LOCUS       NC_019135               4664 bp    DNA     circular CON 14-MAR-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Derby plasmid pSD4.6,
            complete sequence.
ACCESSION   NC_019135
VERSION     NC_019135.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN14225866
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica serovar Derby
  ORGANISM  Salmonella enterica subsp. enterica serovar Derby
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 4664)
  AUTHORS   Bleicher,A., Schofl,G., Rodicio Mdel,R. and Saluz,H.P.
  TITLE     The plasmidome of a Salmonella enterica serovar Derby isolated from
            pork meat
  JOURNAL   Plasmid 69 (3), 202-210 (2013)
   PUBMED   23333216
REFERENCE   2  (bases 1 to 4664)
  AUTHORS   Bleicher,A. and Schofl,G.
  TITLE     Direct Submission
  JOURNAL   Submitted (29-AUG-2012) Cell and Molecular Biology, Leibniz
            Institute for Natural Product Research and Infection Biology,
            Beutenbergstrasse 11a, Jena, Thuringia D-07745, Germany
COMMENT     ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_009960255.1-RS_2024_03_14
            Annotation Date                   :: 03/14/2024 02:58:08
            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)                     :: 5
            CDSs (total)                      :: 5
            Genes (coding)                    :: 4
            CDSs (with protein)               :: 4
            Genes (RNA)                       :: 0
            tRNAs                             :: 0
            ncRNAs                            :: 0
            Pseudo Genes (total)              :: 1
            CDSs (without protein)            :: 1
            Pseudo Genes (ambiguous residues) :: 0 of 1
            Pseudo Genes (frameshifted)       :: 0 of 1
            Pseudo Genes (incomplete)         :: 1 of 1
            Pseudo Genes (internal stop)      :: 0 of 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            JX566768.1.
            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..4664
                     /organism="Salmonella enterica subsp. enterica serovar
                     Derby"
                     /mol_type="genomic DNA"
                     /serovar="Derby"
                     /sub_species="enterica"
                     /db_xref="taxon:28144"
                     /plasmid="pSD4.6"
     gene            complement(534..2105)
                     /locus_tag="HTA61_RS00005"
                     /old_locus_tag="pSD46_002"
     CDS             complement(534..2105)
                     /locus_tag="HTA61_RS00005"
                     /old_locus_tag="pSD46_002"
                     /EC_number="2.7.7.65"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_013199864.1"
                     /GO_function="GO:0052621 - diguanylate cyclase activity
                     [Evidence IEA]; GO:0046872 - metal ion binding [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="sensor domain-containing diguanylate cyclase"
                     /protein_id="WP_015059936.1"
                     /translation="MECIFMRIKKPHLRPIVITLSVGGILLTSIFLIAVIMVFQRENIE
                     KDLLYANSSYAMKMSDVMSGYIEMAQGELAYGAKKIKSTNDIDSLKDEADRLRLQSGMF
                     NSVLVVSNDAVVLATSPESLDLVGTRLNSSASKLAVEEKKPFISSPLKSVAGNLIILLS
                     HPIYDKGGNYIGYVGGSIYLKKHSLFGDVLSRHFFKNNTEISIVSDDGNVIFNNDKSAV
                     DRPMVMSDDLKSKLTASDRGEGAFFSSGHRYLLGYASMKNTAWNVLVYSRADSVTTILI
                     AYAKSVLVLLIIIIIVFSLISYFIASSISLPLEKLAISTNAKDIGASLVYIKAINAWYA
                     EADRLKKALFTYIKVMMERVDSLNEVALKDPLTGVNNRLGFLSKIQNHKRDSGCSVIVI
                     DVDFFKEINDSFGHGVGDEVLVSLAHIINSCCRSEDVVCRFGGEEFVVFLPNTSVVTAK
                     CVAERIRSVIESTVFPNNLRVTISAGVATQDDPLGRIDFLLKNADDALYQAKREGRNKV
                     IVYSAI"
                     /name="sensor domain-containing diguanylate cyclase"
     gene            complement(2436..2651)
                     /locus_tag="HTA61_RS00010"
     CDS             complement(2436..2651)
                     /locus_tag="HTA61_RS00010"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137422.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_015589619.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWESAFAEWRTMSGLMQRENA
