LOCUS       NZ_CP151321             2690 bp    DNA     circular CON 18-APR-2024
DEFINITION  Shigella sonnei strain R21.0552 plasmid pR21.0552_2.6k, complete
            sequence.
ACCESSION   NZ_CP151321
VERSION     NZ_CP151321.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN39735802
            Assembly: GCF_038364745.1
KEYWORDS    RefSeq.
SOURCE      Shigella sonnei
  ORGANISM  Shigella sonnei
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Shigella.
REFERENCE   1  (bases 1 to 2690)
  AUTHORS   Chiou,C.-S., Hong,Y.-P., Wang,Y.-W., Teng,R.-H. and Chen,B.-H.
  TITLE     WGS of Shigella
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2690)
  AUTHORS   Chiou,C.-S., Hong,Y.-P., Wang,Y.-W., Teng,R.-H. and Chen,B.-H.
  TITLE     Direct Submission
  JOURNAL   Submitted (09-APR-2024) Center for Diagnostics and Vaccine
            Development, Centers for Disease Control, Taiwan, No.20, Wenxin S.
            3rd Rd., Nantun Dist., Taichung City 408, Taiwan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: flye v. v2.9.2
            Genome Representation             :: Full
            Expected Final Version            :: No
            Genome Coverage                   :: 100x
            Sequencing Technology :: Oxford Nanopore MinION; Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_038364745.1-RS_2024_04_18
            Annotation Date                   :: 04/18/2024 01:43:35
            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)                     :: 5,428
            CDSs (total)                      :: 5,299
            Genes (coding)                    :: 4,560
            CDSs (with protein)               :: 4,560
            Genes (RNA)                       :: 129
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 96
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 739
            CDSs (without protein)            :: 739
            Pseudo Genes (ambiguous residues) :: 0 of 739
            Pseudo Genes (frameshifted)       :: 212 of 739
            Pseudo Genes (incomplete)         :: 527 of 739
            Pseudo Genes (internal stop)      :: 127 of 739
            Pseudo Genes (multiple problems)  :: 121 of 739
            Pseudo Genes (short protein)      :: 3 of 739
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP151321.1.
            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..2690
                     /organism="Shigella sonnei"
                     /mol_type="genomic DNA"
                     /strain="R21.0552"
                     /db_xref="taxon:624"
                     /plasmid="pR21.0552_2.6k"
                     /collected_by="Taiwan CDC"
     gene            1..324
                     /gene="mobA"
                     /locus_tag="AADX62_RS27115"
                     /old_locus_tag="AADX62_27100"
     CDS             1..324
                     /gene="mobA"
                     /locus_tag="AADX62_RS27115"
                     /old_locus_tag="AADX62_27100"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052604.1"
                     /GO_process="GO:0006355 - regulation of DNA-templated
                     transcription [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization protein MobA"
                     /protein_id="WP_004988908.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKNVNSLTDDRVLKEVMRLGALQKKLFIDGKRIGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="mobA"
     gene            complement(550..1173)
                     /locus_tag="AADX62_RS27120"
                     /old_locus_tag="AADX62_27105"
     CDS             complement(550..1173)
                     /locus_tag="AADX62_RS27120"
                     /old_locus_tag="AADX62_27105"
                     /inference="COORDINATES: protein motif:HMM:NF045398.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="putative adhesin"
                     /protein_id="WP_226342037.1"
                     /translation="MDVTSHRRLFQKDGIGLSQTGKATQLVIMSHGGWKEISHPQTLFT
                     RQKGDGWTVVPKNLRIDFYTKDNDFTKGLSVLSEVNKRHTEAQKGLTPSLNISKDDLKV
                     LANARNIPQSKLEEEMMSQAIYRKEYATSNEKIKNYALYYHEQAQNIIQRHQDGLGNKN
                     IDIAFITDKNHKKHLSDIFKVINESGVKYDVIHFGACRVNREEK"
                     /name="putative adhesin"
     gene            complement(1552..1713)
                     /locus_tag="AADX62_RS27125"
                     /old_locus_tag="AADX62_27110"
     CDS             complement(1552..1713)
                     /locus_tag="AADX62_RS27125"
                     /old_locus_tag="AADX62_27110"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001318243.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_072007783.1"
