Komagataeibacter saccharivorans strain JH1 plasmid p183533.
Bacteria; Pseudomonadota; Alphaproteobacteria; Rhodospirillales; Acetobacteraceae; Komagataeibacter.
Draft Genome Sequence of Komagataeibacter saccharivorans strain JH1
Submitted (22-FEB-2019) Department of Genomic and Applied Microbiology, Georg-August University Goettingen, Institute of Microbiology and Genetics, Grisebachstr. 8, Goettingen, Lower Saxony 37077, Germany
REFSEQ INFORMATION: The reference sequence is identical to\nCP036406.1.\nBacteria and source DNA available from Prof. Dr. Rolf Daniel.\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. 0.4.4\nGenome Coverage :: missing\nSequencing Technology :: Illumina; NanoPore\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 04/19/2023 01:36:45\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) :: 3,464\nCDSs (total) :: 3,388\nGenes (coding) :: 3,300\nCDSs (with protein) :: 3,300\nGenes (RNA) :: 76\nrRNAs :: 5, 5, 5 (5S, 16S, 23S)\ncomplete rRNAs :: 5, 5, 5 (5S, 16S, 23S)\ntRNAs :: 57\nncRNAs :: 4\nPseudo Genes (total) :: 88\nCDSs (without protein) :: 88\nPseudo Genes (ambiguous residues) :: 0 of 88\nPseudo Genes (frameshifted) :: 43 of 88\nPseudo Genes (incomplete) :: 56 of 88\nPseudo Genes (internal stop) :: 30 of 88\nPseudo Genes (multiple problems) :: 32 of 88\n##Genome-Annotation-Data-END##\nCOMPLETENESS: not full length.
COORDINATES: protein motif:HMM:NF015487.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
TrbG/VirB9 family P-type conjugative transfer protein
COORDINATES: similar to AA sequence:RefSeq:WP_011251503.1
toxin co-regulated pilus biosynthesis Q family protein
COORDINATES: similar to AA sequence:RefSeq:WP_011251504.1
COORDINATES: protein motif:HMM:TIGR03021.1
GO:0009297 - pilus assembly [Evidence IEA]
COORDINATES: protein motif:HMM:NF018562.2
COORDINATES: protein motif:HMM:NF012652.2
COORDINATES: protein motif:HMM:NF012694.2
type II secretion system F family protein
COORDINATES: protein motif:HMM:NF020384.2
COORDINATES: protein motif:HMM:NF019064.2
COORDINATES: protein motif:HMM:NF016785.2
shufflon system plasmid conjugative transfer pilus tip adhesin PilV
COORDINATES: similar to AA sequence:RefSeq:WP_010504812.1
transglycosylase SLT domain-containing protein
COORDINATES: protein motif:HMM:NF028126.2
Members of this family include DotD of type IVB secretion systems and TraH of plasmid conjugative plasmid systems, both lipoproteins; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_011251514.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_011251515.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_010504822.1
COORDINATES: similar to AA sequence:RefSeq:WP_010504824.1
COORDINATES: similar to AA sequence:RefSeq:WP_010504831.1
type IV secretion system DNA-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_019859973.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_007396037.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011749831.1
TnpB, as the term is used for proteins encoded by IS66 family insertion elements, is considered an accessory protein, since TnpC, encoded by a neighboring gene, is a DDE family transposase; Derived by automated computational analysis using gene prediction method: Protein Homology.
