LOCUS       NZ_AP022176             4072 bp    DNA     circular CON 14-JUN-2023
DEFINITION  Escherichia coli strain WP7-S17-ESBL-01 plasmid pWP7-S17-ESBL-01_3,
            complete sequence.
ACCESSION   NZ_AP022176
VERSION     NZ_AP022176.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00194553
            Sequence Read Archive: DRR199389
            Assembly: GCF_014169455.1
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. WP7-S17-ESBL-01
            isolated from wastewater treatment plant effluent
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4072)
  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                   :: 157x
            Sequencing Technology             :: Sequel; NextSeq 500
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/14/2023 05:41:36
            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)                     :: 5,239
            CDSs (total)                      :: 5,121
            Genes (coding)                    :: 4,901
            CDSs (with protein)               :: 4,901
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 220
            CDSs (without protein)            :: 220
            Pseudo Genes (ambiguous residues) :: 0 of 220
            Pseudo Genes (frameshifted)       :: 66 of 220
            Pseudo Genes (incomplete)         :: 160 of 220
            Pseudo Genes (internal stop)      :: 37 of 220
            Pseudo Genes (multiple problems)  :: 41 of 220
            Pseudo Genes (short protein)      :: 4 of 220
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP022176.1.
            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..4072
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="WP7-S17-ESBL-01"
                     /isolation_source="wastewater"
                     /db_xref="taxon:562"
                     /plasmid="pWP7-S17-ESBL-01_3"
                     /geo_loc_name="Japan:Tokyo"
                     /lat_lon="35.5619 N 139.7531 E"
                     /collection_date="2017-07-10"
     gene            101..793
                     /locus_tag="H7R26_RS25895"
                     /old_locus_tag="WP7S17E01_P30010"
     CDS             101..793
                     /locus_tag="H7R26_RS25895"
                     /old_locus_tag="WP7S17E01_P30010"
                     /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_001281403.1"
                     /translation="MSDLIAYKSNALVEASYKLTLQEQRFLLLCISRLKSGADAELQKT
                     MTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKNDEKREEFRWIQYRAQYAKG
                     EAKARITFSDAVMPYLTQLKGQFTRVVIKNISGLSSSYSIRIYEFLQQFRSTGERIIAL
                     NDFRSMLGIENKYKQFRDLNKILIKPCVDELNKKSDLAVTVETIKKGRTVVALHFRFKE
                     DKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(1049..3208)
                     /gene="mobQ"
                     /locus_tag="H7R26_RS25900"
                     /old_locus_tag="WP7S17E01_P30020"
     CDS             complement(1049..3208)
                     /gene="mobQ"
                     /locus_tag="H7R26_RS25900"
                     /old_locus_tag="WP7S17E01_P30020"
                     /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            3387..3641
                     /gene="mobC"
                     /locus_tag="H7R26_RS25905"
                     /old_locus_tag="WP7S17E01_P30030"
     CDS             3387..3641
                     /gene="mobC"
                     /locus_tag="H7R26_RS25905"
                     /old_locus_tag="WP7S17E01_P30030"
                     /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"
     Typing          complement(2851..3209)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.056"
                     /coverage="100.0"
                     /evalue="3.94e-177"
     Typing          3210..3386
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          102..793
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.965"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(1053..3295)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.332"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ggtgttattc acagaaatgt gaggatataa aaaaaaatat tccacatttc ttatttgtgg
       61 ggcacattaa agcatcacca catttgaacg ggatctttgt atgtcggact tgattgccta
      121 caagtcgaat gctttggttg aggccagcta caagttgacc ctacaggaac aacgttttct
      181 gttgctgtgt atcagtcgat tgaaatctgg tgctgatgct gaattgcaaa agacaatgac
      241 cattaccgct gcggaatatt ttgattcatt ccctgacatg gggcggaaaa atgccgaggt
      301 tcagttacag gaagcgatcg atcgtttatg ggacaggtcg atcattctca agaatgacga
      361 gaagcgtgag gagttccgct ggatccagta tcgggcacag tacgctaaag gtgaggccaa
