LOCUS       NZ_KP970685             6015 bp    DNA     circular CON 09-JUL-2023
DEFINITION  Shigella sonnei strain IDH01791 plasmid pSSE3, complete sequence.
ACCESSION   NZ_KP970685
VERSION     NZ_KP970685.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN14226602
KEYWORDS    RefSeq.
SOURCE      Shigella sonnei
  ORGANISM  Shigella sonnei
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Shigella.
REFERENCE   1  (bases 1 to 6015)
  AUTHORS   Calcuttawala,F., Pazhani,G.P., Hariharan,C., Saha,D.R. and
            Ramamurthy,T.
  TITLE     Characterization of plasmid-borne E-type colicins from the clinical
            strains of Shigella sonnei
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 6015)
  AUTHORS   Calcuttawala,F., Pazhani,G.P., Hariharan,C., Saha,D.R. and
            Ramamurthy,T.
  TITLE     Direct Submission
  JOURNAL   Submitted (13-MAR-2015) Bacteriology, National Institute of Cholera
            and Enteric Diseases, P-33 CIT Road, Scheme-XM, Kolkata, West Bengal
            700010, India
COMMENT     ##Assembly-Data-START##
            Sequencing Technology        :: Sanger dideoxy sequencing
            ##Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider          :: NCBI RefSeq
            Annotation Date              :: 07/09/2023 03:19:03
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision :: 6.5
            Features Annotated           :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                :: 7
            CDSs (total)                 :: 7
            Genes (coding)               :: 7
            CDSs (with protein)          :: 7
            Genes (RNA)                  :: 0
            tRNAs                        :: 0
            ncRNAs                       :: 0
            Pseudo Genes (total)         :: 0
            CDSs (without protein)       :: 0
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            KP970685.1.
            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..6015
                     /organism="Shigella sonnei"
                     /mol_type="genomic DNA"
                     /strain="IDH01791"
                     /isolation_source="stool"
                     /host="Homo sapiens"
                     /db_xref="taxon:624"
                     /plasmid="pSSE3"
                     /geo_loc_name="India"
     gene            join(5500..6015,1..420)
                     /locus_tag="HPF07_RS00005"
     CDS             join(5500..6015,1..420)
                     /locus_tag="HPF07_RS00005"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011666805.1"
                     /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_001271369.1"
                     /translation="MSAALQYFEENLPLRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDLNAPAPNITIKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAIERALCEKLGADVNYSGLICKNPFHLEWQVMEWREEAYTLDELADYLDLSTSA
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLDAVIQRVEMYNASLPVPLSP
                     PECRAIGKSIAKYTHRNFTAETFAQYVADTHTPEIQAKRGRKGGIAKGEAYDDKRFMAL
                     CMLENGYSQKAIAAMLEVSTRTIRNWKSGK"
                     /name="replication initiation protein"
