LOCUS       NZ_CP042354             3461 bp    DNA     circular CON 30-MAR-2024
DEFINITION  Serratia rubidaea strain H469 plasmid unnamed, complete sequence.
ACCESSION   NZ_CP042354
VERSION     NZ_CP042354.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN12405233
            Assembly: GCF_021498225.1
KEYWORDS    RefSeq.
SOURCE      Serratia rubidaea
  ORGANISM  Serratia rubidaea
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Yersiniaceae; Serratia.
REFERENCE   1  (bases 1 to 3461)
  AUTHORS   Maciag,T., Krzyzanowska,D.M., Rabalski,L., Jafra,S. and
            Czajkowski,R.
  TITLE     Genomes of five bacterial biological control agents showing
            protection against bacterial pathogens in agriculture
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3461)
  AUTHORS   Rabalski,L. and Maciag,T.
  TITLE     Direct Submission
  JOURNAL   Submitted (31-JUL-2019) Department of Biotechnology, University of
            Gdansk, Intercollegiate Faculty of Biotechnology, Abrahama 58,
            Gdansk 80-307, Poland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicyckler v. v0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Reference-guided Assembly         :: de novo
            Genome Coverage                   :: 259,8x
            Sequencing Technology :: Illumina + Oxford Nanopore Technology
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_021498225.1-RS_2024_03_29
            Annotation Date                   :: 03/29/2024 08:10:00
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,713
            CDSs (total)                      :: 4,593
            Genes (coding)                    :: 4,567
            CDSs (with protein)               :: 4,567
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 26
            CDSs (without protein)            :: 26
            Pseudo Genes (ambiguous residues) :: 0 of 26
            Pseudo Genes (frameshifted)       :: 10 of 26
            Pseudo Genes (incomplete)         :: 21 of 26
            Pseudo Genes (internal stop)      :: 3 of 26
            Pseudo Genes (multiple problems)  :: 6 of 26
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP042354.1.
            The annotation was added by the NCBI Prokaryotic Genome Annotation
            Pipeline (PGAP). Information about PGAP can be found here:
            https://www.ncbi.nlm.nih.gov/genome/annotation_prok/
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..3461
                     /organism="Serratia rubidaea"
                     /mol_type="genomic DNA"
                     /strain="H469"
                     /isolation_source="hyacinth bulb, scale leaves"
                     /host="hyacinth"
                     /db_xref="taxon:61652"
                     /plasmid="unnamed"
                     /geo_loc_name="Netherlands"
                     /collection_date="2005-03"
     gene            complement(200..805)
                     /locus_tag="FS596_RS23520"
                     /old_locus_tag="FS596_23575"
     CDS             complement(200..805)
                     /locus_tag="FS596_RS23520"
                     /old_locus_tag="FS596_23575"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012537770.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_224706372.1"
