Alicyclobacillus fastidiosus strain DSM 17978 plasmid unnamed1, complete sequence.
Bacteria; Bacillota; Bacilli; Bacillales; Alicyclobacillaceae; Alicyclobacillus.
Alicyclobacillus fastidiosus DSM 17978, complete genome
Submitted (31-AUG-2022) College of Food Science and Engineering, Northwest A&F University, Yangling, Xianyang, Shaanxi 712100, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP104068.1.\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 :: Canu v. v1.5; GATK v. v1.6-13\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 420.17x\nSequencing Technology :: Illumina; PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/08/2022 12:01:32\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) :: 5,847\nCDSs (total) :: 5,663\nGenes (coding) :: 5,447\nCDSs (with protein) :: 5,447\nGenes (RNA) :: 184\nrRNAs :: 14, 15, 15 (5S, 16S, 23S)\ncomplete rRNAs :: 14, 15, 15 (5S, 16S, 23S)\ntRNAs :: 135\nncRNAs :: 5\nPseudo Genes (total) :: 216\nCDSs (without protein) :: 216\nPseudo Genes (ambiguous residues) :: 0 of 216\nPseudo Genes (frameshifted) :: 98 of 216\nPseudo Genes (incomplete) :: 136 of 216\nPseudo Genes (internal stop) :: 30 of 216\nPseudo Genes (multiple problems) :: 43 of 216\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
type strain of Alicyclobacillus fastidiosus
COORDINATES: similar to AA sequence:RefSeq:WP_008591734.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_012812059.1
GO:0051537 - 2 iron, 2 sulfur cluster binding [Evidence IEA]; GO:0051539 - 4 iron, 4 sulfur cluster binding [Evidence IEA]; GO:0004076 - biotin synthase activity [Evidence IEA]; GO:1904047 - S-adenosyl-L-methionine binding [Evidence IEA]
GO:0009102 - biotin biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_002173346.1
GO:0004015 - adenosylmethionine-8-amino-7-oxononanoate transaminase activity [Evidence IEA]
adenosylmethionine--8-amino-7-oxononanoate transaminase
COORDINATES: similar to AA sequence:RefSeq:WP_006521568.1
GO:0008710 - 8-amino-7-oxononanoate synthase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_000012511.1
GO:0004141 - dethiobiotin synthase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF002360.0
COORDINATES: protein motif:HMM:NF013540.2
helix-turn-helix transcriptional regulator
COORDINATES: protein motif:HMM:NF025910.2
COORDINATES: protein motif:HMM:NF013950.2
GO:0004190 - aspartic-type endopeptidase activity [Evidence IEA]
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.; 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: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF012698.2
helix-turn-helix domain-containing protein
COORDINATES: protein motif:HMM:NF037161.2
COORDINATES: protein motif:HMM:NF024803.2
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: protein motif:HMM:NF040423.1
COORDINATES: protein motif:HMM:NF022619.2
COORDINATES: protein motif:HMM:NF013252.2
COORDINATES: similar to AA sequence:RefSeq:WP_013823461.1
COORDINATES: similar to AA sequence:RefSeq:WP_013987123.1
COORDINATES: similar to AA sequence:RefSeq:WP_018704701.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008338908.1
COORDINATES: similar to AA sequence:RefSeq:WP_006445309.1
COORDINATES: similar to AA sequence:RefSeq:WP_006445308.1
COORDINATES: protein motif:HMM:NF013752.2
COORDINATES: protein motif:HMM:NF013311.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0003916 - DNA topoisomerase activity [Evidence IEA]
GO:0006265 - DNA topological change [Evidence IEA]
COORDINATES: protein motif:HMM:NF014581.2
type IV secretory system conjugative DNA transfer family protein
COORDINATES: protein motif:HMM:NF022580.2
COORDINATES: protein motif:HMM:NF016362.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0004519 - endonuclease activity [Evidence IEA]
GO:0009307 - DNA restriction-modification system [Evidence IEA]
COORDINATES: protein motif:HMM:NF024816.2
COORDINATES: similar to AA sequence:RefSeq:WP_013074275.1
COORDINATES: protein motif:HMM:NF024252.2
COORDINATES: nucleotide motif:Rfam:14.4:RF01051
cyclic di-GMP riboswitch class I; Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: protein motif:HMM:NF020438.2
COORDINATES: similar to AA sequence:RefSeq:WP_014465205.1
COORDINATES: similar to AA sequence:RefSeq:WP_019424883.1
COORDINATES: protein motif:HMM:NF012464.2
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: protein motif:HMM:NF015292.2
COORDINATES: protein motif:HMM:TIGR00912.1
GO:0009847 - spore germination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012033838.1
GO:0003677 - DNA binding [Evidence IEA]; 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_014463112.1
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_016107079.1
COORDINATES: protein motif:HMM:NF015783.2
COORDINATES: similar to AA sequence:RefSeq:WP_008591948.1
COORDINATES: nucleotide motif:Rfam:14.4:RF00380
The M-box (ykoK) riboswitch appears to function as a genetic 'off' switch that is important for maintaining magnesium homeostasis in bacteria; Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: protein motif:HMM:NF015413.2
COORDINATES: similar to AA sequence:RefSeq:WP_009171739.1
