LOCUS       NZ_CP019693             5114 bp    DNA     circular CON 17-APR-2024
DEFINITION  Shigella sonnei strain 75/02 plasmid p75-02_5, complete sequence.
ACCESSION   NZ_CP019693
VERSION     NZ_CP019693.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN06286561
            Assembly: GCF_002150905.1
KEYWORDS    RefSeq.
SOURCE      Shigella sonnei
  ORGANISM  Shigella sonnei
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Shigella.
REFERENCE   1  (bases 1 to 5114)
  AUTHORS   Svab,D., Balint,B., Maroti,G., Vasarhelyi,B., Horvath,B. and Toth,I.
  TITLE     Direct Submission
  JOURNAL   Submitted (01-FEB-2017) NGS Platform, Seqomics Ltd., Vallakozok u.
            7., Morahalom 6782, Hungary
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: CLC Genomics Workbench v. 9.5; Geneious v. R9;
            SPAdes v. 3.0.5
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 140.0x
            Sequencing Technology             :: Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_002150905.1-RS_2024_04_17
            Annotation Date                   :: 04/17/2024 03:20:21
            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)                     :: 5,359
            CDSs (total)                      :: 5,230
            Genes (coding)                    :: 4,495
            CDSs (with protein)               :: 4,495
            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)              :: 735
            CDSs (without protein)            :: 735
            Pseudo Genes (ambiguous residues) :: 0 of 735
            Pseudo Genes (frameshifted)       :: 214 of 735
            Pseudo Genes (incomplete)         :: 524 of 735
            Pseudo Genes (internal stop)      :: 123 of 735
            Pseudo Genes (multiple problems)  :: 119 of 735
            Pseudo Genes (short protein)      :: 3 of 735
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP019693.1.
            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..5114
                     /organism="Shigella sonnei"
                     /mol_type="genomic DNA"
                     /strain="75/02"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:624"
                     /plasmid="p75-02_5"
                     /geo_loc_name="Hungary: Halimba"
                     /lat_lon="47.0335 N 17.5364 E"
                     /collection_date="2002"
                     /collected_by="National Center for Epidemiology, Budapest,
                     Hungary"
     gene            352..1287
                     /locus_tag="BZ172_RS27635"
                     /old_locus_tag="BZ172_29440"
     CDS             352..1287
                     /locus_tag="BZ172_RS27635"
                     /old_locus_tag="BZ172_29440"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_009440807.1"
                     /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_024235833.1"
                     /translation="MSAALQYFEENLPHRPYHTDELAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDRVGAAIDWSDRNAPAPNITVKNPENGHAHLLYALNLAVRTAPDASVKA
                     LKYAAAIERALCEKLDADVNYSGLICKNPFHLEWQVMEWREEAYALDELADYLDLRASE
                     RRSVDKHYGLGRNCHLFEMTRKWAYRAIRQGWPAFSQWLDAVIQRVEMYNASLPVPLSP
                     PECRAIGKSIAKYTHRNFTPESFAQYVADTHTPEIQAKRGRKGGIAKGEAYDDKRFMAL