                     /translation="MSGRRFGRLPNWWSRSANGDDFLLMSLKSNDTGTGIAAMKCLLAL
                     SVLIDFHSRIAEVSLSGMEELTGLSRPMVIRGLARLEELGVVVSDKDYRTNRYELTIKS
                     NDSYWAKVPVDTVRKRLKTISNRGIAPFTALKLYITILNLRYKDKTTVQVMHDTLRNYT
                     GIQTNQVRHGLDVLYSSALLHLMPREDRATNEYQILGL"
                     /name="helix-turn-helix domain-containing protein"
     gene            1459..2127
                     /locus_tag="FS596_RS23525"
                     /old_locus_tag="FS596_23580"
     CDS             1459..2127
                     /locus_tag="FS596_RS23525"
                     /old_locus_tag="FS596_23580"
                     /inference="COORDINATES: protein motif:HMM:NF014045.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="NYN domain-containing protein"
                     /protein_id="WP_077902322.1"
                     /translation="MDITKMKKQRTIVYVDGFNLYYGALKDKAGCRWLNIEEMVKSILP
                     SKPTPINDIVAVKYFTAKISSRANHPNQVNHQNIYLKALKTIPNLEVVLGRYDTHIVRS
                     KLAAPIVGVGSYVDVYKTEEKGSDVNLATHLLHDAHTSAFDVAIVITNDSDLALPIEFV
                     VSKLNKKVGVISPYPKASMHLCKVSSFTRVIRRSNITSSQFADQITDSDGTVLVKPTGW
                     "
                     /name="NYN domain-containing protein"
     gene            3027..3227
                     /locus_tag="FS596_RS23530"
                     /old_locus_tag="FS596_23595"
     CDS             3027..3227
                     /locus_tag="FS596_RS23530"
                     /old_locus_tag="FS596_23595"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001558245.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="antitoxin VbhA family protein"
                     /protein_id="WP_085011975.1"
                     /translation="MIDDRTRQLRVDGFRKAEASLRLEGMDPSGTPLYESVKARILSGE
                     ITYGEGRDEILAHYQKRGDRN"
                     /name="antitoxin VbhA family protein"
     Typing          complement(2318..2984)
                     /name="rep_cluster_2324"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="90.76"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ccgcctttag tgccagcatc cgcccgaaat cggctgctat tcactcgtat gcatagccat
       61 gcaggcgcgc agaaatcatc aggggcactt tttagggatc tggagaggga aagatgccgg
      121 aaacggcccg gacgcgtcag gatcgcgctg agggcctctc agggggtgcg ggcaagggat
      181 gttatggtaa atatggatgc tataggccta atatttgata ctcatttgtc gcacggtctt
      241 cacgcggcat gaggtgaagc agagcactgc tgtatagcac atcaagacca tgtcttacct
      301 ggtttgtctg aattccggtg tagtttctga gtgtatcgtg catgacttga acagttgttt
      361 tatctttgta ccttagattc aatattgtta tgtacaattt taaagcagtg aatggtgcaa
      421 tccctctatt ggatatggtt ttaagtcttt ttcggactgt atcgacagga acttttgccc
      481 agtaactgtc attacttttt atcgtaagtt cataccggtt tgttctgtaa tccttgtcag
      541 agacaacaac tcctagttct tcaagcctag ctaacccgcg gataaccatt ggtctactaa
      601 gcccggttag ctcttccata ccgcttaaag agacttctgc tattcgagaa tgaaaatcaa
      661 tgagcacaga caaggctagc agacacttca ttgccgcaat tcctgttcct gtgtcattag
      721 attttaggct cattaataga aaatcatctc cattcgcgga gcgcgaccac caatttggaa
      781 gcctgccaaa acgtctgcca ctcattttaa ttccatttct tttctaaaaa cgagaaaaat
      841 acctttatta tcatgaatat aaaaaacatg gcacctagcg atactattgc aaccaaagct
