LOCUS       NZ_AP022182             4074 bp    DNA     circular CON 14-JUN-2023
DEFINITION  Escherichia coli strain WP7-S17-ESBL-04 plasmid pWP7-S17-ESBL-04_5,
            complete sequence.
ACCESSION   NZ_AP022182
VERSION     NZ_AP022182.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00194555
            Sequence Read Archive: DRR199391
            Assembly: GCF_014169475.1
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-04
            isolated from wastewater treatment plant effluent
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4074)
  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                   :: 115x
            Sequencing Technology             :: Sequel; NextSeq 500
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/14/2023 05:20:54
            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)                     :: 4,856
            CDSs (total)                      :: 4,736
            Genes (coding)                    :: 4,482
            CDSs (with protein)               :: 4,482
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 254
            CDSs (without protein)            :: 254
            Pseudo Genes (ambiguous residues) :: 0 of 254
            Pseudo Genes (frameshifted)       :: 71 of 254
            Pseudo Genes (incomplete)         :: 181 of 254
            Pseudo Genes (internal stop)      :: 45 of 254
            Pseudo Genes (multiple problems)  :: 40 of 254
            Pseudo Genes (short protein)      :: 4 of 254
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP022182.1.
            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..4074
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="WP7-S17-ESBL-04"
                     /isolation_source="wastewater"
                     /db_xref="taxon:562"
                     /plasmid="pWP7-S17-ESBL-04_5"
                     /geo_loc_name="Japan:Tokyo"
                     /lat_lon="35.5619 N 139.7531 E"
                     /collection_date="2017-07-10"
     gene            complement(101..2260)
                     /gene="mobQ"
                     /locus_tag="H7R11_RS23925"
                     /old_locus_tag="WP7S17E04_P50010"
     CDS             complement(101..2260)
                     /gene="mobQ"
                     /locus_tag="H7R11_RS23925"
                     /old_locus_tag="WP7S17E04_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_001029346.1"
                     /translation="MAIYHLSMKIISRNSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPRELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNNRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPARRMADLLNIGLPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQTAFETQWQQWGASGLAALRAQL
                     LKREEELRRKEQEDTERRRAERRAEQLRQNDNAVMDSGVLSAVVTGYGEAPMPGNGEMT
                     SYLLLHNRNGEYTLWGNELEKYRTRIFERVDLMRDRSGYICDRSEIGQHPPLQRVYSSA
                     TFEQLLTQVCQTWPQHTRNLRQPKTWPEFFCLGEDRQPAMPSLAARKVDFTQGRLPPTL
                     MPVMSSVDRETRQLQLLLVMGVDDSLGGVVRLNSTLYPAFAVPSADNRHLVISALTDKG
                     LRYAGYGVAVNHDADSHISPAPELMEFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRT
                     WDEWRREEDARTHATERRRDRGWSQ"
                     /name="mobQ"
     gene            2439..2693
                     /gene="mobC"
                     /locus_tag="H7R11_RS23930"
                     /old_locus_tag="WP7S17E04_P50020"
