Granulicella tundricola MP5ACTX9 plasmid pACIX905, complete sequence.
Bacteria; Acidobacteriota; Terriglobia; Terriglobales; Acidobacteriaceae; Granulicella.
Complete sequence of plasmid5 of Granulicella sp. MP5ACTX9
Submitted (24-JAN-2011) US DOE Joint Genome Institute, 2800 Mitchell Drive B310, Walnut Creek, CA 94598-1698, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP002485.1.\nURL -- http://www.jgi.doe.gov\nJGI Project ID: 4088693\nSource DNA and organism available from Max M. Haggblom\n(haggblom@aesop.rutgers.edu)\nContacts: Max M. Haggblom (haggblom@aesop.rutgers.edu)\n Tanja Woyke (microbe@cuba.jgi-psf.org)\nAnnotation done by JGI-ORNL and JGI-PGF\nFinishing done by JGI-LANL\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 :: Granulicella sp. MP5ACTX9\ncollection_date :: Missing\nlat_lon :: Missing\ndepth :: Missing\nalt_elev :: Missing\ncountry :: Missing\nenvironment :: Acid mine\nnum_replicons :: 6\nref_biomaterial :: Missing\nbiotic_relationship :: Missing\ntrophic_level :: Chemoorganotroph\nrel_to_oxygen :: Aerobe\nisol_growth_condt :: Missing\nsequencing_meth :: WGS\nassembly :: Newbler v. 2.3 (pre-release)\nfinishing_strategy :: Finished\nGOLD Stamp ID :: Gi06612\nFunding Program :: DOE-CSP 2010\nGene Calling Method :: Glimmer\nGram Staining :: Gram-\nPhenotypes :: Acidophile\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 :: WGS\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/29/2022 02:35:13\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) :: 4,705\nCDSs (total) :: 4,652\nGenes (coding) :: 4,604\nCDSs (with protein) :: 4,604\nGenes (RNA) :: 53\nrRNAs :: 1, 1, 1 (5S, 16S, 23S)\ncomplete rRNAs :: 1, 1, 1 (5S, 16S, 23S)\ntRNAs :: 46\nncRNAs :: 4\nPseudo Genes (total) :: 48\nCDSs (without protein) :: 48\nPseudo Genes (ambiguous residues) :: 0 of 48\nPseudo Genes (frameshifted) :: 17 of 48\nPseudo Genes (incomplete) :: 33 of 48\nPseudo Genes (internal stop) :: 14 of 48\nPseudo Genes (multiple problems) :: 16 of 48\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_008997054.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
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: similar to AA sequence:RefSeq:WP_013578818.1
COORDINATES: similar to AA sequence:RefSeq:WP_013578819.1
TetR/AcrR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_014263709.1
COORDINATES: similar to AA sequence:RefSeq:WP_014264068.1
COORDINATES: protein motif:HMM:NF024629.2
COORDINATES: similar to AA sequence:RefSeq:WP_012367242.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF022839.2
COORDINATES: protein motif:HMM:NF024954.2
helix-turn-helix domain-containing protein
COORDINATES: protein motif:HMM:NF028172.2
COORDINATES: similar to AA sequence:RefSeq:WP_013573052.1
COORDINATES: similar to AA sequence:RefSeq:WP_020711348.1
COORDINATES: similar to AA sequence:RefSeq:WP_006725169.1
COORDINATES: protein motif:HMM:NF020332.2
COORDINATES: protein motif:HMM:NF021897.2
type IV secretion system DNA-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_013573119.1
COORDINATES: similar to AA sequence:RefSeq:WP_013568905.1
COORDINATES: similar to AA sequence:RefSeq:WP_013570244.1
COORDINATES: similar to AA sequence:RefSeq:WP_013573114.1
COORDINATES: similar to AA sequence:RefSeq:WP_013569442.1
COORDINATES: similar to AA sequence:RefSeq:WP_015898293.1
COORDINATES: similar to AA sequence:RefSeq:WP_013570251.1
COORDINATES: similar to AA sequence:RefSeq:WP_013573110.1
TrbG/VirB9 family P-type conjugative transfer protein
COORDINATES: similar to AA sequence:RefSeq:WP_013573109.1
VirB4 family type IV secretion system protein
COORDINATES: similar to AA sequence:RefSeq:WP_013579814.1
VirB3 family type IV secretion system protein
COORDINATES: similar to AA sequence:RefSeq:WP_014263543.1
COORDINATES: protein motif:HMM:NF024949.2
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_003551657.1
COORDINATES: protein motif:HMM:NF016670.2
COORDINATES: similar to AA sequence:RefSeq:WP_011153643.1
COORDINATES: similar to AA sequence:RefSeq:WP_009547885.1
COORDINATES: protein motif:HMM:NF012798.2
COORDINATES: similar to AA sequence:RefSeq:WP_016449467.1
COORDINATES: protein motif:HMM:NF012772.2
COORDINATES: similar to AA sequence:RefSeq:WP_013033883.1
COORDINATES: similar to AA sequence:RefSeq:WP_013573054.1
COORDINATES: protein motif:HMM:NF024685.2
COORDINATES: similar to AA sequence:RefSeq:WP_004374796.1
COORDINATES: protein motif:HMM:NF024642.2
COORDINATES: similar to AA sequence:RefSeq:WP_013573316.1
COORDINATES: similar to AA sequence:RefSeq:WP_013573317.1
COORDINATES: similar to AA sequence:RefSeq:WP_020720913.1
COORDINATES: protein motif:HMM:NF025030.2
COORDINATES: similar to AA sequence:RefSeq:WP_020720072.1
COORDINATES: similar to AA sequence:RefSeq:WP_013573312.1
COORDINATES: similar to AA sequence:RefSeq:WP_008951918.1
COORDINATES: similar to AA sequence:RefSeq:WP_013573044.1
COORDINATES: similar to AA sequence:RefSeq:WP_013573303.1
COORDINATES: similar to AA sequence:RefSeq:WP_013573305.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF025471.2
COORDINATES: similar to AA sequence:RefSeq:WP_013573180.1
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_010376804.1
COORDINATES: protein motif:HMM:NF021590.2
COORDINATES: similar to AA sequence:RefSeq:WP_013572755.1
COORDINATES: similar to AA sequence:RefSeq:WP_013573152.1
COORDINATES: similar to AA sequence:RefSeq:WP_015897134.1
COORDINATES: similar to AA sequence:RefSeq:WP_012732849.1
frameshifted; internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF022963.2
COORDINATES: protein motif:HMM:NF024865.2
nuclear transport factor 2 family protein
COORDINATES: protein motif:HMM:NF025006.2
carboxypeptidase-like regulatory domain-containing protein
COORDINATES: protein motif:HMM:NF012301.2
LytTR family DNA-binding domain-containing protein
COORDINATES: protein motif:HMM:NF014567.2
GO:0000155 - phosphorelay sensor kinase activity [Evidence IEA]
GO:0000160 - phosphorelay signal transduction system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_020712060.1
COORDINATES: protein motif:HMM:NF019350.2
COORDINATES: similar to AA sequence:RefSeq:WP_014267650.1
COORDINATES: similar to AA sequence:RefSeq:WP_013572950.1
COORDINATES: similar to AA sequence:RefSeq:WP_013582077.1
COORDINATES: similar to AA sequence:RefSeq:WP_014786499.1