      901 tcaggtgatg ccgaagctaa agtagaaatt atgttgttta gagtttccat aaacctcagc
      961 ctcctaaggt gatcgtcgag actgaaagtt ttaacaccac actacaatac taatctagat
     1021 taagcgatat tttatttttg tgaaattttt cataaaattc aaatgcttaa tcattgtttt
     1081 ccatgttttt tactagtaaa tgggagagct ataaatgcca aataatgcgg gttgagatgg
     1141 tgttttttag cttaataatt aatcacatgg taaatgacaa gcaaggccga tagaggtcct
     1201 agatcccatg gctacaagta agttgttgat tttttctatc accatgctac aattagactt
     1261 ggcgagctta ctttagtaag ctcgccaagt ctaattgtag catggtgaat ttttttggtt
     1321 gcaagtttta tacttccgta tagaatttgc atcactaccc agcgttctgc gctggcgcga
     1381 gggcaacctc agcaaaaaat atacaacctc gcactacggt gcgaccgcga aacctcccta
     1441 gtggaggttt cagcatatat ggacataaca aaaatgaaaa aacaaagaac gattgtttat
     1501 gtcgacggat tcaacttata ttatggtgct ctaaaagata aagctgggtg ccgctggttg
     1561 aatatcgaag agatggttaa atcaatactt ccatcaaagc ctacacctat taatgatata
     1621 gttgcagtta aatacttcac tgcgaaaata tcatcaagag caaaccatcc taatcaggtt
     1681 aatcatcaaa atatatacct taaagcttta aaaacaattc ctaatcttga agtcgtattg
     1741 ggccgctatg acacccacat agtgcgttct aagcttgctg cgccgatagt aggcgtaggg
     1801 tcatatgttg atgtttataa aacagaagaa aaaggttcag atgtaaacct tgcaacgcat
     1861 ttattacatg atgctcatac ttctgctttt gatgtcgcca tagttattac caacgactct
     1921 gatttagcat tgcctattga atttgttgtt agcaaattaa acaagaaggt tggggtgatt
     1981 tccccatacc cgaaagctag catgcattta tgcaaagtat cttcttttac tagggttata
     2041 agacgttcga atataactag ctcgcagttt gctgatcaaa ttacggatag tgatggtacc
     2101 gttttagtga aacctactgg atggtgacgt cgcttgacgt ttagaggatg aaacgcgtat
     2161 ctttctatgg aaacgaaaaa accaccctgg caggtggttt tttcgaaggt taaaaatcct
     2221 ggcagattct taaccaaggt aactggcttt aacggagcgc agtcaccaaa actgtccttt
     2281 cagtgtagct gtagttaggc tgacacttca agaactctat gtgtacttgc atgtactttc
     2341 ccgctccgtg aaccagctac caatggctac cgccagtggc gctttgtcgt gtctttcagg
     2401 gttggattca agagtacagt tacctgaata ggcgcggtag tcgggttgaa cggggagttc
     2461 gtgcatacag cccagcttgg agcgaaccac ctacaaggaa ctcagttgca cgggtaggaa
     2521 tgagaaaacg ccaccttacg gcggtctgca acgggtaaac ctcagggtgg gaacaggaga
     2581 gcgcacgagg gagcgaccca tcggaaacgg tggggatctt taagtcctgt cgggtttcgc
     2641 cacttctgat ttgagctccg gaaattgcct gatttctgtg agtctcgtca ggagggcgaa
     2701 gcctatggaa aaccggcaac gtcccagttt tcttttactc tccgccatgg ccttctgcct
     2761 gagcaagtac aagtaacgct cgccgcagcg tcatgaccga acgaagtgag cgaatgaccg
     2821 aggaagcgta atgtctgtaa tgctgaacag ggctcgtatc gctcggtact cctgtttcct
     2881 ctccaattac atatccggtt gcaacggttt cctgtcgttt tccacttttg tctgcacagc
     2941 tatacaacgg caagattcgg gcaggatatg taaagtgggc ccactttacg cctgccttat
     3001 tcgcatgact gctcaacgga aaacccatga ttgatgatcg tacacgacaa cttcgtgtag
     3061 acggattccg taaggccgag gcttctctcc ggcttgaagg catggacccc tccggaactc
     3121 cgctctatga atcggttaag gcgcgtattc tttccggtga gatcacctat ggagaaggcc
     3181 gtgatgaaat actggctcat taccagaagc gcggtgaccg caactgacgc ggacaagatg
     3241 tgtctttgga gtaccgccgg cacgccaaag cctcttggtc aggctccgcc cgacaccctg
     3301 aaaaatttcg acgcgtcgaa atttctgcgt gctgatcacc cacgttaaat ctgctctcct
     3361 catgttgctc agccatgcct gacggcctgg ccaacgcctc acggtcgcac agtaaactgc
     3421 gcacccgttc accgttatcg gggaagttaa tcaccgaaaa t
//