     CDS             2439..2693
                     /gene="mobC"
                     /locus_tag="H7R11_RS23930"
                     /old_locus_tag="WP7S17E04_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_000091744.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVIVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPEQ"
                     /name="mobC"
     gene            3226..3927
                     /locus_tag="H7R11_RS23935"
                     /old_locus_tag="WP7S17E04_P50030"
     CDS             3226..3927
                     /locus_tag="H7R11_RS23935"
                     /old_locus_tag="WP7S17E04_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_001281397.1"
                     /translation="MSDLIAYKSNALVEASYKLTLQEQRFLLLCIGRLKSGADAESPKL
                     QKTMTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKDDEKREEFRWIQYRAQY
                     AKGEARAQITFSDAVMPYLTQLQGQFTRVVIKNISRLSRSYSIRIYELLQQFRSTGERI
                     IALDDFRSMLDIEHKYQTYKSLNQQLLRPCIDELNKKSDLAVTVETIKKGRTVVALHFR
                     FKEDKQIKMTI"
                     /name="replication initiation protein"
     Typing          complement(1903..2261)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          2262..2438
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.438"
                     /coverage="100.0"
                     /evalue="2.610000000000001e-86"
     Typing          3227..3927
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(105..2347)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.861"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 agattatcta gtttgttgtg tgtgcttctt gcattcatcc ctgtcgatga acattgaaga
       61 acataacatg atgtaaaaca aaacaaaata ttgttcacat tcactgtgac caaccgcgat
      121 cgcgcctcct ctcggtggcg tgtgttcgtg catcttcctc gcgccgccat tcatcccagg
      181 tacgattaaa acccagcgag cggaacagat gatccggctg tttttctggt gtgttgacgg
      241 cagcaaaaag cggtgcctca cgggttttca gatgaaactc cataagttcc ggtgcaggtg
      301 atatgtggct gtctgcatcg tgattgacgg caacaccata ccctgcatac cgtaacccct
      361 tatcggtcag cgcactgatg accagatgcc tgttatcggc tgagggaacg gcaaacgcgg
      421 gatacagcgt actattaagc cggacaacac cgcccagaga gtcatccacg cccatgacca
      481 gcaaaagctg aagctggcgg gtttcccggt cgacagaact cattaccggc atcagcgtcg
      541 gtggcagacg tccctgcgta aaatccacct tccttgctgc cagtgatggc atggctggct
      601 ggcggtcttc tccaagacag aaaaactccg gccatgtctt cggctggcgg agattgcggg
      661 tatgttgtgg ccatgtctgg caaacctgcg tcagcagttg ctcaaaggtc gcagaggaat
      721 aaacacgttg cagtggtgga tgttgaccga tttcgcttcg gtcacagata taaccactcc
      781 tgtcacgcat taaatcaaca cgctcaaaga ttctggttcg gtatttctcc agttcgttcc
      841 cccagagcgt atattctccg ttccggttgt gaagcagaag gtaactggtc atttccccgt
      901 taccaggcat gggggcctcg ccataccccg ttacgaccgc actcagtacc cctgaatcca
      961 tgacggcatt gtcattttgc ctgagctgct cagcccgtcg ctccgcgcga cgacgttctg
     1021 tgtcctcctg ctccttccgg cgcaattcct cttcacgttt aagcaactgg gctctgagag
     1081 ctgcaaggcc ggatgcgccc cactgctgcc actgtgtttc aaatgccgtc tgactcgcgg
     1141 gaatgtcctg tttctccacc ttccggtaat gctgtcgcaa tttttccatt tgctggctca
     1201 gagactggat ttttccctgc tcactgcggt attccggtgc cgcccattgc atcaggggaa
     1261 tacgggaaaa accggacgaa aacggcgatg attttttcag gctggctgca tggctcatag
     1321 cttccttccg ttcggtgttc agctcttccc agcgtctgcg cgtcgcctgc atatctgcca
