Arsenophonus apicola strain ArsBeeUS plasmid pArsBee6, complete sequence.
Bacteria; Proteobacteria; Gammaproteobacteria; Enterobacterales; Morganellaceae; Arsenophonus.
Culture and genomic analysis of Arsenophonus apicola sp. nov. isolated from the honeybee Apis mellifera
Submitted (27-SEP-2021) Evolution, Ecology and Behaviour, University of Liverpool, Crown Street, Biosciences building, Liverpool L69 7ZB, United Kingdom
REFSEQ INFORMATION: The reference sequence is identical to\nCP084228.1.\nBacteria and source DNA available from Pol Nadal Jimenez, Institute\nof Infection, Veterinary and Ecological Sciences, University of\nLiverpool, Ic2 Liverpool Science Park, 146 Brownlow Hill,\nLiverpool, L3 5RF, UK.\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 :: Flye v. 2.8; Pilon v. 1.23\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 49.6x\nSequencing Technology :: Oxford Nanopore MinION; Illumina MiSeq\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 09/04/2022 11:51:30\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.2\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA;\n repeat_region\nGenes (total) :: 3,553\nCDSs (total) :: 3,453\nGenes (coding) :: 3,222\nCDSs (with protein) :: 3,222\nGenes (RNA) :: 100\nrRNAs :: 8, 7, 7 (5S, 16S, 23S)\ncomplete rRNAs :: 8, 7, 7 (5S, 16S, 23S)\ntRNAs :: 70\nncRNAs :: 8\nPseudo Genes (total) :: 231\nCDSs (without protein) :: 231\nPseudo Genes (ambiguous residues) :: 0 of 231\nPseudo Genes (frameshifted) :: 136 of 231\nPseudo Genes (incomplete) :: 66 of 231\nPseudo Genes (internal stop) :: 64 of 231\nPseudo Genes (multiple problems) :: 33 of 231\nCRISPR Arrays :: 1\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: protein motif:HMM:NF024835.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_015981331.1
COORDINATES: similar to AA sequence:RefSeq:WP_007727572.1
COORDINATES: similar to AA sequence:RefSeq:WP_010865085.1
COORDINATES: similar to AA sequence:RefSeq:WP_001419705.1
COORDINATES: similar to AA sequence:RefSeq:WP_019454356.1
COORDINATES: similar to AA sequence:RefSeq:WP_015873531.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_006658966.1
COORDINATES: similar to AA sequence:RefSeq:WP_004918815.1
COORDINATES: similar to AA sequence:RefSeq:WP_012990251.1
COORDINATES: similar to AA sequence:RefSeq:WP_020308204.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_021141233.1
GO:0004803 - transposase activity [Evidence IEA]
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_016257341.1
PBSX family phage terminase large subunit
COORDINATES: similar to AA sequence:RefSeq:WP_009351668.1
COORDINATES: similar to AA sequence:RefSeq:WP_011145233.1
COORDINATES: similar to AA sequence:RefSeq:WP_004085174.1
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: protein motif:HMM:NF018125.2
COORDINATES: similar to AA sequence:RefSeq:WP_015873870.1
Rpn family recombination-promoting nuclease/putative transposase
COORDINATES: protein motif:HMM:NF016255.2
COORDINATES: similar to AA sequence:RefSeq:WP_001556711.1
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_001067793.1
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:NF012311.2
GO:0008236 - serine-type peptidase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF015831.2
COORDINATES: protein motif:HMM:NF012925.2
COORDINATES: similar to AA sequence:RefSeq:YP_005221000.1
COORDINATES: protein motif:HMM:NF012464.2
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_001556584.1
COORDINATES: similar to AA sequence:RefSeq:WP_016809496.1