Eikenella exigua strain PXX plasmid unnamed1, complete sequence.
Bacteria; Pseudomonadota; Betaproteobacteria; Neisseriales; Neisseriaceae; Eikenella.
Eikenella exigua sp. nov., isolated from brain abscess and blood
Submitted (19-MAR-2019) Microbiology, Haukeland University Hospital, Jonas Lies vei 65, Bergen 5021, Norway
REFSEQ INFORMATION: The reference sequence is identical to\nCP038019.1.\nBacteria and source DNA available from Oyvind Kommedal, Dept. of\nMicrobiology, Haukeland University Hospital, Bergen, Norway. The\nstrain will also be submitted to various culture collections.\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 Date :: 18-MAR-2019\nAssembly Method :: Unicycler v. 0.4.7\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 92.0x\nSequencing Technology :: Illumina MiSeq; Oxford Nanopore MiniION\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 05/18/2023 03:55:42\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) :: 2,079\nCDSs (total) :: 2,013\nGenes (coding) :: 1,944\nCDSs (with protein) :: 1,944\nGenes (RNA) :: 66\nrRNAs :: 4, 4, 4 (5S, 16S, 23S)\ncomplete rRNAs :: 4, 4, 4 (5S, 16S, 23S)\ntRNAs :: 50\nncRNAs :: 4\nPseudo Genes (total) :: 69\nCDSs (without protein) :: 69\nPseudo Genes (ambiguous residues) :: 0 of 69\nPseudo Genes (frameshifted) :: 48 of 69\nPseudo Genes (incomplete) :: 35 of 69\nPseudo Genes (internal stop) :: 24 of 69\nPseudo Genes (multiple problems) :: 28 of 69\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_003701851.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF036299.2
COORDINATES: similar to AA sequence:RefSeq:WP_003701845.1
COORDINATES: protein motif:HMM:NF015397.2
TraI/MobA(P) family conjugative relaxase
COORDINATES: similar to AA sequence:RefSeq:WP_003701841.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: protein motif:HMM:NF010459.0
GO:0030288 - outer membrane-bounded periplasmic space [Evidence IEA]
GO:0008233 - peptidase activity [Evidence IEA]
conjugative transfer signal peptidase TraF
COORDINATES: similar to AA sequence:RefSeq:WP_013085583.1
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_003701838.1
COORDINATES: similar to AA sequence:RefSeq:WP_014579490.1
COORDINATES: similar to AA sequence:RefSeq:WP_003701924.1
COORDINATES: similar to AA sequence:RefSeq:WP_007341082.1
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_003701907.1
COORDINATES: similar to AA sequence:RefSeq:WP_003701905.1
COORDINATES: protein motif:HMM:NF014691.2
COORDINATES: similar to AA sequence:RefSeq:WP_003785638.1
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
type II toxin-antitoxin system RelB/DinJ family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_006250322.1
type II toxin-antitoxin system YafQ family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_003701898.1
COORDINATES: similar to AA sequence:RefSeq:WP_016687500.1
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
TrbM/KikA/MpfK family conjugal transfer protein
COORDINATES: protein motif:HMM:TIGR02783.1
GO:0009291 - unidirectional conjugation [Evidence IEA]
P-type conjugative transfer protein TrbL
COORDINATES: similar to AA sequence:RefSeq:WP_003701891.1
P-type conjugative transfer protein TrbJ
COORDINATES: similar to AA sequence:RefSeq:WP_003701889.1
COORDINATES: protein motif:HMM:NF018934.2
COORDINATES: similar to AA sequence:RefSeq:WP_011255078.1
P-type conjugative transfer protein TrbG
COORDINATES: similar to AA sequence:RefSeq:WP_003701883.1
COORDINATES: similar to AA sequence:RefSeq:WP_011013264.1
VirB4 family type IV secretion/conjugal transfer ATPase
COORDINATES: similar to AA sequence:RefSeq:WP_017161247.1
COORDINATES: similar to AA sequence:RefSeq:WP_003701877.1
COORDINATES: similar to AA sequence:RefSeq:WP_010655130.1
COORDINATES: similar to AA sequence:RefSeq:WP_003701872.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_003701870.1
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_003701868.1
COORDINATES: similar to AA sequence:RefSeq:WP_003701861.1
COORDINATES: similar to AA sequence:RefSeq:WP_020308535.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
ParB/RepB/Spo0J family partition protein