LOCUS       NZ_AP022169             4062 bp    DNA     circular CON 14-JUN-2023
DEFINITION  Escherichia coli strain WP5-S18-ESBL-08 plasmid pWP5-S18-ESBL-08_8,
            complete sequence.
ACCESSION   NZ_AP022169
VERSION     NZ_AP022169.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00194534
            Sequence Read Archive: DRR199370
            Assembly: GCF_014169415.1
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. WP5-S18-ESBL-08
            isolated from wastewater treatment plant effluent
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4062)
  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                   :: 302x
            Sequencing Technology             :: Sequel; NextSeq 500
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/14/2023 05:34:33
            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)                     :: 5,406
            CDSs (total)                      :: 5,284
            Genes (coding)                    :: 5,080
            CDSs (with protein)               :: 5,080
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 95
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 204
            CDSs (without protein)            :: 204
            Pseudo Genes (ambiguous residues) :: 0 of 204
            Pseudo Genes (frameshifted)       :: 75 of 204
            Pseudo Genes (incomplete)         :: 137 of 204
            Pseudo Genes (internal stop)      :: 38 of 204
            Pseudo Genes (multiple problems)  :: 42 of 204
            Pseudo Genes (short protein)      :: 5 of 204
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP022169.1.
            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..4062
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="WP5-S18-ESBL-08"
                     /isolation_source="wastewater"
                     /db_xref="taxon:562"
                     /plasmid="pWP5-S18-ESBL-08_8"
                     /geo_loc_name="Japan:Tokyo"
                     /lat_lon="35.6538 N 139.5126 E"
                     /collection_date="2018-08-06"
     gene            101..802
                     /locus_tag="H7R36_RS26700"
                     /old_locus_tag="WP5S18E08_P80010"
     CDS             101..802
                     /locus_tag="H7R36_RS26700"
                     /old_locus_tag="WP5S18E08_P80010"
                     /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_001281396.1"
                     /translation="MSDLIAYKSNALIEASYKLTLQEQRFLLVCISRLKSGEDSPSPDE
                     QKTMTITAAEFHDAFPDMGRQHAEARLKEAIDRLWDRSVIIKNEEKREEFRWVQYRAQY
                     FKGEAKVEITFSDAIMPYLTQLKGQFTRVVVKNVSSLSSTYSIRIYELLQQFRSTGDRT
                     IAIDDFRTMLAVEDKYQQFKDLNKMIIKPAIAELNEKSDLVVTVETIKKGRTVVALHFR
                     FKEDKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(1050..3197)
                     /gene="mobQ"
                     /locus_tag="H7R36_RS26705"
                     /old_locus_tag="WP5S18E08_P80020"
     CDS             complement(1050..3197)
                     /gene="mobQ"
                     /locus_tag="H7R36_RS26705"
                     /old_locus_tag="WP5S18E08_P80020"
                     /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_070749924.1"
                     /translation="MAIYHLSMKIISRSNGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPHELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQKEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NHLINRLNLEIQISHTELRNSGLTEPARRVADLLNIGLPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKLEKQDIPASQTAFEKQWQQWGESGLAALRSQL
                     LKREEELRRKELEDTERSRAEQLRKNDNAVMDSGVLRAVVTGYGEAPMPGNGEMTCYLL
                     LHNRNGEYTLWGNELEKYRTRIFESVDLMRDRSGYICDRSEIGQYPPLQRVYSSATFEQ
                     LLTQVCQTWPQHTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLPPTLMPVM
                     SSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKGLRYA
                     GYGVAVNHDADSHISPAPELMEFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRTWDEW
                     RREEDARTHATERRHDRGWSQ"
                     /name="mobQ"
     gene            3376..3630
                     /gene="mobC"
                     /locus_tag="H7R36_RS26710"
                     /old_locus_tag="WP5S18E08_P80030"
     CDS             3376..3630
                     /gene="mobC"
                     /locus_tag="H7R36_RS26710"
                     /old_locus_tag="WP5S18E08_P80030"
                     /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"
     Typing          complement(2840..3198)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.5"
                     /coverage="100.0"
                     /evalue="8.52e-174"
     Typing          3199..3375
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          102..801
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.429"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(1054..3284)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.059"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tgtaatccac agaaaaaagg ggttgcaaaa aaaaaacttc caccaatatg atgggtggcg
       61 tacagtaaaa aaacgccacc aatagcaacg agcaagcgaa atgtcagatc tgatagctta
      121 caaatcaaac gcccttatcg aggcaagcta caagctcact ttgcaggaac agcgcttcct
      181 gctggtctgt atcagccgcc tgaaatccgg 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 gtagagatca ccttctccga tgccatcatg ccgtatctga cacagctcaa
      481 ggggcagttt acgcgggtag tcgtgaagaa cgtctccagc ctctccagca cctacagcat
      541 ccgcatttac gagctgctcc agcagttccg cagcaccggt gacagaacga tagctatcga
      601 tgatttccga accatgcttg ccgttgaaga taaatatcaa caattcaaag acttgaataa
      661 gatgataatc aagccagcca tcgccgaact gaacgaaaaa agcgatctgg ttgtaacggt
      721 tgagacgatc aaaaaggggc gcacggttgt agccctgcat tttcgcttca aggaagacaa
      781 acagatcaag atgacgatct agaatcgatt ttaaggcacc taaaacactc cctgttgcgt
      841 tttttttgtg ttagtagtgc gaaggtacta ttgaagtgaa aaattgcgtc aaaaacgctc
      901 tgatgcagcg aaaaaagaac ccccaatttt tgggggcgga aaaacaaaac tatgcttgcg
      961 ttatgtgagt gtgcttcttg cattcatccc tgtcgatgaa catcgacgaa cataacacga
     1021 tgttaaacaa aacaaaatat tgttcacatt cactgtgacc aaccgcgatc atgtctcctc
     1081 tcggtggcgt gtgttcgtgc atcttcctcg cgccgccatt cgtcccaggt acgattgaaa
     1141 cccagcgagc ggaacagatg atccggctgt ttttctggtg tgttgacggc agcaaaaagc
     1201 ggtgcctcac gggttttcag atgaaactcc ataagttccg gcgcaggtga tatgtggctg
     1261 tctgcatcat gatttacggc aacaccatac cctgcatacc gtaacccctt atcggtcagt
     1321 gcactgatga ccagctggct gttatcggct gagggaacgg caaacgcggg atacagcgta
     1381 ccattaagcc ggacaacacc gcccagagag tcatccacgc ccatgaccag caaaagctga
