Tsukamurella paurometabola DSM 20162 plasmid pTpau01, complete sequence.
Bacteria; Actinomycetota; Actinomycetes; Mycobacteriales; Tsukamurellaceae; Tsukamurella.
Complete genome sequence of Tsukamurella paurometabola type strain (no. 33)
Submitted (04-MAR-2010) US DOE Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA 94598-1698, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP001967.1.\nURL -- http://www.jgi.doe.gov\nJGI Project ID: 4083016\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 :: Tsukamurella paurometabola DSM 20162\nCulture Collection ID :: DSM 20162, ATCC 8368\nGOLD Stamp ID :: Gi02254\nFunding Program :: DOE-GEBA 2007\nSequencing Depth :: 8.25x Sanger; 37.9x pyrosequence\nGene Calling Method :: Prodigal, GenePRIMP\nIsolation Site :: Cases of systemic infection, usually in\n association with other diseases\nHost Name :: Homo sapiens\nOxygen Requirement :: Aerobe\nCell Shape :: Rod-shaped\nMotility :: Nonmotile\nSporulation :: Nonsporulating\nTemperature Range :: Mesophile\nGram Staining :: gram+\nBiotic Relationship :: Free living\nDiseases :: None\nHabitat :: Sludge, Soil\n##Metadata-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 05/02/2023 01:39:15\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) :: 4,362\nCDSs (total) :: 4,305\nGenes (coding) :: 4,230\nCDSs (with protein) :: 4,230\nGenes (RNA) :: 57\nrRNAs :: 2, 2, 2 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 2, 2 (5S, 16S, 23S)\ntRNAs :: 48\nncRNAs :: 3\nPseudo Genes (total) :: 75\nCDSs (without protein) :: 75\nPseudo Genes (ambiguous residues) :: 0 of 75\nPseudo Genes (frameshifted) :: 14 of 75\nPseudo Genes (incomplete) :: 55 of 75\nPseudo Genes (internal stop) :: 7 of 75\nPseudo Genes (multiple problems) :: 1 of 75\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
type strain of Tsukamurella paurometabola
COORDINATES: protein motif:HMM:TIGR04033.1
GO:0008488 - gamma-glutamyl carboxylase activity [Evidence IEA]
GO:0017187 - peptidyl-glutamic acid carboxylation [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF036586.2
SdpA family antimicrobial peptide system protein
COORDINATES: protein motif:HMM:TIGR04032.1
sporulation delaying protein family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_015293356.1
COORDINATES: similar to AA sequence:RefSeq:WP_015293355.1
ribbon-helix-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_013124935.1
COORDINATES: protein motif:HMM:NF014566.2
GO:0004222 - metalloendopeptidase activity [Evidence IEA]
GO:0071586 - CAAX-box protein processing [Evidence IEA]
CPBP family intramembrane metalloprotease
COORDINATES: similar to AA sequence:RefSeq:WP_013124956.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF015715.2
COORDINATES: protein motif:HMM:NF041492.1
COORDINATES: similar to AA sequence:RefSeq:WP_004666660.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0000150 - DNA strand exchange activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]
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_007170755.1
COORDINATES: similar to AA sequence:RefSeq:WP_020476876.1
nucleotidyl transferase AbiEii/AbiGii toxin family protein
COORDINATES: similar to AA sequence:RefSeq:WP_010593474.1
COORDINATES: similar to AA sequence:RefSeq:WP_019971498.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_016695795.1
COORDINATES: protein motif:HMM:NF013727.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]; GO:0000166 - nucleotide binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_086558015.1
COORDINATES: similar to AA sequence:RefSeq:WP_003944771.1
IS21-like element IS1415 family helper ATPase IstB
COORDINATES: similar to AA sequence:RefSeq:WP_006897724.1
GO:0097573 - glutathione oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014358297.1
COORDINATES: protein motif:HMM:NF024949.2
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_020639817.1
GO:0016788 - hydrolase activity, acting on ester bonds [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014927224.1
COORDINATES: similar to AA sequence:RefSeq:WP_010549889.1
COORDINATES: similar to AA sequence:RefSeq:WP_010533564.1
COORDINATES: protein motif:HMM:NF012512.2
COORDINATES: protein motif:HMM:NF024589.2
COORDINATES: similar to AA sequence:RefSeq:WP_006897767.1
COORDINATES: similar to AA sequence:RefSeq:WP_016888190.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_016894089.1
COORDINATES: similar to AA sequence:RefSeq:WP_011896032.1
COORDINATES: similar to AA sequence:RefSeq:WP_008376397.1
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_009681132.1
GO:0015103 - inorganic anion transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019548720.1
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017623893.1
TetR/AcrR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_013124930.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_041767551.1
COORDINATES: similar to AA sequence:RefSeq:WP_013127949.1
COORDINATES: protein motif:HMM:NF024991.2
COORDINATES: similar to AA sequence:RefSeq:WP_007322952.1
COORDINATES: similar to AA sequence:RefSeq:WP_007322953.1
ATP-binding cassette domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007571611.1
COORDINATES: protein motif:HMM:TIGR01733.1
COORDINATES: protein motif:HMM:NF012873.2
COORDINATES: protein motif:HMM:NF012901.2
SDR family NAD(P)-dependent oxidoreductase
COORDINATES: similar to AA sequence:RefSeq:WP_009679322.1
COORDINATES: similar to AA sequence:RefSeq:WP_011207294.1
COORDINATES: protein motif:HMM:NF024913.2
GO:0016746 - acyltransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013138235.1
COORDINATES: similar to AA sequence:RefSeq:WP_005142975.1
COORDINATES: similar to AA sequence:RefSeq:WP_018180270.1
COORDINATES: similar to AA sequence:RefSeq:WP_018180271.1
COORDINATES: similar to AA sequence:RefSeq:WP_007316953.1
daunorubicin/doxorubicin resistance ABC transporter ATP-binding protein DrrA
COORDINATES: similar to AA sequence:RefSeq:WP_006332946.1
GO:0043904 - isochorismate pyruvate lyase activity [Evidence IEA]; GO:0008909 - isochorismate synthase activity [Evidence IEA]
GO:0009058 - biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006435013.1
COORDINATES: protein motif:HMM:NF012318.2
GO:0004252 - serine-type endopeptidase activity [Evidence IEA]