Sulfuricurvum kujiense DSM 16994 plasmid pSULKU01, complete sequence.
Bacteria; Campylobacterota; Epsilonproteobacteria; Campylobacterales; Sulfurimonadaceae; Sulfuricurvum.
Complete genome sequence of the sulfur compounds oxidizing chemolithoautotroph Sulfuricurvum kujiense type strain (YK-1(T))
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\nCP002356.1.\nURL -- http://www.jgi.doe.gov\nJGI Project ID: 4087653\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 :: Sulfuricurvum kujiense YK-1, DSM 16994\ncollection_date :: Missing\nlat_lon :: 40.190524 141.775583\ndepth :: Missing\nalt_elev :: Missing\ncountry :: Japan\nenvironment :: Missing\nnum_replicons :: 5\nref_biomaterial :: DSM 16994, ATCC BAA-921\nbiotic_relationship :: Free living\ntrophic_level :: Chemolithoautotroph\nrel_to_oxygen :: Anaerobe\nisol_growth_condt :: 15545474\nsequencing_meth :: WGS\nassembly :: Newbler v. 2.3 (pre-release)\nfinishing_strategy :: Finished\nGOLD Stamp ID :: Gi05071\nType Strain :: Yes\nFunding Program :: DOE-GEBA 2009\nIsolation Site :: Drain water from an underground crude-oil\n storage cavity; Japan, Kuji, Iwate\nCell Shape :: Rod-shaped\nMotility :: Motile\nSporulation :: Nonsporulating\nTemperature Range :: Mesophile\nTemperature Optimum :: 25C\npH :: 7.0\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 :: 05/02/2023 01:48:21\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) :: 2,871\nCDSs (total) :: 2,809\nGenes (coding) :: 2,799\nCDSs (with protein) :: 2,799\nGenes (RNA) :: 62\nrRNAs :: 3, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 3, 3, 3 (5S, 16S, 23S)\ntRNAs :: 49\nncRNAs :: 4\nPseudo Genes (total) :: 10\nCDSs (without protein) :: 10\nPseudo Genes (ambiguous residues) :: 0 of 10\nPseudo Genes (frameshifted) :: 3 of 10\nPseudo Genes (incomplete) :: 7 of 10\nPseudo Genes (internal stop) :: 1 of 10\nPseudo Genes (multiple problems) :: 1 of 10\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
drain water from underground crude oil storage cavity
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_011372280.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_002870726.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_013449960.1
COORDINATES: protein motif:HMM:NF019421.2
type II toxin-antitoxin system HipA family toxin
COORDINATES: protein motif:HMM:NF012301.2
GO:0000160 - phosphorelay signal transduction system [Evidence IEA]
COORDINATES: protein motif:HMM:TIGR00229.1
histidine kinase dimerization/phosphoacceptor domain -containing protein
COORDINATES: protein motif:HMM:NF024834.2
GO:0009055 - electron transfer activity [Evidence IEA]; GO:0020037 - heme binding [Evidence IEA]
COORDINATES: protein motif:HMM:TIGR01409.1
twin-arginine translocation signal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_013246640.1
GO:0050660 - flavin adenine dinucleotide binding [Evidence IEA]; GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF015532.2
COORDINATES: protein motif:HMM:NF012698.2
GO:0000160 - phosphorelay signal transduction system [Evidence IEA]; GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
winged helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_014770506.1
COORDINATES: similar to AA sequence:RefSeq:WP_012143608.1
COORDINATES: protein motif:HMM:NF014627.2
COORDINATES: similar to AA sequence:RefSeq:WP_015436521.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013460608.1
COORDINATES: similar to AA sequence:RefSeq:WP_013449952.1
GO:0051539 - 4 iron, 4 sulfur cluster binding [Evidence IEA]; GO:0003824 - catalytic activity [Evidence IEA]; GO:1904047 - S-adenosyl-L-methionine binding [Evidence IEA]
COORDINATES: protein motif:HMM:NF013235.2
