LOCUS       NZ_AP022220             4027 bp    DNA     circular CON 14-JUN-2023
DEFINITION  Escherichia coli strain WP8-S17-ESBL-05 plasmid pWP8-S17-ESBL-05_5,
            complete sequence.
ACCESSION   NZ_AP022220
VERSION     NZ_AP022220.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00194597
            Sequence Read Archive: DRR199433
            Assembly: GCF_014169595.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1
  AUTHORS   Sekizuka,T., Itokawa,K., Yatsu,K., Inamine,Y. and Kuroda,M.
  TITLE     complete genome sequences of Escherichia coli str. WP8-S17-ESBL-05
            isolated from wastewater treatment plant effluent
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4027)
  AUTHORS   Sekizuka,T., Itokawa,K., Yatsu,K., Inamine,Y. and Kuroda,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (04-DEC-2019) Contact:Tsuyoshi Sekizuka National Institute
            of Infectious Diseases, Pathogen Genomics Center; 1-23-1 Toyama,
            Shinjuku-ku, Tokyo 162-8640, Japan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: flye v2.5; minimap v0.2-r124; racon v1.1.0;
            circlator v1.5.3; Pilon v1.18; SPAdes v3.11.1; A5-miseq v20140604
            Genome Coverage                   :: 271x
            Sequencing Technology             :: Sequel; NextSeq 500
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/14/2023 05:44:22
            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)                     :: 4,918
            CDSs (total)                      :: 4,797
            Genes (coding)                    :: 4,658
            CDSs (with protein)               :: 4,658
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 139
            CDSs (without protein)            :: 139
            Pseudo Genes (ambiguous residues) :: 0 of 139
            Pseudo Genes (frameshifted)       :: 47 of 139
            Pseudo Genes (incomplete)         :: 81 of 139
            Pseudo Genes (internal stop)      :: 39 of 139
            Pseudo Genes (multiple problems)  :: 27 of 139
            Pseudo Genes (short protein)      :: 4 of 139
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP022220.1.
            Annotated by DFAST v.1.2.3 (https://dfast.nig.ac.jp).
            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..4027
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="WP8-S17-ESBL-05"
                     /isolation_source="wastewater"
                     /db_xref="taxon:562"
                     /plasmid="pWP8-S17-ESBL-05_5"
                     /geo_loc_name="Japan:Tokyo"
                     /lat_lon="35.6316 N 139.7460 E"
                     /collection_date="2017-08-23"
     gene            complement(101..2260)
                     /gene="mobQ"
                     /locus_tag="H7R13_RS24310"
                     /old_locus_tag="WP8S17E05_P50010"
     CDS             complement(101..2260)
                     /gene="mobQ"
                     /locus_tag="H7R13_RS24310"
                     /old_locus_tag="WP8S17E05_P50010"
                     /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_001029353.1"
                     /translation="MAIYHLSMKIISRSSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAECRKNSQLAREIELAIPRELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPARRVADLLNIVLPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQTAFEKQWQQWGASGLAALRVQL
                     LKREEELRRKEQEDTERSRAERRAEQLRKNDNAVMDSGVLSAVVTGYGEAPMPGNGEMT
                     CYLLLHNRNGEYTLWGNELEKYRTRIFERVDLMRDRSGYICDRSEIGQHPPLQRVYSSA
                     TFEQLLTQVCQTWPQYTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLLPTL
                     MPVMSSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKG
                     LRYAGYGVAVNHDADSHISPAPELMEFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRT
                     WDEWRREEDARTHTTERRHDRGWSQ"
                     /name="mobQ"
     gene            2439..2693
                     /gene="mobC"
                     /locus_tag="H7R13_RS24315"
                     /old_locus_tag="WP8S17E05_P50020"
     CDS             2439..2693
                     /gene="mobC"
                     /locus_tag="H7R13_RS24315"
                     /old_locus_tag="WP8S17E05_P50020"
                     /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_000091747.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVVVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPGQ"
                     /name="mobC"
     gene            3225..3872
                     /locus_tag="H7R13_RS24320"
                     /old_locus_tag="WP8S17E05_P50030"
     CDS             3225..3872
                     /locus_tag="H7R13_RS24320"
                     /old_locus_tag="WP8S17E05_P50030"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001281399.1"
                     /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_182913725.1"
                     /translation="MSDLIAYKSNALVEASYKLTLQEQRFLLLCISRLKSGADAELQKT
                     MTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKNDEKREEFRWIQYRAQYAKG
                     EAKARITFSDAVMPYLTQLKGQFTRVVIKNISGLSSSYSIRIYEFLQQFRSTGERIIAL
                     NDFRSMLGIENCVDELNKKSDLAVTVETIKKGRTVVALHFRFKEDKQIKMTI"
                     /name="replication initiation protein"
     Typing          complement(1903..2261)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.056"
                     /coverage="100.0"
                     /evalue="3.94e-177"
     Typing          2262..2438
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          3226..3731
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="85.078"
                     /coverage="91.0"
                     /evalue="5.03e-144"
     Typing          3748..3872
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="87.0"
                     /evalue="9.57e-59"
     Typing          complement(105..2347)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.332"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gcattatgtg tgtgcttctt gcattcatcc ctgtcgatga acatagaaga acatcgacga
       61 acataacacg atgttaaaca aaacaaaata ttgttcacat tcactgtgac caaccgcgat
      121 catgtctcct ctcggtggtg tgtgttcttg catcttcctc gcgccgccat tcatcccagg
      181 tacgattgaa acccagagag cggaacagat gatccggctg tttttctggt gtgttgacgg
      241 cagcaaaaag cggtgcctca cgggttttca gatgaaactc cataagttcc ggcgcaggtg
      301 atatgtggct gtctgcatcg tgatttacgg caacaccata ccctgcatac cgtaacccct
      361 tatcggtcag tgcactgatg accagctggc tgttatcggc tgagggaacg gcaaacgcgg
      421 gatacagcgt accattaagc cggacaacac cgcccagaga gtcatccacg cccatgacca
      481 gcaaaagctg aagctggcgg gtttcccggt cgacagaact cattaccggc atcagcgtcg
      541 gtagcagacg tccctgcgta aaatccacct tccttgctgc cagtgatggc atggctggct
      601 ggcggtcttc tccaagacag aaagactccg gccatgtctt cggctggcgg agattgcggg
      661 tatattgcgg ccatgtctgg caaacctgcg tcagaagttg ctcaaaggtc gcagaggaat
      721 aaacacgttg cagtggtgga tgttgaccga tttcgcttcg gtcacagata taaccactcc
      781 tgtcacgcat taaatcaaca cgctcaaaga ttctggtgcg gtatttctcc agctcgttcc
      841 cccagagcgt gtattctccg ttccggttgt gaagcagaag gtaacaggtc atttccccgt
      901 taccaggcat gggggcctcg ccataccccg taacgactgc gctcagtacc cctgaatcca
      961 taacggcatt gtcatttttc ctgagctgtt ccgctcgtcg ctccgcgcga ctacgttctg
     1021 tatcctcctg ctccttccgg cgcaattcct cttcacgttt aagcaactgg actctgagag
