio prediction:GeneMarkS-2+
GO:0005524 - ATP binding [Evidence IEA]; GO:0016301 - kinase activity [Evidence IEA]
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF025079.2
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:NF012296.2
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]
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_013153092.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004521 - endoribonuclease activity [Evidence IEA]; GO:0003723 - RNA binding [Evidence IEA]
type II toxin-antitoxin system PemK/MazF family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_013153091.1
COORDINATES: similar to AA sequence:RefSeq:WP_017578543.1
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_011291947.1
COORDINATES: protein motif:HMM:NF018154.2
COORDINATES: similar to AA sequence:RefSeq:WP_007172400.1
COORDINATES: protein motif:HMM:NF012514.2
COORDINATES: protein motif:HMM:NF019884.2
COORDINATES: similar to AA sequence:RefSeq:WP_017559083.1
GO:0008270 - zinc ion binding [Evidence IEA]
RRQRL motif-containing zinc-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_017559068.1
COORDINATES: similar to AA sequence:RefSeq:WP_017584304.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
helix-turn-helix domain-containing protein
COORDINATES: protein motif:HMM:NF015736.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]; GO:0003678 - DNA helicase activity [Evidence IEA]
GO:0006269 - DNA replication, synthesis of RNA primer [Evidence IEA]
COORDINATES: protein motif:HMM:NF020332.2
COORDINATES: similar to AA sequence:RefSeq:WP_017595335.1
COORDINATES: protein motif:HMM:NF024835.2
helix-turn-helix transcriptional regulator
COORDINATES: protein motif:HMM:NF022388.2
COORDINATES: protein motif:HMM:NF024991.2
COORDINATES: protein motif:HMM:NF027584.2
COORDINATES: protein motif:HMM:NF014581.2
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_011242301.1
COORDINATES: protein motif:HMM:NF013073.2