GO:0003887 - DNA-directed DNA polymerase activity [Evidence IEA]
GO:0006270 - DNA replication initiation [Evidence IEA]
COORDINATES: protein motif:HMM:NF013793.2
COORDINATES: protein motif:HMM:TIGR00180.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
ParB/RepB/Spo0J family partition protein
COORDINATES: protein motif:HMM:NF013015.2
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_013450019.1
COORDINATES: similar to AA sequence:RefSeq:WP_013450021.1
COORDINATES: similar to AA sequence:RefSeq:WP_013450022.1
COORDINATES: similar to AA sequence:RefSeq:WP_013450023.1
COORDINATES: protein motif:HMM:NF023125.2
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_009295089.1
frameshifted; internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_014768697.1
COORDINATES: protein motif:HMM:NF024420.2
COORDINATES: protein motif:HMM:NF019313.2
Qat anti-phage system associated protein QatB
Qat anti-phage system QueC-like protein QatC
COORDINATES: similar to AA sequence:RefSeq:WP_018991606.1
Qat anti-phage system TatD family nuclease QatD
COORDINATES: similar to AA sequence:RefSeq:WP_006229964.1
GO:0009055 - electron transfer activity [Evidence IEA]; GO:0020037 - heme binding [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014705659.1
GO:0004129 - cytochrome-c oxidase activity [Evidence IEA]; GO:0020037 - heme binding [Evidence IEA]
GO:0009060 - aerobic respiration [Evidence IEA]
cbb3-type cytochrome c oxidase subunit I
COORDINATES: similar to AA sequence:RefSeq:WP_013326221.1
COORDINATES: similar to AA sequence:RefSeq:WP_013326222.1
COORDINATES: similar to AA sequence:RefSeq:WP_013326223.1
COORDINATES: similar to AA sequence:RefSeq:WP_013326224.1
cytochrome C oxidase subunit IV family protein
COORDINATES: protein motif:HMM:TIGR00738.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF014385.2
GO:0015562 - efflux transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: protein motif:HMM:TIGR01730.1
GO:0005215 - transporter activity [Evidence IEA]
efflux RND transporter periplasmic adaptor subunit
COORDINATES: similar to AA sequence:RefSeq:WP_011981085.1
GO:0140359 - ABC-type transporter activity [Evidence IEA]; GO:0042626 - ATPase-coupled transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008033009.1
GO:0140359 - ABC-type transporter activity [Evidence IEA]; GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]; GO:0042626 - ATPase-coupled transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011875855.1
COORDINATES: protein motif:HMM:NF017727.2
COORDINATES: similar to AA sequence:RefSeq:WP_013460241.1
COORDINATES: similar to AA sequence:RefSeq:WP_011138611.1
GO:0008998 - ribonucleoside-triphosphate reductase activity [Evidence IEA]
GO:0006260 - DNA replication [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013135467.1
GO:0016491 - oxidoreductase activity [Evidence IEA]; GO:0008998 - ribonucleoside-triphosphate reductase activity [Evidence IEA]
anaerobic ribonucleoside-triphosphate reductase
COORDINATES: similar to AA sequence:RefSeq:WP_011979950.1
GO:0051539 - 4 iron, 4 sulfur cluster binding [Evidence IEA]
GO:0009265 - 2'-deoxyribonucleotide biosynthetic process [Evidence IEA]; GO:0051353 - positive regulation of oxidoreductase activity [Evidence IEA]
anaerobic ribonucleoside-triphosphate reductase activating protein
COORDINATES: similar to AA sequence:RefSeq:WP_013135697.1
COORDINATES: similar to AA sequence:RefSeq:WP_013459554.1
GO:0051539 - 4 iron, 4 sulfur cluster binding [Evidence IEA]; GO:0030151 - molybdenum ion binding [Evidence IEA]; GO:0043546 - molybdopterin cofactor binding [Evidence IEA]; GO:0008940 - nitrate reductase activity [Evidence IEA]
