Xanthomonas hortorum strain B07-007 plasmid pB07007, complete sequence.
Bacteria; Pseudomonadota; Gammaproteobacteria; Xanthomonadales; Xanthomonadaceae; Xanthomonas.
Comparative genomic analysis of the lettuce bacterial leaf spot pathogen Xanthomonas hortorum B07-007
Submitted (10-AUG-2016) Research and Development Centre of Saint-Jean-sur-Richelieu, Agriculture and Agri-Food Canada, 430 Boulevard Gouin, Saint-Jean-sur-Richelieu, Quebec J3B 3E6, Canada
REFSEQ INFORMATION: The reference sequence is identical to\nCP016879.1.\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 :: CLC Genomics Workbench v. 7.0.4; Celera v.\n CA 8\nGenome Coverage :: 2681.9 X\nSequencing Technology :: Illumina HiSeq 2000; PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 04/23/2023 03:15:32\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) :: 4,551\nCDSs (total) :: 4,451\nGenes (coding) :: 4,285\nCDSs (with protein) :: 4,285\nGenes (RNA) :: 100\nrRNAs :: 2, 2, 2 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 2, 2 (5S, 16S, 23S)\ntRNAs :: 54\nncRNAs :: 40\nPseudo Genes (total) :: 166\nCDSs (without protein) :: 166\nPseudo Genes (ambiguous residues) :: 0 of 166\nPseudo Genes (frameshifted) :: 71 of 166\nPseudo Genes (incomplete) :: 105 of 166\nPseudo Genes (internal stop) :: 35 of 166\nPseudo Genes (multiple problems) :: 41 of 166\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: ab initio prediction:GeneMarkS-2+
GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_017158332.1
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_017158333.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
ParC family partition-associated protein
COORDINATES: similar to AA sequence:RefSeq:WP_002718015.1
GO:0008657 - DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) inhibitor activity [Evidence IEA]; GO:0042803 - protein homodimerization activity [Evidence IEA]
GO:0030541 - plasmid partitioning [Evidence IEA]; GO:0051290 - protein heterotetramerization [Evidence IEA]; GO:0009432 - SOS response [Evidence IEA]
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_017166857.1
COORDINATES: similar to AA sequence:RefSeq:WP_005924088.1
COORDINATES: similar to AA sequence:RefSeq:WP_006450102.1
GO:0004222 - metalloendopeptidase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006450103.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
COORDINATES: similar to AA sequence:RefSeq:WP_041182630.1
GO:0030254 - protein secretion by the type III secretion system [Evidence IEA]
type III secretion system effector avirulence protein AvrBs3
COORDINATES: similar to AA sequence:RefSeq:WP_076611589.1
GO:0015074 - DNA integration [Evidence IEA]
frameshifted; incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
integrase core domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007975311.1
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_011407237.1
COORDINATES: similar to AA sequence:RefSeq:WP_002801519.1
COORDINATES: similar to AA sequence:RefSeq:WP_041182719.1
COORDINATES: similar to AA sequence:RefSeq:WP_006449684.1
GO:0016747 - acyltransferase activity, transferring groups other than amino-acyl groups [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006449695.1
GO:0015116 - sulfate transmembrane transporter activity [Evidence IEA]
GO:0008272 - sulfate transport [Evidence IEA]
COORDINATES: protein motif:HMM:NF014045.2
COORDINATES: similar to AA sequence:RefSeq:WP_009602860.1
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_007965648.1
COORDINATES: similar to AA sequence:RefSeq:WP_041183487.1
internal stop; incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
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_012438467.1
AvrBs1/Avra family type III secretion system effector
COORDINATES: similar to AA sequence:RefSeq:WP_011345706.1
COORDINATES: similar to AA sequence:RefSeq:WP_006450104.1
COORDINATES: similar to AA sequence:RefSeq:WP_017162824.1
COORDINATES: similar to AA sequence:RefSeq:WP_017160583.1
right-handed parallel beta-helix repeat-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_003487944.1
frameshifted; incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_017115638.1
COORDINATES: similar to AA sequence:RefSeq:WP_017154766.1
COORDINATES: similar to AA sequence:RefSeq:WP_017113814.1
COORDINATES: similar to AA sequence:RefSeq:WP_003491420.1
COORDINATES: similar to AA sequence:RefSeq:WP_017171841.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004519 - endonuclease activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017171840.1
COORDINATES: protein motif:HMM:NF014273.2
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_013040166.1
GO:0008168 - methyltransferase activity [Evidence IEA]; GO:1904047 - S-adenosyl-L-methionine binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011345585.1
COORDINATES: similar to AA sequence:RefSeq:WP_006156708.1
COORDINATES: protein motif:HMM:NF022347.2
COORDINATES: protein motif:HMM:NF027824.2
COORDINATES: similar to AA sequence:RefSeq:WP_004861683.1
COORDINATES: protein motif:HMM:NF014691.2
COORDINATES: protein motif:HMM:NF015205.2
COORDINATES: similar to AA sequence:RefSeq:WP_015241493.1
COORDINATES: similar to AA sequence:RefSeq:WP_017154898.1
COORDINATES: similar to AA sequence:RefSeq:WP_010368869.1
COORDINATES: similar to AA sequence:RefSeq:WP_001001035.1
type IV secretion system DNA-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_019692571.1
COORDINATES: similar to AA sequence:RefSeq:WP_020325431.1
COORDINATES: similar to AA sequence:RefSeq:WP_000138004.1
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_007737252.1
COORDINATES: similar to AA sequence:RefSeq:WP_000744355.1
TrbG/VirB9 family P-type conjugative transfer protein
COORDINATES: similar to AA sequence:RefSeq:WP_019692593.1
COORDINATES: protein motif:HMM:NF016491.2
COORDINATES: protein motif:HMM:NF033894.1
COORDINATES: similar to AA sequence:RefSeq:WP_000751606.1
COORDINATES: protein motif:HMM:NF015118.2
VirB4 family type IV secretion system protein
COORDINATES: protein motif:HMM:NF016957.2
VirB3 family type IV secretion system protein
COORDINATES: protein motif:HMM:NF016820.2
COORDINATES: protein motif:HMM:NF013618.2
lytic transglycosylase domain-containing protein
COORDINATES: protein motif:HMM:NF013014.2
COORDINATES: similar to AA sequence:RefSeq:WP_017113411.1
COORDINATES: similar to AA sequence:RefSeq:WP_017172484.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0008170 - N-methyltransferase activity [Evidence IEA]
GO:0006306 - DNA methylation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_086558181.1
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_017118585.1
COORDINATES: similar to AA sequence:RefSeq:WP_012445490.1
COORDINATES: similar to AA sequence:RefSeq:WP_005917750.1
GO:0044423 - virion component [Evidence IEA]
GO:0005198 - structural molecule activity [Evidence IEA]
GO:0016032 - viral process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017172645.1
type II toxin-antitoxin system VapC family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_019334760.1
AbrB/MazE/SpoVT family DNA-binding domain-containing protein
frameshifted; 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_014619440.1
XopG/HopH/AvrPtoH family type III secretion system effector
COORDINATES: similar to AA sequence:RefSeq:WP_017172392.1
COORDINATES: similar to AA sequence:RefSeq:WP_017163775.1
COORDINATES: similar to AA sequence:RefSeq:WP_005929510.1
COORDINATES: similar to AA sequence:RefSeq:WP_011347479.1
XopE/AvrPphe family type III secretion system effector