Pseudomonas ficuserectae strain ZJDX-003 plasmid pZJDX2, complete sequence.
Bacteria; Pseudomonadota; Gammaproteobacteria; Pseudomonadales; Pseudomonadaceae; Pseudomonas.
Genome Sequencing of Pseudomonas syringae strain ZJDX-003
Submitted (22-OCT-2021) Department of Sericulture, South china agriculture university, Wushan, Guangzhou, Guangdong 510642, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP085686.1.\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 :: Canu v. 1.9\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 366.0x\nSequencing Technology :: PacBio Sequel\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 08/08/2022 13:05:01\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.2\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA;\n repeat_region\nGenes (total) :: 5,850\nCDSs (total) :: 5,766\nGenes (coding) :: 5,442\nCDSs (with protein) :: 5,442\nGenes (RNA) :: 84\nrRNAs :: 6, 5, 5 (5S, 16S, 23S)\ncomplete rRNAs :: 6, 5, 5 (5S, 16S, 23S)\ntRNAs :: 64\nncRNAs :: 4\nPseudo Genes (total) :: 324\nCDSs (without protein) :: 324\nPseudo Genes (ambiguous residues) :: 0 of 324\nPseudo Genes (frameshifted) :: 124 of 324\nPseudo Genes (incomplete) :: 172 of 324\nPseudo Genes (internal stop) :: 84 of 324\nPseudo Genes (multiple problems) :: 50 of 324\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_017279392.1
COORDINATES: protein motif:HMM:NF027832.2
COORDINATES: similar to AA sequence:RefSeq:WP_005734376.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_011168770.1
GO:0004803 - transposase activity [Evidence IEA]
IS110-like element ISPsy16 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_017684683.1
COORDINATES: similar to AA sequence:RefSeq:WP_020316509.1
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017685030.1
COORDINATES: similar to AA sequence:RefSeq:WP_017699223.1
COORDINATES: similar to AA sequence:RefSeq:WP_086558319.1
COORDINATES: similar to AA sequence:RefSeq:WP_002556048.1
XopAF/AvrXv3 family type III secretion system effector
COORDINATES: similar to AA sequence:RefSeq:WP_004668036.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0000150 - DNA strand exchange activity [Evidence IEA]
GO:0006310 - DNA recombination [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_004666666.1
COORDINATES: similar to AA sequence:RefSeq:WP_000971921.1
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_020342923.1
COORDINATES: similar to AA sequence:RefSeq:WP_004407087.1
COORDINATES: similar to AA sequence:RefSeq:WP_007247495.1
type VI secretion system tube protein Hcp
COORDINATES: similar to AA sequence:RefSeq:WP_003117291.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [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.
COORDINATES: similar to AA sequence:RefSeq:WP_009682522.1
COORDINATES: similar to AA sequence:RefSeq:WP_016987647.1
GO:0007165 - signal transduction [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_076611066.1
COORDINATES: similar to AA sequence:RefSeq:WP_005887592.1
COORDINATES: similar to AA sequence:RefSeq:WP_011169510.1
COORDINATES: similar to AA sequence:RefSeq:WP_016779473.1
COORDINATES: similar to AA sequence:RefSeq:WP_011269148.1
COORDINATES: similar to AA sequence:RefSeq:WP_002556034.1
COORDINATES: similar to AA sequence:RefSeq:WP_010210211.1
COORDINATES: similar to AA sequence:RefSeq:WP_020304523.1
COORDINATES: similar to AA sequence:RefSeq:WP_017684526.1
COORDINATES: similar to AA sequence:RefSeq:WP_020304521.1
COORDINATES: similar to AA sequence:RefSeq:WP_010209223.1
TraI/MobA(P) family conjugative relaxase
COORDINATES: similar to AA sequence:RefSeq:WP_010364039.1
COORDINATES: similar to AA sequence:RefSeq:WP_076612095.1
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_017174354.1
