Clostridium taeniosporum strain 1/k plasmid pCt3, complete sequence.
Bacteria; Bacillota; Clostridia; Eubacteriales; Clostridiaceae; Clostridium.
Genomics of Clostridium taeniosporum, an organism which forms endospores with ribbon-like appendages
Submitted (11-JUL-2017) Molecular Biosciences, University of Texas, 2506 Speedway Stop A5000, Austin, TX 78712, USA
Submitted (06-SEP-2016) Molecular Biosciences, University of Texas, 2506 Speedway Stop A5000, Austin, TX 78712, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP017256.2.\n\nOn Mar 7, 2018 this sequence version replaced NZ_CP017256.1.\nSource bacteria are available from James R. Walker, Department of\nMolecular Biosciences, University of Texas, 2506 Speedway Stop\nA5000, Austin, TX 78712.\n\nAnnotation modified by submitter.\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 :: Newbler v. 2.7; Consed v. 22.0\nGenome Coverage :: 56x;900x\nSequencing Technology :: 454; Illumina; Sanger dideoxy sequencing\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 03/13/2023 10:05:00\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) :: 3,232\nCDSs (total) :: 3,127\nGenes (coding) :: 3,067\nCDSs (with protein) :: 3,067\nGenes (RNA) :: 105\nrRNAs :: 8, 7, 7 (5S, 16S, 23S)\ncomplete rRNAs :: 8, 7, 7 (5S, 16S, 23S)\ntRNAs :: 78\nncRNAs :: 5\nPseudo Genes (total) :: 60\nCDSs (without protein) :: 60\nPseudo Genes (ambiguous residues) :: 0 of 60\nPseudo Genes (frameshifted) :: 43 of 60\nPseudo Genes (incomplete) :: 17 of 60\nPseudo Genes (internal stop) :: 12 of 60\nPseudo Genes (multiple problems) :: 11 of 60\nCRISPR Arrays :: 2\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_002566133.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]; GO:0016787 - hydrolase activity [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_013777936.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_005609868.1
frameshifted; internal stop; 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_003427115.1
COORDINATES: similar to AA sequence:RefSeq:WP_017352411.1
sigma-70 family RNA polymerase sigma factor
COORDINATES: similar to AA sequence:RefSeq:WP_017352404.1
GO:0004197 - cysteine-type endopeptidase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009168931.1
phosphodiester glycosidase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_009170166.1
COORDINATES: similar to AA sequence:RefSeq:WP_017825577.1
COORDINATES: similar to AA sequence:RefSeq:WP_017826427.1
COORDINATES: similar to AA sequence:RefSeq:WP_010964727.1
COORDINATES: similar to AA sequence:RefSeq:WP_015392459.1
COORDINATES: similar to AA sequence:RefSeq:WP_003371568.1
COORDINATES: similar to AA sequence:RefSeq:WP_010966693.1
COORDINATES: similar to AA sequence:RefSeq:WP_015395869.1
COORDINATES: similar to AA sequence:RefSeq:WP_015395868.1
COORDINATES: similar to AA sequence:RefSeq:WP_017352450.1
type II toxin-antitoxin system prevent-host-death family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_017352487.1
COORDINATES: similar to AA sequence:RefSeq:WP_017352486.1
COORDINATES: similar to AA sequence:RefSeq:WP_008399423.1
COORDINATES: similar to AA sequence:RefSeq:WP_007862163.1
COORDINATES: similar to AA sequence:RefSeq:WP_003493033.1
COORDINATES: similar to AA sequence:RefSeq:WP_002576190.1
COORDINATES: similar to AA sequence:RefSeq:WP_015390946.1
GO:0004789 - thiamine-phosphate diphosphorylase activity [Evidence IEA]
GO:0009228 - thiamine biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012060644.1
GO:0004417 - hydroxyethylthiazole kinase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004617507.1
GO:0051536 - iron-sulfur cluster binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017211135.1
GO:0008902 - hydroxymethylpyrimidine kinase activity [Evidence IEA]; GO:0008972 - phosphomethylpyrimidine kinase activity [Evidence IEA]
bifunctional hydroxymethylpyrimidine kinase/phosphomethylpyrimidine kinase