nitrate reductase catalytic subunit NapA
COORDINATES: similar to AA sequence:RefSeq:WP_013459553.1
COORDINATES: similar to AA sequence:RefSeq:WP_014473205.1
quinol dehydrogenase ferredoxin subunit NapH
COORDINATES: similar to AA sequence:RefSeq:WP_013459551.1
GO:0009061 - anaerobic respiration [Evidence IEA]
nitrate reductase cytochrome c-type subunit
COORDINATES: similar to AA sequence:RefSeq:WP_013459550.1
COORDINATES: similar to AA sequence:RefSeq:WP_013459549.1
COORDINATES: similar to AA sequence:RefSeq:WP_013449883.1
COORDINATES: similar to AA sequence:RefSeq:WP_013554221.1
COORDINATES: protein motif:HMM:NF024934.2
GO:0030552 - cAMP binding [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
Crp/Fnr family transcriptional regulator
COORDINATES: protein motif:HMM:NF025055.2
type IV pili methyl-accepting chemotaxis transducer N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_002848267.1
GO:0006777 - Mo-molybdopterin cofactor biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011289266.1
COORDINATES: similar to AA sequence:RefSeq:WP_016921902.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0000150 - DNA strand exchange activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: protein motif:HMM:NF025079.2
COORDINATES: protein motif:HMM:NF013676.2
COORDINATES: protein motif:HMM:NF013760.2
MotA/TolQ/ExbB proton channel family protein
COORDINATES: protein motif:HMM:NF012792.2
GO:0008080 - N-acetyltransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011735407.1
COORDINATES: similar to AA sequence:RefSeq:WP_015547831.1
COORDINATES: similar to AA sequence:RefSeq:WP_011711650.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF024212.2
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF013069.2
GO:0022857 - transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014468622.1
COORDINATES: protein motif:HMM:NF012655.2
TetR/AcrR family transcriptional regulator
COORDINATES: protein motif:HMM:NF016836.2
COORDINATES: similar to AA sequence:RefSeq:WP_008338202.1
COORDINATES: similar to AA sequence:RefSeq:WP_013459768.1
COORDINATES: similar to AA sequence:RefSeq:WP_007474143.1
COORDINATES: protein motif:HMM:NF013180.2
COORDINATES: protein motif:HMM:TIGR01845.1
GO:0009279 - cell outer membrane [Evidence IEA]
GO:0015288 - porin activity [Evidence IEA]
efflux transporter outer membrane subunit
COORDINATES: similar to AA sequence:RefSeq:WP_012856945.1
GO:0055085 - transmembrane transport [Evidence IEA]; GO:0042908 - xenobiotic transport [Evidence IEA]
multidrug efflux RND transporter permease subunit
COORDINATES: protein motif:HMM:NF013862.2
GO:0006629 - lipid metabolic process [Evidence IEA]
patatin-like phospholipase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_013460123.1
GO:0016779 - nucleotidyltransferase activity [Evidence IEA]
GO:0009058 - biosynthetic process [Evidence IEA]
COORDINATES: protein motif:HMM:NF014324.2
GO:0004620 - phospholipase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF014069.2
COORDINATES: protein motif:HMM:NF016292.2
ABC transporter substrate binding protein
COORDINATES: protein motif:HMM:NF027890.2
HlyD family efflux transporter periplasmic adaptor subunit
COORDINATES: similar to AA sequence:RefSeq:WP_018410672.1
GO:0043190 - ATP-binding cassette (ABC) transporter complex [Evidence IEA]; GO:0016020 - membrane [Evidence IEA]
GO:0005524 - ATP binding [Evidence IEA]; GO:0042626 - ATPase-coupled transmembrane transporter activity [Evidence IEA]
ribosome-associated ATPase/putative transporter RbbA
COORDINATES: similar to AA sequence:RefSeq:WP_008069681.1
COORDINATES: protein motif:HMM:NF024701.2