Pseudomonas syringae strain Susan2139 plasmid p_unamed1, complete sequence.
Bacteria; Pseudomonadota; Gammaproteobacteria; Pseudomonadales; Pseudomonadaceae; Pseudomonas.
Whole genome sequences of twelve Pseudomonas syringae Phylogroup 2 and three Pseudomonas viridiflava Phylogroup 7 strains
Submitted (11-MAY-2021) ARS, USDA, 1991 Upper Buford Circle, Plant Pathology, Saint Paul, MN 55108, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP074579.1.\nBacteria and source DNA available from Samac Lab, USDA-ARS Forage\nResearch Lab.\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 :: 2021\nAssembly Method :: Unicycler v. JAN-2021\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 382.0x\nSequencing Technology :: Illumina; Oxford Nanopore\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 05/26/2023 03:31:46\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) :: 5,218\nCDSs (total) :: 5,135\nGenes (coding) :: 5,057\nCDSs (with protein) :: 5,057\nGenes (RNA) :: 83\nrRNAs :: 6, 5, 5 (5S, 16S, 23S)\ncomplete rRNAs :: 6, 5, 5 (5S, 16S, 23S)\ntRNAs :: 63\nncRNAs :: 4\nPseudo Genes (total) :: 78\nCDSs (without protein) :: 78\nPseudo Genes (ambiguous residues) :: 0 of 78\nPseudo Genes (frameshifted) :: 22 of 78\nPseudo Genes (incomplete) :: 60 of 78\nPseudo Genes (internal stop) :: 15 of 78\nPseudo Genes (multiple problems) :: 17 of 78\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_003373511.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_002556085.1
COORDINATES: similar to AA sequence:RefSeq:WP_011282506.1
COORDINATES: similar to AA sequence:RefSeq:WP_004661585.1
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_005620862.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0000287 - magnesium ion binding [Evidence IEA]; GO:0009036 - type II site-specific deoxyribonuclease activity [Evidence IEA]
GO:0009307 - DNA restriction-modification system [Evidence IEA]
BsuBI/PstI family type II restriction endonuclease
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_004668066.1
COORDINATES: similar to AA sequence:RefSeq:WP_003117273.1
GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - DNA transposition [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_001370723.1
frameshifted; 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.
COORDINATES: similar to AA sequence:RefSeq:WP_016569387.1
COORDINATES: similar to AA sequence:RefSeq:WP_016569388.1
COORDINATES: similar to AA sequence:RefSeq:WP_020304503.1
COORDINATES: similar to AA sequence:RefSeq:WP_017279394.1
COORDINATES: similar to AA sequence:RefSeq:WP_016569390.1
COORDINATES: similar to AA sequence:RefSeq:WP_010217029.1
GO:0008233 - peptidase activity [Evidence IEA]; GO:0003697 - single-stranded DNA binding [Evidence IEA]
GO:0018142 - protein-DNA covalent cross-linking [Evidence IEA]; GO:0009432 - SOS response [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005407583.1
COORDINATES: similar to AA sequence:RefSeq:WP_020304265.1
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017279408.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005746122.1
type II toxin-antitoxin system prevent-host-death family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_002556077.1
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_005783069.1
COORDINATES: similar to AA sequence:RefSeq:WP_017701615.1
RHS repeat-associated core domain-containing protein
COORDINATES: protein motif:HMM:NF040127.1
COORDINATES: protein motif:HMM:NF017411.2
COORDINATES: protein motif:HMM:NF022172.2
COORDINATES: similar to AA sequence:RefSeq:WP_003407124.1
COORDINATES: similar to AA sequence:RefSeq:WP_003436798.1
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_019648569.1
polyamine ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_017279418.1
COORDINATES: similar to AA sequence:RefSeq:WP_020304273.1
COORDINATES: similar to AA sequence:RefSeq:WP_004668202.1
transcription termination/antitermination NusG family protein
COORDINATES: similar to AA sequence:RefSeq:WP_016569404.1
COORDINATES: similar to AA sequence:RefSeq:WP_003407112.1
lytic transglycosylase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_005782479.1
COORDINATES: similar to AA sequence:RefSeq:WP_011282553.1
VirB3 family type IV secretion system protein
COORDINATES: similar to AA sequence:RefSeq:WP_016569421.1
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_020303948.1
COORDINATES: similar to AA sequence:RefSeq:WP_017279381.1
COORDINATES: similar to AA sequence:RefSeq:WP_003407074.1
COORDINATES: similar to AA sequence:RefSeq:WP_016569425.1
COORDINATES: similar to AA sequence:RefSeq:WP_005782542.1
COORDINATES: similar to AA sequence:RefSeq:WP_010217615.1
COORDINATES: protein motif:HMM:NF015397.2
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
relaxase/mobilization nuclease domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_010217604.1
COORDINATES: similar to AA sequence:RefSeq:WP_005782535.1
COORDINATES: similar to AA sequence:RefSeq:WP_020303943.1
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_003407061.1