Rickettsia asiatica strain Maytaro1284 plasmid pRA1, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Rickettsiales; Rickettsiaceae; Rickettsieae; Rickettsia; spotted fever group.
Draft genome sequence of Rickettsia asiatica Maytaro1284
Submitted (04-APR-2019) Contact:Ryo Nakao Hokkaido University; N18 W9, Kitaku, Sapporo 060-0818, Japan
REFSEQ INFORMATION: The reference sequence is identical to\nAP019564.1.\nAnnotated at DFAST https://dfast.nig.ac.jp/\n\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 :: Canu v. 1.8\nGenome Coverage :: 882x\nSequencing Technology :: Illumina Miseq; PacBio RS II\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/27/2022 02:34:54\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) :: 1,649\nCDSs (total) :: 1,609\nGenes (coding) :: 1,462\nCDSs (with protein) :: 1,462\nGenes (RNA) :: 40\nrRNAs :: 1, 1, 1 (5S, 16S, 23S)\ncomplete rRNAs :: 1, 1, 1 (5S, 16S, 23S)\ntRNAs :: 33\nncRNAs :: 4\nPseudo Genes (total) :: 147\nCDSs (without protein) :: 147\nPseudo Genes (ambiguous residues) :: 0 of 147\nPseudo Genes (frameshifted) :: 96 of 147\nPseudo Genes (incomplete) :: 66 of 147\nPseudo Genes (internal stop) :: 51 of 147\nPseudo Genes (multiple problems) :: 57 of 147\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_008581431.1
GO:0004386 - helicase activity [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_013006733.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_014386951.1
COORDINATES: similar to AA sequence:RefSeq:WP_013006735.1
COORDINATES: similar to AA sequence:RefSeq:WP_010424153.1
reverse transcriptase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008581495.1
COORDINATES: similar to AA sequence:RefSeq:WP_006280065.1
COORDINATES: similar to AA sequence:RefSeq:WP_008581493.1
COORDINATES: similar to AA sequence:RefSeq:WP_010424161.1
phytanoyl-CoA dioxygenase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_008581491.1
COORDINATES: similar to AA sequence:RefSeq:WP_008581490.1
COORDINATES: similar to AA sequence:RefSeq:WP_010424164.1
COORDINATES: protein motif:HMM:NF016300.2
The SIMPL domain is named for its presence in mouse protein SIMPL (signalling molecule that associates with mouse pelle-like kinase). Bacterial member BP26, from Brucella, was shown to assemble into a channel-like structure, while YggE from E. coli has been associated with resistance to oxidative stress; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF015737.2
autotransporter outer membrane beta-barrel domain-containing protein
COORDINATES: protein motif:HMM:NF033587.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_010424092.1
DnaA N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012720126.1
COORDINATES: similar to AA sequence:RefSeq:WP_010424174.1
COORDINATES: similar to AA sequence:RefSeq:WP_014407988.1
Rpn family recombination-promoting nuclease/putative transposase
COORDINATES: similar to AA sequence:RefSeq:WP_017443568.1
COORDINATES: similar to AA sequence:RefSeq:WP_014408000.1
COORDINATES: similar to AA sequence:RefSeq:WP_011271708.1
patatin-like phospholipase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_012152168.1
GO:0004798 - thymidylate kinase activity [Evidence IEA]
GO:0015949 - nucleobase-containing small molecule interconversion [Evidence IEA]
COORDINATES: protein motif:HMM:NF025910.2
COORDINATES: similar to AA sequence:RefSeq:WP_014386926.1
COORDINATES: protein motif:HMM:NF024579.2
COORDINATES: similar to AA sequence:RefSeq:WP_011271715.1
COORDINATES: similar to AA sequence:RefSeq:WP_013747295.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_014386929.1
COORDINATES: similar to AA sequence:RefSeq:WP_010424178.1
COORDINATES: protein motif:HMM:NF014177.2
GO:0009007 - site-specific DNA-methyltransferase (adenine-specific) activity [Evidence IEA]
GO:0032775 - DNA methylation on adenine [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012720133.1
COORDINATES: protein motif:HMM:NF024824.2
COORDINATES: protein motif:HMM:NF017200.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011271726.1
COORDINATES: similar to AA sequence:RefSeq:WP_008581553.1
COORDINATES: similar to AA sequence:RefSeq:WP_008581555.1
type IV conjugative transfer system protein TraL
COORDINATES: similar to AA sequence:RefSeq:WP_008581557.1
TraE/TraK family type IV conjugative transfer system protein
COORDINATES: protein motif:HMM:NF018311.2
type-F conjugative transfer system secretin TraK
COORDINATES: similar to AA sequence:RefSeq:WP_008581561.1
COORDINATES: similar to AA sequence:RefSeq:WP_008581563.1
COORDINATES: protein motif:HMM:NF022580.2
COORDINATES: protein motif:HMM:NF040179.1
COORDINATES: similar to AA sequence:RefSeq:WP_008581568.1
COORDINATES: similar to AA sequence:RefSeq:WP_008581570.1
COORDINATES: similar to AA sequence:RefSeq:WP_019490987.1
PDDEXK nuclease domain-containing protein
COORDINATES: protein motif:HMM:NF010297.0
conjugal transfer pilus assembly protein TraU
COORDINATES: similar to AA sequence:RefSeq:WP_008581574.1
type-F conjugative transfer system pilin assembly protein TrbC
COORDINATES: similar to AA sequence:RefSeq:WP_008581576.1
COORDINATES: similar to AA sequence:RefSeq:WP_008581578.1
COORDINATES: protein motif:HMM:NF025105.2
COORDINATES: protein motif:HMM:NF017892.2
COORDINATES: protein motif:HMM:NF019530.2
conjugal transfer protein TraG N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008581585.1
COORDINATES: similar to AA sequence:RefSeq:WP_008581586.1
transglycosylase SLT domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_010424111.1
COORDINATES: similar to AA sequence:RefSeq:WP_010424114.1
COORDINATES: similar to AA sequence:RefSeq:WP_008581588.1
type IV secretion system DNA-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_010424126.1
COORDINATES: similar to AA sequence:RefSeq:WP_010424134.1
COORDINATES: similar to AA sequence:RefSeq:WP_008581383.1
COORDINATES: similar to AA sequence:RefSeq:WP_008581385.1
COORDINATES: similar to AA sequence:RefSeq:WP_010424138.1
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_008581517.1
COORDINATES: similar to AA sequence:RefSeq:WP_011476848.1
COORDINATES: protein motif:HMM:NF015069.2