                     /translation="MHEPPVQPDRCALSGNYRLESNPVRHELSPLAAATDNRIRGVRLE
                     VMRLLRLN"
                     /name="replication initiation protein"
     gene            complement(2211..2405)
                     /locus_tag="AADX62_RS27130"
                     /old_locus_tag="AADX62_27115"
     CDS             complement(2211..2405)
                     /locus_tag="AADX62_RS27130"
                     /old_locus_tag="AADX62_27115"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041624.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_039059175.1"
                     /translation="MNKQQQTVLNMAGFIKSQSLTLLEKLDALDADEQAAMCEKLHEIA
                     EELQNSIQTRFEAESGTGV"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          2444..2682
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.72e-122"
     Typing          complement(1642..2168)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.472"
                     /coverage="96.0"
                     /evalue="0.0"
     Typing          2..321
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.196"
                     /coverage="100.0"
                     /evalue="5.79e-62"
ORIGIN
        1 atgacaaaac gaagtggaag taatacgcgc aggcgggcta tcagtcgccc tgttcgtctg
       61 acggcagaag aagaccagga aatcagaaaa agggctgctg aatgcggcaa gaccgtttct
      121 ggttttttac gggcggcagc tctcggtaag aacgttaact cactgactga tgatcgggtg
      181 ctgaaagaag ttatgagact gggggcgtta cagaaaaaac tctttatcga cggcaagcgt
      241 atcggggaca gggagtatgc ggaggtgctg atcgctatta cggagtatca ccgtgccctg
      301 ttatccaggc ttatggcaga ttagcttccc ggggagaaaa ctgttgaaaa cagacggtat
      361 gaacacggta agctcccaaa gtgatctcca ttcgctttca tgcatagcta tgcagcgagc
      421 tgaaaacgat cctgacgcat ccttcctgtt tttccggggt aaaacatcta tttttgtggt
      481 gtctgcgtca gaatcgcgtt cagcgcgttt cagtggtgcg tacaattaag ggattatggt
      541 aaatgatgat tatttctcct ctctatttac tcggcaagcg ccaaagtgaa ttacatcata
      601 ttttactcct gattcattta ttactttaaa tatgtcagaa aggtgcttct tatgattttt
      661 atcagttata aatgctatat caatattttt gtttcctaag ccatcttgat gtctttgtat
      721 aatattttgg gcttgttcat ggtaatatag agcatagttt tttatcttct cattacttgt
      781 tgcgtattct tttctatata tggcttgtga catcatttct tcttctaatt ttgattgagg
      841 tatattgcgc gcgttcgcta gaacttttag gtcatctttg cttatgttta gtgatggtgt
      901 taaccctttt tgagcttcag tatggcgttt gtttacctct gaaagaacgc ttagtccctt
      961 tgtgaagtcg ttgtcttttg tataaaaatc aattcttagg tttttgggga ctacagtcca
     1021 tccatcgcct ttttgacgcg tgaatagtgt ttgtggatgg gagatctctt tccatccacc
     1081 atgcgacata atgacaagtt gtgttgcttt tcctgtttgg ctcaatccta ttccgtcttt
     1141 ctggaataaa cgacgatgac ttgttacgtc catgtttggt gatgggtgtg tttttatatt
     1201 tttggatgat gttagaaggt gatttcttat tgttgatgat atgtttgtta tgagattcga
     1261 attgagtatt ttcatttgtt aacaatccat ttttgcggtg ttttttattg ttttttttct
     1321 tttgtttaag ggtgtgtcgg tgtaagtgtt tattttatgg gttaaagtag gataccaagt
     1381 gtgaaaaaaa attaaaggtt cttcttgaga tccttttttt ctgcgcgtaa tctgctgcct
     1441 gtaaacgaaa aaaccgccct gcaaggcggt ttttcgaagg ttctcagagc taccaactct
     1501 ttgagccgag gtaactggct tggaggagcg cagtcaccaa aacttgttct ttcagtttag
     1561 ccttaacagg cgcatgactt caagtcttac tcctctaatt cggttatcag tggctgctgc
     1621 cagtggcgat aattcgtgtc ttaccgggtt ggactcaaga cgatagttac cggataaggc
     1681 gcagcggtcg ggctgaacgg ggggttcgtg cacacagccc agcttggagc gaacgaccta
     1741 caccgggccg agataccaac agcgtgagct atgagaaagc gccacgcttc ccgaagggag
     1801 aaaggcggac aggtatccgg taaacggcag ggtcggaaca ggagagcgca cgagggagct
     1861 tccaggggga aacgcctggt atctttatag tcctgtcggg tttcgccacc tctgacttga
     1921 gcgtcgattt ttgtgatgct cgtcaggggg gcggagccta tggaaaaacg ccacctgcgc
     1981 ggcctttgtc cctgccttcg gctttttgct cacatgttct ttccggcgtt atcccctgat
     2041 tctgtggata accgcattac cgcctttgag tgagctgaca ccgctcgccg cagtcgaacg
     2101 accgagcgta gcgagtcagt gagcgaggaa gcggaagagc gccttatgtg acattttctc
     2161 cttacgcacc ggtataccgt tctgcatcct gtctggagca ggatacactg ttataccccg
     2221 gtgccacttt ccgcttcaaa gcgtgtctgt atgctgttct ggagttcttc cgcgatttcg
     2281 tgcagcttct cacacatggc ggcctgttcg tcggcatcga gtgcgtccag cttttcgagc
     2341 agcgtcaggc tctggctttt tatgaatccc gccatgttga gtacggtttg ctgctgcttg
     2401 ttcatctttc tgttttctcc gttctgtctg tcatctgcgt tgtgtgatta tatcgcgtac
     2461 cacttttcga ctgttttacc gccggtattc tgccgtctga cgcattgacg ggtatttctg
     2521 cctgacaata ctgtcactgc caaaaaaact gccgtgcctt tgtcggtaat tcgaacttgc
     2581 tgacaggaca ggatgtgtaa ttgttatacc gcgcatacat gcacgctatt acaattaccc
     2641 tggtcagggc ttcgccccga caccccgtgt cagatacgga gccatgtttt
//
