Paraclostridium bifermentans strain DSM 14991 plasmid unnamed3, complete sequence.
Bacteria; Firmicutes; Clostridia; Eubacteriales; Clostridiaceae; Paraclostridium.
Complete genome sequence of Paraclostridium bifermentans DSM 14991
Submitted (14-JUL-2021) Biodiscovery Institute, School of Life Sciences, Heap Lab University of Nottingham, Biodiscovery Institute, University of Nottingham, University Park, Nottingham NG7 2RD, United Kingdom
REFSEQ INFORMATION: The reference sequence is identical to\nCP079740.1.\nBacteria and source DNA available from DSMZ 14991.\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 :: JUL-2021\nAssembly Method :: Unicycler v. 0.4.8\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 100.0x\nSequencing Technology :: Illumina HiSeq; Oxford Nanopore GridION\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 10/31/2022 04:11:43\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.3\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA;\n repeat_region\nGenes (total) :: 3,530\nCDSs (total) :: 3,376\nGenes (coding) :: 3,356\nCDSs (with protein) :: 3,356\nGenes (RNA) :: 154\nrRNAs :: 16, 16, 16 (5S, 16S, 23S)\ncomplete rRNAs :: 16, 16, 16 (5S, 16S, 23S)\ntRNAs :: 102\nncRNAs :: 4\nPseudo Genes (total) :: 20\nCDSs (without protein) :: 20\nPseudo Genes (ambiguous residues) :: 0 of 20\nPseudo Genes (frameshifted) :: 2 of 20\nPseudo Genes (incomplete) :: 13 of 20\nPseudo Genes (internal stop) :: 5 of 20\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: protein motif:HMM:NF019265.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
sigma-70 family RNA polymerase sigma factor
COORDINATES: protein motif:HMM:TIGR03064.1
GO:0004197 - cysteine-type endopeptidase activity [Evidence IEA]
GO:0045184 - establishment of protein localization [Evidence IEA]; GO:0016485 - protein processing [Evidence IEA]
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF013918.2
ferric reductase-like transmembrane domain-containing protein
COORDINATES: protein motif:HMM:NF040423.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_018592687.1
COORDINATES: similar to AA sequence:RefSeq:WP_009893947.1
COORDINATES: similar to AA sequence:RefSeq:WP_009893949.1
LytTR family DNA-binding domain-containing protein
COORDINATES: protein motif:HMM:NF013793.2
COORDINATES: protein motif:HMM:NF023096.2
COORDINATES: protein motif:HMM:NF024853.2
COORDINATES: protein motif:HMM:NF017239.2
COORDINATES: protein motif:HMM:NF012235.2
COORDINATES: similar to AA sequence:RefSeq:WP_003180000.1
COORDINATES: similar to AA sequence:RefSeq:WP_004605217.1
COORDINATES: protein motif:HMM:NF013235.2
COORDINATES: similar to AA sequence:RefSeq:WP_006836953.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_003409372.1
COORDINATES: protein motif:HMM:NF022636.2
COORDINATES: similar to AA sequence:RefSeq:WP_002058387.1
COORDINATES: protein motif:HMM:NF024854.2
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: protein motif:HMM:NF013584.2
COORDINATES: similar to AA sequence:RefSeq:WP_017353927.1
COORDINATES: similar to AA sequence:RefSeq:WP_011948339.1
COORDINATES: protein motif:HMM:NF014600.2
COORDINATES: protein motif:HMM:NF012791.2
COORDINATES: similar to AA sequence:RefSeq:WP_003485053.1
COORDINATES: protein motif:HMM:NF014567.2
HAMP domain-containing sensor histidine kinase
COORDINATES: protein motif:HMM:NF014019.2
COORDINATES: protein motif:HMM:NF024881.2
COORDINATES: similar to AA sequence:RefSeq:WP_005582791.1
COORDINATES: similar to AA sequence:RefSeq:WP_010297431.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF024698.2
COORDINATES: similar to AA sequence:RefSeq:WP_006783992.1
voltage-gated chloride channel family 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: similar to AA sequence:RefSeq:WP_004458734.1
COORDINATES: protein motif:HMM:NF024209.2
leucine-rich repeat domain-containing protein