Pectobacterium odoriferum strain JK2.1 plasmid p.Jk2_1, complete sequence.
Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Pectobacteriaceae; Pectobacterium.
Submitted (07-JAN-2019) Highland Agriculture Research Institute, Rural Development Administration, 5481 Gyeonggangro, Daegwallyeong, Pyeongchang 25342, South Korea
REFSEQ INFORMATION: The reference sequence is identical to\nCP034939.1.\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 :: SMARTdenovo v. 1.0.0\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 176.0x\nSequencing Technology :: PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 04/24/2023 03:57:04\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) :: 4,669\nCDSs (total) :: 4,562\nGenes (coding) :: 4,420\nCDSs (with protein) :: 4,420\nGenes (RNA) :: 107\nrRNAs :: 8, 7, 7 (5S, 16S, 23S)\ncomplete rRNAs :: 8, 7, 7 (5S, 16S, 23S)\ntRNAs :: 77\nncRNAs :: 8\nPseudo Genes (total) :: 142\nCDSs (without protein) :: 142\nPseudo Genes (ambiguous residues) :: 0 of 142\nPseudo Genes (frameshifted) :: 92 of 142\nPseudo Genes (incomplete) :: 75 of 142\nPseudo Genes (internal stop) :: 17 of 142\nPseudo Genes (multiple problems) :: 33 of 142\nCRISPR Arrays :: 3\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF018792.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_001104903.1
COORDINATES: similar to AA sequence:RefSeq:NP_052645.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_020805715.1
COORDINATES: protein motif:HMM:NF037233.2
COORDINATES: similar to AA sequence:RefSeq:WP_006322746.1
GO:0003684 - damaged DNA binding [Evidence IEA]
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
translesion error-prone DNA polymerase V subunit UmuC
COORDINATES: similar to AA sequence:RefSeq:WP_019842590.1
plasmid partitioning/stability family protein
COORDINATES: similar to AA sequence:RefSeq:WP_001395558.1
COORDINATES: similar to AA sequence:RefSeq:WP_017901448.1
COORDINATES: similar to AA sequence:RefSeq:WP_005176595.1
COORDINATES: similar to AA sequence:RefSeq:WP_012561120.1
GO:0003887 - DNA-directed DNA polymerase activity [Evidence IEA]
GO:0006270 - DNA replication initiation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015014615.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_016495522.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
type II toxin-antitoxin system HicB family antitoxin
COORDINATES: similar to AA sequence:RefSeq:YP_005229629.1
type II toxin-antitoxin system VapB family antitoxin
COORDINATES: similar to AA sequence:RefSeq:YP_005229630.1
type II toxin-antitoxin system VapC family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_008786839.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004519 - endonuclease activity [Evidence IEA]
GO:0009307 - DNA restriction-modification system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_000209846.1
COORDINATES: similar to AA sequence:RefSeq:WP_013811197.1
COORDINATES: similar to AA sequence:RefSeq:WP_012539937.1
COORDINATES: similar to AA sequence:RefSeq:WP_017891070.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_020315560.1
COORDINATES: similar to AA sequence:RefSeq:WP_016495534.1
COORDINATES: similar to AA sequence:RefSeq:WP_004206893.1
COORDINATES: similar to AA sequence:RefSeq:WP_000983081.1
COORDINATES: protein motif:HMM:NF017655.2
COORDINATES: protein motif:HMM:NF014444.2
COORDINATES: similar to AA sequence:RefSeq:WP_015572118.1
GO:0015036 - disulfide oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008324884.1
COORDINATES: similar to AA sequence:RefSeq:WP_016495576.1
type IV conjugative transfer system coupling protein TraD
COORDINATES: similar to AA sequence:RefSeq:WP_001562728.1
COORDINATES: similar to AA sequence:RefSeq:WP_015572110.1
conjugal transfer mating-pair stabilization protein TraG
COORDINATES: similar to AA sequence:RefSeq:WP_019843239.1
conjugal transfer pilus assembly protein TraH
COORDINATES: similar to AA sequence:RefSeq:WP_011906574.1
COORDINATES: similar to AA sequence:RefSeq:WP_008325103.1
type-F conjugative transfer system pilin assembly protein TraF
COORDINATES: similar to AA sequence:RefSeq:WP_013087216.1
type-F conjugative transfer system mating-pair stabilization protein TraN
COORDINATES: similar to AA sequence:RefSeq:WP_016495587.1
type-F conjugative transfer system pilin assembly protein TrbC
COORDINATES: similar to AA sequence:RefSeq:WP_016529742.1
conjugal transfer pilus assembly protein TraU
COORDINATES: similar to AA sequence:RefSeq:WP_013512881.1
type-F conjugative transfer system protein TraW
COORDINATES: protein motif:HMM:TIGR02744.1
type-F conjugative transfer system protein TrbI
COORDINATES: similar to AA sequence:RefSeq:WP_013512879.1
COORDINATES: similar to AA sequence:RefSeq:WP_014695879.1
type IV conjugative transfer system lipoprotein TraV
COORDINATES: similar to AA sequence:RefSeq:WP_007853431.1
F-type conjugal transfer pilus assembly protein TraB
COORDINATES: similar to AA sequence:RefSeq:WP_015572089.1
type-F conjugative transfer system secretin TraK
COORDINATES: similar to AA sequence:RefSeq:WP_008324957.1
TraE/TraK family type IV conjugative transfer system protein
COORDINATES: similar to AA sequence:RefSeq:WP_008324958.1
type IV conjugative transfer system protein TraL
COORDINATES: similar to AA sequence:RefSeq:WP_008324959.1
GO:0005576 - extracellular region [Evidence IEA]
type IV conjugative transfer system pilin TraA
COORDINATES: similar to AA sequence:RefSeq:WP_019843217.1
COORDINATES: similar to AA sequence:RefSeq:WP_019843216.1
COORDINATES: similar to AA sequence:RefSeq:WP_015572082.1
lytic transglycosylase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_017694209.1
COORDINATES: protein motif:HMM:NF027824.2
COORDINATES: protein motif:HMM:NF018958.2
COORDINATES: similar to AA sequence:RefSeq:WP_019584489.1
COORDINATES: similar to AA sequence:RefSeq:WP_015841322.1
COORDINATES: protein motif:HMM:NF025085.2
COORDINATES: similar to AA sequence:RefSeq:WP_009485092.1
COORDINATES: similar to AA sequence:RefSeq:WP_002353807.1
type II toxin-antitoxin system MqsA family antitoxin
COORDINATES: similar to AA sequence:RefSeq:NP_417494.1
type II toxin-antitoxin system MqsR family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_004206898.1
COORDINATES: protein motif:HMM:NF018636.2
COORDINATES: protein motif:HMM:NF018044.2
conjugation system SOS inhibitor PsiB family protein
COORDINATES: protein motif:HMM:NF014273.2
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_006705087.1
COORDINATES: similar to AA sequence:RefSeq:WP_007853275.1
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_001022400.1
COORDINATES: similar to AA sequence:RefSeq:WP_008502215.1