     1081 ctgcaaggcc ggatgccccc cactgctgcc actgtttttc aaatgccgtc tgactcgcgg
     1141 gaatgtcctg tttctccacc ttccggtaat gctgtcgcaa tttttccatt tgctggctca
     1201 gcgactggat ttttccctgt tcgctacggt attccggtgc cgcccattgc atcaggggaa
     1261 tacgggaaaa accggacgaa aacggcgatg attttttcag gctggcagca tggctcatcg
     1321 cttcctttcg ttcggtgttc agctcttccc agcgtctgcg cgtcgcctgc atatctgcca
     1381 tcatcgacat ggcattactg gtgagtttcc atgccgcatt actgtccttc ggcaacgctt
     1441 cgatgatgtc acgtagtgtg tacgaagttg cgttgtcagg aagcacgata ttcagaaggt
     1501 cagccacacg gcgggcaggc tctgtcagcc cgctgttcct gagttcagtg cgggaaatct
     1561 gtatttccag gttaagcctg ttaatcagac gattctgttc gccgcgttct gtttcgatac
     1621 cgcgtgtttc catcgcacag gcagactttc cgaggtgaat accaggcgtt ttctcaagcc
     1681 cctgtcgctc gtatgaacga tggtctatct cttcctgata accggcgttc gccagtgctc
     1741 tgtttgcatg gtcagcccat gatgcacgcc acgtctcggc atgtgtccgg tcgttccagt
     1801 ccctgacctt tccgccgaac ccagcaggtc cgacagccct cgtggtcagc atgatgtgcg
     1861 catggggatt tgttttatcc atgtgatgga acgccacatc agcaatcatg ccctgactga
     1921 caaagttttc tctgacaaag gcgagaacgg tttcccgtgc ggcatcctgc ggcagttcac
     1981 gggggatagc gagttcaatt tcccgcgcaa gttgtgagtt cttccggcat tcggccttct
     2041 caacggcatt ccagagttcg gcacggttcg tacaccaggc aggggctgtc gcgggggtca
     2101 gaatcacagc ttcagccaca ccgcttttgc gggtgtagtc gtgagtcagt ccggtacgct
     2161 catcaagcat cagtgaaccg gaacgatagg cagcggaagc tacggcgctg tagccgctgc
     2221 ttctggagat aattttcatg ctgagatgat aaatcgccat ttctgccgta atgccttttt
     2281 gtagttttct ttcagccccg cagggcgcac acaatcgaaa cggagtggag attgtataag
     2341 tgcgcacttt gtgatttgtc gcgcattatg ccagctcagt ttttaaacta ccagtgacgc
     2401 gctaaaatgc gatttttcat cgcgcacgga gttacatcat gagcagaacg ctcgaacaga
     2461 agattgctga tgctgaggcg agattacagc gcctgaaggc gaagagccgg agcctggaca
     2521 cagcgcagaa ggttgttgtg ggtgcagcat tgctggcaaa ggtcagaaag ccggaggagg
     2581 tgcagttgcg tgcctggtta ctccagttcc tgaaggcaga ggtgacacga caggctgatg
     2641 tgacgcgcat actgccgctg attaacgagc tggaggcgct gccaggacag tgattgtatc
     2701 gtccgctcgc cgcagcccca gcgaccgagc gttagcgagc gagtgggcga ggaagcggaa
     2761 gtgaatccgt cgccaggttg agcacatacg cacggttttt cggtaggtga tatgcgctga
     2821 acccgcatga atactggatt tccacagggt tggaagggga gtattcggaa cttgcaattc
     2881 tgctttcttg caacacattg tttttattgg ttttttgttt tcagcgcccc aagttatcca
     2941 caggctcgcc gttaagtttt tagatcttgt ttttaagatc ttgtttttaa tacttgtttt
     3001 agggtcaaaa ttcattaata aaatcaatat gttatagagg tatatgtgga ggaatttaag
     3061 gtaaaggtgg aggaatttaa ggtgtttagg tggaggaatt taaggtaaag gtggaggaat
     3121 ttaaggtgtt attcacagaa atgtgaggat ataaaaaaaa atattccaca tttcttattt
     3181 gtggggcaca ttaaagcatc accacatttg aacgggatct ttgtatgtcg gacttgattg
     3241 cctacaagtc gaatgctttg gttgaggcca gctacaagtt gaccctacag gaacaacgtt
     3301 ttctgttgct gtgtatcagt cgattgaaat ctggtgctga tgctgaattg caaaagacaa
     3361 tgaccattac cgctgcggaa tattttgatt cattccctga catggggcgg aaaaatgccg
     3421 aggttcagtt acaggaagcg atcgatcgtt tatgggacag gtcgatcatt ctcaagaatg
     3481 acgagaagcg tgaggagttc cgctggatcc agtatcgggc acagtacgct aaaggtgagg
     3541 ccaaggctcg aataaccttt tctgacgcgg taatgcctta tctgacgcaa ctgaaggggc
     3601 aattcacgcg cgttgttata aaaaacatat caggtttatc aagtagttac agtataagaa
     3661 tatacgagtt cctccagcaa ttccgcagta cgggagagag aattattgct cttaatgact
     3721 ttcgttcaat gttagggatt gaaaattgtg ttgacgaact gaacaaaaaa agcgacctgg
     3781 ctgtaacggt tgagacgatc aaaaaggggc gcacggttgt agccctgcat tttcgcttca
     3841 aggaagacaa acagatcaag atgacgatct aaaatcgatt ttaaggcacc taaaacgctc
     3901 cctgctgcgt tttttttgtg ttagtagtgc gaaggtacta ttgaagtgaa aaattgcgtc
     3961 aaaagcgctc taatgcagcg aaaaaagaac ccccaatttt tgggggcgga aaaacaaaac
     4021 tatgctt
//