     gene            complement(614..1012)
                     /locus_tag="HPF07_RS00010"
     CDS             complement(614..1012)
                     /locus_tag="HPF07_RS00010"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001222916.1"
                     /translation="MRISNIEWLKKRIGFIRKLGEQTARQRQIIDLLDNEAGLTEQERK
                     LLHVLATAEKNDLQAQESERKQAVQKRIEGKKQRRERNHRLFLAAGLLIEAGLVDTKTG
                     ELCYKKDRILQALKEIKYDLETSPNPDA"
                     /name="hypothetical protein"
     gene            1188..2114
                     /locus_tag="HPF07_RS00015"
     CDS             1188..2114
                     /locus_tag="HPF07_RS00015"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221102.1"
                     /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_001314449.1"
                     /translation="MATYHLSVKFGGKGQAANHADYIERKEKYRDRQDLEYSAHGNMPE
                     WARDNPSHFWQAADQFERANGSTYRELEIALPRELTAEQRLELVQDFVRQEAGERHAWS
                     FAIHNPKASIDGGEQPHAHIMMSQRVNDGIERTPEQYFRRYNARYPERGGAKKDSGSLT
                     LTQQKEQLRELRKRWEVKHNEHMRKHGFERGFIDCRTLKEQGIERRPEVHLGFEAAGRL
                     DDAQRHDIMQKRSEPDYSRHLEQARTVGHDIREWLDTPVKQHELVRRLQHDVAREHGFD
                     MRDRVSRQNRTEPERVKSPSRGFSMGF"
                     /name="MobA/MobL family protein"
     gene            2117..2650
                     /locus_tag="HPF07_RS00020"
     CDS             2117..2650
                     /locus_tag="HPF07_RS00020"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221103.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_021546188.1"
                     /translation="MASTEEKLLTLLLSVEHLQHTAMEQQKAVADSLAVARETLRGYRD
                     ISDGVAKQVRDEVRNEVQRLDVAGLIGERISQDFQRLEESVANMKANADALNRDIATIH
                     SNIVQEYNTLKGYSWKWLGGVSVAFLVMFSVLGWGMKTILDRNYNATAAVYQKVVTLED
                     KLVEKPVTGKSRKN"
                     /name="hypothetical protein"
     gene            2871..4508
                     /locus_tag="HPF07_RS00025"
     CDS             2871..4508
                     /locus_tag="HPF07_RS00025"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000012964.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="colicin-like bacteriocin tRNase domain-containing
                     protein"
                     /protein_id="WP_039063724.1"
                     /translation="MSGGDGRDHNSGAHNTGGNINGGPTGLGGNGGASDGSGWSSENNP
                     WGGGSGSGVHWGGGSGNGNGGGNGNSGGGSNSSVAAVAFGFPALATPGAGTLGIAVSGE
                     ALSAAIADIFAALKGPFKFSAWGIALYGILPSEIAKDDPNMMSKIVTSLPAETVTNVQV
                     STLPLDQATVSVTKRVTDVVKDTRQHIAVVAGVPMSVPVVNAKPTRTPGVFHASFPGVP
                     SLTVSTVKGLPVSTTLPRGITEDKGRTAVPAGFTFGGGSHEAVIRFPKESGQKPVYVSV
                     TDVLTPAQVKQRQDEEKRLQQEWNDAHPVEVAERNYEQARAELNQANKDVARNQERQAK
                     AVQVYNSRKSELDAANKTLADAKAEIKQFERFAREPMAAGHRMWQMAGLKAQRAQTDVN
                     NKKAAFDAAAKEKSAADAALSSAMESRKKKEDKKRSAENKLNEEKNKRRKGTKDYGHDY
                     HPAPKTEDIKGLGELKEGRPKTPKQGGGGKRARWYGDKGRKIYEWDSQHGELEGYRASD
                     GQHLGSFDPKTGKQLKGPDPKRSIKKYL"
