Helicobacter apodemus strain SCJK1 plasmid unnamed, complete sequence.
Bacteria; Campylobacterota; Epsilonproteobacteria; Campylobacterales; Helicobacteraceae; Helicobacter.
Complete genome of Helicobacter apodemus
Submitted (10-JUN-2017) Veterinary Public Health, Seoul National University College of Veterinary Medicine, Gwanak, Seoul 08826, South Korea
REFSEQ INFORMATION: The reference sequence is identical to\nCP021887.1.\nBacteria and source DNA available from Seoul National University,\nCollege of Veterinary Medicine.\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/\nThis genome has a base modification file available.\n\n##Genome-Assembly-Data-START##\nAssembly Date :: JUN-2017\nAssembly Method :: RS HGAP Assembly v. v 3.0\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 477.0x\nSequencing Technology :: PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 06/18/2023 10:46:29\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.5\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 2,053\nCDSs (total) :: 2,002\nGenes (coding) :: 1,959\nCDSs (with protein) :: 1,959\nGenes (RNA) :: 51\nrRNAs :: 3, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 3, 3, 3 (5S, 16S, 23S)\ntRNAs :: 39\nncRNAs :: 3\nPseudo Genes (total) :: 43\nCDSs (without protein) :: 43\nPseudo Genes (ambiguous residues) :: 0 of 43\nPseudo Genes (frameshifted) :: 35 of 43\nPseudo Genes (incomplete) :: 9 of 43\nPseudo Genes (internal stop) :: 1 of 43\nPseudo Genes (multiple problems) :: 2 of 43\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_006803307.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_002809290.1
COORDINATES: similar to AA sequence:RefSeq:WP_002869250.1
COORDINATES: similar to AA sequence:RefSeq:WP_012108065.1
COORDINATES: similar to AA sequence:RefSeq:WP_002790208.1
P-type conjugative transfer protein VirB9
COORDINATES: similar to AA sequence:RefSeq:WP_002826433.1
COORDINATES: similar to AA sequence:RefSeq:WP_012662268.1
GO:0043684 - type IV secretion system complex [Evidence IEA]
GO:0044097 - secretion by the type IV secretion system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006803313.1
COORDINATES: similar to AA sequence:RefSeq:WP_002822838.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_006803315.1
cag pathogenicity island Cag12 family protein
COORDINATES: similar to AA sequence:RefSeq:WP_006803316.1
TrbM/KikA/MpfK family conjugal transfer protein
COORDINATES: similar to AA sequence:RefSeq:WP_002779641.1
COORDINATES: similar to AA sequence:RefSeq:WP_002801287.1
COORDINATES: similar to AA sequence:RefSeq:WP_004276310.1
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_002857818.1
COORDINATES: similar to AA sequence:RefSeq:WP_006802367.1
COORDINATES: similar to AA sequence:RefSeq:WP_002804244.1
COORDINATES: similar to AA sequence:RefSeq:WP_002934571.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0140658 - ATP-dependent chromatin remodeler activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_002934573.1
COORDINATES: similar to AA sequence:RefSeq:WP_002839419.1
COORDINATES: similar to AA sequence:RefSeq:WP_002864057.1
COORDINATES: similar to AA sequence:RefSeq:WP_002823310.1
COORDINATES: similar to AA sequence:RefSeq:WP_002818418.1
type II toxin-antitoxin system HicB family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_002779783.1
GO:0003729 - mRNA binding [Evidence IEA]
type II toxin-antitoxin system HicA family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_002835057.1
COORDINATES: similar to AA sequence:RefSeq:WP_002809050.1
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_002828964.1
COORDINATES: similar to AA sequence:RefSeq:WP_002788503.1
VirB4 family type IV secretion/conjugal transfer ATPase