IS66 family insertion sequence element accessory protein TnpB
COORDINATES: protein motif:HMM:NF013677.2
COORDINATES: similar to AA sequence:RefSeq:WP_019092214.1
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_018307960.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019092197.1
COORDINATES: similar to AA sequence:RefSeq:WP_010504833.1
COORDINATES: similar to AA sequence:RefSeq:WP_010504850.1
COORDINATES: similar to AA sequence:RefSeq:WP_012638545.1
winged helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_007425014.1
COORDINATES: similar to AA sequence:RefSeq:WP_014106903.1
COORDINATES: protein motif:HMM:NF016232.2
COORDINATES: similar to AA sequence:RefSeq:WP_006560112.1
COORDINATES: similar to AA sequence:RefSeq:WP_010513026.1
COORDINATES: similar to AA sequence:RefSeq:WP_011251394.1
COORDINATES: protein motif:HMM:NF014069.2
COORDINATES: similar to AA sequence:RefSeq:WP_007396077.1
COORDINATES: similar to AA sequence:RefSeq:WP_010505062.1
GO:0006260 - DNA replication [Evidence IEA]
DUF3991 and TOPRIM domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007396073.1
COORDINATES: similar to AA sequence:RefSeq:WP_007396072.1
COORDINATES: similar to AA sequence:RefSeq:WP_010512535.1
COORDINATES: similar to AA sequence:RefSeq:WP_076612098.1
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: nucleotide motif:Rfam:14.4:RF01497
AL1L pseudoknot; Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: similar to AA sequence:RefSeq:WP_010515655.1
COORDINATES: similar to AA sequence:RefSeq:WP_011251422.1
ParB N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007396061.1
GO:0008168 - methyltransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007396561.1
GO:0003824 - catalytic activity [Evidence IEA]
phosphoadenosine phosphosulfate reductase family protein
COORDINATES: protein motif:HMM:TIGR00180.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_012813118.1
COORDINATES: similar to AA sequence:RefSeq:WP_006115744.1
COORDINATES: similar to AA sequence:RefSeq:WP_012222260.1
COORDINATES: similar to AA sequence:RefSeq:WP_015075052.1
COORDINATES: similar to AA sequence:RefSeq:WP_012223140.1
COORDINATES: protein motif:HMM:NF018482.2
invasion associated locus B family protein
COORDINATES: protein motif:HMM:TIGR01414.1
autotransporter domain-containing protein
COORDINATES: protein motif:HMM:TIGR02601.1
autotransporter-associated beta strand repeat-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012226833.1
COORDINATES: similar to AA sequence:RefSeq:WP_012553061.1
COORDINATES: similar to AA sequence:RefSeq:WP_043766426.1
COORDINATES: similar to AA sequence:RefSeq:WP_010517939.1
COORDINATES: similar to AA sequence:RefSeq:WP_010512407.1
Fic/DOC family N-terminal domain-containing protein
COORDINATES: protein motif:HMM:NF012798.2
COORDINATES: similar to AA sequence:RefSeq:WP_012813321.1
COORDINATES: similar to AA sequence:RefSeq:WP_010516402.1
GO:0016020 - membrane [Evidence IEA]; GO:0005886 - plasma membrane [Evidence IEA]
GO:0006814 - sodium ion transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003219546.1
GO:0008080 - N-acetyltransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010510587.1
formaldehyde-responsive transcriptional repressor FrmR
COORDINATES: similar to AA sequence:RefSeq:YP_004995413.1
GO:0004024 - alcohol dehydrogenase activity, zinc-dependent [Evidence IEA]; GO:0051903 - S-(hydroxymethyl)glutathione dehydrogenase activity [Evidence IEA]
GO:0006113 - fermentation [Evidence IEA]; GO:0009404 - toxin metabolic process [Evidence IEA]
S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase
COORDINATES: similar to AA sequence:RefSeq:WP_003626679.1
COORDINATES: similar to AA sequence:RefSeq:WP_010510580.1
GO:0018738 - S-formylglutathione hydrolase activity [Evidence IEA]
GO:0046292 - formaldehyde metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003626996.1
GO:0001216 - DNA-binding transcription activator activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010511170.1
COORDINATES: similar to AA sequence:RefSeq:WP_010511173.1
COORDINATES: similar to AA sequence:RefSeq:WP_018246605.1
COORDINATES: similar to AA sequence:RefSeq:WP_018246604.1
type II toxin-antitoxin system VapC family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_076611557.1
frameshifted; incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF013753.2
COORDINATES: protein motif:HMM:NF026041.2
COORDINATES: protein motif:HMM:NF013752.2
COORDINATES: similar to AA sequence:RefSeq:WP_012812328.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611628.1
COORDINATES: protein motif:HMM:NF015431.2