                     /name="colicin-like bacteriocin tRNase domain-containing
                     protein"
     gene            4518..4775
                     /locus_tag="HPF07_RS00030"
     CDS             4518..4775
                     /locus_tag="HPF07_RS00030"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010891189.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="cloacin immunity family protein"
                     /protein_id="WP_001419702.1"
                     /translation="MGLKLHIHWFDKKNEEFKGGEYSKDFGDDGSVIERLGMPLKDNIN
                     NGWFDVEKRWVPILQPYFKNVIDISKFDYFVSFDYRDGDW"
                     /name="cloacin immunity family protein"
     gene            4859..5002
                     /locus_tag="HPF07_RS00035"
     CDS             4859..5002
                     /locus_tag="HPF07_RS00035"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000724569.1"
                     /GO_component="GO:0019867 - outer membrane [Evidence IEA]"
                     /GO_process="GO:0019835 - cytolysis [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="colicin release lysis protein"
                     /protein_id="WP_001419703.1"
                     /translation="MKKITGIILLLLAAIILAACQANYIRDVQGGTVSPSSSAELTGVE
                     TQ"
                     /name="colicin release lysis protein"
     BGC             1..6015
                     /name="RiPP-like"
                     /gene="RiPP-like"
                     /tool="antismash"
     Typing          2..420
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          5501..6014
                     /name="rep_cluster_2131"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.204"
                     /coverage="84.0"
                     /evalue="0.0"
     Typing          1189..2111
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.052"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atggggagaa actgccatct gttcgaaatg acgcgcaaat gggcttacag ggcgattcgt
       61 cagggctggc cagcattctc acagtggctt gatgccgtga ttcagcgtgt cgaaatgtac
      121 aacgcatcgc ttcccgttcc gctttcacct cctgaatgtc gggctattgg caagagtatt
      181 gcgaaataca cgcacaggaa cttcacggcg gaaactttcg cacagtatgt ggctgatacg
      241 cacacgccag aaatacaggc caagagaggc aggaaaggtg gcatcgctaa aggcgaagcc
      301 tacgatgaca agcgtttcat ggcgctatgt atgctggaga atggatattc tcagaaagct
      361 attgcggcga tgttggaggt ttctactcga accattcgaa actggaaaag cggaaaatag
      421 cctatatcag ataacagcgc ctttctggcg tttttttgag ccttaggtct tttgccgttt
      481 ttccccgttc agccctgcaa tggtgctgtt ttccgcatga ttgtgctggt agtgctcgcc
      541 gcagtctcat gaccgagcgt agcgagcgaa tgagcgagga agcaccaggg aacaggaaca
      601 cggatggagg cacttacgcg tctgggtttg gggatgtctc cagatcgtac ttaatttcct
      661 taagtgcctg taatatcctg tcttttttat agcatagctc gcctgttttt gtgtctacca
      721 gtcctgcttc gatcagtagc ccagccgcga gaaagagtcg gtgattgcgt tctcgtcgtt
      781 gtttttttcc ctcgattcgt ttttggaccg cctgttttcg ttcgctctcc tgtgcctgta
      841 agtcgttttt ttccgctgtt gccagtacgt ggaggagttt gcgttcctgt tctgtgagtc
      901 ctgcttcgtt gtcgagcagg tcaataatct gtctctgtcg tgcggtctgt tctccgagct
      961 tcctgatgaa tccgatccgt ttcttcagcc attcgatgtt gctgatgcgc atgttcgtgg