                     ALSERVTGLSRQVQSLSEQLRRLSSD"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(2655..3140)
                     /locus_tag="HTA61_RS00015"
     CDS             complement(2655..3140)
                     /locus_tag="HTA61_RS00015"
                     /inference="COORDINATES: protein motif:HMM:NF016710.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_012565228.1"
                     /translation="MNSLLTLAKDLEQKSKAQQQNTGEMLKAAFSEHEKSVKAELNESA
                     KRISAAILDHDRKLSSAMSQRTKGMVRMVSQTWLTIVLVSALLIASSAGILWWQGQQIL
                     DNYTTIREQKSTQAMLSERNSGVQLSTCGEQRRRCVKVNPEAGRFGEDSSWMILAGK"
                     /name="MbeB family mobilization protein"
     gene            complement(<3175..3879)
                     /locus_tag="HTA61_RS00035"
                     /pseudo=""
     CDS             complement(<3175..3879)
                     /locus_tag="HTA61_RS00035"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            complement(3818..4141)
                     /locus_tag="HTA61_RS00025"
                     /old_locus_tag="pSD46_004"
     CDS             complement(3818..4141)
                     /locus_tag="HTA61_RS00025"
                     /old_locus_tag="pSD46_004"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_015059937.1"
                     /translation="MLTMWVTEGEHRRLLERCDGRQLAAWMRQTCLDEKPARSGKLPSI
                     SPALLRQLAGMGNNLNQIARRVNAGGGTGHDRVQIVAALMAIDAGLERLRHAVLEKGTD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     Typing          complement(4255..4427)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.276"
                     /coverage="100.0"
                     /evalue="9.21e-81"
     Typing          2..239
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.736"
                     /coverage="90.0"
                     /evalue="2.48e-88"
     Typing          4534..4664
                     /name="rep_cluster_2373"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.481"
                     /coverage="89.0"
                     /evalue="2.68e-45"
     Typing          complement(2333..3828)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.182"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(3825..4141)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.453"
                     /coverage="99.0"
                     /evalue="1.9499999999999998e-60"
ORIGIN
        1 tcgtgcgctc tcctgttcct gcctttcggt ttaccgatgt caatccgctg ttatggccgc
       61 gtttatctca ttccacgcct gacactcggt tccgggaagg cagttcgctc caagctggac
      121 tgtatgcacg aaccccccgt tcagcccgac taccacgttg tcccggtaac tatcatcttg
      181 agtccaaccc ggaacagaca cgaaaaatcg ccagtggcgg tagccattag taagaggatt
      241 cacggagcgg agtagtagag tgttctacag agttcttgaa gtggtggcct gactgcggct
      301 acactggaag gacagttttg gtacctgcgc tccgtgaaag ccagttacct tcggaagaaa
      361 gagttggtag ctctgaattc cggcaaacga accaccgttg gtagcggtgg tttttttgtt
      421 tacagggtat gagattacga cgacatcgaa gggataacaa gaggatccgc ttcttgccca
      481 ctcttcgcca caaaaaaaac gacacactag cgcgtaaagc atcatcaaaa aactcaaata
      541 gcgctatata caatcacttt attacgcccc tcccttttgg cttgataaag agcatcgtca
      601 gcatttttca gcaaaaaatc gatcctacca agaggatcat cttgtgttgc cacaccagca
      661 gatatggtga cccgcaagtt attagggaag acagtacttt caataacact cctaatacgc
      721 tccgcaacac acttagctgt taccacagat gtattcggca ggaaaacaac aaactcttcg
      781 ccaccaaacc gacaaacaac atcttcacta cggcaacagg aattaataat atgagccaaa
      841 gaaacaagca cctcatctcc gaccccatgc ccgaaactgt catttatctc tttaaaaaaa
      901 tcaacatcaa ttacaataac tgaacaccct gaatcccgct tatgattctg tattttactt
      961 aaaaacccca atctattatt cacgccggta aggggatctt taagcgccac ctcatttaga
     1021 gaatcaactc tttccatcat taccttaata tacgtaaaaa gcgccttttt aagcctatca
     1081 gcttcggcat accaagcatt gatagcttta atataaacta gcgaagctcc gatatcttta
     1141 gcattggtag atatagcaag cttttctaaa ggaagtgaaa tactggaggc aatgaaatat
     1201 gaaataagtg aaaacacaat aattattata attagcagaa caagtacact tttagcataa
     1261 gcaataagaa tagtagtcac actgtcagca cgactataaa ccaacacatt ccaagcggta
     1321 tttttcatac tagcataacc aagaagatat ctatgccccg aagaaaaaaa tgccccctca
