Sulfuricurvum kujiense DSM 16994 plasmid pSULKU02, 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\nCP002357.1.\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: similar to AA sequence:RefSeq:WP_011372904.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF024917.2
GO:0008080 - N-acetyltransferase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF012345.2
COORDINATES: protein motif:HMM:NF025022.2
COORDINATES: similar to AA sequence:RefSeq:WP_018975258.1
COORDINATES: similar to AA sequence:RefSeq:WP_009567633.1
nuclear transport factor 2 family protein
COORDINATES: protein motif:HMM:NF002991.1
COORDINATES: similar to AA sequence:RefSeq:WP_013460332.1
COORDINATES: similar to AA sequence:RefSeq:WP_013450024.1
COORDINATES: similar to AA sequence:RefSeq:WP_013450023.1
COORDINATES: similar to AA sequence:RefSeq:WP_013450022.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_013450021.1
COORDINATES: similar to AA sequence:RefSeq:WP_013450019.1
COORDINATES: similar to AA sequence:RefSeq:WP_013460166.1
GO:0003887 - DNA-directed DNA polymerase activity [Evidence IEA]; GO:0000287 - magnesium ion binding [Evidence IEA]
GO:0006281 - DNA repair [Evidence IEA]; GO:0006261 - DNA-templated DNA replication [Evidence IEA]
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:NF013793.2
COORDINATES: protein motif:HMM:NF024872.2
COORDINATES: similar to AA sequence:RefSeq:WP_013460055.1
GO:0008408 - 3'-5' exonuclease activity [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013460052.1
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: similar to AA sequence:RefSeq:WP_013449843.1
COORDINATES: similar to AA sequence:RefSeq:WP_013450067.1
COORDINATES: similar to AA sequence:RefSeq:WP_013450066.1
COORDINATES: similar to AA sequence:RefSeq:WP_013450065.1
COORDINATES: similar to AA sequence:RefSeq:WP_013449956.1
COORDINATES: similar to AA sequence:RefSeq:WP_013450063.1
COORDINATES: similar to AA sequence:RefSeq:WP_013450062.1
COORDINATES: similar to AA sequence:RefSeq:WP_013450061.1
COORDINATES: protein motif:HMM:NF017243.2
COORDINATES: similar to AA sequence:RefSeq:WP_013450059.1
COORDINATES: similar to AA sequence:RefSeq:WP_013450058.1
COORDINATES: protein motif:HMM:NF019421.2
type II toxin-antitoxin system HipA family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_011371863.1
COORDINATES: similar to AA sequence:RefSeq:WP_013450053.1
COORDINATES: similar to AA sequence:RefSeq:WP_012675491.1
COORDINATES: similar to AA sequence:RefSeq:WP_013450049.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011372529.1
GO:0003871 - 5-methyltetrahydropteroyltriglutamate-homocysteine S-methyltransferase activity [Evidence IEA]; GO:0008270 - zinc ion binding [Evidence IEA]
GO:0008652 - amino acid biosynthetic process [Evidence IEA]; GO:0009086 - methionine biosynthetic process [Evidence IEA]
5-methyltetrahydropteroyltriglutamate-- homocysteine S-methyltransferase
COORDINATES: similar to AA sequence:RefSeq:WP_013460107.1
COORDINATES: similar to AA sequence:RefSeq:WP_013460628.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
TetR/AcrR family transcriptional regulator
COORDINATES: protein motif:HMM:NF033527.1
GO:0004803 - transposase activity [Evidence IEA]
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: similar to AA sequence:RefSeq:WP_004762627.1
COORDINATES: similar to AA sequence:RefSeq:WP_002689588.1
COORDINATES: similar to AA sequence:RefSeq:WP_019620268.1
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_003230279.1
COORDINATES: similar to AA sequence:RefSeq:WP_009186354.1
GO:0016788 - hydrolase activity, acting on ester bonds [Evidence IEA]
type II toxin-antitoxin system HigB family toxin
COORDINATES: protein motif:HMM:TIGR00254.1
COORDINATES: similar to AA sequence:RefSeq:WP_013459280.1
COORDINATES: similar to AA sequence:RefSeq:WP_013459279.1
GO:0015036 - disulfide oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013460354.1
GO:0005886 - plasma membrane [Evidence IEA]
GO:0005525 - GTP binding [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008338334.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_011953105.1
COORDINATES: similar to AA sequence:RefSeq:WP_011372918.1
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008338564.1
COORDINATES: similar to AA sequence:RefSeq:WP_008336131.1
rhodanese-like domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008335949.1
COORDINATES: similar to AA sequence:RefSeq:WP_011372528.1
GO:0047134 - protein-disulfide reductase (NAD(P)) activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF024498.2
COORDINATES: similar to AA sequence:RefSeq:WP_013460119.1
COORDINATES: similar to AA sequence:RefSeq:WP_015873766.1
COORDINATES: similar to AA sequence:RefSeq:WP_013460533.1
COORDINATES: similar to AA sequence:RefSeq:WP_013460534.1
COORDINATES: similar to AA sequence:RefSeq:WP_006954157.1
COORDINATES: protein motif:HMM:NF033546.1
COORDINATES: similar to AA sequence:RefSeq:WP_013460050.1
COORDINATES: protein motif:HMM:NF024676.2
COORDINATES: similar to AA sequence:RefSeq:WP_013460652.1
ATP-binding cassette domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_016990549.1
COORDINATES: similar to AA sequence:RefSeq:WP_014810115.1
COORDINATES: protein motif:HMM:NF021049.2
YiiD C-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_013460657.1
COORDINATES: similar to AA sequence:RefSeq:WP_005021300.1
aspartate aminotransferase family protein
COORDINATES: protein motif:HMM:NF015438.2
GO:0003824 - catalytic activity [Evidence IEA]; GO:0043546 - molybdopterin cofactor binding [Evidence IEA]