     1021 tgctccctgg tgttttttgc tgtgtgttgt ggtcgtgcag tatatcgctt gcggtcggtg
     1081 ggtgcagggg gtatcttccg tgctaattcg taaaattaga aggaagcgca cttatatgtt
     1141 tctctccttc gtcgagaaac agtgcgctcc tgcggagggc tgaaaccgtg gcaacctatc
     1201 acctcagcgt taaatttggt ggcaaggggc aggctgcaaa ccacgccgat tacatcgagc
     1261 gcaaagagaa ataccgcgac cgtcaggatt tggaatattc cgcacacgga aacatgccgg
     1321 aatgggcgcg agataatccc tcacatttct ggcaggcggc tgaccagttt gaacgtgcga
     1381 acggttcgac ctatcgggaa cttgaaattg cattaccccg tgaactgaca gcggaacagc
     1441 gccttgaact ggtgcaggat tttgtacgtc aggaagctgg cgaacggcac gcctggagtt
     1501 ttgccattca caatccgaaa gcgagcattg acggcggcga acagcctcat gcgcatatca
     1561 tgatgagcca gcgtgtgaat gatggcattg aacgtacacc ggaacagtat ttccggcgct
     1621 ataacgccag gtatcccgag cggggaggtg cgaaaaagga ttccggaagc ctgactctca
     1681 ctcagcaaaa agagcagttg cgggaattgc gaaaacgctg ggaggtgaag cacaacgaac
     1741 atatgagaaa gcatggcttt gaaaggggct tcattgactg ccggacgctg aaagaacagg
     1801 gcattgaacg acgtcccgaa gtgcatctgg gttttgaagc tgccggacgg cttgatgatg
     1861 cccagcgtca tgacatcatg caaaaacggt ctgaaccgga ctattcccgc catcttgaac
     1921 aggcgcgaac ggtcgggcat gacatcaggg aatggctgga cactccggtt aagcaacatg
     1981 aactggtcag aaggctgcaa catgatgttg cgcgggagca tggctttgac atgagagaca
     2041 gagtgagcag acagaaccga actgaacctg aacgggttaa atcaccgtca cgtggatttt
     2101 ctatgggatt ctgaacatgg ccagcacaga agaaaaatta ctcacgctcc tgttatcggt
     2161 ggagcatctg caacataccg caatggagca acagaaagct gttgctgatt ctctggctgt
     2221 ggcaagggaa acacttcgcg gatatcggga tatttctgac ggtgtggcaa aacaggtcag
     2281 ggatgaagtc agaaacgaag tgcagaggct ggatgttgca gggctgatag gtgagcgcat
     2341 cagtcaggat tttcagcggc tggaagagtc agtcgcaaac atgaaggcaa acgcggatgc
     2401 cctgaacagg gatattgcga caattcacag caatatcgtg caggaataca acacccttaa
     2461 agggtatagc tggaaatggc tgggtggggt gtcagtggcc tttctggtta tgttcagtgt
     2521 gctcggatgg gggatgaaaa caattctcga caggaactac aacgccacag cggcggtgta
     2581 tcagaaagtt gtgacactgg aagataaact ggtggagaaa cctgtcacgg gtaagagccg
     2641 gaaaaactga cgcgcttcgc ttgtccaacg cctcacgacc cgcgaaagga tttcgcgttc
     2701 cgttcaccgt tttcatgagt gattcctccg aactgccaaa aaatatcccc ccctgacttg
     2761 acagaaaaaa taatggcgag tactttttgg tctgtacata aaaccagtgg ttttatgtac
     2821 agtatcaact atataatcaa ttgttttaac gcttaaaaga gggaattttt atgagcggtg
     2881 gagatggacg cgaccacaac agtggcgcac ataacacagg tggtaacatt aatggcggcc
     2941 ctacggggct tggtggaaat ggtggggctt ctgacggttc aggatggagt tcggaaaata
     3001 acccatgggg tggcggttcc ggtagtggtg ttcactgggg aggtggctcc ggcaatggta
     3061 atggcggggg gaatggtaat tccggtggtg gcagcaattc atccgtagca gcagtggcat
     3121 ttggttttcc tgctttggca actcctggtg ccggaacgct gggtatcgcc gtctctggtg
     3181 aggctttatc tgcggcaata gcggatatct ttgcagccct gaaaggcccg tttaaattca
     3241 gcgcatgggg tattgcgctt tacggcattc tgccatctga aatagcaaaa gatgacccga
     3301 atatgatgtc aaagattgtg acgtcattac cggcagaaac agtgacgaat gttcaggtca
     3361 gtacacttcc gctggaccag gcaactgtca gcgtgacgaa acgtgtgaca gatgttgtga
     3421 aggacacacg acagcatatt gccgtagttg caggtgtgcc tatgagtgtg cctgttgtga
     3481 atgccaaacc aacacgtact ccaggtgtat ttcacgcatc atttcctggt gtcccttctc