                     CMLENGYSQKAIAAMLNVHRNTIRNWAMHK"
                     /name="replication initiation protein"
     gene            complement(1481..1927)
                     /locus_tag="BZ172_RS27640"
                     /old_locus_tag="BZ172_29445"
     CDS             complement(1481..1927)
                     /locus_tag="BZ172_RS27640"
                     /old_locus_tag="BZ172_29445"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000184721.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="conjugal transfer protein TraD"
                     /protein_id="WP_024235834.1"
                     /translation="MTNREEWLSAKIAYINGLKSPSEQQRLLVLLAEKKNRTTTDEKTL
                     SALIRAEKTAEKAAAAKARVTAIIAAERKAAARAERKARDHELYKAAGLMIVAGLVDSK
                     TGKPKFSAAELVGALAGIAELPHNHPKWQEWEKRGKELLTKDSA"
                     /name="conjugal transfer protein TraD"
     gene            2099..3649
                     /locus_tag="BZ172_RS27645"
                     /old_locus_tag="BZ172_29450"
     CDS             2099..3649
                     /locus_tag="BZ172_RS27645"
                     /old_locus_tag="BZ172_29450"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001624483.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="WP_039063720.1"
                     /translation="MASYHCTVKAGAKGSALKHADYISRSGEYKSYKSREDLEFSSSGN
                     MPSWAKKNPAELWKAADEFERKNGTAYREIEIALPRELTREQRIELVEDFVQKELGDRH
                     AYQYAIHNPPGAIDGKEQPHAHIMFCERINDGIERDPQQFFKRANSKSPERGGAKKASI
                     PQTAGERKAALVALRSRWADVQNEHLARHGHESRVDHRSLKEQGINRTPEVHLGPVQAA
                     SLNGEQIVAIQERRNAERELKTARDAANAIQQEQEQKQKIKAVEPVRSARSPELLLQYR
                     KVMKTVIQGEARLARLGDANPNALKEHKLLQNAKAKKDSLSEWSRRIYEGARYLDKLGR
                     NVVSAQRELRELQEQRNALNGIRGLFRGADKREIDARILEQKSVLETAEHERNEFRNKL
                     QQAESEWDKENAAFKRTEGYKYVGELDRYREREILAAASLENTRQKVAEEVSVARSQML
                     SLEPELSISGDEKAQMRHELLAEMAQERQQQEEKALCIQRSWARGVSRSNERDQDMER"
                     /name="MobA/MobL family protein"
     gene            complement(3845..4945)
                     /locus_tag="BZ172_RS27650"
                     /old_locus_tag="BZ172_29455"
     CDS             complement(3845..4945)
                     /locus_tag="BZ172_RS27650"
                     /old_locus_tag="BZ172_29455"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001569522.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_024235836.1"
                     /translation="MNINFKHILPLLSSFFISGCDSDGISKVKSFVYYDIDDSMTVGKA
                     FDTRSDCINGTWSEKEDDRGRTIVTYTCDISESGLKIINSAIMQEPEDKAEYSIAQNNN
                     SIKSTNESLEEYKQKTPLVEKTKEVIIDHIRKLNSAFNEDPMIYSKLTISPYLDRMLYL
                     KDHNDNALNEICGGYEYIQSADSYSWRDVSEEYAKESCEKHIYKVYQSFKKNASPLITK
                     NFPGFYERVPPCENADECIKKTNIYFDDNFLNIYKRSQDRAPQIISDLKKHNIEIGEKL
                     NDCRKKLNISDVKLTYYWFVTDTGGVDYLDGVLTYNFQGKNRAENFHKQLLQYAYINYS
                     KNQIPRDFVTSIKNSIYYKIEDCTKF"
                     /name="hypothetical protein"
     Typing          353..1287
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          2100..3646
