Serpentinimonas maccroryi strain B1 plasmid pSMB1, complete sequence.
Bacteria; Pseudomonadota; Betaproteobacteria; Burkholderiales; Comamonadaceae; Serpentinimonas.
Physiological and genomic features of highly alkaliphilic hydrogen-utilizing Betaproteobacteria from a continental serpentinizing site
DOI:10.1038/ncomms4900 Publication Status: Online-Only
Submitted (01-APR-2014) Contact:Shino Suzuki Japan Agency for Marine-Earth Science and Technology; Monobe B200, Nankoku, Kochi 783-8502, Japan
REFSEQ INFORMATION: The reference sequence is identical to\nAP014570.1.\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-Assembly-Data-START##\nAssembly Method :: Velvet; CLC GUI v. 6.0.1\nGenome Coverage :: 100x\nSequencing Technology :: Illumina Hiseq 2000\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 03/12/2023 14:52:45\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) :: 2,444\nCDSs (total) :: 2,391\nGenes (coding) :: 2,348\nCDSs (with protein) :: 2,348\nGenes (RNA) :: 53\nrRNAs :: 2, 2, 2 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 2, 2 (5S, 16S, 23S)\ntRNAs :: 44\nncRNAs :: 3\nPseudo Genes (total) :: 43\nCDSs (without protein) :: 43\nPseudo Genes (ambiguous residues) :: 0 of 43\nPseudo Genes (frameshifted) :: 9 of 43\nPseudo Genes (incomplete) :: 38 of 43\nPseudo Genes (internal stop) :: 3 of 43\nPseudo Genes (multiple problems) :: 7 of 43\nCRISPR Arrays :: 2\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
USA:California, The Cedars highly alkaline spring
COORDINATES: protein motif:HMM:NF021637.2
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_004083921.1
COORDINATES: similar to AA sequence:RefSeq:WP_013124593.1
COORDINATES: similar to AA sequence:RefSeq:WP_011342942.1
frameshifted; incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: protein motif:HMM:NF013970.2
type II toxin-antitoxin system VapC family toxin
COORDINATES: protein motif:HMM:NF015947.2
AbrB/MazE/SpoVT family DNA-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_018413503.1
COORDINATES: protein motif:HMM:NF016876.2
COORDINATES: similar to AA sequence:RefSeq:WP_012760089.1
GO:0051983 - regulation of chromosome segregation [Evidence IEA]
type II toxin-antitoxin system ParD family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_008328818.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006388724.1
COORDINATES: protein motif:HMM:NF024092.2
nuclear transport factor 2 family protein
COORDINATES: protein motif:HMM:NF039440.1
COORDINATES: similar to AA sequence:RefSeq:WP_003156525.1
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_017164775.1
COORDINATES: similar to AA sequence:RefSeq:WP_010104014.1
COORDINATES: similar to AA sequence:RefSeq:WP_010960876.1
COORDINATES: similar to AA sequence:RefSeq:WP_017154806.1
COORDINATES: similar to AA sequence:RefSeq:WP_017154883.1