     3541 tgacagtcag cactgtcaaa ggccttccgg tgtcaacaac ccttccccgt ggtattacgg
     3601 aggataaagg ccggactgcc gttcctgcgg gatttacctt tggtggtggt tcacatgaag
     3661 cggtgattcg ctttccgaaa gaaagtgggc agaagccggt ttatgtatca gtgacagatg
     3721 ttcttacccc agcacaggta aaacaacgtc aggatgagga aaaacgcctc cagcaggaat
     3781 ggaatgacgc acatccggtg gaagtggctg aacgcaatta tgaacaggcc cgcgcagaac
     3841 tgaatcaggc taataaagat gttgccagaa accaggaacg acaggctaaa gctgttcagg
     3901 tttataattc tcgtaaaagt gaacttgatg cagcgaataa aactcttgct gatgcaaagg
     3961 ctgaaataaa acaattcgag cgatttgccc gagaaccaat ggctgctggt cacagaatgt
     4021 ggcaaatggc agggcttaag gcccagcggg cacagacgga tgtaaataat aagaaggctg
     4081 catttgatgc tgccgcaaaa gagaagtcag cagcagatgc tgcattgagt tctgcgatgg
     4141 aaagcaggaa gaagaaagaa gataagaaaa ggagtgctga aaataaatta aacgaagaga
     4201 aaaataaacg ccgaaaaggc actaaagatt atggccatga ttatcatcca gctcctaaaa
     4261 ctgaggatat taaaggtttg ggggaattaa aagaggggag gccaaaaact ccaaagcaag
     4321 gtggtggagg taagcgtgcc agatggtatg gagataaggg gcgtaaaatt tatgagtggg
     4381 actctcagca tggtgagctt gagggctatc gagccagtga tggtcagcat cttggttcat
     4441 ttgaccctaa aaccggtaag cagttgaaag gtccagatcc gaaacgaagt attaaaaagt
     4501 atctttaagg tgatgttatg ggacttaaat tacacattca ttggtttgat aagaagaatg
     4561 aggaatttaa aggtggtgag tattcaaagg atttcggtga tgatggttcg gttattgaac
     4621 gtcttggaat gcctttaaag gataatatta ataacggttg gtttgatgtt gaaaagagat
     4681 gggtgccaat attacagcca tactttaaaa atgttattga tattagtaag ttcgattact
     4741 ttgtttcttt cgattatcgt gatggtgact ggtaattaaa ctatcaggga cgagtaataa
     4801 agtgtttgat tcaggtgttc aaggatgaat tcctgaatcc atatatacag ggaatcgtat
     4861 gaagaaaata acagggatta ttttgttgct tcttgcagcc attattcttg ctgcatgtca
     4921 ggcaaactat atccgtgatg ttcagggcgg gactgtatca ccgtcatcct ctgctgaact
     4981 gaccggagtg gaaacgcagt aacctgcaat cctcatttga caaggacaaa gcgtgtcagg
     5041 ctgattctga cgcgcttttt ttgttgaagt gccacaaaaa ttccatgtgg gagatgggat
     5101 ctaaaatctc cgtgcagaac cttccatccg gagggagaaa acttttcgtt ttgagccgtt
     5161 cggtgttcag aacgcacgaa accgatcgca catcgctttc gtgcatagtt atgcaacgcc
     5221 ctgaaaacga ttctgacgcg tttttctggt ttgtcctggt gttttcttgt ctttttgcgt
     5281 tttttgcgcc agaaagcgat tgagggcgtt ttaaggggta cgtacaacgg gagttatggt
     5341 aaatggatcg ggttttcggg aaggatcgac aggatttgcc gttgggtgta gtgtaagcga
     5401 ctgaaaaaca aacgcccctg aaattcgtgt ctctccgcca agattgtcac gagaatacag
     5461 gggcgaggtc ggtcgataac ctggaaggaa tcgtaacaca tgagcgccgc gcttcaatac
     5521 ttcgaagaaa atttacccct ccgcccctat cacacggatg atctcgcttt cggccttcgt
     5581 atctccggta aagggcgcgc gcttcttgca cggtatatcc agcagaacca acctcatgcg
     5641 cagttctggc tggtttttga cgttgaccgc gagggggctg cgattgactg gagcgacctg
     5701 aacgcccccg caccgaacat caccataaaa aatcccgtga acggtcacgc ccacctgctc
     5761 tacgcactca atatcgccgt gagaaccgcg cctgatgctt cggttaaggc gctgaaatac
     5821 gccgccgcga ttgaacgtgc gttgtgtgaa aaactgggcg cagatgtaaa ctacagcgga
     5881 ctgatttgca aaaatccgtt ccatctggaa tggcaggtga tggagtggcg tgaggaagcc
     5941 tataccctcg atgaactggc tgattatctc gatttgagca cttcagcgcg ccgtagcatc
     6001 gataaacatt acgga
//