     1381 cctctatcag acgcagttaa ctttgatttc aaatcatcag acataaccat aggccgatca
     1441 acagcacttt tatcgttatt aaagatcaca ttcccatcat cactaacaat gctaatttca
     1501 gtgttgttct tgaaaaaatg cctgctcaaa acatcgccaa ataaactatg tttttttaga
     1561 tatatagacc caccgacata ccctatgtaa ttgccaccct tatcataaat aggatgtgac
     1621 aacaaaataa tcaaattccc agcaactgat tttaacggtg aagatatgaa tggtttcttt
     1681 tcctcaaccg ccaatttgct ggcacttgaa ttcaagcggg taccaactaa atcaagagat
     1741 tctggcgaag tcgccagaac aacagcatca ttactaacaa caagaactga attaaacata
     1801 ccagactgca atcttaacct atccgcctca tctttaagtg agtcaatatc attagttgat
     1861 tttatttttt ttgctccata tgctaattca ccttgagcca tttcaatata accactcatt
     1921 acatctgaca ttttcatagc gtacgatgaa ttagcataaa gcaaatcttt ttctatattt
     1981 tcgcgctgaa aaaccataat aacggcaatc agaaaaatag aagttaacaa aatcccacca
     2041 acggacaagg ttatgactat cggacgaagg tgaggctttt taattctcat aaaaatacac
     2101 tccatataat aaaaaatgcc gcatttacca taacatccct tatcagcacc gccccggacg
     2161 ggttcggaac aaatgcggcg tcagcccggt aaaaccggca gcaaactctc cgctaaaccg
     2221 cgcattctgc gccagataaa tttcacccgg ctgcatggct atgcagtcgg gtgaatggct
     2281 ccggctttca gcgcagatgt ccgccgaaag ccccgtttta tcaggttatc acagtgaagg
     2341 gctgttatac gtccgctgtc gctgagatcg ctccagctcc agcgctttct gatgctgcac
     2401 cacgcgctcc tgctcccggt gcagctcgac ggcattcagt cgctcgacaa ccggcgcagc
     2461 tgctcgctca aactctgcac ctgcctgctc aagcccgtga cgcgctcgct cagcgctgcg
     2521 ttctcccgtt gcataagacc agacatcgtc cgccattccg cgaaggcgct ctcccactcg
     2581 tccagccttt tcgagtagtc ctgctgtagc tgctctaatg cgctcagcaa ctgtttttcc
     2641 agctccgtca tgtgctattt ccccgccagt atcatccagc tcgaatcctc tccgaaccgt
     2701 cccgcttccg ggttcacctt cacgcagcgg cgtctctgct cgccgcaggt cgagagctgc
     2761 acgccgctgt tcctctctga cagcatggcc tgcgtgctct tctgctcccg gatggtcgtg
     2821 tagttgtcga gtatctgctg cccctgccac cacagaatgc ccgcgctcga ggcgatcagc
     2881 agcgcggaga ccaggacgat ggtcagccac gtctggctga ccatgcgcac catgcctttc
     2941 gtgcgctggc tcatggctga ggacagtttc cggtcgtggt cgaggatggc ggcgctgatt
     3001 ctcttcgcgc tttcgttcag ttccgctttt acagatttct cgtgctcgct gaatgcggct
     3061 ttcagcatct cgccggtatt ctgctgctgc gctttcgatt tctgctctaa gtccttcgcc
     3121 agcgttaaaa gactgttcat aaatggctcc cttcagtcgg atgtttcgcc ccccgtccgg
     3181 gtcggcaatg ctgatactgc tttttgtggt gcggaccacc tcaaaacctg cgctttccag
     3241 cgcctcagtg acatcctgac gggttttcag ctccccggat gaggcaagag caagcagacc
     3301 gcgtgtaatc gcttctgcag cctcctgctt cgctttaggc agtgcagacg gtgtgaccag
     3361 tgcccgccgg ttctccggtg cgttcgggtc gtgcagcccc agtctgccgt tcacgatggt
     3421 ctgccaggca tcgatgcgtg gacggtcggc gcgatcgtaa tacggctgga gccgtctgcc
     3481 ggtcagcagc tccgtgttcg ggatcagaaa attcagctca agccgcccct tgtcacgatg
     3541 ctccacccac aggatgctgt actggtcttt atcaagtccg ggcatcagaa cccgctcaaa
     3601 gcttgccatc agcttttccc gctggccgga aggtaaatcc gcttccgcaa acgacagtac
     3661 cccggaggtg tatttcttaa cgtaaggcga cgcgtcaatc agctcccgga cttcttccgg
     3721 cttcccctgc aggacggtgg cgccttcacg ctgccggtct ttacccagca gatagtccac
     3781 cggcccggcg ccaccgccgc gaccgcgtgg atgaaattta acgatcatcg tccgttcctt
     3841 tctcaagaac ggcgtgccgc agccgctcaa gtccggcatc gatggccatc agcgccgcaa
     3901 caatctgcac cctgtcatgg ccggtaccgc cgccggcgtt aacacggcgg gctatctggt
     3961 tcaggttatt gcccatgccg gcaagctggc gcagcagcgc cggcgagatt gagggaagct
     4021 ttccggaacg tgccggcttt tcgtccaggc aggtctgccg catccacgcc gccagctgcc
     4081 tgccgtcaca gcgctcaagc agccgccggt gctcgccctc cgtcacccac atggtgagca
     4141 tcttgttccg tttctctgac aaaccggcct cctgataacg ccgggacggg cgggaaaggc
     4201 tttcccggtc ggcgcggggt tggacaagcc gcaggcgcgt caggcttttg gcgggtttcg
     4261 gggcgcagcc ctgaaccagt cacgtagcgc tagcggagtg tatactggct tactatgttg
     4321 gcacggatgc gagtgtcagt gaagtgcttc atgtggcagg agaaaaatgc agcagcggag
     4381 cgtcagcaga atatgtgata caggatatat tccgcttcct cgctcactga ctcgctgcgc
     4441 tcggtcgttc ggctgcggcg agcggtaccg acttacaggc ggggcggaaa tttcctggga
     4501 gatgccagga agaagcttaa cagggaagcg ataaggccac ggcgaagccg tttttccata
     4561 ggctccgccc ccctgacaag catcacgaaa tctgacgctc aaatcagtgg tggcgaaacc
     4621 cgacaggact taaagatacc aggcgtttcc ccctggtggc tccc
//
