LOCUS       NZ_CP119455             1822 bp    DNA     circular CON 07-OCT-2023
DEFINITION  Shigella dysenteriae strain NCDC 599-52 plasmid p4, complete
            sequence.
ACCESSION   NZ_CP119455
VERSION     NZ_CP119455.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN33336696
            Assembly: GCF_032363495.1
KEYWORDS    RefSeq.
SOURCE      Shigella dysenteriae
  ORGANISM  Shigella dysenteriae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Shigella.
REFERENCE   1  (bases 1 to 1822)
  AUTHORS   Parsot,C.
  TITLE     Comparative analysis of the pINV from Shigella and EIEC strains
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1822)
  AUTHORS   Parsot,C.
  TITLE     Direct Submission
  JOURNAL   Submitted (06-MAR-2023) Bacteries Pathogenes Enteriques, Institut
            Pasteur, 25, Rue du Dr ROUX, PARIS 75015, France
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: JAN-2022
            Assembly Method                   :: Unicycler/0.4.8 v. JAN-2022
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 250.0x
            Sequencing Technology             :: Illumina; PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 10/07/2023 13:57:59
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,152
            CDSs (total)                      :: 5,034
            Genes (coding)                    :: 4,401
            CDSs (with protein)               :: 4,401
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 90
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 633
            CDSs (without protein)            :: 633
            Pseudo Genes (ambiguous residues) :: 0 of 633
            Pseudo Genes (frameshifted)       :: 168 of 633
            Pseudo Genes (incomplete)         :: 451 of 633
            Pseudo Genes (internal stop)      :: 105 of 633
            Pseudo Genes (multiple problems)  :: 85 of 633
            Pseudo Genes (short protein)      :: 4 of 633
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP119455.1.
            Bacteria and source DNA available from Bacteries Pathogenes
            Enteriques, Institut Pasteur, France.
            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..1822
                     /organism="Shigella dysenteriae"
                     /mol_type="genomic DNA"
                     /strain="NCDC 599-52"
                     /serotype="8"
                     /host="Homo sapiens"
                     /db_xref="taxon:622"
                     /plasmid="p4"
                     /geo_loc_name="USA"
                     /collection_date="1952"
                     /collected_by="NCDC"
     gene            complement(join(1413..1822,1..124))
                     /locus_tag="PWE30_RS25755"
                     /old_locus_tag="PWE30_25700"
     CDS             complement(join(1413..1822,1..124))
                     /locus_tag="PWE30_RS25755"
                     /old_locus_tag="PWE30_25700"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005707163.1"
                     /GO_process="GO:0006260 - DNA replication [Evidence IEA];
                     GO:0006276 - plasmid maintenance [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication/maintenance protein RepL"
                     /protein_id="WP_000893324.1"
                     /translation="MLEQQFEDFEQQKRRDHQAQDQSKSAKQKRDRLNPPDWSQVTKAG
                     WNMLDSISEKVPRAFRLYSFFAQNIDKSCGAVVCDQKFLADYFGVSLRTIQYWIGDLES
                     IGAIVKIPVGIYYAYALDPYQVWRGYNKSKKYAAFNAKTLTQKDGVIDRKLRLMLSRRE
                     EFEGSLKTSNHDLD"
                     /name="replication/maintenance protein RepL"
     gene            complement(1113..1400)
                     /locus_tag="PWE30_RS25760"
                     /old_locus_tag="PWE30_25705"
     CDS             complement(1113..1400)
                     /locus_tag="PWE30_RS25760"
                     /old_locus_tag="PWE30_25705"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001220925.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_023909281.1"
                     /translation="MRIKYESRWKLEELKLEICRSIDSLIDEYHIEYAMGINLYMNCED
                     KEFNPVDIVNEDGKNIMFVVSNNEKIQKPKKSAKKKIPAPVIELDKYRKK"
                     /name="hypothetical protein"
     Typing          611..862
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.885"
                     /coverage="97.0"
                     /evalue="1.85e-99"
ORIGIN
        1 taacctgcga ccagtcaggt ggattcaacc gatctcgttt ttgcttagca cttttggatt
       61 gatcttgtgc ctgatgatct cgccgttttt gctgttcgaa atcttcaaat tgctgttcca
      121 gcatacttgc atccttacct gcaacgttgt ttcgtacctt gcgaaattta tatcgtacat
      181 tacgaaacaa cacacgcaaa catgtttgcg tatacacatg caaataacgt ttcgtatgtt
      241 ggtgtcataa tgctttgatt tttaagagaa tgtcgatttt tgctctaaag atctatcaaa
      301 gcactttttt gctacacaag atttaattag ttcatcgaac atttggggtg tcggggcgaa
      361 gccctgaccc agtcacgtag cgatagcgga gtgtatactg gcttactctt ctgcaagcct
      421 cgtcagccgt gattttgccc gatttcgcgc tctccacgtt caacagctcg atcatgtttt
      481 tgcagtccgt tcaccgctaa aacgccccgc atcagtgcgt acgtgctcaa tgtggtttcc
      541 ggttctcttc cgcttcctcg cccactcgct cactaacgtt cggtcgctgg ggctgcggcg
      601 agcggtgcca cctctcgcat gttatcggtg attccgctgt tgttctttcg gggatgagtc
      661 gccagatagc tcttcaaacg ctctcagaag ctctcagacg cacgaaacgg gttttaaatg
      721 cccatcaggg catggaaggc gcgaaaaacg cttacagagg gttttaggag gtcaggcgcg
      781 ccgatacccc taaccagggg atttcaggtc gccaggaacc gcgtcagccc cctgcaaagc
      841 ccatttgcac ggaataggca gccacgcggt tggtaggtgg tcgtagaccg tcgatgttac
      901 agcgatgggg gtctggggtt ctccccagac ggtttccggt tgcgctcaag gcgctgccgg
      961 aaccgtggcg gctcggtcgt tctggaaaac ggggagcaaa aagacgcaag ggattttgag
     1021 gcggcaaaag agcaatgcag gatagacaat caactagaaa ttgcatgcaa tgttctgtgg
     1081 attgtccgcc tgccgctggc tctgtatggc catcactttt tccgatattt atctaactca
     1141 attacaggtg caggaatttt tttcttcgca cttttttttg gtttttgtat tttttcattg
     1201 ttgctaacga caaacataat attctttcca tcttcattga caatatcaac gggattaaac
     1261 tccttatctt cacaattcat atatagattt attcccattg catattcgat atgatattca
     1321 tcaattaacg aatctattga tctacatatt tctaatttta gttcttctaa tttccaacgt
     1381 gattcatatt taattctcat agcgcatcat acctagtcca agtcatgatt agatgtctta
     1441 agcgagcctt caaactcttc tctcctagag agcatgagcc gcaacttgcg atcaataacg
     1501 ccatcttttt gagttaatgt ttttgcgtta aacgctgcat attttttaga tttattatat
     1561 ccgcgccata cctgatacgg atctaacgca taagcataat agatacctac tggtattttc
     1621 acgatggcac caatactttc taaatctcca atccaatatt ggatcgtcct taaactaacg
     1681 ccgaaataat cagctaagaa tttttggtca catacaacag ccccacacga tttatctata
     1741 ttttgagcaa aaaaagaata tagcctaaat gctctgggaa ccttctcaga tatagagtcc
     1801 aacatattcc agcccgcctt ag
//