COORDINATES: similar to AA sequence:RefSeq:WP_009168529.1
GO:0005215 - transporter activity [Evidence IEA]
GO:0009228 - thiamine biosynthetic process [Evidence IEA]; GO:0006810 - transport [Evidence IEA]
energy coupling factor transporter S component ThiW
COORDINATES: nucleotide motif:Rfam:14.4:RF00059
TPP riboswitch; Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: protein motif:HMM:TIGR04104.1
COORDINATES: similar to AA sequence:RefSeq:WP_003370974.1
COORDINATES: similar to AA sequence:RefSeq:WP_012060153.1
GO:0004252 - serine-type endopeptidase activity [Evidence IEA]
GO:0009306 - protein secretion [Evidence IEA]; GO:0006465 - signal peptide processing [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017826591.1
COORDINATES: protein motif:HMM:NF013677.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
COORDINATES: protein motif:HMM:NF033516.0
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF020569.2
COORDINATES: similar to AA sequence:RefSeq:WP_010966638.1
COORDINATES: similar to AA sequence:RefSeq:WP_014519059.1
COORDINATES: similar to AA sequence:RefSeq:WP_012060546.1
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_017353300.1
COORDINATES: similar to AA sequence:RefSeq:WP_017353299.1
COORDINATES: similar to AA sequence:RefSeq:WP_017353292.1
COORDINATES: similar to AA sequence:RefSeq:WP_015390549.1
COORDINATES: similar to AA sequence:RefSeq:WP_017825199.1
COORDINATES: similar to AA sequence:RefSeq:WP_017353289.1
COORDINATES: similar to AA sequence:RefSeq:WP_017825201.1
COORDINATES: similar to AA sequence:RefSeq:WP_017353287.1
COORDINATES: similar to AA sequence:RefSeq:WP_015390536.1
COORDINATES: similar to AA sequence:RefSeq:WP_015395871.1
COORDINATES: similar to AA sequence:RefSeq:WP_012451822.1
patatin-like phospholipase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_009252231.1
COORDINATES: similar to AA sequence:RefSeq:WP_003371086.1
COORDINATES: similar to AA sequence:RefSeq:WP_019162962.1
COORDINATES: similar to AA sequence:RefSeq:WP_017210589.1
COORDINATES: similar to AA sequence:RefSeq:WP_015392014.1
COORDINATES: similar to AA sequence:RefSeq:WP_014519944.1
COORDINATES: similar to AA sequence:RefSeq:WP_012450414.1
COORDINATES: similar to AA sequence:RefSeq:WP_008419143.1
COORDINATES: similar to AA sequence:RefSeq:WP_016268700.1
COORDINATES: similar to AA sequence:RefSeq:WP_012422829.1
COORDINATES: similar to AA sequence:RefSeq:WP_012059148.1
COORDINATES: protein motif:HMM:NF038403.1
permease prefix domain 1-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_013238282.1
COORDINATES: similar to AA sequence:RefSeq:WP_007060412.1
COORDINATES: similar to AA sequence:RefSeq:WP_017352236.1
aminoglycoside phosphotransferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_017210434.1
COORDINATES: similar to AA sequence:RefSeq:WP_012058717.1
galactose ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_007062909.1
GO:0008080 - N-acetyltransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019156504.1
COORDINATES: similar to AA sequence:RefSeq:WP_019424399.1
COORDINATES: similar to AA sequence:RefSeq:WP_017825879.1
COORDINATES: similar to AA sequence:RefSeq:WP_017413940.1
COORDINATES: similar to AA sequence:RefSeq:WP_017895001.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_017352439.1
COORDINATES: similar to AA sequence:RefSeq:WP_003423881.1
COORDINATES: protein motif:HMM:NF024629.2
COORDINATES: nucleotide motif:Rfam:14.4:RF00174
cobalamin riboswitch; Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: protein motif:HMM:NF020400.2
COORDINATES: similar to AA sequence:RefSeq:WP_010698768.1
ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_005426666.1
COORDINATES: similar to AA sequence:RefSeq:WP_013725893.1
COORDINATES: similar to AA sequence:RefSeq:WP_017352453.1
COORDINATES: protein motif:HMM:NF013590.2
COORDINATES: protein motif:HMM:NF017464.2
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.
