Clostridium tagluense strain CM022 plasmid pCM022-183, complete sequence.
Bacteria; Bacillota; Clostridia; Eubacteriales; Clostridiaceae; Clostridium.
Clostridia strains as spoilage organisms
Submitted (28-OCT-2021) Institute for Food Safety and Hygiene, University of Zurich, Winterthurerstrasse 272, Zurich, Zurich 8057, Switzerland
REFSEQ INFORMATION: The reference sequence is identical to\nCP086156.1.\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 :: OCT-2021\nAssembly Method :: unicycler v. 1\nAssembly Name :: CM022\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 150x\nSequencing Technology :: Nanopore/Illumina miniseq\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/08/2022 11:54:01\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\nGenes (total) :: 5,122\nCDSs (total) :: 4,979\nGenes (coding) :: 4,890\nCDSs (with protein) :: 4,890\nGenes (RNA) :: 143\nrRNAs :: 15, 15, 14 (5S, 16S, 23S)\ncomplete rRNAs :: 15, 15, 14 (5S, 16S, 23S)\ntRNAs :: 94\nncRNAs :: 5\nPseudo Genes (total) :: 89\nCDSs (without protein) :: 89\nPseudo Genes (ambiguous residues) :: 0 of 89\nPseudo Genes (frameshifted) :: 23 of 89\nPseudo Genes (incomplete) :: 72 of 89\nPseudo Genes (internal stop) :: 16 of 89\nPseudo Genes (multiple problems) :: 20 of 89\nCRISPR Arrays :: 2\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_009246533.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_017210121.1
COORDINATES: similar to AA sequence:RefSeq:WP_009170268.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_003365006.1
permease prefix domain 1-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_003364954.1
COORDINATES: similar to AA sequence:RefSeq:WP_015394149.1
COORDINATES: similar to AA sequence:RefSeq:WP_015310966.1
nucleotidyltransferase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_016104097.1
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:NF013235.2
COORDINATES: protein motif:HMM:NF015431.2
COORDINATES: similar to AA sequence:RefSeq:WP_004440830.1
GO:0046429 - 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase activity [Evidence IEA]
GO:0044237 - cellular metabolic process [Evidence IEA]
flavodoxin-dependent (E)-4-hydroxy-3-methylbut-2-enyl-diphosphate synthase
COORDINATES: protein motif:HMM:NF024252.2
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_010075531.1
COORDINATES: similar to AA sequence:RefSeq:WP_013239887.1
COORDINATES: similar to AA sequence:RefSeq:WP_007061216.1
sigma-70 family RNA polymerase sigma factor
COORDINATES: protein motif:HMM:NF014543.2
COORDINATES: similar to AA sequence:RefSeq:WP_076611787.1
GO:0004803 - transposase activity [Evidence IEA]
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_015736533.1
COORDINATES: protein motif:HMM:NF014566.2
CPBP family intramembrane metalloprotease
COORDINATES: similar to AA sequence:RefSeq:WP_003516828.1
COORDINATES: similar to AA sequence:RefSeq:WP_009623927.1
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009623926.1
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_000276110.1
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_011017159.1
PDDEXK nuclease domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_015197389.1
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: protein motif:HMM:NF024427.2
COORDINATES: similar to AA sequence:RefSeq:WP_013720987.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012344391.1
COORDINATES: similar to AA sequence:RefSeq:WP_011986174.1
COORDINATES: protein motif:HMM:NF019487.2
COORDINATES: protein motif:HMM:NF013954.2
COORDINATES: similar to AA sequence:RefSeq:WP_003479463.1
COORDINATES: protein motif:HMM:NF013776.2
COORDINATES: similar to AA sequence:RefSeq:WP_014185416.1
COORDINATES: similar to AA sequence:RefSeq:WP_018767167.1
COORDINATES: protein motif:HMM:NF018184.2
COORDINATES: protein motif:HMM:NF012792.2
GO:0008080 - N-acetyltransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009169033.1
COORDINATES: protein motif:HMM:NF024603.2
GO:0003887 - DNA-directed DNA polymerase activity [Evidence IEA]
GO:0006270 - DNA replication initiation [Evidence IEA]
RepB family plasmid replication initiator protein
COORDINATES: protein motif:HMM:NF024573.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF025015.2
COORDINATES: similar to AA sequence:RefSeq:WP_007062201.1
COORDINATES: similar to AA sequence:RefSeq:WP_011133547.1
Lsa family ABC-F type ribosomal protection protein
COORDINATES: similar to AA sequence:RefSeq:WP_015614995.1
COORDINATES: similar to AA sequence:RefSeq:WP_006096998.1
GO:0051540 - metal cluster binding [Evidence IEA]
GO:0008150 - biological_process [Evidence IEA]
Nif3-like dinuclear metal center hexameric protein
COORDINATES: protein motif:HMM:TIGR02937.1
COORDINATES: similar to AA sequence:RefSeq:WP_003429584.1
COORDINATES: protein motif:HMM:NF024110.2
COORDINATES: protein motif:HMM:NF027437.2
COORDINATES: similar to AA sequence:RefSeq:WP_003360880.1
COORDINATES: similar to AA sequence:RefSeq:WP_007061243.1
COORDINATES: similar to AA sequence:RefSeq:WP_010076329.1
