Alicyclobacillus acidoterrestris strain DSM 3922 plasmid pDSM3922.1, complete sequence.
Bacteria; Bacillota; Bacilli; Bacillales; Alicyclobacillaceae; Alicyclobacillus.
Unveiling the complete genome sequence of Alicyclobacillus acidoterrestris DSM 3922T, a taint-producing strain
Submitted (30-JUL-2021) Food & Health Division, iBET, Av. Republica, Oeiras 2781-901, Portugal
REFSEQ INFORMATION: The reference sequence is identical to\nCP080468.1.\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 :: MAY-2021\nAssembly Method :: SPAdes v. MAY-2021\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 156.0x\nSequencing Technology :: Oxford Nanopore; Illumina\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 02/06/2023 20:45:30\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) :: 4,311\nCDSs (total) :: 4,136\nGenes (coding) :: 4,035\nCDSs (with protein) :: 4,035\nGenes (RNA) :: 175\nrRNAs :: 13, 13, 13 (5S, 16S, 23S)\ncomplete rRNAs :: 13, 13, 13 (5S, 16S, 23S)\ntRNAs :: 131\nncRNAs :: 5\nPseudo Genes (total) :: 101\nCDSs (without protein) :: 101\nPseudo Genes (ambiguous residues) :: 0 of 101\nPseudo Genes (frameshifted) :: 44 of 101\nPseudo Genes (incomplete) :: 64 of 101\nPseudo Genes (internal stop) :: 15 of 101\nPseudo Genes (multiple problems) :: 21 of 101\nCRISPR Arrays :: 1\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
type strain of Alicyclobacillus acidoterrestris
COORDINATES: protein motif:HMM:NF012694.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
type II secretion system F family protein
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF018148.2
COORDINATES: similar to AA sequence:RefSeq:WP_012809578.1
AbrB/MazE/SpoVT family DNA-binding domain-containing protein
COORDINATES: protein motif:HMM:NF039495.1
COORDINATES: similar to AA sequence:RefSeq:WP_009361076.1
GO:0003697 - single-stranded DNA binding [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]; GO:0006281 - DNA repair [Evidence IEA]; GO:0006260 - DNA replication [Evidence IEA]; GO:0006351 - DNA-templated transcription [Evidence IEA]
COORDINATES: protein motif:HMM:NF024573.2
COORDINATES: similar to AA sequence:RefSeq:WP_015759738.1
COORDINATES: protein motif:HMM:NF013930.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0003896 - DNA primase activity [Evidence IEA]; GO:0008270 - zinc ion binding [Evidence IEA]
GO:0006260 - DNA replication [Evidence IEA]
CHC2 zinc finger domain-containing protein
COORDINATES: protein motif:HMM:TIGR00663.1
GO:0009360 - DNA polymerase III complex [Evidence IEA]
GO:0003887 - DNA-directed DNA polymerase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF040105.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF039653.1
COORDINATES: similar to AA sequence:RefSeq:WP_010530616.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF025642.2
COORDINATES: similar to AA sequence:RefSeq:WP_008338713.1
COORDINATES: protein motif:HMM:TIGR00051.1
GO:0047617 - acyl-CoA hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007781419.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
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:NF025107.2
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_015759750.1
COORDINATES: protein motif:HMM:NF016214.2
COORDINATES: protein motif:HMM:NF012234.2
COORDINATES: protein motif:HMM:NF039493.1
COORDINATES: similar to AA sequence:RefSeq:WP_006447483.1
COORDINATES: protein motif:HMM:NF040179.1
COORDINATES: protein motif:HMM:NF013618.2
transglycosylase SLT domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_017815744.1
COORDINATES: protein motif:HMM:NF012772.2
COORDINATES: protein motif:HMM:NF037161.2
COORDINATES: protein motif:HMM:NF025186.2
COORDINATES: protein motif:HMM:NF021507.2
phosphodiester glycosidase family protein
COORDINATES: protein motif:HMM:NF014626.2
COORDINATES: protein motif:HMM:NF019976.2
nuclease-related domain-containing protein
COORDINATES: protein motif:HMM:NF014273.2
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_013487430.1
COORDINATES: protein motif:HMM:NF013252.2
COORDINATES: protein motif:HMM:NF024949.2
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_003512473.1
COORDINATES: similar to AA sequence:RefSeq:WP_013236856.1
COORDINATES: protein motif:HMM:TIGR00644.1
GO:0008297 - single-stranded DNA exodeoxyribonuclease activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]
single-stranded-DNA-specific exonuclease RecJ
COORDINATES: protein motif:HMM:NF024811.2
COORDINATES: protein motif:HMM:NF013088.2
COORDINATES: protein motif:HMM:NF012514.2
COORDINATES: similar to AA sequence:RefSeq:WP_002486718.1
COORDINATES: protein motif:HMM:NF024642.2
COORDINATES: protein motif:HMM:NF024108.2
TraM recognition domain-containing protein
COORDINATES: protein motif:HMM:NF020438.2
COORDINATES: similar to AA sequence:RefSeq:WP_014465205.1
COORDINATES: protein motif:HMM:NF024835.2
COORDINATES: similar to AA sequence:RefSeq:WP_006717170.1
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF025080.2
IS66 family insertion sequence element accessory protein TnpB
COORDINATES: similar to AA sequence:RefSeq:WP_012976048.1
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.
COORDINATES: similar to AA sequence:RefSeq:WP_011641585.1
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_013490471.1
COORDINATES: similar to AA sequence:RefSeq:WP_006447889.1
GO:0009847 - spore germination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011194944.1
COORDINATES: protein motif:HMM:TIGR02887.1
GO:0030436 - asexual sporulation [Evidence IEA]; GO:0009847 - spore germination [Evidence IEA]
Ger(x)C family spore germination protein
COORDINATES: similar to AA sequence:RefSeq:WP_006447893.1
COORDINATES: similar to AA sequence:RefSeq:WP_010532228.1
COORDINATES: similar to AA sequence:RefSeq:WP_013570612.1
SDR family NAD(P)-dependent oxidoreductase
COORDINATES: similar to AA sequence:RefSeq:WP_014464667.1
COORDINATES: protein motif:HMM:NF035925.1
This protein is homologous to geobacillin 26, a large bacteriocin (245 amino acids) that was found in the thermophile Geobacillus sp. 15, and that has an unknown mechanism of action; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF013793.2
COORDINATES: protein motif:HMM:NF020250.2
COORDINATES: protein motif:HMM:NF012652.2