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.857"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ttttgacctg ttcgctgttc aaaacgagtg aaaccggaca tgaatcgctt tcgtgcatag
       61 ttatgcagcc ccctgaaaac aattctggcg cgtttttttg gtctggcctg ttgtttccct
      121 gtctttttgc gttttttgcg acagaaagcg actgagggcg ttttaagggg ggcgcacaac
      181 gggagttatg gtaaatggat cgggtttgcg ggaagactcg acaggttttg tcgttggggg
      241 tagtgtaagc gactgaaaaa caaacgcccc tgaaattcgt gtctatccgg caagactttc
      301 acgaagatac aggggcgatg tcggtcgata acctggaagg aatcgtaaca catgagcgcc
      361 gcgcttcaat acttcgaaga aaatttacct caccgtccct atcacacgga tgagctcgct
      421 ttcggtcttc gtatctccgg caaagggcgt gcgctgcttg ctcgctacat ccagcaaaat
      481 cagcctcatg cgcagttctg gctggttttt gacgttgacc gcgtaggagc tgcgattgac
      541 tggagcgacc ggaacgcccc cgcgccgaac atcaccgtaa aaaatcccga gaacgggcac
      601 gctcacctgc tctacgcgct caatcttgcc gtgagaaccg cgcctgatgc gtcggttaag
      661 gcgctgaaat acgccgctgc aattgaacgt gcgctgtgtg agaaacttga cgcagatgtg
      721 aactacagcg gactgatttg caaaaatccg ttccacctgg aatggcaggt gatggagtgg
      781 cgcgaggaag cctacgccct cgatgaactg gctgattatc tcgatttgag agcctcagag
      841 cgtcgtagcg tcgataaaca ttacgggctg gggcgaaact gccatctgtt cgaaatgacg
      901 cgcaaatggg cttacagggc gattcggcag ggctggccag cattctcaca gtggcttgat
      961 gctgtgattc agcgtgtcga aatgtacaac gcatcgcttc ccgttccgct ttctccgcct
     1021 gaatgtcggg ctattggcaa gagcattgcg aaatacacgc acaggaactt cacgccggaa
     1081 agtttcgcac agtatgtggc tgatacgcac acaccagaaa tacaggccaa gagaggccgg
     1141 aaaggtggca tcgctaaagg cgaagcctac gatgacaagc gtttcatggc gctatgtatg
     1201 ctggagaatg gatattctca gaaagctatt gcggcgatgc tgaatgtaca tcgtaatacg
     1261 atccgtaatt gggcaatgca caaatagcct atatcagata acagcgcctt ttcggcgtct
     1321 ttttgagcag cgggctttcc ggcggttttc tcctttcagc ccagcaatgg tgcggcttac
     1381 cgtatgattg aggtggtcgt gctcgccgca gtctcatgac cgagcgtagc gagcgaatga
     1441 gcgaggaagc accagggaac tggaacgtga acggaggctc ttacgcactg tctttggtga
     1501 gtagctcttt cccgcgtttt tcccattcct gccattttgg atggttgtgc ggtagctctg
     1561 cgattcctgc gagtgcgcct accagttcgg cagcactaaa ctttggcttt ccggttttgc
     1621 tgtccaccag tcctgccaca atcatgaggc ctgcggcctt gtagagttca tgatcccgcg
     1681 cctttcgttc cgcccttgcg gctgccttcc gttctgccgc tatgattgcc gttactctgg
     1741 cttttgctgc ggctgctttc tctgcggttt tttctgcccg tatcagtgcg gacaacgttt
     1801 tttcatccgt cgttgttcgg ttttttttct ctgccagtaa cacaagtaat ctctgctgct
     1861 ctgatggtga tttcagtccg ttgatgtagg caatttttgc acttaaccac tcttcacgat
     1921 ttgtcattct tacctctgca cttttgccgt taatgtgagt tgttattatg cataatatca
     1981 ccttgtttgc ctgcgtgtga gaccgtaaaa tcatccatga ttaattcagg gatgcgcact
     2041 tagtagtttc tctccttcgt cgagaaactg tgcgctcctg cggagggcta aaaggcagat
     2101 ggcaagctac cattgcactg tcaaagctgg agcaaaaggc agtgccttaa aacatgctga
     2161 ttacatttcc agatccggcg aatataagag ttacaaatcg cgggaggatc tggaattttc
     2221 gtcatccggt aacatgccat catgggcgaa gaaaaatccc gcagagctat ggaaagccgc
     2281 agatgaattt gaacgaaaaa acgggactgc ataccgtgaa attgagatcg cgttaccgcg
     2341 tgaactgaca cgcgaacaac ggatagaact tgttgaagat ttcgtgcaaa aggaacttgg
     2401 cgatcgccat gcctaccagt acgcgatcca caatccgcca ggtgcaatcg acggaaagga
     2461 acagccacac gcgcatatca tgttttgcga gcggattaat gatggtattg aacgcgatcc