COORDINATES: similar to AA sequence:RefSeq:WP_015043757.1
GO:0003964 - RNA-directed DNA polymerase activity [Evidence IEA]
GO:0000373 - Group II intron splicing [Evidence IEA]
group II intron reverse transcriptase/maturase
COORDINATES: protein motif:HMM:NF013862.2
patatin-like phospholipase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_011590509.1
GO:0004479 - methionyl-tRNA formyltransferase activity [Evidence IEA]
GO:0006431 - methionyl-tRNA aminoacylation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012068313.1
COORDINATES: similar to AA sequence:RefSeq:WP_017212359.1
type 1 glutamine amidotransferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_012450589.1
COORDINATES: similar to AA sequence:RefSeq:WP_003478921.1
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_015392280.1
COORDINATES: similar to AA sequence:RefSeq:WP_015392279.1
COORDINATES: similar to AA sequence:RefSeq:WP_009171072.1
UDP-N-acetylglucosamine pyrophosphorylase
COORDINATES: similar to AA sequence:RefSeq:WP_003485363.1
COORDINATES: similar to AA sequence:RefSeq:WP_003357103.1
COORDINATES: similar to AA sequence:RefSeq:WP_003460404.1
COORDINATES: similar to AA sequence:RefSeq:WP_010965769.1
COORDINATES: similar to AA sequence:RefSeq:WP_016121195.1
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_008424638.1
COORDINATES: protein motif:HMM:NF025054.2
COORDINATES: similar to AA sequence:RefSeq:WP_010963394.1
COORDINATES: protein motif:HMM:NF014717.2
COORDINATES: similar to AA sequence:RefSeq:WP_004454608.1
COORDINATES: protein motif:HMM:NF024088.2
COORDINATES: protein motif:HMM:NF013676.2
COORDINATES: protein motif:HMM:NF024812.2
COORDINATES: similar to AA sequence:RefSeq:WP_003485939.1
COORDINATES: similar to AA sequence:RefSeq:WP_016728863.1
COORDINATES: protein motif:HMM:NF033592.1
COORDINATES: similar to AA sequence:RefSeq:WP_009896762.1
COORDINATES: similar to AA sequence:RefSeq:WP_003493690.1
COORDINATES: similar to AA sequence:RefSeq:WP_007062905.1
COORDINATES: similar to AA sequence:RefSeq:WP_008426239.1
COORDINATES: similar to AA sequence:RefSeq:WP_010966791.1
COORDINATES: similar to AA sequence:RefSeq:WP_017210453.1
pyridoxamine 5'-phosphate oxidase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_002676461.1
COORDINATES: similar to AA sequence:RefSeq:WP_015757465.1
COORDINATES: similar to AA sequence:RefSeq:WP_012860955.1
COORDINATES: similar to AA sequence:RefSeq:WP_011021024.1
COORDINATES: protein motif:HMM:NF018290.2
COORDINATES: similar to AA sequence:RefSeq:WP_003488808.1
COORDINATES: similar to AA sequence:RefSeq:WP_003494617.1
COORDINATES: similar to AA sequence:RefSeq:WP_012102957.1
COORDINATES: similar to AA sequence:RefSeq:WP_003483104.1
HAMP domain-containing sensor histidine kinase
COORDINATES: similar to AA sequence:RefSeq:WP_003494611.1
COORDINATES: similar to AA sequence:RefSeq:WP_003494609.1
COORDINATES: similar to AA sequence:RefSeq:WP_012343794.1
COORDINATES: similar to AA sequence:RefSeq:WP_017415299.1
COORDINATES: similar to AA sequence:RefSeq:WP_016130010.1
COORDINATES: similar to AA sequence:RefSeq:WP_007785668.1
COORDINATES: similar to AA sequence:RefSeq:WP_016106987.1
COORDINATES: similar to AA sequence:RefSeq:WP_006036535.1
COORDINATES: protein motif:HMM:NF024698.2
COORDINATES: protein motif:HMM:NF024711.2
COORDINATES: similar to AA sequence:RefSeq:WP_017210594.1
COORDINATES: similar to AA sequence:RefSeq:WP_012159837.1
COORDINATES: protein motif:HMM:NF013077.2
COORDINATES: similar to AA sequence:RefSeq:WP_006234618.1
MerR family DNA-binding transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_007216277.1
COORDINATES: similar to AA sequence:RefSeq:WP_003443439.1
COORDINATES: similar to AA sequence:RefSeq:WP_003443449.1
COORDINATES: similar to AA sequence:RefSeq:WP_008698451.1
COORDINATES: similar to AA sequence:RefSeq:WP_002571301.1
carboxymuconolactone decarboxylase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_008791533.1
COORDINATES: similar to AA sequence:RefSeq:WP_019686216.1
COORDINATES: protein motif:HMM:NF013752.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005541526.1
PhzF family phenazine biosynthesis protein
COORDINATES: similar to AA sequence:RefSeq:WP_011011789.1
COORDINATES: similar to AA sequence:RefSeq:WP_006440795.1
frameshifted; internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_016175016.1
COORDINATES: similar to AA sequence:RefSeq:WP_000842529.1
COORDINATES: similar to AA sequence:RefSeq:WP_000607095.1
COORDINATES: protein motif:HMM:NF027787.2
COORDINATES: similar to AA sequence:RefSeq:WP_018590766.1
COORDINATES: similar to AA sequence:RefSeq:WP_003364930.1
GO:0008233 - peptidase activity [Evidence IEA]
GO:0009372 - quorum sensing [Evidence IEA]
accessory gene regulator B family protein
COORDINATES: similar to AA sequence:RefSeq:WP_013725616.1
COORDINATES: protein motif:HMM:NF025854.2
COORDINATES: similar to AA sequence:RefSeq:WP_003375123.1
LytTR family DNA-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_010291910.1