Desulfomonile tiedjei DSM 6799 plasmid pDESTI.01, complete sequence.
Bacteria; Thermodesulfobacteriota; Desulfomonilia; Desulfomonilales; Desulfomonilaceae; Desulfomonile.
Complete sequence of plasmid of Desulfomonile tiedjei DSM 6799
Submitted (05-JUN-2012) US DOE Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA 94598-1698, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP003361.1.\nURL -- http://www.jgi.doe.gov\nJGI Project ID: 4086745\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##MIGS-Data-START##\ninvestigation_type :: bacteria_archaea\nproject_name :: Desulfomonile tiedjei DSM 6799\ncollection_date :: Missing\nlat_lon :: Missing\ndepth :: Missing\nalt_elev :: Missing\ncountry :: USA\nenvironment :: Sludge\nnum_replicons :: 2\nref_biomaterial :: DSM 06799, ATCC 49306\nbiotic_relationship :: Free living\ntrophic_level :: Missing\nrel_to_oxygen :: Anaerobe\nisol_growth_condt :: Missing\nsequencing_meth :: WGS\nassembly :: Newbler v. 2.3 (pre-release)\nfinishing_strategy :: Finished\nGOLD Stamp ID :: Gi03016\nType Strain :: Yes\nGreengenes ID :: 140135\nFunding Program :: DOE-GEBA 2007\nGene Calling Method :: Prodigal, GenePRIMP\nIsolation Site :: Sewage sludge; USA\nTemperature Range :: Mesophile\nTemperature Optimum :: 37C\nGram Staining :: Gram-\nDiseases :: None\n##MIGS-Data-END##\n\n##Genome-Assembly-Data-START##\nFinishing Goal :: Finished\nCurrent Finishing Status :: Finished\nAssembly Method :: Newbler v. 2.3\nGenome Coverage :: 30x\nSequencing Technology :: 454/Illumina\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 02/11/2023 10:07:04\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) :: 5,375\nCDSs (total) :: 5,321\nGenes (coding) :: 5,308\nCDSs (with protein) :: 5,308\nGenes (RNA) :: 54\nrRNAs :: 1, 1, 1 (5S, 16S, 23S)\ncomplete rRNAs :: 1, 1, 1 (5S, 16S, 23S)\ntRNAs :: 47\nncRNAs :: 4\nPseudo Genes (total) :: 13\nCDSs (without protein) :: 13\nPseudo Genes (ambiguous residues) :: 0 of 13\nPseudo Genes (frameshifted) :: 4 of 13\nPseudo Genes (incomplete) :: 9 of 13\nPseudo Genes (internal stop) :: 1 of 13\nPseudo Genes (multiple problems) :: 1 of 13\nCRISPR Arrays :: 2\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_014810018.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_014811196.1
COORDINATES: similar to AA sequence:RefSeq:WP_014811247.1
COORDINATES: similar to AA sequence:RefSeq:WP_008291167.1
GO:0003676 - nucleic acid binding [Evidence IEA]; GO:0004523 - RNA-DNA hybrid ribonuclease activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011417627.1
nucleotidyl transferase AbiEii/AbiGii toxin family protein
COORDINATES: similar to AA sequence:RefSeq:WP_014810120.1
COORDINATES: protein motif:HMM:NF013793.2
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006634664.1
DUF2791 family P-loop domain-containing protein
COORDINATES: protein motif:HMM:NF022376.2
COORDINATES: protein motif:HMM:NF016724.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0003676 - nucleic acid binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006425318.1
COORDINATES: protein motif:HMM:NF013188.2
GO:0006812 - monoatomic cation transport [Evidence IEA]; GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014812590.1
GO:0031522 - cell envelope Sec protein transport complex [Evidence IEA]
GO:0015450 - protein-transporting ATPase activity [Evidence IEA]
GO:0043952 - protein transport by the Sec complex [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014812591.1
COORDINATES: protein motif:HMM:NF012798.2
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014811245.1
COORDINATES: protein motif:HMM:NF012688.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0003887 - DNA-directed DNA polymerase activity [Evidence IEA]
GO:0006260 - DNA replication [Evidence IEA]