     2521 acagcaattt tttaaacgtg ccaacagcaa atcaccagag cggggaggcg caaaaaaagc
     2581 gagtattccc cagacagccg gagagcgaaa agccgccctt gttgcgctgc gttcccgctg
     2641 ggcagatgtg cagaatgagc accttgcgcg acacggtcac gagtcgcgcg tagatcatcg
     2701 ttctctgaaa gaacagggta tcaatcgcac gccggaagtt catcttggcc ccgttcaggc
     2761 cgccagtctg aatggggagc agattgttgc aatccaggaa cggaggaatg ccgagcggga
     2821 actcaagacc gccagagatg ccgcaaatgc cattcagcag gaacaggagc aaaagcaaaa
     2881 aatcaaggca gttgagcctg ttcgttcagc ccgttcaccg gagttattgc ttcagtaccg
     2941 caaggttatg aaaacggtca ttcagggaga ggcaaggctt gctcgtttag gggatgccaa
     3001 tcccaatgcg ctcaaagaac ataagctgct tcagaatgcg aaagctaaaa aagactctct
     3061 ttccgaatgg agtagacgaa tatatgaagg ggcacggtat ttagacaaac tggggcgtaa
     3121 tgttgtttcc gcacaaaggg agctgcggga gctacaggaa caacgcaatg ctttgaatgg
     3181 gattcgtggc ctgtttcggg gggctgacaa aagggagatt gatgcgcgta ttctggagca
     3241 aaaaagtgtg ctggaaaccg ctgaacatga aaggaatgaa ttcaggaaca agctacagca
     3301 agccgaatcc gagtgggaca aagaaaacgc tgcttttaag cgtaccgagg gatataagta
     3361 cgttggggag ctggacaggt acagagaacg cgagattctg gcggcggcat ctttagagaa
     3421 caccaggcaa aaggttgctg aagaggtatc cgttgcccgt agccagatgt tatctctgga
     3481 gcctgaactc agtatatctg gagatgaaaa agctcaaatg cgacatgagt tactggcaga
     3541 aatggcgcag gaacggcagc aacaggagga aaaagcactg tgtatacagc gatcctgggc
     3601 caggggggta tcacgtagta acgaacgtga tcaagatatg gagcgttgaa aatgtagcaa
     3661 tatcgggact gcgccccgaa ccccgccaac gtttcacgga acgcgaaaaa attccgcgtc
     3721 ccgtgaaacg ttttctgaat gagaaaaatt gtcgttttga tttactcaca gttcagatta
     3781 atgaagttaa caggtgttaa atatttgcag gtggttatat gtgtaaccac ctgtaaggga
     3841 aggactaaaa cttagtgcaa tcttctattt tataataaat actatttttt attgatgtta
     3901 caaagtcccg aggtatttga tttttgctgt agttaatgta tgcatattgc aatagttgtt
     3961 tatgaaagtt ttcagctcta ttctttccct gaaaattata tgtcaacacc ccatctaaat
     4021 aatcaactcc tccggtatct gttacaaacc agtaataggt taatttgaca tctgagatat
     4081 ttagtttttt cctacaatca tttaactttt cacctatttc tatattgtgt ttttttaaat
     4141 cagaaattat ttgaggtgct ctatcttggc ttcttttgta gatatttaga aagttatcat
     4201 caaagtatat atttgttttt tttatgcatt catctgcgtt ctcacagggg gggacacgtt
     4261 cgtagaaacc ggggaagttt ttagttatta atggtgatgc atttttctta aacgattgat
     4321 atactttata tatatgcttt tcgcatgatt cttttgcata ctcttcactt acatcacgcc
     4381 aactgtaact atcggcagat tgaatgtatt cgtacccacc acaaatttca tttagcgcat
     4441 tgtcattatg gtcctttaga tatagcattc tgtctaaata agggctaatt gtgagtttgc
     4501 tatatatcat tggatcttca ttaaaagcac tgtttagctt tcttatatga tctattatga
     4561 cctcttttgt tttttccacc agaggcgttt tctgtttgta ttcctctagt gattcattgg
     4621 ttgattttat gctgttgtta ttttgtgcta tagaatattc agccttatct tcaggttctt
     4681 gcataatggc tgaatttatt atttttaggc cactttcact aatatcacag gtatatgtga
     4741 cgatggttct tcctcgatca tcctcttttt cactccatgt gccattgatg caatcactcc
     4801 ttgtatcgaa ggctttacca acagtcattg agtcgtcaat gtcgtaatat acgaaagact
     4861 ttaccttgct tattccatca gagtcgcatc ctgaaataaa aaatgacgac aataaaggaa
     4921 ggatatgttt aaagttaata ttcatttttc ccatttttat ttctaacaat aacgaggaaa
     4981 tattaataca ggcgatatgt taatggaatc catacatacc gataaaccga cttactatgt
     5041 ttgtgctcaa cgtcttacgc agttcgaaaa gatttcgcac cagttcacct ttttctggat
     5101 gagaaagttt gctg
//
