Alicyclobacillus acidocaldarius subsp. acidocaldarius DSM 446 plasmid pAACI01, complete sequence.
Alicyclobacillus acidocaldarius subsp. acidocaldarius DSM 446
Bacteria; Bacillota; Bacilli; Bacillales; Alicyclobacillaceae; Alicyclobacillus.
Complete genome sequence of Alicyclobacillus acidocaldarius type strain (104-IA)
The complete plasmid1 of Alicyclobacillus acidocaldarius subsp. acidocaldarius DSM 446
Submitted (03-SEP-2009) US DOE Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA 94598-1698, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP001728.1.\nURL -- http://www.jgi.doe.gov\nJGI Project ID: 4083332\nSource DNA and organism available from Hans-Peter Klenk at the\nGerman Collection of Microorganisms and Cell Cultures (DSMZ)\n(hans-peter.klenk@dsmz.de)\nContacts: Jonathan A. Eisen (jaeisen@ucdavis.edu)\n David Bruce (microbe@cuba.jgi-psf.org)\nWhole genome sequencing and draft assembly at JGI-PGF\nFinishing done by JGI-LANL\nAnnotation by JGI-ORNL and JGI-PGF\nThe JGI and collaborators endorse the principles for the\ndistribution and use of large scale sequencing data adopted by the\nlarger genome sequencing community and urge users of this data to\nfollow them. It is our intention to publish the work of this\nproject in a timely fashion and we welcome collaborative\ninteraction on the project and analysis.\n(http://www.genome.gov/page.cfm?pageID=10506376).\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##Metadata-START##\nOrganism Display Name :: Alicyclobacillus acidocaldarius\n acidocaldarius 104-IA, DSM 446\nCulture Collection ID :: DSM 446, ATCC 27009\nGOLD Stamp ID :: Gi02324\nFunding Program :: DOE-GEBA 2007\nGene Calling Method :: GeneMark\nIsolation Site :: \"Yellowstone National Park, acid hot\n spring\"\nIsolation Country :: USA\nLatitude :: 44.376262\nLongitude :: -110.690383\nOxygen Requirement :: Aerobe\nCell Shape :: Rod-shaped\nSporulation :: Sporulating\nTemperature Range :: Thermophile\nTemperature Optimum :: 60C\npH :: 3 - 4\nGram Staining :: gram+\nBiotic Relationship :: Free living\nDiseases :: None\nPhenotypes :: Thermoacidophile\nEnergy Source :: Chemoorganotroph\n##Metadata-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 05/02/2023 01:38:04\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.5\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 3,188\nCDSs (total) :: 3,104\nGenes (coding) :: 3,066\nCDSs (with protein) :: 3,066\nGenes (RNA) :: 84\nrRNAs :: 6, 6, 6 (5S, 16S, 23S)\ncomplete rRNAs :: 6, 6, 6 (5S, 16S, 23S)\ntRNAs :: 62\nncRNAs :: 4\nPseudo Genes (total) :: 38\nCDSs (without protein) :: 38\nPseudo Genes (ambiguous residues) :: 0 of 38\nPseudo Genes (frameshifted) :: 11 of 38\nPseudo Genes (incomplete) :: 28 of 38\nPseudo Genes (internal stop) :: 7 of 38\nPseudo Genes (multiple problems) :: 8 of 38\nCRISPR Arrays :: 4\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
type strain of Alicyclobacillus acidocaldarius
COORDINATES: similar to AA sequence:RefSeq:WP_014464578.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_015759774.1
COORDINATES: similar to AA sequence:RefSeq:WP_008338886.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_003228377.1
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
helix-turn-helix transcriptional regulator
COORDINATES: protein motif:HMM:NF012920.2
COORDINATES: similar to AA sequence:RefSeq:WP_013074903.1
COORDINATES: protein motif:HMM:NF028245.2
COORDINATES: similar to AA sequence:RefSeq:WP_006445308.1
COORDINATES: similar to AA sequence:RefSeq:WP_006445309.1
COORDINATES: similar to AA sequence:RefSeq:WP_012812161.1
COORDINATES: similar to AA sequence:RefSeq:WP_006445314.1
COORDINATES: similar to AA sequence:RefSeq:WP_008338904.1
COORDINATES: similar to AA sequence:RefSeq:WP_012812164.1
COORDINATES: similar to AA sequence:RefSeq:WP_008338908.1
COORDINATES: similar to AA sequence:RefSeq:WP_006445318.1
COORDINATES: similar to AA sequence:RefSeq:WP_006445319.1
COORDINATES: similar to AA sequence:RefSeq:WP_008338913.1
COORDINATES: similar to AA sequence:RefSeq:WP_012812169.1
transglycosylase SLT domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006445322.1
COORDINATES: similar to AA sequence:RefSeq:WP_008338916.1
COORDINATES: similar to AA sequence:RefSeq:WP_008338928.1
COORDINATES: similar to AA sequence:RefSeq:WP_008338929.1
COORDINATES: similar to AA sequence:RefSeq:WP_015759704.1
COORDINATES: similar to AA sequence:RefSeq:WP_008338931.1
COORDINATES: similar to AA sequence:RefSeq:WP_008338932.1
COORDINATES: similar to AA sequence:RefSeq:WP_008338933.1
COORDINATES: similar to AA sequence:RefSeq:WP_006445329.1
COORDINATES: similar to AA sequence:RefSeq:WP_006445330.1
COORDINATES: similar to AA sequence:RefSeq:WP_008338938.1
COORDINATES: similar to AA sequence:RefSeq:WP_015759710.1
COORDINATES: similar to AA sequence:RefSeq:WP_008338940.1
COORDINATES: similar to AA sequence:RefSeq:WP_008338943.1
COORDINATES: protein motif:HMM:NF033517.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012976042.1
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.