patatin-like phospholipase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_020304266.1
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_003381763.1
COORDINATES: similar to AA sequence:RefSeq:WP_003414764.1
COORDINATES: similar to AA sequence:RefSeq:WP_004667176.1
COORDINATES: similar to AA sequence:RefSeq:WP_010207371.1
Com family DNA-binding transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_076612058.1
COORDINATES: similar to AA sequence:RefSeq:WP_011107020.1
COORDINATES: similar to AA sequence:RefSeq:WP_011107021.1
FadR/GntR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_020313337.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011106976.1
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010214760.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_004668202.1
transcription termination/antitermination NusG family protein
COORDINATES: similar to AA sequence:RefSeq:WP_005622143.1
COORDINATES: similar to AA sequence:RefSeq:WP_005740400.1
lytic transglycosylase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011106980.1
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_020325434.1
type IV secretion system DotC family protein
COORDINATES: similar to AA sequence:RefSeq:WP_005759128.1
COORDINATES: similar to AA sequence:RefSeq:WP_012477429.1
COORDINATES: similar to AA sequence:RefSeq:WP_013105051.1
ribbon-helix-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_014028961.1
GO:0004521 - endoribonuclease activity [Evidence IEA]; GO:0005515 - protein binding [Evidence IEA]
putative toxin-antitoxin system toxin component, PIN family
COORDINATES: similar to AA sequence:RefSeq:WP_005734742.1
COORDINATES: similar to AA sequence:RefSeq:WP_004667960.1
COORDINATES: similar to AA sequence:RefSeq:WP_004643879.1
COORDINATES: similar to AA sequence:RefSeq:WP_007247250.1
COORDINATES: similar to AA sequence:RefSeq:WP_010208376.1
COORDINATES: similar to AA sequence:RefSeq:WP_003344363.1
COORDINATES: similar to AA sequence:RefSeq:WP_004666890.1
COORDINATES: similar to AA sequence:RefSeq:WP_019331471.1
COORDINATES: similar to AA sequence:RefSeq:WP_004661192.1
DotI/IcmL family type IV secretion protein
COORDINATES: similar to AA sequence:RefSeq:WP_005622162.1
DotH/IcmK family type IV secretion protein
COORDINATES: similar to AA sequence:RefSeq:WP_010209698.1
COORDINATES: protein motif:HMM:NF033883.1
frameshifted; incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF024252.2
COORDINATES: protein motif:HMM:NF033885.1
COORDINATES: similar to AA sequence:RefSeq:WP_020325426.1
COORDINATES: similar to AA sequence:RefSeq:WP_005759143.1
COORDINATES: similar to AA sequence:RefSeq:WP_004662083.1
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_004666885.1
COORDINATES: similar to AA sequence:RefSeq:WP_020325425.1
COORDINATES: similar to AA sequence:RefSeq:WP_002556014.1
COORDINATES: similar to AA sequence:RefSeq:WP_002556016.1
COORDINATES: similar to AA sequence:RefSeq:WP_003344384.1
COORDINATES: similar to AA sequence:RefSeq:WP_004666879.1
COORDINATES: similar to AA sequence:RefSeq:WP_003344389.1
COORDINATES: similar to AA sequence:RefSeq:WP_005759157.1
plasmid IncI1-type surface exclusion protein ExcA
COORDINATES: similar to AA sequence:RefSeq:WP_007247236.1
COORDINATES: similar to AA sequence:RefSeq:WP_004644068.1
COORDINATES: similar to AA sequence:RefSeq:WP_004644067.1
type II toxin-antitoxin system VapB family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_005769748.1
thioredoxin fold domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_020325419.1
F-type conjugative transfer protein TrbC
COORDINATES: similar to AA sequence:RefSeq:WP_005734759.1
COORDINATES: similar to AA sequence:RefSeq:WP_005769742.1
COORDINATES: similar to AA sequence:RefSeq:WP_002556024.1
COORDINATES: similar to AA sequence:RefSeq:WP_017684686.1