Isosphaera pallida ATCC 43644 plasmid pISOP01, complete sequence.
Bacteria; Planctomycetota; Planctomycetia; Isosphaerales; Isosphaeraceae; Isosphaera.
Complete genome sequence of Isosphaera pallida type strain (IS1B)
The complete sequence of plasmid of Isophaera pallida ATCC 43644
Submitted (22-NOV-2010) US DOE Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA 94598-1698, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP002354.1.\nURL -- http://www.jgi.doe.gov\nJGI Project ID: 4084991\nSource DNA and organism available from ATCC: ATCC 43644\n(www.atcc.org)\nContacts: Jonathan A. Eisen (jaeisen@ucdavis.edu)\n Tanja Woyke (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 :: Isosphaera pallida IS1B, ATCC 43644\ncollection_date :: Missing\nlat_lon :: 44.86123 -121.201442\ndepth :: Missing\nalt_elev :: Missing\ncountry :: USA\nenvironment :: Fresh water, Hot spring\nnum_replicons :: 2\nref_biomaterial :: ATCC 43644, DSM 9630\nbiotic_relationship :: Free living\ntrophic_level :: Missing\nrel_to_oxygen :: Aerobe\nisol_growth_condt :: Missing\nsequencing_meth :: WGS\nassembly :: Newbler v. 2.3 (pre-release)\nfinishing_strategy :: Finished\nGOLD Stamp ID :: Gi02488\nType Strain :: Yes\nGreengenes ID :: 2884\nFunding Program :: DOE-GEBA 2007\nGene Calling Method :: IMG/ER 2.7\nIsolation Site :: algal mat from Kah-nee-tah Hot Spring in\n Oregon\nCell Shape :: Coccus-shaped\nMotility :: Motile\nTemperature Range :: Mesophile\nTemperature Optimum :: 45C\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, Sanger\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 09/25/2022 09:45:07\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;\n repeat_region\nGenes (total) :: 3,723\nCDSs (total) :: 3,664\nGenes (coding) :: 3,640\nCDSs (with protein) :: 3,640\nGenes (RNA) :: 59\nrRNAs :: 3, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 3, 3, 3 (5S, 16S, 23S)\ntRNAs :: 47\nncRNAs :: 3\nPseudo Genes (total) :: 24\nCDSs (without protein) :: 24\nPseudo Genes (ambiguous residues) :: 0 of 24\nPseudo Genes (frameshifted) :: 1 of 24\nPseudo Genes (incomplete) :: 21 of 24\nPseudo Genes (internal stop) :: 2 of 24\nCRISPR Arrays :: 2\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: protein motif:HMM:NF019334.2
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_020403317.1
GO:0004612 - phosphoenolpyruvate carboxykinase (ATP) activity [Evidence IEA]
GO:0006094 - gluconeogenesis [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014670919.1
COORDINATES: similar to AA sequence:RefSeq:WP_020468972.1
GO:0051287 - NAD binding [Evidence IEA]; GO:0016616 - oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Evidence IEA]; GO:0003979 - UDP-glucose 6-dehydrogenase activity [Evidence IEA]
GO:0000271 - polysaccharide biosynthetic process [Evidence IEA]
COORDINATES: protein motif:HMM:NF012744.2
COORDINATES: protein motif:HMM:TIGR01330.1
GO:0008441 - 3'(2'),5'-bisphosphate nucleotidase activity [Evidence IEA]
GO:0006790 - sulfur compound metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010035023.1
COORDINATES: protein motif:HMM:NF023410.2
exosortase-associated EpsI family protein
COORDINATES: protein motif:HMM:NF013793.2
tyrosine-protein kinase domain-containing protein
COORDINATES: protein motif:HMM:NF021254.2
exosortase/archaeosortase family protein
COORDINATES: protein motif:HMM:NF025910.2
COORDINATES: protein motif:HMM:NF019265.2
sigma-70 family RNA polymerase sigma factor
COORDINATES: similar to AA sequence:RefSeq:WP_014786336.1
GO:0003824 - catalytic activity [Evidence IEA]
NAD-dependent epimerase/dehydratase family protein
COORDINATES: protein motif:HMM:NF021637.2
COORDINATES: protein motif:HMM:NF014638.2
COORDINATES: similar to AA sequence:RefSeq:WP_015909115.1
SDR family NAD(P)-dependent oxidoreductase