IS66 family insertion sequence element accessory protein TnpB
COORDINATES: similar to AA sequence:RefSeq:WP_012812175.1
COORDINATES: similar to AA sequence:RefSeq:WP_014464833.1
incomplete; partial in the middle of a contig; missing N-terminus; 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+.
carboxymuconolactone decarboxylase family protein
COORDINATES: protein motif:HMM:NF014805.2
COORDINATES: protein motif:HMM:NF019310.2
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: protein motif:HMM:NF040539.1
putative arsinothricin biosynthesis methyltransferase ArsM
COORDINATES: similar to AA sequence:RefSeq:WP_015759721.1
COORDINATES: similar to AA sequence:RefSeq:WP_007910121.1
GO:0015267 - channel activity [Evidence IEA]
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_013144809.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611565.1
frameshifted; internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_009592557.1
arsinothricin resistance N-acetyltransferase ArsN1
COORDINATES: similar to AA sequence:RefSeq:WP_008338713.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: protein motif:HMM:NF013970.2
COORDINATES: similar to AA sequence:RefSeq:WP_006864618.1
AbrB/MazE/SpoVT family DNA-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008338715.1
COORDINATES: similar to AA sequence:RefSeq:WP_008338723.1
COORDINATES: similar to AA sequence:RefSeq:WP_008338724.1
COORDINATES: similar to AA sequence:RefSeq:WP_008338726.1
COORDINATES: protein motif:HMM:NF014505.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0004521 - endoribonuclease activity [Evidence IEA]; GO:0003723 - RNA binding [Evidence IEA]
type II toxin-antitoxin system PemK/MazF family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_006445360.1
ArdC-like ssDNA-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_015614985.1
COORDINATES: similar to AA sequence:RefSeq:WP_008338736.1
GO:0009360 - DNA polymerase III complex [Evidence IEA]
GO:0003887 - DNA-directed DNA polymerase activity [Evidence IEA]
GO:0006260 - DNA replication [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008338739.1
LysM peptidoglycan-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_015759738.1
COORDINATES: similar to AA sequence:RefSeq:WP_006445355.1
COORDINATES: similar to AA sequence:RefSeq:WP_008338745.1
COORDINATES: similar to AA sequence:RefSeq:WP_008338747.1
COORDINATES: similar to AA sequence:RefSeq:WP_008338753.1
COORDINATES: similar to AA sequence:RefSeq:WP_008338756.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003896 - DNA primase activity [Evidence IEA]; GO:0008270 - zinc ion binding [Evidence IEA]
CHC2 zinc finger domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006445346.1
COORDINATES: similar to AA sequence:RefSeq:WP_008338765.1
TraM recognition domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008338774.1
COORDINATES: similar to AA sequence:RefSeq:WP_008338776.1
COORDINATES: similar to AA sequence:RefSeq:WP_015759750.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0004386 - helicase activity [Evidence IEA]; GO:0003676 - nucleic acid binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008338781.1
GO:0030261 - chromosome condensation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008338786.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]; GO:0004386 - helicase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006445422.1
COORDINATES: similar to AA sequence:RefSeq:WP_014465205.1
COORDINATES: similar to AA sequence:RefSeq:WP_006445424.1
COORDINATES: protein motif:HMM:NF014273.2
ParB N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008338839.1
COORDINATES: similar to AA sequence:RefSeq:WP_008338840.1
COORDINATES: protein motif:HMM:NF013540.2
COORDINATES: similar to AA sequence:RefSeq:WP_006446793.1
COORDINATES: similar to AA sequence:RefSeq:WP_008338861.1
COORDINATES: similar to AA sequence:RefSeq:WP_006445298.1
COORDINATES: similar to AA sequence:RefSeq:WP_008338867.1
COORDINATES: similar to AA sequence:RefSeq:WP_008338868.1
COORDINATES: similar to AA sequence:RefSeq:WP_006445300.1
COORDINATES: similar to AA sequence:RefSeq:WP_006445303.1
COORDINATES: similar to AA sequence:RefSeq:WP_003531051.1