LOCUS       NZ_LC438464             4087 bp    DNA     circular CON 25-JUN-2024
DEFINITION  Escherichia coli strain KK58 plasmid pKK58_s2, complete sequence.
ACCESSION   NZ_LC438464
VERSION     NZ_LC438464.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00080517
            Sequence Read Archive: DRR092879
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1
  AUTHORS   Matsumura,Y.
  TITLE     Molecular epidemiology of Escherichia coli sequence type 131
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4087)
  AUTHORS   Matsumura,Y.
  TITLE     Direct Submission
  JOURNAL   Submitted (10-DEC-2018) Contact:Yasufumi Matsumura Kyoto University
            Graduate School of Medicine, Clinical Laboratory Medicine; 54
            Shogoin-kawaharacho, Sakyo-ku, Kyoto, Kyoto 606-8507, Japan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method              :: Unicycler v. 0.4.6
            Sequencing Technology        :: MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider          :: NCBI RefSeq
            Annotation Name              :: GCF_009974895.1-RS_2024_06_25
            Annotation Date              :: 06/25/2024 01:58:57
            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)                :: 3
            CDSs (total)                 :: 3
            Genes (coding)               :: 3
            CDSs (with protein)          :: 3
            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
            LC438464.1.
            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..4087
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="KK58"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pKK58_s2"
                     /geo_loc_name="Japan:Shiga"
                     /collection_date="2012"
     gene            1..2160
                     /gene="mobQ"
                     /locus_tag="CB783_RS00005"
     CDS             1..2160
                     /gene="mobQ"
                     /locus_tag="CB783_RS00005"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016240513.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobQ family relaxase"
                     /protein_id="WP_023142279.1"
                     /translation="MAIYHLSMKIISRNSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPRELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPARRVADLLNIVLPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQTAFEKQWQQWGASGLAALRVQL
                     LKREEELRRKEQEDTERSRAERRAEQLRKNDNAVMDSGVLSAVVTEYGEAPMPGNGEMT
                     CYLLLHNRNGEYTLWGNELEKYRTRIFERVDLMRDRSGYICDRSEIGQHPPLQRVYSSA
                     TFEQLLTQVCQTWPQYTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLLATL
                     MPVMSSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKG
                     LRYAGYGVAVNHDADSHISPAPELMEFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRT
                     WDEWRREEDARTHATERRHDRGWSQ"
                     /name="mobQ"
     gene            complement(2416..3123)
                     /locus_tag="CB783_RS00010"
     CDS             complement(2416..3123)
                     /locus_tag="CB783_RS00010"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001296720.1"
                     /GO_function="GO:0003887 - DNA-directed DNA polymerase
                     activity [Evidence IEA]"
