LOCUS       NZ_AP022210             4073 bp    DNA     circular CON 14-JUN-2023
DEFINITION  Escherichia coli strain WP7-S18-ESBL-09 plasmid pWP7-S18-ESBL-09_3,
            complete sequence.
ACCESSION   NZ_AP022210
VERSION     NZ_AP022210.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00194579
            Sequence Read Archive: DRR199415
            Assembly: GCF_014169575.1
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-S18-ESBL-09
            isolated from wastewater treatment plant effluent
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4073)
  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                   :: 281x
            Sequencing Technology             :: Sequel; NextSeq 500
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/14/2023 05:44:00
            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)                     :: 5,326
            CDSs (total)                      :: 5,200
            Genes (coding)                    :: 4,987
            CDSs (with protein)               :: 4,987
            Genes (RNA)                       :: 126
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 90
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 213
            CDSs (without protein)            :: 213
            Pseudo Genes (ambiguous residues) :: 0 of 213
            Pseudo Genes (frameshifted)       :: 80 of 213
            Pseudo Genes (incomplete)         :: 145 of 213
            Pseudo Genes (internal stop)      :: 37 of 213
            Pseudo Genes (multiple problems)  :: 46 of 213
            Pseudo Genes (short protein)      :: 4 of 213
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP022210.1.
            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..4073
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="WP7-S18-ESBL-09"
                     /isolation_source="wastewater"
                     /db_xref="taxon:562"
                     /plasmid="pWP7-S18-ESBL-09_3"
                     /geo_loc_name="Japan:Tokyo"
                     /lat_lon="35.5619 N 139.7531 E"
                     /collection_date="2018-08-06"
     gene            101..802
                     /locus_tag="H7R37_RS26310"
                     /old_locus_tag="WP7S18E09_P30010"
     CDS             101..802
                     /locus_tag="H7R37_RS26310"
                     /old_locus_tag="WP7S18E09_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_001281395.1"
                     /translation="MSDLIAYKSNALIEASYKLTLQEQRFLLVCISRLKSGEDSPSPDE
                     QKTMTITAAEFHDAFPDMGRQHAEARLKEAIDRLWDRSVIIKNEEKREEFRWVQYRAQY
                     FKGEAKVDITFSDAIMPYLTQLKGQFTRVVVKNVSSLSSTYSIRIYELLQQFRSTGDRT
                     IAIDDFRTMLAVEDKYQQFKDLNKMIIKPAIAELNEKSDLVVTVETIKKGRTVVALHFR
                     FKEDKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(1060..3207)
                     /gene="mobQ"
                     /locus_tag="H7R37_RS26315"
                     /old_locus_tag="WP7S18E09_P30020"
     CDS             complement(1060..3207)
                     /gene="mobQ"
                     /locus_tag="H7R37_RS26315"
                     /old_locus_tag="WP7S18E09_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_032495499.1"
                     /translation="MAIYHLSMKIISRSSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPHELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAIGPAGFSGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNGGLTEPARRVADLLNIGLPDNATSYTLRDIIEALPKDSN