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: protein motif:HMM:NF033542.1
COORDINATES: protein motif:HMM:NF013698.2
COORDINATES: similar to AA sequence:RefSeq:WP_016743695.1
fumarylacetoacetate hydrolase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_014480326.1
COORDINATES: protein motif:HMM:NF012245.2
COORDINATES: similar to AA sequence:RefSeq:WP_004627032.1
COORDINATES: protein motif:HMM:NF019349.2
COORDINATES: similar to AA sequence:RefSeq:WP_015010028.1
COORDINATES: similar to AA sequence:RefSeq:WP_003220618.1
COORDINATES: protein motif:HMM:NF013918.2
ferric reductase-like transmembrane domain-containing protein
COORDINATES: protein motif:HMM:NF014477.2
COORDINATES: protein motif:HMM:NF013625.2
peptidoglycan-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006717451.1
COORDINATES: similar to AA sequence:RefSeq:WP_007785998.1
COORDINATES: similar to AA sequence:RefSeq:WP_008340082.1
COORDINATES: similar to AA sequence:RefSeq:WP_013074898.1
COORDINATES: similar to AA sequence:RefSeq:WP_005552026.1
frameshifted; 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:TIGR02937.1
COORDINATES: protein motif:HMM:NF025079.2
COORDINATES: similar to AA sequence:RefSeq:WP_012267176.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_012168287.1
COORDINATES: protein motif:HMM:NF013429.2
COORDINATES: similar to AA sequence:RefSeq:WP_013082573.1
GO:0070403 - NAD+ binding [Evidence IEA]
GO:0006631 - fatty acid metabolic process [Evidence IEA]
3-hydroxyacyl-CoA dehydrogenase NAD-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_014416859.1
COORDINATES: protein motif:HMM:NF019310.2
COORDINATES: protein motif:HMM:NF024874.2
COORDINATES: similar to AA sequence:RefSeq:WP_011389089.1
GO:0004751 - ribose-5-phosphate isomerase activity [Evidence IEA]
GO:0009052 - pentose-phosphate shunt, non-oxidative branch [Evidence IEA]
COORDINATES: protein motif:HMM:NF014753.2
COORDINATES: protein motif:HMM:TIGR02365.1
GO:0004371 - glycerone kinase activity [Evidence IEA]
GO:0006071 - glycerol metabolic process [Evidence IEA]
COORDINATES: protein motif:HMM:NF012349.2
COORDINATES: protein motif:HMM:NF012669.2
DeoR/GlpR family DNA-binding transcription regulator
COORDINATES: protein motif:HMM:NF019416.2
COORDINATES: protein motif:HMM:NF016432.2
LuxR C-terminal-related transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_009612827.1
COORDINATES: similar to AA sequence:RefSeq:WP_001280567.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0008170 - N-methyltransferase activity [Evidence IEA]
GO:0006306 - DNA methylation [Evidence IEA]
COORDINATES: protein motif:HMM:NF014825.2
GO:0046872 - metal ion binding [Evidence IEA]
SEC-C metal-binding domain-containing protein
COORDINATES: protein motif:HMM:NF033546.1
COORDINATES: protein motif:HMM:TIGR01528.1
GO:0015663 - nicotinamide mononucleotide transmembrane transporter activity [Evidence IEA]
GO:0015890 - nicotinamide mononucleotide transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018130281.1
COORDINATES: similar to AA sequence:RefSeq:WP_015049303.1
COORDINATES: protein motif:HMM:NF023043.2
COORDINATES: protein motif:HMM:NF024139.2
COORDINATES: protein motif:HMM:NF020036.2
COORDINATES: similar to AA sequence:RefSeq:WP_009361144.1
COORDINATES: protein motif:HMM:NF025107.2
COORDINATES: similar to AA sequence:RefSeq:WP_016113479.1
COORDINATES: similar to AA sequence:RefSeq:WP_012032558.1
internal stop; 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:NF012655.2
TetR/AcrR family transcriptional regulator
COORDINATES: protein motif:HMM:NF025025.2
COORDINATES: similar to AA sequence:RefSeq:WP_009225464.1
COORDINATES: similar to AA sequence:RefSeq:WP_011937768.1
COORDINATES: similar to AA sequence:RefSeq:WP_016093922.1
COORDINATES: protein motif:HMM:NF012422.2
COORDINATES: similar to AA sequence:RefSeq:WP_017815744.1
COORDINATES: protein motif:HMM:NF020442.2
COORDINATES: protein motif:HMM:NF020945.2
aspartyl-phosphate phosphatase Spo0E family protein
COORDINATES: similar to AA sequence:RefSeq:WP_003153447.1
COORDINATES: similar to AA sequence:RefSeq:WP_000147566.1
COORDINATES: similar to AA sequence:RefSeq:WP_016132757.1
GO:0004807 - triose-phosphate isomerase activity [Evidence IEA]
GO:0006096 - glycolytic process [Evidence IEA]
COORDINATES: protein motif:HMM:NF002881.0
GO:0004801 - transaldolase activity [Evidence IEA]
GO:0006098 - pentose-phosphate shunt [Evidence IEA]
COORDINATES: protein motif:HMM:NF013224.2
Lrp/AsnC family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_009336363.1
COORDINATES: similar to AA sequence:RefSeq:WP_019378193.1
COORDINATES: similar to AA sequence:RefSeq:WP_009052145.1
COORDINATES: similar to AA sequence:RefSeq:WP_003232964.1
ATP-binding cassette domain-containing protein
COORDINATES: protein motif:HMM:NF012706.2
peptide ABC transporter substrate-binding protein
COORDINATES: protein motif:HMM:NF012546.2
COORDINATES: similar to AA sequence:RefSeq:WP_013523924.1
COORDINATES: similar to AA sequence:RefSeq:WP_012606398.1
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_019536798.1