M13 family metallopeptidase N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_015392968.1
COORDINATES: protein motif:HMM:NF027483.2
COORDINATES: similar to AA sequence:RefSeq:WP_012720743.1
COORDINATES: similar to AA sequence:RefSeq:WP_008420431.1
COORDINATES: similar to AA sequence:RefSeq:WP_003493059.1
TetR/AcrR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_015394980.1
COORDINATES: protein motif:HMM:NF016146.2
GO:0004518 - nuclease activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012450723.1
COORDINATES: similar to AA sequence:RefSeq:WP_010298021.1
HAMP domain-containing sensor histidine kinase
COORDINATES: similar to AA sequence:RefSeq:WP_012451869.1
COORDINATES: similar to AA sequence:RefSeq:WP_011010029.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003477110.1
GO:0102039 - NADH-dependent peroxiredoxin activity [Evidence IEA]
GO:0006979 - response to oxidative stress [Evidence IEA]
COORDINATES: protein motif:HMM:NF015336.2
GO:2001070 - starch binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003492930.1
BtrH N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_003492932.1
COORDINATES: similar to AA sequence:RefSeq:WP_016729104.1
COORDINATES: protein motif:HMM:NF033517.1
COORDINATES: protein motif:HMM:NF017528.2
TnpB, as the term is used for proteins encoded by IS66 family insertion elements, is considered an accessory protein, since TnpC, encoded by a neighboring gene, is a DDE family transposase; Derived by automated computational analysis using gene prediction method: Protein Homology.
IS66 family insertion sequence element accessory protein TnpB
COORDINATES: similar to AA sequence:RefSeq:WP_009168819.1
COORDINATES: similar to AA sequence:RefSeq:WP_011967707.1
COORDINATES: similar to AA sequence:RefSeq:WP_008424637.1
COORDINATES: protein motif:HMM:NF013703.2
GO:0015297 - antiporter activity [Evidence IEA]; GO:0042910 - xenobiotic transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003374619.1
COORDINATES: similar to AA sequence:RefSeq:WP_017825826.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0003676 - nucleic acid binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004431176.1
COORDINATES: similar to AA sequence:RefSeq:WP_007062001.1
GO:0016810 - hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds [Evidence IEA]
GO:0005975 - carbohydrate metabolic process [Evidence IEA]
polysaccharide deacetylase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_015391841.1
frameshifted; 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:TIGR01655.1
COORDINATES: protein motif:HMM:NF012235.2
ATP-binding cassette domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_017210847.1
COORDINATES: similar to AA sequence:RefSeq:WP_010076340.1
COORDINATES: similar to AA sequence:RefSeq:WP_003374730.1
COORDINATES: similar to AA sequence:RefSeq:WP_016149266.1
GO:0015293 - symporter activity [Evidence IEA]
GO:0032329 - serine transport [Evidence IEA]; GO:0015826 - threonine transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003493792.1
COORDINATES: protein motif:HMM:NF022577.2
COORDINATES: similar to AA sequence:RefSeq:WP_017353089.1
COORDINATES: similar to AA sequence:RefSeq:WP_012450730.1
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_012449744.1
DUF4097 family beta strand repeat-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_009172703.1
COORDINATES: similar to AA sequence:RefSeq:WP_015393794.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0016301 - kinase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015393795.1
COORDINATES: similar to AA sequence:RefSeq:WP_013370044.1
COORDINATES: similar to AA sequence:RefSeq:WP_003373678.1
COORDINATES: similar to AA sequence:RefSeq:WP_003373833.1
COORDINATES: similar to AA sequence:RefSeq:WP_003361508.1
COORDINATES: similar to AA sequence:RefSeq:WP_014519979.1