Caminibacter pacificus strain TB6 plasmid unnamed1, complete sequence.
Bacteria; Campylobacterota; Epsilonproteobacteria; Nautiliales; Nautiliaceae; Caminibacter.
A comparative analysis of the Nautiliaceae
Submitted (10-JUN-2019) Biochemistry and Microbiology, Rutgers University, 71 Dudley Rd, New Brunswick, NJ 08901, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP040940.1.\nBacteria and source DNA available from Rutgers University Deep-Sea\nMicrobiology Lab, Department of Biochemistry and Microbiology.\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 Date :: 17-OCT-2018\nAssembly Method :: Unicycler hybrid assembly v. v. 0.4.3\nAssembly Name :: Cetia pacifica 4_plasmid\nGenome Representation :: Full\nExpected Final Version :: Yes\nReference-guided Assembly :: ASM2172v1\nGenome Coverage :: 30.0x\nSequencing Technology :: Oxford Nanopore MiniION; Illumina\n HiSeq\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 03/25/2023 00:25:11\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) :: 2,038\nCDSs (total) :: 1,975\nGenes (coding) :: 1,967\nCDSs (with protein) :: 1,967\nGenes (RNA) :: 63\nrRNAs :: 4, 4, 4 (5S, 16S, 23S)\ncomplete rRNAs :: 4, 4, 4 (5S, 16S, 23S)\ntRNAs :: 48\nncRNAs :: 3\nPseudo Genes (total) :: 8\nCDSs (without protein) :: 8\nPseudo Genes (ambiguous residues) :: 0 of 8\nPseudo Genes (frameshifted) :: 1 of 8\nPseudo Genes (incomplete) :: 7 of 8\nPseudo Genes (internal stop) :: 0 of 8\nCRISPR Arrays :: 5\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
TraM recognition domain-containing protein
COORDINATES: protein motif:HMM:NF018154.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0016301 - kinase activity [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF012652.2
COORDINATES: protein motif:HMM:NF013618.2
transglycosylase SLT domain-containing protein
COORDINATES: protein motif:HMM:NF012234.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF014342.2
COORDINATES: protein motif:HMM:NF013793.2
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:NF037081.2
COORDINATES: protein motif:HMM:NF024498.2
thioredoxin fold domain-containing protein
COORDINATES: protein motif:HMM:NF013658.2
GO:0003824 - catalytic activity [Evidence IEA]
phosphoadenosine phosphosulfate reductase family protein
COORDINATES: protein motif:HMM:NF037528.2
COORDINATES: protein motif:HMM:NF016214.2
COORDINATES: protein motif:HMM:NF012798.2
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006054109.1
COORDINATES: protein motif:HMM:NF012772.2
COORDINATES: similar to AA sequence:RefSeq:WP_015902016.1
GO:0003697 - single-stranded DNA binding [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]; GO:0006281 - DNA repair [Evidence IEA]; GO:0006260 - DNA replication [Evidence IEA]; GO:0006351 - DNA-templated transcription [Evidence IEA]
COORDINATES: protein motif:HMM:NF013311.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0003916 - DNA topoisomerase activity [Evidence IEA]
GO:0006265 - DNA topological change [Evidence IEA]
helix-turn-helix domain-containing protein