                     /GO_process="GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /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_001296720.1"
                     /translation="MTSNPLIAYKSNALVEASYKLTLQEQRFLLLCISRLNSGTDVASP
                     ELQKTMTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKDDEKREEFRWIQYRA
                     QYARGEGKAQITFSDAVMPYLTQLKGQFTRVVIKNISNLSRSYSIRIYEILQQFRSTGE
                     RIIALDDFKSSLMLDGKYKDFKTLNRDLIKPCVDELNKKSDLAVTVETIKKGRTVVALH
                     FRFKEDKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(3655..3909)
                     /gene="mobC"
                     /locus_tag="CB783_RS00015"
     CDS             complement(3655..3909)
                     /gene="mobC"
                     /locus_tag="CB783_RS00015"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000091747.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase accessory protein MobC"
                     /protein_id="WP_000091745.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVIVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPGQ"
                     /name="mobC"
     Typing          2..359
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(3911..4087)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          complement(2417..3123)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          2..2157
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.722"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atggcgattt atcatctcag catgaaaatc atctccagaa acagcggcta cagcgccgtt
       61 gcttctgctg cctatcgttc cggttcactg atgcttgatg agcgtaccgg actgactcac
      121 gactacaccc gcaaaagcgg tgtggctgaa gctgtgattc tgactcccgc gacagcccct
      181 gcctggtgta cgaaccgtgc cgaactctgg aatgccgttg agaaggccga acgccggaag
      241 aactcacaac ttgcgcggga aattgaactc gccatccccc gcgaactacc gcaggatgcc
      301 gcacgggaaa ccgttctcgc ctttgtcaga gaaaactttg tcagtcaggg catgattgct
      361 gatgtggcgt tccatcacat ggataaaaca aatccccatg cgcacatcat gctgaccacg
      421 agagctgtcg gacctgctgg attcggtgga aaggtcaggg actggaacga ccggacacat
      481 gccgagacgt ggcgtgcatc atgggctgac catgcgaaca gggcactggc gaacgccggt
      541 tatcaggaag agatagacca tcgttcatac gagcgacagg ggcttgagaa aacgcctggt
      601 attcacctcg gaaagtctgc ctgtgcgatg gaaacacgcg gtatcgaaac agaacgcggc
      661 gaacagaatc gtctgattaa cagacttaac ctggaaatac agatttcccg taccgaactc
      721 agaaacagcg ggctgacaga gcctgcccgc cgtgtggctg accttctgaa tatcgtgctt
      781 cctgacaacg caacttcgta cacactacgt gacatcatcg aagcgttgcc gaaggacagt
      841 aatgcggcat ggaaactcac cagtaatgcc atgtcgatga tggcagatat gcaggcgacg
      901 cgcagacgct gggaagagct gaacaccgaa cgaaaggaag cgatgagcca tgctgccagc
      961 ctgaaaaaat catcgccgtt ttcgtccggt ttttcccgta ttcccctgat gcaatgggcg
     1021 gcaccggaat accgtagcga acagggaaaa atccagtcgc tgagccagca aatggaaaaa
     1081 ttgcgacagc attaccggaa ggtggagaaa caggacattc ccgcgagtca gacggcattt
     1141 gaaaaacagt ggcagcagtg gggggcatcc ggccttgcag ctctcagagt ccagttgctt
     1201 aaacgtgaag aggaattgcg ccggaaggag caggaggata cagaacgtag tcgcgcggag
     1261 cgacgagcgg aacagctcag gaaaaatgac aatgccgtta tggattcagg ggtactgagc
     1321 gcagtcgtta cggagtatgg cgaggccccc atgcctggta acggggaaat gacctgttac
     1381 cttctgcttc acaaccggaa cggagaatac acgctctggg ggaacgagct ggagaaatac
