LOCUS       NZ_CP042356             3461 bp    DNA     circular CON 30-MAR-2024
DEFINITION  Serratia rubidaea strain H440 plasmid unnamed, complete sequence.
ACCESSION   NZ_CP042356
VERSION     NZ_CP042356.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN12405232
            Assembly: GCF_021498245.1
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  JOURNAL   Unpublished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                   :: 258,9x
            Sequencing Technology :: Illumina + Oxford Nanopore Technology
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_021498245.1-RS_2024_03_29
            Annotation Date                   :: 03/29/2024 08:03:34
            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)                     :: 4,711
            CDSs (total)                      :: 4,593
            Genes (coding)                    :: 4,568
            CDSs (with protein)               :: 4,568
            Genes (RNA)                       :: 118
            rRNAs                             :: 7, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 7, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 25
            CDSs (without protein)            :: 25
            Pseudo Genes (ambiguous residues) :: 0 of 25
            Pseudo Genes (frameshifted)       :: 10 of 25
            Pseudo Genes (incomplete)         :: 20 of 25
            Pseudo Genes (internal stop)      :: 3 of 25
            Pseudo Genes (multiple problems)  :: 6 of 25
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP042356.1.
            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="H440"
                     /isolation_source="hyacinth bulb, scale leaves"
                     /host="hyacinth"
                     /db_xref="taxon:61652"
                     /plasmid="unnamed"
                     /geo_loc_name="Netherlands"
                     /collection_date="2005-03"
     gene            complement(515..1183)
                     /locus_tag="FS595_RS23510"
                     /old_locus_tag="FS595_23580"
     CDS             complement(515..1183)
                     /locus_tag="FS595_RS23510"
                     /old_locus_tag="FS595_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            1837..2442
                     /locus_tag="FS595_RS23515"
                     /old_locus_tag="FS595_23585"
     CDS             1837..2442
                     /locus_tag="FS595_RS23515"
                     /old_locus_tag="FS595_23585"
                     /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            complement(2876..3076)
                     /locus_tag="FS595_RS23520"
                     /old_locus_tag="FS595_23590"
     CDS             complement(2876..3076)
                     /locus_tag="FS595_RS23520"
                     /old_locus_tag="FS595_23590"
                     /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(148..243)
                     /name="ColRNAI_rep_cluster_1857"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="87.629"
                     /coverage="89.0"
                     /evalue="3.35e-23"
     Typing          3120..3461
                     /name="rep_cluster_2324"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="87.5"
                     /coverage="100.0"
                     /evalue="6.36e-103"
ORIGIN
        1 ggcgaaaccc gacaggactt aaagatcccc accgtttccg atgggtcgct ccctcgtgcg
       61 ctctcctgtt cccaccctga ggtttacccg ttgcagaccg ccgtaaggtg gcgttttctc
      121 attcctaccc gtgcaactga gttccttgta ggtggttcgc tccaagctgg gctgtatgca
      181 cgaactcccc gttcaacccg actaccgcgc ctattcaggt aactgtactc ttgaatccaa
      241 ccctgaaaga cacgacaaag cgccactggc ggtagccatt ggtagctggt tcacggagcg
      301 ggaaagtaca tgcaagtaca catagagttc ttgaagtgtc agcctaacta cagctacact
      361 gaaaggacag ttttggtgac tgcgctccgt taaagccagt taccttggtt aagaatctgc