     1441 agctggcggg tttcccggtc gacagaactc atgaccggca tcagcgtcgg tggcagacgt
     1501 ccctgcgtaa aatccacctt ccttgctgcc agtgatggca tggctggctg gcggtcttct
     1561 ccaagacaga aagactccgg ccatgtcttc ggttggcgga gattgcgggt atgttgcggc
     1621 catgtctggc aaacctgcgt cagaagttgc tcaaaggtcg cagaggaata aacacgttgc
     1681 agtggtggat attgaccgat ttcgcttcgg tcacagatat aaccactcct gtcacgcatt
     1741 aaatcaacac tctcaaagat cctggtgcgg tatttctcca gctcgttccc ccagagcgta
     1801 tattctccgt tccggttgtg aagcagaagg taacaggtca tttccccgtt accaggcatg
     1861 ggagcctcgc cataccccgt aacgactgct ctcagcaccc ctgaatccat aacggcattg
     1921 tcatttttcc tgagctgctc cgcgcgacta cgttctgtat cctccagctc cttccggcgc
     1981 aattcctctt cacgtttaag caactgggat ctgagagctg caaggccgga ttccccccac
     2041 tgctgccact gtttttcaaa tgccgtctga ctcgcgggaa tgtcctgttt ctccagcttc
     2101 cggtaatgct gtcgcaattt ttccatttgc tggctcagag actggatttt tccctgctca
     2161 ctacggtatt ccggtgcagc ccattgcatc aggggaatac gggaaaaacc ggacgaaaac
     2221 ggcgatgatt ttttcaggct ggcagcatgg ctcatcgctt cctttcgttc ggtgttcagc
     2281 tcttcccagc gtctgcgcgt cgcctgcata tctgccatca tcgacatggc gttactggtg
     2341 agtttccatg ccgcgttact gtccttcggc aacgcttcga tgatgtcacg tagtgtgtac
     2401 gaagttgcgt tgtcaggaag cccgatattc agaaggtcag ccacacggcg ggcaggctct
     2461 gtcagcccgc tgttcctgag ttcggtgtgg gaaatctgta tttccaggtt aagcctgtta
     2521 atcagatgat tctgttcgcc gcgttctgtt tcgataccgc gtgtttccat cgcacaggca
     2581 gactttccga ggtgaatacc cggcgttttc tcaagcccct gtcgctcgta tgaacgatgg
     2641 tctatctctt tctgataacc ggcgttcgcc agtgccctgt ttgcatggtc agcccatgat
     2701 gcacgccacg tctcggcatg tgtccggtcg ttccagtccc tgacctttcc gccgaaccca
     2761 gcaggcccga cagccctcgt ggtcagcatg atgtgcgcat ggggatttgt tttatccatg
     2821 tgatggaacg ccacatcagc aatcatgccc tgactgacaa agttttctct gacaaaggcg
     2881 agaacggttt cccgtgcggc atcctgcggc agttcgtggg ggatggcgag ttcaatttcc
     2941 cgcgcaagtt gtgagttctt ccggcgttcg gccttctcaa cggcattcca gagttcggca
     3001 cggttcgtac accaggcagg ggctgtcgcg ggggtcagaa tcacagcctc agccacaccg
     3061 cttttgcggg tgtagtcgtg agtcagtccg gtacgctcat caagcattag tgaaccagaa
     3121 cgataggcag cagaagcaac ggcgctgtag ccgttgcttc tggagatgat tttcatactg
     3181 agatgataaa tcgccatttc tgccgtaatg cctttttgca gttttctttc agccccgcag
     3241 ggcgcacaca atcgaaacgg agtggagatt gtataagtgc gcacttcgtg atttgccgtg
     3301 cattatgcca gctcagtttt taaactacca gtgacgcgct aaaatgcgat ttttcatcgc
     3361 gcatggagtt acatcatgag cagaacgctc gaacagaaga ttgctgatgc tgaggcgaga
     3421 ttacagcgcc tgaaggcgaa gagccggagc ctggacacag cgcagaaggt cattgtgggt
     3481 gcagcattgc tggcaaaagt cagaaagccg gaggaagtgc agttgcgagc ttggttactc
     3541 cagttcctga aggcagaggt gacacggcag gctgatgtga cgcgaatact gccgctgatt
     3601 aacgagctgg aggcgctgcc agagcagtga ttgtatcgtc cgctcgccgc agcccagcga
     3661 ccgagcgtta gcgagcgagt gggcgaggaa gcggaagtga atcagtcgcc atgttgagca
     3721 catacgcacg gtttttcgac aggtgatatg cgctgaaccc gcatgaatac tggatttcca
     3781 cagggttgga gggggtgtat tcggaatctt caatcctgat ttttttcaac acattgtttt
     3841 tattggattt ttattttcag caccccaagt tatccacagg ctcgccgtta agtttttaag
     3901 atcttatttt tagatctttt tttttaaaac ctttttaggt cttgtaacca catgatttta
     3961 aaggtgttct ggcgagatag gtggagcttt tgggggtgat aggtggagct tttgggggtg
     4021 ataggtggag cttttggggg tgataggtgg agcttttggg gg
//
