Arsenophonus nasoniae strain FIN plasmid pArsFIN7, complete sequence.
Arsenophonus nasoniae (son-killer infecting Nasonia vitripennis)
Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Morganellaceae; Arsenophonus.
Long-read sequencing reveals hyperdense prophage content in a complex bacterial symbiont genome
Submitted (29-MAR-2019) Evolution, Ecology and Behaviour, University of Liverpool, Crown Street, Biosciences building, Liverpool L69 7ZB, United Kingdom
REFSEQ INFORMATION: The reference sequence is identical to\nCP038619.1.\nAnnotated using prokka 1.12-beta from\nhttps://github.com/tseemann/prokka.\nBacteria and source DNA available from Prof Greg Hurst, Institute\nof Integrative Biology, University of Liverpool.\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 :: 2018\nAssembly Method :: Unicycler v. 0.4.5\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 169.0x\nSequencing Technology :: Oxford Nanopore MiniION; PacBio RSII;\n Illumina MiSeq\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 03/25/2023 01:21:09\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) :: 5,421\nCDSs (total) :: 5,317\nGenes (coding) :: 4,929\nCDSs (with protein) :: 4,929\nGenes (RNA) :: 104\nrRNAs :: 8, 7, 7 (5S, 16S, 23S)\ncomplete rRNAs :: 8, 7, 7 (5S, 16S, 23S)\ntRNAs :: 70\nncRNAs :: 12\nPseudo Genes (total) :: 388\nCDSs (without protein) :: 388\nPseudo Genes (ambiguous residues) :: 0 of 388\nPseudo Genes (frameshifted) :: 199 of 388\nPseudo Genes (incomplete) :: 170 of 388\nPseudo Genes (internal stop) :: 85 of 388\nPseudo Genes (multiple problems) :: 61 of 388\nCRISPR Arrays :: 1\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+.
COORDINATES: similar to AA sequence:RefSeq:WP_014715264.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF021637.2
frameshifted; internal stop; incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_001396154.1
frameshifted; internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF022241.2
plasmid partitioning/stability family protein
COORDINATES: protein motif:HMM:NF012422.2
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_006705317.1
COORDINATES: protein motif:HMM:NF025842.2
COORDINATES: protein motif:HMM:NF024835.2
COORDINATES: similar to AA sequence:RefSeq:WP_006708968.1
COORDINATES: similar to AA sequence:RefSeq:WP_000953524.1
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
transglycosylase SLT domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_076612135.1
GO:0004803 - transposase activity [Evidence IEA]
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_001749308.1
COORDINATES: similar to AA sequence:RefSeq:WP_001773468.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_004144477.1
COORDINATES: protein motif:HMM:NF022136.2
toxin co-regulated pilus biosynthesis Q family protein
COORDINATES: protein motif:HMM:NF019064.2
COORDINATES: similar to AA sequence:RefSeq:WP_015873775.1
GO:0019867 - outer membrane [Evidence IEA]
GO:0009297 - pilus assembly [Evidence IEA]; GO:0009306 - protein secretion [Evidence IEA]
PilN family type IVB pilus formation outer membrane protein
COORDINATES: protein motif:HMM:NF018562.2
COORDINATES: protein motif:HMM:TIGR03021.1
GO:0009297 - pilus assembly [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015873778.1
COORDINATES: protein motif:HMM:NF025034.2
retroviral-like aspartic protease family protein
COORDINATES: similar to AA sequence:RefSeq:WP_015873678.1
COORDINATES: similar to AA sequence:RefSeq:WP_015873679.1
type II secretion system F family protein
COORDINATES: similar to AA sequence:RefSeq:WP_006708701.1
COORDINATES: similar to AA sequence:RefSeq:WP_006708935.1
lytic transglycosylase domain-containing protein
COORDINATES: protein motif:HMM:NF013632.2
COORDINATES: protein motif:HMM:NF016785.2
shufflon system plasmid conjugative transfer pilus tip adhesin PilV
COORDINATES: similar to AA sequence:RefSeq:WP_004929670.1
COORDINATES: similar to AA sequence:RefSeq:WP_011279201.1
TrbM/KikA/MpfK family conjugal transfer protein
COORDINATES: similar to AA sequence:RefSeq:WP_001565871.1
COORDINATES: similar to AA sequence:RefSeq:WP_016234218.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003916 - DNA topoisomerase activity [Evidence IEA]
GO:0006265 - DNA topological change [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_001749339.1
plasmid mobilization relaxosome protein MobC
COORDINATES: similar to AA sequence:RefSeq:WP_007247727.1
COORDINATES: protein motif:HMM:NF037421.2
COORDINATES: similar to AA sequence:RefSeq:WP_004666800.1
COORDINATES: similar to AA sequence:RefSeq:WP_013578322.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_000165985.1
Rop family plasmid primer RNA-binding protein
COORDINATES: protein motif:HMM:NF016255.2
COORDINATES: similar to AA sequence:RefSeq:WP_015873870.1
Rpn family recombination-promoting nuclease/putative transposase
COORDINATES: similar to AA sequence:RefSeq:WP_000484486.1
COORDINATES: protein motif:HMM:NF024754.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014657458.1
COORDINATES: similar to AA sequence:RefSeq:WP_005759576.1
COORDINATES: similar to AA sequence:RefSeq:WP_011092230.1
COORDINATES: similar to AA sequence:RefSeq:WP_013747467.1
COORDINATES: similar to AA sequence:RefSeq:WP_019454880.1
COORDINATES: similar to AA sequence:RefSeq:WP_015377672.1
opine metallophore biosynthesis dehydrogenase
COORDINATES: similar to AA sequence:RefSeq:WP_004931490.1
GO:0030410 - nicotianamine synthase activity [Evidence IEA]
GO:0030418 - nicotianamine biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012105395.1
COORDINATES: similar to AA sequence:RefSeq:WP_015377674.1
COORDINATES: similar to AA sequence:RefSeq:WP_019454885.1
ABC transporter substrate-binding protein
COORDINATES: protein motif:HMM:NF033563.0
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_016114824.1
COORDINATES: similar to AA sequence:RefSeq:WP_015873789.1
COORDINATES: similar to AA sequence:RefSeq:WP_015632457.1
COORDINATES: similar to AA sequence:RefSeq:WP_015874496.1
COORDINATES: protein motif:HMM:TIGR03138.1
GO:0043867 - 7-cyano-7-deazaguanine tRNA-ribosyltransferase activity [Evidence IEA]; GO:0033739 - preQ1 synthase activity [Evidence IEA]
GO:0008616 - queuosine biosynthetic process [Evidence IEA]
Catalyzes the NADPH-dependent reduction of 7-cyano-7-deazaguanine (preQ0) to 7-aminomethyl-7-deazaguanine (preQ1) in queuosine biosynthesis; Derived by automated computational analysis using gene prediction method: Protein Homology.
NADPH-dependent 7-cyano-7-deazaguanine reductase QueF
COORDINATES: protein motif:HMM:TIGR00697.1
GO:1990397 - queuosine salvage [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015873760.1
COORDINATES: similar to AA sequence:RefSeq:WP_001562927.1
COORDINATES: similar to AA sequence:RefSeq:WP_076612362.1
COORDINATES: protein motif:HMM:NF020384.2
COORDINATES: protein motif:HMM:NF014668.2
COORDINATES: similar to AA sequence:RefSeq:WP_006322813.1
COORDINATES: protein motif:HMM:NF025677.2
transposase zinc-binding domain-containing protein
COORDINATES: protein motif:HMM:NF016847.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [Evidence IEA]