      421 caggattttt aaccttcgaa aaaaccacct gccagggtgg ttttttcgtt tccatagaaa
      481 gatacgcgtt tcatcctcta aacgtcaagc gacgtcacca tccagtaggt ttcactaaaa
      541 cggtaccatc actatccgta atttgatcag caaactgcga gctagttata ttcgaacgtc
      601 ttataaccct agtaaaagaa gatactttgc ataaatgcat gctagctttc gggtatgggg
      661 aaatcacccc aaccttcttg tttaatttgc taacaacaaa ttcaataggc aatgctaaat
      721 cagagtcgtt ggtaataact atggcgacat caaaagcaga agtatgagca tcatgtaata
      781 aatgcgttgc aaggtttaca tctgaacctt tttcttctgt tttataaaca tcaacatatg
      841 accctacgcc tactatcggc gcagcaagct tagaacgcac tatgtgggtg tcatagcggc
      901 ccaatacgac ttcaagatta ggaattgttt ttaaagcttt aaggtatata ttttgatgat
      961 taacctgatt aggatggttt gctcttgatg atattttcgc agtgaagtat ttaactgcaa
     1021 ctatatcatt aataggtgta ggctttgatg gaagtattga tttaaccatc tcttcgatat
     1081 tcaaccagcg gcacccagct ttatctttta gagcaccata atataagttg aatccgtcga
     1141 cataaacaat cgttctttgt tttttcattt ttgttatgtc catatatgct gaaacctcca
     1201 ctagggaggt ttcgcggtcg caccgtagtg cgaggttgta tattttttgc tgaggttgcc
     1261 ctcgcgccag cgcagaacgc tgggtagtga tgcaaattct atacggaagt ataaaacttg
     1321 caaccaaaaa aattcaccat gctacaatta gacttggcga gcttactaaa gtaagctcgc
     1381 caagtctaat tgtagcatgg tgatagaaaa aatcaacaac ttacttgtag ccatgggatc
     1441 taggacctct atcggccttg cttgtcattt accatgtgat taattattaa gctaaaaaac
     1501 accatctcaa cccgcattat ttggcattta tagctctccc atttactagt aaaaaacatg
     1561 gaaaacaatg attaagcatt tgaattttat gaaaaatttc acaaaaataa aatatcgctt
     1621 aatctagatt agtattgtag tgtggtgtta aaactttcag tctcgacgat caccttagga
     1681 ggctgaggtt tatggaaact ctaaacaaca taatttctac tttagcttcg gcatcacctg
     1741 aagctttggt tgcaatagta tcgctaggtg ccatgttttt tatattcatg ataataaagg
     1801 tatttttctc gtttttagaa aagaaatgga attaaaatga gtggcagacg ttttggcagg
     1861 cttccaaatt ggtggtcgcg ctccgcgaat ggagatgatt ttctattaat gagcctaaaa
     1921 tctaatgaca caggaacagg aattgcggca atgaagtgtc tgctagcctt gtctgtgctc
     1981 attgattttc attctcgaat agcagaagtc tctttaagcg gtatggaaga gctaaccggg
     2041 cttagtagac caatggttat ccgcgggtta gctaggcttg aagaactagg agttgttgtc
     2101 tctgacaagg attacagaac aaaccggtat gaacttacga taaaaagtaa tgacagttac
     2161 tgggcaaaag ttcctgtcga tacagtccga aaaagactta aaaccatatc caatagaggg
     2221 attgcaccat tcactgcttt aaaattgtac ataacaatat tgaatctaag gtacaaagat
     2281 aaaacaactg ttcaagtcat gcacgataca ctcagaaact acaccggaat tcagacaaac
     2341 caggtaagac atggtcttga tgtgctatac agcagtgctc tgcttcacct catgccgcgt
     2401 gaagaccgtg cgacaaatga gtatcaaata ttaggcctat agcatccata tttaccataa
     2461 catcccttgc ccgcaccccc tgagaggccc tcagcgcgat cctgacgcgt ccgggccgtt
     2521 tccggcatct ttccctctcc agatccctaa aaagtgcccc tgatgatttc tgcgcgcctg
     2581 catggctatg catacgagtg aatagcagcc gatttcgggc ggatgctggc actaaaggcg
     2641 gattttcggt gattaacttc cccgataacg gtgaacgggt gcgcagttta ctgtgcgacc
     2701 gtgaggcgtt ggccaggccg tcaggcatgg ctgagcaaca tgaggagagc agatttaacg
     2761 tgggtgatca gcacgcagaa atttcgacgc gtcgaaattt ttcagggtgt cgggcggagc
     2821 ctgaccaaga ggctttggcg tgccggcggt actccaaaga cacatcttgt ccgcgtcagt
     2881 tgcggtcacc gcgcttctgg taatgagcca gtatttcatc acggccttct ccataggtga
     2941 tctcaccgga aagaatacgc gccttaaccg attcatagag cggagttccg gaggggtcca
     3001 tgccttcaag ccggagagaa gcctcggcct tacggaatcc gtctacacga agttgtcgtg
     3061 tacgatcatc aatcatgggt tttccgttga gcagtcatgc gaataaggca ggcgtaaagt
     3121 gggcccactt tacatatcct gcccgaatct tgccgttgta tagctgtgca gacaaaagtg
     3181 gaaaacgaca ggaaaccgtt gcaaccggat atgtaattgg agaggaaaca ggagtaccga
     3241 gcgatacgag ccctgttcag cattacagac attacgcttc ctcggtcatt cgctcacttc
     3301 gttcggtcat gacgctgcgg cgagcgttac ttgtacttgc tcaggcagaa ggccatggcg
     3361 gagagtaaaa gaaaactggg acgttgccgg ttttccatag gcttcgccct cctgacgaga
     3421 ctcacagaaa tcaggcaatt tccggagctc aaatcagaag t
//
