Solidesulfovibrio magneticus RS-1 plasmid pDMC1, complete sequence.
Bacteria; Proteobacteria; Deltaproteobacteria; Desulfovibrionales; Desulfovibrionaceae; Solidesulfovibrio.
Whole genome sequence of Desulfovibrio magneticus strain RS-1 revealed common gene clusters in magnetotactic bacteria
Submitted (03-OCT-2008) Contact:Director-General Department of Biotechnology National Institute of Technology and Evaluation, NITE Bioresource Information Center (NBIC), Department of Biotechnology; 2-49-10 Nishihara, Shibuya-ku, Tokyo 151-0066, Japan URL :http://www.bio.nite.go.jp/
REFSEQ INFORMATION: The reference sequence is identical to\nAP010905.1.\n'Arakaki, A., Tsuruyama, A., Okamura, Y., Takeyama, H. and\nMatsunaga, T. are at Department of Biotechnology, Tokyo University\nof Agriculture and Technology. The other authors are at NITE\nBioresource Information Center (NBIC).\n\nPlease visit our web site. URL:http://www.bio.nite.go.jp/\n\nDOGAN ; Database of Genomes Analyzed at NITE. The database contains\ngenome sequence data, physical maps and the genomic and proteomic\ndata of the microorganisms analyzed.\nURL:http://www.bio.nite.go.jp/dogan/Top\n\nThe microbial strain and microbial genomic DNA clones used for the\nsequencing project are available through the NBRC.\nURL:http://www.nbrc.nite.go.jp/e/index.html.\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##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/12/2022 13:45:55\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\nGenes (total) :: 4,706\nCDSs (total) :: 4,638\nGenes (coding) :: 4,596\nCDSs (with protein) :: 4,596\nGenes (RNA) :: 68\nrRNAs :: 3, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 3, 3, 3 (5S, 16S, 23S)\ntRNAs :: 54\nncRNAs :: 5\nPseudo Genes (total) :: 42\nCDSs (without protein) :: 42\nPseudo Genes (ambiguous residues) :: 0 of 42\nPseudo Genes (frameshifted) :: 8 of 42\nPseudo Genes (incomplete) :: 36 of 42\nPseudo Genes (internal stop) :: 3 of 42\nPseudo Genes (multiple problems) :: 5 of 42\nCRISPR Arrays :: 2\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_009182986.1
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: protein motif:HMM:NF013752.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
COORDINATES: protein motif:HMM:NF015038.2
COORDINATES: similar to AA sequence:RefSeq:WP_012976042.1
TnpB, as the term is used for proteins encoded by IS66 family insertion elements, is considered an accessory protein, since TnpC, encoded by a neighboring gene, is a DDE family transposase; Derived by automated computational analysis using gene prediction method: Protein Homology.
IS66 family insertion sequence element accessory protein TnpB
COORDINATES: protein motif:HMM:NF033517.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015861008.1
COORDINATES: similar to AA sequence:RefSeq:WP_012750623.1
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF040425.1
COORDINATES: similar to AA sequence:RefSeq:WP_086558308.1
frameshifted; incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF015983.2
COORDINATES: similar to AA sequence:RefSeq:WP_015861631.1
COORDINATES: similar to AA sequence:RefSeq:WP_012976048.1
TnpB, as the term is used for proteins encoded by IS66 family insertion elements, is considered an accessory protein, since TnpC, encoded by a neighboring gene, is a DDE family transposase.; TnpB, as the term is used for proteins encoded by IS66 family insertion elements, is considered an accessory protein, since TnpC, encoded by a neighboring gene, is a DDE family transposase; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_009106255.1
COORDINATES: protein motif:HMM:NF020893.2
COORDINATES: similar to AA sequence:RefSeq:WP_013513047.1
COORDINATES: similar to AA sequence:RefSeq:WP_013329333.1
COORDINATES: similar to AA sequence:RefSeq:WP_013513046.1
COORDINATES: protein motif:HMM:NF012514.2
COORDINATES: similar to AA sequence:RefSeq:WP_006422947.1
COORDINATES: similar to AA sequence:RefSeq:WP_006965176.1
thiamine pyrophosphate-dependent dehydrogenase E1 component subunit alpha
COORDINATES: similar to AA sequence:RefSeq:WP_006965175.1
COORDINATES: similar to AA sequence:RefSeq:WP_013275336.1
COORDINATES: similar to AA sequence:RefSeq:WP_012468880.1
DegT/DnrJ/EryC1/StrS family aminotransferase
COORDINATES: similar to AA sequence:RefSeq:WP_002934348.1
COORDINATES: protein motif:HMM:NF012695.2
COORDINATES: protein motif:HMM:NF014425.2
COORDINATES: similar to AA sequence:RefSeq:WP_012749796.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018526006.1
COORDINATES: similar to AA sequence:RefSeq:WP_012976033.1
incomplete; partial in the middle of a contig; missing N-terminus and C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF024408.2
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
IS66 family transposase zinc-finger binding domain-containing protein
COORDINATES: protein motif:HMM:TIGR01764.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012979608.1
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_009182446.1
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_013259398.1
putative addiction module antidote protein
COORDINATES: similar to AA sequence:RefSeq:WP_009183034.1
COORDINATES: similar to AA sequence:RefSeq:YP_005220837.1
COORDINATES: similar to AA sequence:RefSeq:WP_014834018.1
COORDINATES: protein motif:HMM:NF024214.2
NTP transferase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_009182987.1
GO:0047355 - CDP-glycerol glycerophosphotransferase activity [Evidence IEA]
CDP-glycerol glycerophosphotransferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_005994214.1
COORDINATES: protein motif:HMM:NF012711.2
amino acid adenylation domain-containing protein
COORDINATES: protein motif:HMM:NF012759.2
COORDINATES: protein motif:HMM:NF014571.2
GO:0046353 - aminoglycoside 3-N-acetyltransferase activity [Evidence IEA]
GO:0046677 - response to antibiotic [Evidence IEA]