Vibrio aerogenes strain LMG 19650 plasmid pLMG19650, complete sequence.
Bacteria; Pseudomonadota; Gammaproteobacteria; Vibrionales; Vibrionaceae; Vibrio.
Vibrio Clade 3.0: New Vibrionaceae Evolutionary Units Using Genome-Based Approach
DOI:10.1007/s00284-021-02725-0 Publication Status: Online-Only
Submitted (20-JUL-2021) Contact:Tomoo Sawabe Hokkaido University, Faculty of Fisheries Sciences; 3-1-1 Minato-cho, Hakodate, Hokkaido 041-8611, Japan
REFSEQ INFORMATION: The reference sequence is identical to\nAP024863.1.\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 :: Unicycler v. 0.4.7\nGenome Coverage :: 209x\nSequencing Technology :: Illumina MiSeq and Nanopore\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 09/29/2022 10:57:28\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) :: 4,715\nCDSs (total) :: 4,606\nGenes (coding) :: 4,530\nCDSs (with protein) :: 4,530\nGenes (RNA) :: 109\nrRNAs :: 7, 7, 7 (5S, 16S, 23S)\ncomplete rRNAs :: 7, 7, 7 (5S, 16S, 23S)\ntRNAs :: 84\nncRNAs :: 4\nPseudo Genes (total) :: 76\nCDSs (without protein) :: 76\nPseudo Genes (ambiguous residues) :: 0 of 76\nPseudo Genes (frameshifted) :: 26 of 76\nPseudo Genes (incomplete) :: 50 of 76\nPseudo Genes (internal stop) :: 7 of 76\nPseudo Genes (multiple problems) :: 7 of 76\nCRISPR Arrays :: 8\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_004744714.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:TIGR00180.1
ParB/RepB/Spo0J family partition protein
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF025085.2
COORDINATES: similar to AA sequence:RefSeq:WP_000237646.1
COORDINATES: similar to AA sequence:RefSeq:WP_014579497.1
COORDINATES: similar to AA sequence:RefSeq:WP_011998791.1
COORDINATES: protein motif:HMM:NF037421.2
COORDINATES: similar to AA sequence:RefSeq:WP_017631034.1
COORDINATES: similar to AA sequence:RefSeq:WP_008220711.1
DUF262 domain-containing HNH endonuclease family protein
COORDINATES: similar to AA sequence:RefSeq:WP_017631036.1
COORDINATES: similar to AA sequence:RefSeq:WP_017420294.1
COORDINATES: similar to AA sequence:RefSeq:WP_011079924.1
type I restriction-modification system subunit M
COORDINATES: similar to AA sequence:RefSeq:WP_012323149.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]; GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012128533.1
COORDINATES: similar to AA sequence:RefSeq:WP_017791256.1
COORDINATES: similar to AA sequence:RefSeq:WP_016800598.1
COORDINATES: protein motif:HMM:NF017333.2
COORDINATES: similar to AA sequence:RefSeq:WP_005430756.1
COORDINATES: similar to AA sequence:RefSeq:WP_002039245.1
COORDINATES: protein motif:HMM:NF019608.2
COORDINATES: similar to AA sequence:RefSeq:WP_017188850.1
COORDINATES: protein motif:HMM:NF016491.2
COORDINATES: protein motif:HMM:NF018983.2
COORDINATES: similar to AA sequence:RefSeq:WP_005430818.1
COORDINATES: similar to AA sequence:RefSeq:WP_005430780.1
COORDINATES: similar to AA sequence:RefSeq:WP_011998826.1
TrbG/VirB9 family P-type conjugative transfer protein
COORDINATES: similar to AA sequence:RefSeq:WP_004745333.1
COORDINATES: similar to AA sequence:RefSeq:WP_004745331.1
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_011998822.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_006714450.1
COORDINATES: similar to AA sequence:RefSeq:WP_011263965.1
COORDINATES: similar to AA sequence:RefSeq:WP_017102170.1
COORDINATES: protein motif:HMM:NF024894.2
COORDINATES: similar to AA sequence:RefSeq:WP_019280744.1
GO:0003674 - molecular_function [Evidence IEA]
GO:0033103 - protein secretion by the type VI secretion system [Evidence IEA]
type VI secretion system tip protein TssI/VgrG
COORDINATES: protein motif:HMM:NF015076.2
COORDINATES: similar to AA sequence:RefSeq:WP_013532247.1
ribbon-helix-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_004677395.1
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_019824049.1
COORDINATES: similar to AA sequence:RefSeq:WP_015728345.1
COORDINATES: similar to AA sequence:RefSeq:WP_017788969.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0000150 - DNA strand exchange activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: protein motif:HMM:TIGR01898.1
GO:0043571 - maintenance of CRISPR repeat elements [Evidence IEA]
type III-B CRISPR module RAMP protein Cmr6
COORDINATES: protein motif:HMM:TIGR01881.1
type III-B CRISPR module-associated protein Cmr5
COORDINATES: protein motif:HMM:TIGR02580.1
type III-B CRISPR module RAMP protein Cmr4
COORDINATES: protein motif:HMM:NF021236.2
type III-B CRISPR module-associated Cmr3 family protein
COORDINATES: protein motif:HMM:TIGR02577.1
type III-B CRISPR-associated protein Cas10/Cmr2
COORDINATES: protein motif:HMM:NF020530.2
COORDINATES: protein motif:HMM:TIGR00287.1
GO:0004520 - endodeoxyribonuclease activity [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]
COORDINATES: protein motif:HMM:TIGR01573.1
GO:0004521 - endoribonuclease activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_000369162.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0008134 - transcription factor binding [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
sigma 54-interacting transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_001048895.1
phospholipase D-like domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_017218262.1
COORDINATES: similar to AA sequence:RefSeq:WP_001901413.1