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_020335980.1
GO:0019239 - deaminase activity [Evidence IEA]; GO:0008270 - zinc ion binding [Evidence IEA]
GO:0009116 - nucleoside metabolic process [Evidence IEA]
COORDINATES: protein motif:HMM:NF037981.1
GO:0015205 - nucleobase transmembrane transporter activity [Evidence IEA]
nucleobase:cation symporter-2 family protein
COORDINATES: similar to AA sequence:RefSeq:WP_007637011.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611653.1
COORDINATES: similar to AA sequence:RefSeq:WP_076612204.1
frameshifted; incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_007396033.1
TonB-dependent receptor plug domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007396031.1
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007396028.1
GO:0050660 - flavin adenine dinucleotide binding [Evidence IEA]; GO:0050661 - NADP binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013385604.1
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009490190.1
GO:0140359 - ABC-type transporter activity [Evidence IEA]; GO:0042626 - ATPase-coupled transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007396025.1
GO:0008233 - peptidase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009490186.1
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]
COORDINATES: similar to AA sequence:RefSeq:WP_003170456.1
ATP-binding cassette domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007396022.1
GO:0055052 - ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing [Evidence IEA]
ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_007893093.1
COORDINATES: similar to AA sequence:RefSeq:WP_007396020.1
GO:0051920 - peroxiredoxin activity [Evidence IEA]
This protein belongs to a clade of uncharacterized proteins related to peroxidases such as the alkylhydroperoxidase AhpD; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_011251537.1
internal stop; incomplete; partial in the middle of a contig; missing N-terminus and C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
aminotransferase class V-fold PLP-dependent enzyme
COORDINATES: similar to AA sequence:RefSeq:WP_010667601.1
COORDINATES: similar to AA sequence:RefSeq:WP_012074470.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF012544.2
GO:0015171 - amino acid transmembrane transporter activity [Evidence IEA]
GO:0006865 - amino acid transport [Evidence IEA]; GO:0055085 - transmembrane transport [Evidence IEA]
frameshifted; internal stop; incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF017277.2
COORDINATES: similar to AA sequence:RefSeq:WP_012223252.1
COORDINATES: similar to AA sequence:RefSeq:WP_007396143.1
COORDINATES: protein motif:HMM:NF004225.0
GO:0008408 - 3'-5' exonuclease activity [Evidence IEA]; GO:0003887 - DNA-directed DNA polymerase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011251559.1
COORDINATES: protein motif:HMM:NF015393.2
COORDINATES: similar to AA sequence:RefSeq:WP_011251483.1
COORDINATES: similar to AA sequence:RefSeq:WP_010505302.1
GO:0070064 - proline-rich region binding [Evidence IEA]; GO:0005515 - protein binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010505300.1
COORDINATES: protein motif:HMM:NF012967.2
GO:0016740 - transferase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF015437.2
COORDINATES: similar to AA sequence:RefSeq:WP_012553267.1
GO:0015074 - DNA integration [Evidence IEA]
integrase core domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011252867.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611844.1
incomplete; partial in the middle of a contig; missing N-terminus and C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_010668233.1
GO:0005247 - voltage-gated chloride channel activity [Evidence IEA]
GO:0006821 - chloride transport [Evidence IEA]
LysR substrate-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_014005393.1
GO:0008484 - sulfuric ester hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010510938.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611877.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611345.1
COORDINATES: similar to AA sequence:RefSeq:WP_015934105.1
COORDINATES: similar to AA sequence:RefSeq:WP_086558212.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_011251487.1
COORDINATES: protein motif:HMM:TIGR04346.1
COORDINATES: similar to AA sequence:RefSeq:WP_010505288.1
COORDINATES: similar to AA sequence:RefSeq:WP_010505286.1
COORDINATES: similar to AA sequence:RefSeq:WP_011251495.1
COORDINATES: similar to AA sequence:RefSeq:WP_010504776.1
DotH/IcmK family type IV secretion protein