Halogeometricum borinquense DSM 11551 plasmid pHBOR04, complete sequence.
Archaea; Euryarchaeota; Stenosarchaea group; Halobacteria; Haloferacales; Haloferacaceae; Halogeometricum.
The complete plasmid4 of Halogeometricum borinquense DSM 11551
Submitted (10-AUG-2009) US DOE Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA 94598-1698, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP001694.1.\nURL -- http://www.jgi.doe.gov\nJGI Project ID: 4082733\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 :: Halogeometricum borinquense PR3, DSM 11551\nCulture Collection ID :: DSM 11551, ATCC 700274, JCM 10706\nGOLD Stamp ID :: Gc01108\nFunding Program :: DOE-GEBA 2007\nNumber of Reads :: 2826 Sanger\nAssembly Method :: Newbler, PGA\nSequencing Depth :: 9.7x Sanger; 21.8x 454\nGene Calling Method :: GeneMark, GenePRIMP\nIsolation Site :: Solar salterns of Cabo Rojo Puerto Rico\nIsolation Country :: Puerto Rico\nLatitude :: 18.088189\nLongitude :: -67.147095\nOxygen Requirement :: Aerobe\nCell Shape :: Pleomorphic-shaped\nMotility :: Motile\nSporulation :: Nonsporulating\nTemperature Range :: Mesophile\nTemperature Optimum :: 40C\nSalinity :: Halophile\nGram Staining :: gram-\nBiotic Relationship :: Free living\nDiseases :: None\nHabitat :: Solar saltern\n##Metadata-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 03/24/2023 13:46:31\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) :: 3,929\nCDSs (total) :: 3,869\nGenes (coding) :: 3,822\nCDSs (with protein) :: 3,822\nGenes (RNA) :: 60\nrRNAs :: 2, 2, 2 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 2, 2 (5S, 16S, 23S)\ntRNAs :: 52\nncRNAs :: 2\nPseudo Genes (total) :: 47\nCDSs (without protein) :: 47\nPseudo Genes (ambiguous residues) :: 0 of 47\nPseudo Genes (frameshifted) :: 27 of 47\nPseudo Genes (incomplete) :: 26 of 47\nPseudo Genes (internal stop) :: 11 of 47\nPseudo Genes (multiple problems) :: 14 of 47\nCRISPR Arrays :: 1\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
type strain of Halogeometricum borinquense
COORDINATES: similar to AA sequence:RefSeq:WP_006055729.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_006055730.1
COORDINATES: similar to AA sequence:RefSeq:WP_006113717.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055732.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055733.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055734.1
GO:0016740 - transferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006055735.1
polysaccharide deacetylase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_006055736.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055737.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_006055739.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055740.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055741.1
right-handed parallel beta-helix repeat-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006055742.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055743.1
COORDINATES: protein motif:HMM:NF013080.2
COORDINATES: similar to AA sequence:RefSeq:WP_006055745.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055746.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055747.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055748.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055749.1
COORDINATES: similar to AA sequence:RefSeq:WP_004064435.1
COORDINATES: similar to AA sequence:RefSeq:WP_004040856.1
GO:0003824 - catalytic activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008318037.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007978957.1
GO:0097266 - phenylacetyl-CoA 1,2-epoxidase activity [Evidence IEA]
GO:0010124 - phenylacetate catabolic process [Evidence IEA]
1,2-phenylacetyl-CoA epoxidase subunit PaaA
COORDINATES: similar to AA sequence:RefSeq:WP_006055754.1
1,2-phenylacetyl-CoA epoxidase subunit PaaB
COORDINATES: similar to AA sequence:RefSeq:WP_006055755.1
1,2-phenylacetyl-CoA epoxidase subunit PaaC
COORDINATES: similar to AA sequence:RefSeq:WP_006055756.1
1,2-phenylacetyl-CoA epoxidase subunit PaaD
COORDINATES: similar to AA sequence:RefSeq:WP_006055757.1
1,2-phenylacetyl-CoA epoxidase subunit PaaE
COORDINATES: similar to AA sequence:RefSeq:WP_006055758.1
COORDINATES: similar to AA sequence:RefSeq:WP_004040864.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055760.1
COORDINATES: similar to AA sequence:RefSeq:WP_005538723.1
COORDINATES: similar to AA sequence:RefSeq:WP_008318054.1
COORDINATES: similar to AA sequence:RefSeq:WP_007541015.1
COORDINATES: similar to AA sequence:RefSeq:WP_006077211.1
ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_006666234.1
MaoC/PaaZ C-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006055766.1
GO:0016790 - thiolester hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008606544.1
COORDINATES: similar to AA sequence:RefSeq:WP_006600962.1
3-hydroxyacyl-CoA dehydrogenase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_008318074.1
COORDINATES: similar to AA sequence:RefSeq:WP_004060778.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006055771.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055772.1
COORDINATES: similar to AA sequence:RefSeq:WP_008385605.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055774.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055775.1
GO:0016779 - nucleotidyltransferase activity [Evidence IEA]
GO:0009058 - biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008385599.1
winged helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006055777.1
GO:0004360 - glutamine-fructose-6-phosphate transaminase (isomerizing) activity [Evidence IEA]
GO:0006040 - amino sugar metabolic process [Evidence IEA]; GO:0009252 - peptidoglycan biosynthetic process [Evidence IEA]
glutamine--fructose-6-phosphate transaminase (isomerizing)
COORDINATES: similar to AA sequence:RefSeq:WP_006055778.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055779.1
COORDINATES: similar to AA sequence:RefSeq:WP_008094042.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_006055781.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055782.1
GO:0008761 - UDP-N-acetylglucosamine 2-epimerase activity [Evidence IEA]
GO:0009103 - lipopolysaccharide biosynthetic process [Evidence IEA]
UDP-N-acetylglucosamine 2-epimerase (non-hydrolyzing)
COORDINATES: similar to AA sequence:RefSeq:WP_006055783.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055784.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055785.1
GO:0003983 - UTP:glucose-1-phosphate uridylyltransferase activity [Evidence IEA]
UTP--glucose-1-phosphate uridylyltransferase AglF
COORDINATES: similar to AA sequence:RefSeq:WP_006055786.1
GO:0008966 - phosphoglucosamine mutase activity [Evidence IEA]
GO:0009103 - lipopolysaccharide biosynthetic process [Evidence IEA]; GO:0009252 - peptidoglycan biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006055787.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055788.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055789.1
GO:0008484 - sulfuric ester hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006055790.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055791.1
GO:0008168 - methyltransferase activity [Evidence IEA]
methyltransferase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006055792.1
COORDINATES: protein motif:HMM:NF019607.2
