Arsenophonus apicola strain ArsBeeUS plasmid pArsBee2, 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\nCP084224.1.\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: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_016809496.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0000150 - DNA strand exchange activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_001556584.1
GO:0004803 - transposase activity [Evidence IEA]
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF012774.2
COORDINATES: protein motif:HMM:NF025677.2
transposase zinc-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_004951660.1
GO:0045203 - integral component of cell outer membrane [Evidence IEA]
GO:0015474 - autotransporter activity [Evidence IEA]
GO:0046819 - protein secretion by the type V secretion system [Evidence IEA]
COORDINATES: protein motif:HMM:NF024751.2
COORDINATES: similar to AA sequence:RefSeq:WP_006704139.1
COORDINATES: protein motif:HMM:NF033538.1
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_010865085.1
COORDINATES: similar to AA sequence:RefSeq:WP_015873789.1
COORDINATES: similar to AA sequence:RefSeq:WP_002706468.1
ribbon-helix-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_018289586.1
HNH endonuclease signature motif containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011336439.1
COORDINATES: similar to AA sequence:RefSeq:WP_002212004.1
COORDINATES: protein motif:HMM:NF018642.2
COORDINATES: similar to AA sequence:RefSeq:WP_015377593.1
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_005162675.1
COORDINATES: protein motif:HMM:NF013632.2
COORDINATES: similar to AA sequence:RefSeq:WP_005280283.1
COORDINATES: similar to AA sequence:RefSeq:WP_000684988.1
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF012976.2
COORDINATES: similar to AA sequence:RefSeq:WP_003836590.1
COORDINATES: similar to AA sequence:RefSeq:WP_010646725.1
COORDINATES: similar to AA sequence:RefSeq:WP_076612263.1
COORDINATES: similar to AA sequence:RefSeq:WP_002375888.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004247966.1
COORDINATES: similar to AA sequence:RefSeq:WP_004247964.1
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_001505436.1
COORDINATES: protein motif:HMM:NF040300.1
COORDINATES: similar to AA sequence:RefSeq:WP_020313368.1
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_019923820.1
COORDINATES: similar to AA sequence:RefSeq:WP_010617321.1
COORDINATES: similar to AA sequence:RefSeq:WP_004239652.1
GO:0003684 - damaged DNA binding [Evidence IEA]
translesion error-prone DNA polymerase V subunit UmuC
COORDINATES: similar to AA sequence:RefSeq:WP_000165970.1
Rop family plasmid primer RNA-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_005759576.1
COORDINATES: similar to AA sequence:RefSeq:WP_006704154.1
COORDINATES: similar to AA sequence:RefSeq:WP_006590421.1
COORDINATES: similar to AA sequence:RefSeq:WP_011798593.1
COORDINATES: similar to AA sequence:RefSeq:WP_019456441.1
COORDINATES: similar to AA sequence:RefSeq:WP_004929895.1
COORDINATES: protein motif:HMM:NF014567.2
HAMP domain-containing sensor histidine kinase
COORDINATES: similar to AA sequence:RefSeq:WP_015376320.1
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006708968.1
COORDINATES: similar to AA sequence:RefSeq:WP_001562939.1
lytic transglycosylase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_001562938.1
COORDINATES: similar to AA sequence:RefSeq:WP_000504825.1
VirB3 family type IV secretion system protein
COORDINATES: similar to AA sequence:RefSeq:WP_001562935.1
COORDINATES: similar to AA sequence:RefSeq:WP_001086129.1