Natronococcus occultus SP4 plasmid 1, complete sequence.
Archaea; Euryarchaeota; Stenosarchaea group; Halobacteria; Natrialbales; Natrialbaceae; Natronococcus.
FINISHED of Natronococcus occultus SP4, DSM 3396
Submitted (08-NOV-2012) DOE Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA 94598-1698, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP003930.1.\nURL -- http://www.jgi.doe.gov\nJGI Project ID: 97967\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\nAnnotation by JGI-PGF and JGI-ORNL\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 :: Natronococcus occultus SP4, DSM 3396\ncollection_date :: Missing\nlat_lon :: -1.944 36.252\ndepth :: Missing\nalt_elev :: Missing\ncountry :: Kenya\nenvironment :: Fresh water, Aquatic\nnum_replicons :: Missing\nref_biomaterial :: DSM 3396, ATCC 43101, CCM 3871, NCMB\n 2192\nbiotic_relationship :: Free living\ntrophic_level :: Heterotroph\nrel_to_oxygen :: Aerobe\nisol_growth_condt :: Missing\nsequencing_meth :: WGS\nassembly :: Newbler v. 2.3 (pre-release)\nfinishing_strategy :: Missing\nGOLD Stamp ID :: Gi02931\nCurrent Finishing Status :: Level 6: Finished\nType Strain :: Yes\nGreengenes ID :: 674\nFunding Program :: DOE-GEBA 2007\nGene Calling Method :: Prodigal 1.4, GenePRIMP\nIsolation Site :: Soda lake Lake Magadi\nCell Shape :: Coccus-shaped\nMotility :: Nonmotile\nTemperature Range :: Mesophile\nTemperature Optimum :: 37C\nSalinity :: Halophile\npH :: 9.5\nGram Staining :: Gram-\nPhenotypes :: Alkaliphile\n##MIGS-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 05/03/2023 01:22:13\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) :: 4,365\nCDSs (total) :: 4,296\nGenes (coding) :: 4,203\nCDSs (with protein) :: 4,203\nGenes (RNA) :: 69\nrRNAs :: 5, 4, 4 (5S, 16S, 23S)\ncomplete rRNAs :: 5, 4, 4 (5S, 16S, 23S)\ntRNAs :: 54\nncRNAs :: 2\nPseudo Genes (total) :: 93\nCDSs (without protein) :: 93\nPseudo Genes (ambiguous residues) :: 0 of 93\nPseudo Genes (frameshifted) :: 53 of 93\nPseudo Genes (incomplete) :: 56 of 93\nPseudo Genes (internal stop) :: 21 of 93\nPseudo Genes (multiple problems) :: 34 of 93\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_006168534.1
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_008419467.1
COORDINATES: similar to AA sequence:RefSeq:WP_008445928.1
winged helix-turn-helix domain-containing protein
COORDINATES: protein motif:HMM:NF013561.2
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008364441.1