                     SAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQMAFEKQWQQWGKSGLAALRAQL
                     LKREEELRRKEQEDTERSRAEQLRKNDNAVMDSGVLRAVVTGYGEAPMPGNGEMTCYLL
                     LHNRNGEYTLWGNELEKYRTRIFESVDLMRDRSGYICDRSEIGQRPPLQRVYSSATFEQ
                     LLTQVCQTWPQHTRNLRQPKTWPESFCLGEDRQPAMPSPAARKVDFMQGRLPPTLMPVM
                     SSVDRETRQLQLLLVMGVDDSLGGVIRLNGTLYPAFAVPSADNRHLVISALTDKGLRYA
                     GYGVAVNHDADSHISPAPELMQFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRTWEEW
                     QREEDARTHTTERRHDRGWSQ"
                     /name="mobQ"
     gene            3386..3640
                     /gene="mobC"
                     /locus_tag="H7R37_RS26320"
                     /old_locus_tag="WP7S18E09_P30030"
     CDS             3386..3640
                     /gene="mobC"
                     /locus_tag="H7R37_RS26320"
                     /old_locus_tag="WP7S18E09_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_000091746.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVVVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPEQ"
                     /name="mobC"
     Typing          complement(2850..3208)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          3209..3385
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          102..802
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(1064..3294)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.989"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tgtaatccac agaaaaaggg ggttgcaaaa aaaaaacttc cacccatatg ataagtggcg
       61 tacagtaaaa aaacgccacc aatagcaacg agcaagcgaa atgtcagatc tgatagctta
      121 caaatcaaac gcccttatcg aggcaagcta caagctcact ttgcaggaac agcgcttcct
      181 gctggtctgt atcagccgcc taaaatccgg agaagattcc ccttcgccgg atgaacaaaa
      241 aaccatgacc atcacggctg cagagtttca tgatgccttt cctgacatgg gacggcagca
      301 cgctgaagct aggctcaagg aagcgataga tcgcctctgg gacaggtcag taatcatcaa
      361 gaacgaggaa aaacgagaag agttccgctg ggtgcagtac cgggcgcagt atttcaaagg
      421 tgaggcgaaa gtagatatca ccttctccga tgccatcatg ccgtatctga cacagctcaa
      481 ggggcagttt acgcgggtag tcgtgaagaa cgtctccagc ctttccagca cctacagcat
      541 ccgcatttac gagctgctcc agcagttccg cagcaccggt gacagaacga tagctatcga
      601 tgatttccga accatgcttg ccgttgaaga taaatatcaa caattcaaag acttgaataa
      661 gatgataatc aagccagcca tcgccgaact gaacgaaaaa agcgatctgg ttgtaactgt
      721 tgagacgatc aaaaaggggc gcacggttgt agccctgcat tttcgcttca aggaagacaa
      781 acagatcaag atgacgatct aaaatcgatt ttaaggcacc taaaacgctc cctgctgcgt
      841 tttttttgtg ttagtagtgc gaaggtacta ttgaagtgaa aaattgcgtc aaaaacgctc
      901 tgatgcagcg aaaaaagacc ccccaatttt tgggggcgga aaaacaaaac tatgcttgcg
      961 ttatgtgagt gtgcttcttg cattcatccc tgtcgatgaa catcgaagaa catcgaagaa
     1021 cataacacga tgttaaacaa aacaaaatat tgttcacatt cactgtgacc aaccgcgatc
     1081 atgtctcctc tcggtggtgt gtgttcgtgc atcttcctcg cgctgccatt cctcccaggt
     1141 acgattaaaa cccagcgagc ggaacagatg atccggctgt ttttctggtg tgttgacggc
     1201 agcaaaaagc ggtgcctcac gggttttcag atgaaactgc atcagttctg gtgcaggtga
     1261 tatgtggctg tctgcatcgt gatttacggc aacaccatac cctgcatacc gtaacccctt
     1321 atcggtcagc gcactgatga ccagatgcct gttatcggct gagggaacgg caaacgcggg
