Campylobacter upsaliensis strain Campylobacter upsaliensis 17-M197059 plasmid 2, complete sequence.
Bacteria; Campylobacterota; Epsilonproteobacteria; Campylobacterales; Campylobacteraceae; Campylobacter.
Submitted (16-SEP-2021) NATIONAL VETERINARY INSTITUTE (SVA), EURL Campylobacter, Travvagen 20, 751 89 Uppsala, Sweden
REFSEQ INFORMATION: The reference sequence is identical to\nOU701460.1.\nHybrid genome assembly for Campylobacter upsaliensis 17-M197059.\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-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 10/16/2022 04:02:55\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.3\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA;\n repeat_region\nGenes (total) :: 1,779\nCDSs (total) :: 1,723\nGenes (coding) :: 1,695\nCDSs (with protein) :: 1,695\nGenes (RNA) :: 56\nrRNAs :: 3, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 3, 3, 3 (5S, 16S, 23S)\ntRNAs :: 44\nncRNAs :: 3\nPseudo Genes (total) :: 28\nCDSs (without protein) :: 28\nPseudo Genes (ambiguous residues) :: 0 of 28\nPseudo Genes (frameshifted) :: 16 of 28\nPseudo Genes (incomplete) :: 14 of 28\nPseudo Genes (internal stop) :: 4 of 28\nPseudo Genes (multiple problems) :: 6 of 28\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_004276577.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF012487.2
COORDINATES: similar to AA sequence:RefSeq:WP_002779685.1
COORDINATES: similar to AA sequence:RefSeq:WP_002815029.1
COORDINATES: similar to AA sequence:RefSeq:WP_002800331.1
COORDINATES: similar to AA sequence:RefSeq:WP_014517240.1
COORDINATES: similar to AA sequence:RefSeq:WP_002823362.1
GO:0016021 - integral component of membrane [Evidence IEA]
GO:0005524 - ATP binding [Evidence IEA]; GO:0008233 - peptidase activity [Evidence IEA]
cysteine peptidase family C39 domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_004277983.1
COORDINATES: similar to AA sequence:RefSeq:WP_004276332.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_002816965.1
COORDINATES: protein motif:HMM:NF014069.2
COORDINATES: similar to AA sequence:RefSeq:WP_004276234.1
type IV secretion system DNA-binding domain-containing protein
COORDINATES: protein motif:HMM:NF024252.2
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_004276238.1
COORDINATES: similar to AA sequence:RefSeq:WP_011990169.1
COORDINATES: similar to AA sequence:RefSeq:WP_004276240.1
TrbC family F-type conjugative pilus assembly protein
COORDINATES: similar to AA sequence:RefSeq:WP_002794785.1
COORDINATES: similar to AA sequence:RefSeq:WP_004276243.1
COORDINATES: protein motif:HMM:NF037161.2
COORDINATES: protein motif:HMM:NF021182.2
COORDINATES: similar to AA sequence:RefSeq:WP_004278173.1
COORDINATES: protein motif:HMM:NF013704.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0008170 - N-methyltransferase activity [Evidence IEA]
GO:0006306 - DNA methylation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004276258.1
COORDINATES: protein motif:HMM:TIGR02385.1
type II toxin-antitoxin system mRNA interferase toxin, RelE/StbE family
COORDINATES: protein motif:HMM:NF014548.2
COORDINATES: similar to AA sequence:RefSeq:WP_019108607.1
lytic transglycosylase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_002817426.1
type II toxin-antitoxin system YafQ family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_006802383.1
COORDINATES: similar to AA sequence:RefSeq:WP_002793350.1
type IV conjugative transfer system protein TraL
COORDINATES: similar to AA sequence:RefSeq:WP_002800805.1
TraE/TraK family type IV conjugative transfer system protein
COORDINATES: similar to AA sequence:RefSeq:WP_011990139.1
type-F conjugative transfer system secretin TraK
COORDINATES: similar to AA sequence:RefSeq:WP_004276270.1
COORDINATES: similar to AA sequence:RefSeq:WP_002793369.1
COORDINATES: similar to AA sequence:RefSeq:WP_002793371.1
COORDINATES: similar to AA sequence:RefSeq:WP_004276274.1
COORDINATES: protein motif:HMM:NF022580.2
COORDINATES: protein motif:HMM:NF040179.1
COORDINATES: protein motif:HMM:NF021981.2
COORDINATES: protein motif:HMM:NF017892.2
COORDINATES: similar to AA sequence:RefSeq:WP_004276333.1
COORDINATES: protein motif:HMM:NF025105.2
COORDINATES: protein motif:HMM:NF019530.2
conjugal transfer protein TraG N-terminal domain-containing protein
COORDINATES: protein motif:HMM:NF024872.2
COORDINATES: protein motif:HMM:NF013540.2
COORDINATES: protein motif:HMM:NF024755.2
COORDINATES: similar to AA sequence:RefSeq:WP_019108647.1
COORDINATES: protein motif:HMM:TIGR00621.2
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: similar to AA sequence:RefSeq:WP_004276561.1
GO:0006259 - DNA metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004276565.1
COORDINATES: similar to AA sequence:RefSeq:WP_004276568.1
COORDINATES: similar to AA sequence:RefSeq:WP_019108636.1
COORDINATES: similar to AA sequence:RefSeq:WP_014768251.1
COORDINATES: similar to AA sequence:RefSeq:WP_004276574.1