      421 ggctcgaata accttttctg acgcggtaat gccttatctg acgcaactga aggggcaatt
      481 cacgcgcgtt gttataaaaa acatatcagg tttatcaagt agttacagta taagaatata
      541 cgagttcctc cagcaattcc gcagtacggg agagagaatt attgctctta atgactttcg
      601 ttcaatgtta gggattgaaa ataaatacaa acaattcaga gacttaaata aaatactaat
      661 aaaaccctgt gttgacgaac tgaacaaaaa aagcgacctg gctgtaacgg ttgagacgat
      721 caaaaagggg cgcacggttg tagccctgca ttttcgcttc aaggaagaca aacagatcaa
      781 gatgacgatc taaaatcgat tttaaggcac ctaaaacgct ccctgctgcg ttttttttgt
      841 gttagtagtg cgaaggtact attgaagtga aaaattgcgt caaaagcgct ctaatgcagc
      901 gaaaaaagaa cccccaattt ttgggggcgg aaaaacaaaa ctatgcttgc attatgtgtg
      961 tgcttcttgc attcatccct gtcgatgaac atagaagaac atcgacgaac ataacacgat
     1021 gttaaacaaa acaaaatatt gttcacattc actgtgacca accgcgatca tgtctcctct
     1081 cggtggtgtg tgttcttgca tcttcctcgc gccgccattc atcccaggta cgattgaaac
     1141 ccagagagcg gaacagatga tccggctgtt tttctggtgt gttgacggca gcaaaaagcg
     1201 gtgcctcacg ggttttcaga tgaaactcca taagttccgg cgcaggtgat atgtggctgt
     1261 ctgcatcgtg atttacggca acaccatacc ctgcataccg taacccctta tcggtcagtg
     1321 cactgatgac cagctggctg ttatcggctg agggaacggc aaacgcggga tacagcgtac
     1381 cattaagccg gacaacaccg cccagagagt catccacgcc catgaccagc aaaagctgaa
     1441 gctggcgggt ttcccggtcg acagaactca ttaccggcat cagcgtcggt agcagacgtc
     1501 cctgcgtaaa atccaccttc cttgctgcca gtgatggcat ggctggctgg cggtcttctc
     1561 caagacagaa agactccggc catgtcttcg gctggcggag attgcgggta tattgcggcc
     1621 atgtctggca aacctgcgtc agaagttgct caaaggtcgc agaggaataa acacgttgca
     1681 gtggtggatg ttgaccgatt tcgcttcggt cacagatata accactcctg tcacgcatta
     1741 aatcaacacg ctcaaagatt ctggtgcggt atttctccag ctcgttcccc cagagcgtgt
     1801 attctccgtt ccggttgtga agcagaaggt aacaggtcat ttccccgtta ccaggcatgg
     1861 gggcctcgcc ataccccgta acgactgcgc tcagtacccc tgaatccata acggcattgt
     1921 catttttcct gagctgttcc gctcgtcgct ccgcgcgact acgttctgta tcctcctgct
     1981 ccttccggcg caattcctct tcacgtttaa gcaactggac tctgagagct gcaaggccgg
     2041 atgcccccca ctgctgccac tgtttttcaa atgccgtctg actcgcggga atgtcctgtt
     2101 tctccacctt ccggtaatgc tgtcgcaatt tttccatttg ctggctcagc gactggattt
     2161 ttccctgttc gctacggtat tccggtgccg cccattgcat caggggaata cgggaaaaac
     2221 cggacgaaaa cggcgatgat tttttcaggc tggcagcatg gctcatcgct tcctttcgtt
     2281 cggtgttcag ctcttcccag cgtctgcgcg tcgcctgcat atctgccatc atcgacatgg
     2341 cattactggt gagtttccat gccgcattac tgtccttcgg caacgcttcg atgatgtcac
     2401 gtagtgtgta cgaagttgcg ttgtcaggaa gcacgatatt cagaaggtca gccacacggc
     2461 gggcaggctc tgtcagcccg ctgttcctga gttcagtgcg ggaaatctgt atttccaggt
     2521 taagcctgtt aatcagacga ttctgttcgc cgcgttctgt ttcgataccg cgtgtttcca
     2581 tcgcacaggc agactttccg aggtgaatac caggcgtttt ctcaagcccc tgtcgctcgt
     2641 atgaacgatg gtctatctct tcctgataac cggcgttcgc cagtgctctg tttgcatggt
     2701 cagcccatga tgcacgccac gtctcggcat gtgtccggtc gttccagtcc ctgacctttc
     2761 cgccgaaccc agcaggtccg acagccctcg tggtcagcat gatgtgcgca tggggatttg
     2821 ttttatccat gtgatggaac gccacatcag caatcatgcc ctgactgaca aagttttctc
     2881 tgacaaaggc gagaacggtt tcccgtgcgg catcctgcgg cagttcacgg gggatagcga
     2941 gttcaatttc ccgcgcaagt tgtgagttct tccggcattc ggccttctca acggcattcc
     3001 agagttcggc acggttcgta caccaggcag gggctgtcgc gggggtcaga atcacagctt
     3061 cagccacacc gcttttgcgg gtgtagtcgt gagtcagtcc ggtacgctca tcaagcatca
     3121 gtgaaccgga acgataggca gcggaagcta cggcgctgta gccgctgctt ctggagataa
     3181 ttttcatgct gagatgataa atcgccattt ctgccgtaat gcctttttgt agttttcttt
     3241 cagccccgca gggcgcacac aatcgaaacg gagtggagat tgtataagtg cgcactttgt
     3301 gatttgtcgc gcattatgcc agctcagttt ttaaactacc agtgacgcgc taaaatgcga
     3361 tttttcatcg cgcacggagt tacatcatga gcagaacgct cgaacagaag attgctgatg
     3421 ctgaggcgag attacagcgc ctgaaggcga agagccggag cctggacaca gcgcagaagg
     3481 ttgttgtggg tgcagcattg ctggcaaagg tcagaaagcc ggaggaggtg cagttgcgtg
     3541 cctggttact ccagttcctg aaggcagagg tgacacgaca ggctgatgtg acgcgcatac
     3601 tgccgctgat taacgagctg gaggcgctgc caggacagtg attgtatcgt ccgctcgccg
     3661 cagccccagc gaccgagcgt tagcgagcga gtgggcgagg aagcggaagt gaatccgtcg
     3721 ccaggttgag cacatacgca cggtttttcg gtaggtgata tgcgctgaac ccgcatgaat
     3781 actggatttc cacagggttg gaaggggagt attcggaact tgcaattctg ctttcttgca
     3841 acacattgtt tttattggtt ttttgttttc agcgccccaa gttatccaca ggctcgccgt
     3901 taagttttta gatcttgttt ttaagatctt gtttttaata cttgttttag ggtcaaaatt
     3961 cattaataaa atcaatatgt tatagaggta tatgtggagg aatttaaggt aaaggtggag
     4021 gaatttaagg tgtttaggtg gaggaattta aggtaaaggt ggaggaattt aa
//