     1381 atacagcgta ccattaagcc ggataacacc gcccagagag tcatccacgc ccatgaccag
     1441 caaaagctga agctggcggg tttcccggtc gacagaactc atgaccggca tcagcgtcgg
     1501 tggcagacgt ccctgcataa aatccacctt ccttgccgct ggtgatggca tggctggctg
     1561 gcggtcttct ccaagacaga aagactccgg ccatgtcttc ggctggcgga gattgcgggt
     1621 atgttgcggc catgtctggc aaacctgcgt cagcagttgc tcaaaggttg cagaggaata
     1681 aacacgttgc agtggcggac gttggccgat ttcgcttcgg tcacagatat aaccactcct
     1741 gtcacgcatt aaatcaacac tctcaaagat tctggtgcgg tatttctcca gctcgttccc
     1801 ccagagcgta tattctccgt tccggttgtg aagcagaagg taacaggtca tttccccgtt
     1861 accaggcatg ggagcctcgc cataccccgt aacgactgct ctcagcaccc ctgaatccat
     1921 aacggcattg tcatttttcc tgagctgctc cgcgcgacta cgttcagtat cttcctgttc
     1981 cttccggcgc aattcctctt cacgtttaag caactgggct ctgagagctg caaggccgga
     2041 tttcccccac tgctgccact gtttttcaaa tgccatctga ctcgcgggaa tgtcctgttt
     2101 ctccaccttc cggtaatgct gtcgtaattt ttccatttgc tggctcagag actggatttt
     2161 tccctgctca ctacggtatt ccggtgccgc ccattgcatc aggggaatac gggaaaaacc
     2221 ggacgaaaac ggcgatgatt ttttcaggct ggcagcatgg ctcatcgctt cctttcgttc
     2281 ggtgttcagc tcttcccagc gtctgcgcgt cgcctgcata tctgccatca tcgacatggc
     2341 attactggtg agtttccatg ccgagttact gtccttcggc aacgcttcga taatgtcacg
     2401 tagtgtgtac gaagttgcgt tgtcaggaag cccgatattc agaaggtcag ccacacggcg
     2461 ggcaggctct gtcagccctc cgttcctgag ttcggtgcgg gaaatctgta tttccaggtt
     2521 aagcctgtta atcagacgat tctgttcgcc gcgttctgtt tcgataccgc gtgtttccat
     2581 cgcacaggca gactttccga ggtgaatacc aggcgttttc tcaagcccct gtcgctcgta
     2641 tgaacgatgg tctatctctt cctgataacc ggcgttcgcc agtgccctgt ttgcatggtc
     2701 agcccatgat gcccgccacg tctcggcatg tgtccggtcg ttccagtccc tgacctttcc
     2761 gctgaaccca gcaggtccga tagccctcgt ggtcagcatg atgtgcgcat ggggatttgt
     2821 tttatccatg tgatggaacg ccacatcagc aatcatgccc tgactgacaa agttttctct
     2881 gacaaaggcg agaacggttt cccgtgcggc atcctgcggc agttcgtggg ggatggcgag
     2941 ttcaatttcc cgcgcaagtt gtgagttctt ccggcgttcg gccttctcaa cggcattcca
     3001 gagttcggca cggttcgtac accaggcagg ggcggtggcg ggggtcagaa tcacagcctc
     3061 agccacaccg cttttgcggg tgtagtcgtg agtcagtccg gtacgctcat caagcatcag
     3121 tgaaccggaa cgataggcag cggaagctac ggcgctgtag ccgctgcttc tggagataat
     3181 tttcatgctg agatgataaa tcgccatttc tgccgtaatg cctttttgta gttttctttc
     3241 agccccgcag ggcgcacaca atcgaaacgg agtggagatt gtataagtgc gcacttcgtg
     3301 atttgccgtg cattatgcca gctcagtttt taaactacca gtgacgcgct aaaatgcgat
     3361 ttttcatcgc gcacggagtt acatcatgag cagaacgctc gaacagaaga ttgctgatgc
     3421 tgaggcgaga ttacagcgcc tgaaggcgaa gagccggagc ctggacacag cgcagaaggt
     3481 tgttgtgggt gctgcattgc tggcaaaggt cagaaagccg gaggaggtgc agttgcgtgc
     3541 ctggttactc cagttcctga aggcagaggt gacacgacag gctgatgtga cgcgcatact
     3601 gccgctgatt aacgagctgg aggcgctgcc agaacagtga ttgtatcgtc cgatcgccgc
     3661 agccccagcg accgagcgtt agcgagcgag tgggcgagga agcggaagtg aatcagtcgc
     3721 caggttgagc acatacgcac ggtttttcgg caggtgatat gcgctgaacc cgcatgaata
     3781 ctgggtttcc acagggttgg agggggtgta ttcgaaactt gcaattctgc tttattgcaa
     3841 cgtattgttt ttattggttt tttgttttca gcaccccaag ttatccacag gctcgccgtt
     3901 aagtttttaa gatcttattt ttagatcttt ttttttaaaa cctttttagg tcttgtaaca
     3961 ccatgatttt aaagatgttc tggcaagata agtggagctt ttgggggtga aaggtggagc
     4021 ttttgggggt gaaaggtgga gcttttgggg gtgaaaggtg gagcttttgg ggg
//