COORDINATES: similar to AA sequence:RefSeq:WP_006055795.1
T9SS type A sorting domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006055796.1
COORDINATES: similar to AA sequence:RefSeq:WP_008385575.1
orc1/cdc6 family replication initiation protein
COORDINATES: similar to AA sequence:RefSeq:WP_008385574.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055799.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055800.1
COORDINATES: similar to AA sequence:RefSeq:WP_006053709.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055803.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055804.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055805.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055806.1
COORDINATES: similar to AA sequence:RefSeq:WP_008385567.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055807.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055808.1
transglutaminase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006055809.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055810.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055811.1
COORDINATES: protein motif:HMM:NF024812.2
COORDINATES: similar to AA sequence:RefSeq:WP_006055813.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055814.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055815.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055816.1
acyl-CoA thioesterase/bile acid-CoA:amino acid N-acyltransferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_006055817.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055818.1
GO:0051537 - 2 iron, 2 sulfur cluster binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006055819.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055820.1
GO:0098662 - inorganic cation transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006055821.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055822.1
mandelate racemase/muconate lactonizing enzyme family protein
COORDINATES: similar to AA sequence:RefSeq:WP_006055823.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055824.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055825.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055826.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055827.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055828.1
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006055829.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055830.1
COORDINATES: similar to AA sequence:RefSeq:WP_006649717.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055832.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055833.1
type II toxin-antitoxin system VapC family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_006055834.1
GO:0016627 - oxidoreductase activity, acting on the CH-CH group of donors [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008415720.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055836.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055837.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055838.1
COORDINATES: similar to AA sequence:RefSeq:WP_006110281.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055840.1
COORDINATES: protein motif:HMM:NF015692.2
ADP-ribosylglycohydrolase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_006055844.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055845.1
zinc-dependent alcohol dehydrogenase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_008386111.1
COORDINATES: similar to AA sequence:RefSeq:WP_008005507.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055848.1
GO:0033744 - L-methionine:thioredoxin-disulfide S-oxidoreductase activity [Evidence IEA]; GO:0008113 - peptide-methionine (S)-S-oxide reductase activity [Evidence IEA]
GO:0030091 - protein repair [Evidence IEA]; GO:0006979 - response to oxidative stress [Evidence IEA]
peptide-methionine (S)-S-oxide reductase MsrA
COORDINATES: similar to AA sequence:RefSeq:WP_006055849.1
COORDINATES: similar to AA sequence:RefSeq:WP_008386102.1
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006055851.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055852.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055853.1
TetR/AcrR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_006055854.1
COORDINATES: similar to AA sequence:RefSeq:WP_008386091.1
COORDINATES: similar to AA sequence:RefSeq:WP_006628286.1
cadherin-like beta sandwich domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006055858.1
COORDINATES: similar to AA sequence:RefSeq:WP_007275555.1
COORDINATES: similar to AA sequence:RefSeq:WP_007188052.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_006055861.1
COORDINATES: similar to AA sequence:RefSeq:WP_013440732.1
GO:0004803 - transposase activity [Evidence IEA]
IS6-like element ISHbo1 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_006055864.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055865.1
COORDINATES: similar to AA sequence:RefSeq:WP_007259209.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055867.1
COORDINATES: similar to AA sequence:RefSeq:WP_008572354.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055869.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055870.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055871.1
COORDINATES: similar to AA sequence:RefSeq:WP_008388521.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055873.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055874.1
ATP-binding cassette domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006055875.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055876.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055877.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055878.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055880.1
COORDINATES: similar to AA sequence:RefSeq:WP_006667853.1
GO:0008869 - galactonate dehydratase activity [Evidence IEA]
GO:0009063 - amino acid catabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006055882.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055883.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055710.1
COORDINATES: similar to AA sequence:RefSeq:WP_008325425.1
DNA starvation/stationary phase protection protein DpsA
COORDINATES: similar to AA sequence:RefSeq:WP_006055712.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055713.1
COORDINATES: similar to AA sequence:RefSeq:WP_004059823.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055716.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055717.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055718.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055719.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055720.1
COORDINATES: protein motif:HMM:NF015325.2
COORDINATES: similar to AA sequence:RefSeq:WP_006055722.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055723.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055724.1
bacterio-opsin activator domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006055725.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055726.1
GO:0003824 - catalytic activity [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]
GO:0006304 - DNA modification [Evidence IEA]
Eco57I restriction-modification methylase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008385644.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055728.1