     1441 cgcaccagaa tctttgagcg tgttgattta atgcgtgaca ggagtggtta tatctgtgac
     1501 cgaagcgaaa tcggtcaaca tccaccactg caacgtgttt attcctctgc gacctttgag
     1561 caacttctga cgcaggtttg ccagacatgg ccgcaatata cccgcaatct ccgccagccg
     1621 aagacatggc cggagtcttt ctgtcttgga gaagaccgcc agccagccat gccatcactg
     1681 gcagcaagga aggtggattt tacgcaggga cgtctgctag cgacgctgat gccggtaatg
     1741 agttctgtcg accgggaaac ccgccagctt cagcttttgc tggtcatggg cgtggatgac
     1801 tctctgggcg gtgttgtccg gcttaatggt acgctgtatc ccgcgtttgc cgttccctca
     1861 gccgataaca gccagctggt catcagtgca ctgaccgata aggggttacg gtatgcaggg
     1921 tatggtgttg ccgtaaatca cgatgcagac agccacatat cacctgcgcc ggaacttatg
     1981 gagtttcatc tgaaaacccg tgaggcaccg ctttttgctg ccgtcaacac accagaaaaa
     2041 cagccggatc atctgttccg ctcgctgggt tttaatcgta cctgggacga atggcggcgc
     2101 gaggaagatg cacgaacaca cgccaccgag aggagacatg atcgcggttg gtcacagtga
     2161 atgtgaacaa tattttgttt tgtttaacat cgtgttatgt tcgtcgatgt tcttcgatgt
     2221 tcatcgacag ggatgaatgc aagaagcaca cacataatgc aagcatagtt ttgtttttcc
     2281 gcccccgaaa aatgggggtt cttttttcgc tgcattagag cgcttttgac gcaatttttc
     2341 acttcaatag taccttcgca ctactaacac aaaaaaaacg cagcagggag cgttttaggt
     2401 gccttaaaat cgattctaga tcgtcatctt gatctgtttg tcttccttga agcgaaaatg
     2461 cagggctaca accgtgcgcc cctttttgat cgtctcaacc gttacagcca ggtcgctttt
     2521 tttgttcagt tcgtcaacac agggttttat tagatccctg tttaacgttt tgaaatcttt
     2581 atatttacca tcaagcatca gtgatgattt aaaatcatcg agggcgataa tacgttcccc
     2641 agtactgcgg aattgctgga gaatttcgta tattcttatg ctgtaacttc ttgataaatt
     2701 agaaatattt ttaatgacga ctctggtgaa ttgccccttc aactgtgtca gataaggcat
     2761 taccgcgtca gaaaaagtga tttgtgcttt cccctctccc ctcgcgtact gtgcccgata
     2821 ctgaatccag cggaactcct cgcgcttctc gtcgtccttg agaatgatcg acctgtccca
     2881 caaacgatcg atcgcttcct gtagctgaac ctcggcattt ttccgcccca tatcagggaa
     2941 tgaatcaaaa tattccgcag ctgtaatggt cattgtcttt tgcaattcag gtgaagctac
     3001 gtcagtaccg gagttaagtc ggcttatgca gagcaataag aaacgctgtt cttgtaaagt
     3061 tagcttgtaa ctggcctcaa ccagcgcatt ggacttatag gctatcagag ggtttgatgt
     3121 cattttaacc accaggccaa aaatgaggtg aaataaaaac ctatcacctt tagcattggt
     3181 gagcaattat attttcaccc cccattttcc tgtgaatatt accttaaatc tcctcacctt
     3241 taccttaaat tacctcaccc aagcacctta aattatatca cctttacctt aaatcatatc
     3301 acctatagcg ttgtaacatt ttgttttcta taaggaattt tggcgctaaa acaagtatta
     3361 aaaacaagat cttaaaaaca agatctaaaa acttaacgac gagcctgtgg ataacttgga
     3421 gtgctgaaaa caaaaaacca ataaaaacaa tgcgttgcaa aaaagcagaa ttgcaagttc
     3481 cgaatacacc ccctccaacc ctgtggaaat ccagtattca tgcgggttca gcgcatatca
     3541 cctcccgaaa aaccgtgcgt atgtgctcaa tcaggcgacg gattcacttc cgcttcctcg
     3601 cccactcgct cgctaacgct cggtcgctgg gactgcggcg agcggacgat acaatcactg
     3661 tcctggcagc gcttccagct cgttaatcag cggcagtatg cgcgtcacat cagcctgtcg
     3721 tgtcacctct gccttcagga actggagtaa ccaggcacgc aactgcacct cctccggctt
     3781 tctgaccttt gccagcaatg ctgcacccac aatgaccttc tgcgctgtgt ccagactcct
     3841 gctcttcgcc ttcaggcgct gtaatctggc ctcagcatca gcaatcttct gttcgagtgt
     3901 tctgctcatg atgtaactcc gtgcgcgatg aaaaatcgca ttttagcgcg tcactggtag
     3961 tttaaaaact gagctggcat aatgcacgga aaatcacgaa gtgcgcactt atacaatctc
     4021 cactccgttt cgattgtgtg cgccctgcgg ggctgaaaga aaaccacaaa aaggcattac
     4081 ggcagaa
//