     1381 tcatcgacat ggcattactg gtgagtttcc atgccgcgtt actgtccttc ggcaacgctt
     1441 cgatgatgtc acgtagtgtg tacgaagttg cgttgtcagg aagcccgata ttcagaaggt
     1501 cagccatacg gcgggcaggc tctgtcaacc cgctgtttct gagttcggta cgggaaatct
     1561 gtatttccag gttaagtctg ttaatcagac gattctgttc gccgcgttct gtttcgatac
     1621 cgcgtgtttc catcgcacag gcagactttc cgaggtgaat accaggcgtt ttctcaagcc
     1681 cctgtcgctc gtatgaacga tggtctatct cttcctgata accggcgttc gccagtgccc
     1741 tgttcgcatg gtcagcccat gatgcacgcc acgtctcggc atgtgtccgg ttgttccagt
     1801 ccctgacctt tccaccgaat ccagcaggtc cgacagctct cgtggtcagc atgatgtgcg
     1861 catggggatt tgttttatcc atgtgatgga acgccacatc agcaatcatg ccctgactga
     1921 caaagttttc tctgacaaag gcgagaacgg tttcccgtgc ggcatcctgc ggtagttcgc
     1981 gggggatggc gagttcaatt tcccgcgcaa gttgtgagtt cttccggcgt tcggccttct
     2041 caacggcatt ccagagttcg gcacggttcg tacaccaggc aggggctgtc gcgggagtca
     2101 gaatcacagc ttcagccaca ccgcttttgc gggtgtagtc gtgagtcagt ccggtacgct
     2161 catcaagcat cagtgaaccg gaacgatagg cagcagaagc aacggcgctg tagccgctgt
     2221 ttctggagat gattttcatg ctgagatgat aaatcgccat ttctgccgta atgccttttt
     2281 gtggttttct ttcagccccg cagggcgcac acaatcgaaa cggagtggag attgtataag
     2341 tgcgcacttc gtgattttcc gtgcattatg ccagctcagt ttttaaacta ccagtgacgc
     2401 gttaaaatgc gatttttcat cgcgcacgga gttacatcat gagcagaaca ctcgaacaga
     2461 agattgctga tgctgaggcc agattacagc gcctgaaggc gaagagcagg agtctggaca
     2521 cagcgcagaa ggtcattgtg ggtgcagcat tgctggcaaa ggtcagaaag ccggaggagg
     2581 tgcagttgcg tgcctggtta ctccagttcc tgaaggcaga ggtgacacga caggctgatg
     2641 tgacgcgcat actgccgctg attaacgagc tggaagcgct gccagaacag tgattgtatc
     2701 gtccgctcgc cgcagtccca gcgaccgagc gttagcgagc gagtgggcga ggaagcggaa
     2761 gtgaatccgt cgcctgattg agcacatacg cacggttttt cgggaggtga tatgcgctga
     2821 acccgcatga atactggatt tccacagggt tggagggggt gtattcggaa cttgcaattc
     2881 tgcttttttg caacgcattg tttttattgg ttttttgttt tcagcactcc aagttatcca
     2941 caggctcgtc gttaagtttt tagatcttgt ttttaagatc ttgtttttaa tacttgtttt
     3001 agtgccaaaa ttccctatag aaaacaaaat gttacaacgc tataggtaat atgatttaag
     3061 gtaaaggtaa tatgatttaa ggtgtttagg taatatgatt taaggtaaag gcaatatgat
     3121 ttaaggtaat attcacagaa aaagggatat taaaataaaa aggcattgcc tttcgttgag
     3181 ggtatgttta tcttttattc attacctttt ggggagggat gctctatgtc ggatctaatt
     3241 gcctataaat ccaatgcgct ggttgaagcc agttataaat tgaccctaca ggaacagcga
     3301 tttttgttac tttgcatcgg tcgattgaag tctggggctg atgcagaatc tccaaaattg
     3361 caaaagacaa tgaccattac agctgcggaa tatttcgatt cattccctga catggggcgg
     3421 aaaaatgccg aggttcagtt acaggaagca attgatcgtt tgtgggacag gtcaatcatt
     3481 ctcaaggatg acgagaaacg tgaggagttc cgctggatcc agtatcgggc acagtacgct
     3541 aaaggcgagg ccagagcaca aataacattt tctgacgcag taatgcctta tttgacacaa
     3601 ctacaagggc aatttactag agttgtaatc aagaatatat ctagattatc aagaagttac
     3661 agtataagga tatacgaact cctccagcag ttccgcagta ctggcgaacg tattatcgct
     3721 ctcgatgatt ttcgctcaat gcttgatata gagcataaat atcaaacata taaatcactt
     3781 aaccagcaat tattaagacc ctgcattgac gaactgaaca aaaaaagcga cctggctgta
     3841 acggttgaga cgatcaaaaa ggggcgcacg gttgtagccc tgcattttcg cttcaaggaa
     3901 gacaaacaaa tcaagatgac gatctaaaat cgattttaag gcatctaaaa cgcgctctgg
     3961 tgcgtttttt ttgcgtaagg tatgcgatgg tgctacgaag cacaaaaaca tcgtcagaat
     4021 cgctctcgcg agctaaaaaa atcccccata tacggggggg aagaaactat gcgg
//
