Gluconacetobacter diazotrophicus PA1 5 plasmid pGDIA01, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Rhodospirillales; Acetobacteraceae; Gluconacetobacter.
Two genome sequences of the same bacterial strain, Gluconacetobacter diazotrophicus PAl 5, suggest a new standard in genome sequence submission
Submitted (09-OCT-2008) US DOE Joint Genome Institute, 2800 Mitchell Drive B100, Walnut Creek, CA 94598-1698, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP001190.1.\nURL -- http://www.jgi.doe.gov\nJGI Project ID: 4082943\nSource DNA and organism available from Eric W. Triplett\n(ewt@ufl.edu)\nContacts: Eric W. Triplett (ewt@ufl.edu)\n David Bruce (microbe@cuba.jgi-psf.org)\nAnnotation done by JGI-ORNL and JGI-PGF\nFinishing done by JGI-LANL\nFinished microbial genomes have been curated to close all gaps with\ngreater than 98% coverage of at least two independent clones. Each\nbase pair has a minimum q (quality) value of 30 and the total error\nrate is less than one per 50000.\nThe JGI and collaborators endorse the principles for the\ndistribution and use of large scale sequencing data adopted by the\nlarger genome sequencing community and urge users of this data to\nfollow them. it is our intention to publish the work of this\nproject in a timely fashion and we welcome collaborative\ninteraction on the project and analysis.\n(http://www.genome.gov/page.cfm?pageID=10506376).\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 :: 04/24/2023 01:10:53\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) :: 3,694\nCDSs (total) :: 3,623\nGenes (coding) :: 3,557\nCDSs (with protein) :: 3,557\nGenes (RNA) :: 71\nrRNAs :: 4, 4, 4 (5S, 16S, 23S)\ncomplete rRNAs :: 4, 4, 4 (5S, 16S, 23S)\ntRNAs :: 55\nncRNAs :: 4\nPseudo Genes (total) :: 66\nCDSs (without protein) :: 66\nPseudo Genes (ambiguous residues) :: 0 of 66\nPseudo Genes (frameshifted) :: 17 of 66\nPseudo Genes (incomplete) :: 59 of 66\nPseudo Genes (internal stop) :: 2 of 66\nPseudo Genes (multiple problems) :: 12 of 66\nCRISPR Arrays :: 4\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
type strain of Gluconacetobacter diazotrophicus
COORDINATES: similar to AA sequence:RefSeq:WP_010165325.1
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
GO:0003887 - DNA-directed DNA polymerase activity [Evidence IEA]
GO:0006270 - DNA replication initiation [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_019092320.1
COORDINATES: similar to AA sequence:RefSeq:WP_010512413.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_012554521.1
COORDINATES: similar to AA sequence:RefSeq:WP_010516184.1
COORDINATES: similar to AA sequence:RefSeq:WP_014101617.1
GO:0016301 - kinase activity [Evidence IEA]
type II toxin-antitoxin system death-on-curing family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_010516188.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF027544.2
COORDINATES: similar to AA sequence:RefSeq:WP_012553782.1
COORDINATES: similar to AA sequence:RefSeq:WP_012222260.1
GO:0004803 - transposase activity [Evidence IEA]
IS5-like element ISGdi1 family transposase
COORDINATES: protein motif:HMM:NF019843.2
GO:0005515 - protein binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012553779.1
GO:0030253 - protein secretion by the type I secretion system [Evidence IEA]
HlyD family type I secretion periplasmic adaptor subunit
COORDINATES: similar to AA sequence:RefSeq:WP_008854254.1
GO:0055052 - ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing [Evidence IEA]
GO:0140359 - ABC-type transporter activity [Evidence IEA]; GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]; GO:0042626 - ATPase-coupled transmembrane transporter activity [Evidence IEA]; GO:0008233 - peptidase activity [Evidence IEA]
peptidase domain-containing ABC transporter
COORDINATES: similar to AA sequence:RefSeq:WP_003630665.1
COORDINATES: similar to AA sequence:RefSeq:WP_019087205.1
type II toxin-antitoxin system VapC family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_019087318.1
COORDINATES: similar to AA sequence:RefSeq:WP_019088721.1
Ti-type conjugative transfer relaxase TraA
COORDINATES: similar to AA sequence:RefSeq:WP_011995934.1
COORDINATES: similar to AA sequence:RefSeq:WP_012813363.1
COORDINATES: similar to AA sequence:RefSeq:WP_014106730.1
COORDINATES: similar to AA sequence:RefSeq:WP_006053134.1
COORDINATES: similar to AA sequence:RefSeq:WP_019088716.1
COORDINATES: similar to AA sequence:RefSeq:WP_010505343.1
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF023168.2
COORDINATES: similar to AA sequence:RefSeq:WP_007396253.1
COORDINATES: similar to AA sequence:RefSeq:WP_019087448.1