LOCUS       NZ_AP022168             4082 bp    DNA     circular CON 14-JUN-2023
DEFINITION  Escherichia coli strain WP5-S18-ESBL-08 plasmid pWP5-S18-ESBL-08_7,
            complete sequence.
ACCESSION   NZ_AP022168
VERSION     NZ_AP022168.1
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  JOURNAL   Unpublished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 4082)
  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
            AP022168.1.
            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..4082
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="WP5-S18-ESBL-08"
                     /isolation_source="wastewater"
                     /db_xref="taxon:562"
                     /plasmid="pWP5-S18-ESBL-08_7"
                     /geo_loc_name="Japan:Tokyo"
                     /lat_lon="35.6538 N 139.5126 E"
                     /collection_date="2018-08-06"
     gene            101..802
                     /locus_tag="H7R36_RS26685"
                     /old_locus_tag="WP5S18E08_P70010"
     CDS             101..802
                     /locus_tag="H7R36_RS26685"
                     /old_locus_tag="WP5S18E08_P70010"
                     /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"
     gene            complement(1058..3217)
                     /gene="mobQ"
                     /locus_tag="H7R36_RS26690"
                     /old_locus_tag="WP5S18E08_P70020"
     CDS             complement(1058..3217)
                     /gene="mobQ"
                     /locus_tag="H7R36_RS26690"
                     /old_locus_tag="WP5S18E08_P70020"
                     /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_021545144.1"
                     /translation="MAIYHLSMKIISRNSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPRELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRIELRNSGLTEPARRVADLLNIVLPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQTAFEKQWQQWGASGLAALRVQL
                     LKREEELRRKEQEDTERSRAERRAEQLRKNDNAVMDSGVLSAVVTGYGEAPMPGNGEMT
                     CYLLLHNRNGEYTLWGNELEKYRTRIFERVDLMRDRSGYICDRSEIGQHPPLQRVYSSA
                     TFEQLLTQVCQTWPQYTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLLPTL
                     MPVMSSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKG
                     LRYAGYGVAVNHDADSHISPAPELMEFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRT
                     WDEWRREEDARTHATERRHDRGWSQ"
                     /name="mobQ"
     gene            3396..3650
                     /gene="mobC"
                     /locus_tag="H7R36_RS26695"
                     /old_locus_tag="WP5S18E08_P70030"
     CDS             3396..3650
                     /gene="mobC"
                     /locus_tag="H7R36_RS26695"
                     /old_locus_tag="WP5S18E08_P70030"
                     /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_000091745.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVIVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPGQ"
                     /name="mobC"
     Typing          complement(2860..3218)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          3219..3395
                     /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(1062..3304)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.733"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gtaatattca cagaaaaagg gatattaaaa taaaaaggca ttgcctttcg ttgagggtat
       61 gtttatcttt tattcattac cttttgggga gggatgctct atgtcggatc taattgccta
      121 taaatccaat gcgctggttg aagccagtta taaattgacc ctacaggaac agcgattttt
      181 gttactttgc atcggtcgat tgaagtctgg ggctgatgca gaatctccaa aattgcaaaa
      241 gacaatgacc attacagctg cggaatattt cgattcattc cctgacatgg ggcggaaaaa
      301 tgccgaggtt cagttacagg aagcaattga tcgtttgtgg gacaggtcaa tcattctcaa
      361 ggatgacgag aaacgtgagg agttccgctg gatccagtat cgggcacagt acgctaaagg
      421 cgaggccaga gcacaaataa cattttctga cgcagtaatg ccttatttga cacaactaca
      481 agggcaattt actagagttg taatcaagaa tatatctaga ttatcaagaa gttacagtat
      541 aaggatatac gaactcctcc agcagttccg cagtactggc gaacgtatta tcgctctcga
      601 tgattttcgc tcaatgcttg atatagagca taaatatcaa acatataaat cacttaacca
      661 gcaattatta agaccctgca ttgacgaact gaacaaaaaa agcgacctgg ctgtaacggt
      721 tgagacgatc aaaaaggggc gcacggttgt agccctgcat tttcgcttca aggaagacaa
      781 acaaatcaag atgacgatct aaaatcgatt ttaaggcacc taaaacgctc cctgctgcgt
      841 tttttttgtg ttagtagtgc gaaggtacta ttgaagtgaa aaattgcgtc aaaagcgctc
      901 taatgcagcg aaaaaagaac ccccattttt tgggggcgga aaaacaaaac tatgcttgca
      961 ttatgtgtgt gcttcttgca ttcatccctg tcgatgaaca tcgaagaaca tcgacgaaca
     1021 taacacgatg ttaaacaaaa caaaatattg ttcacattca ctgtgaccaa ccgcgatcat
     1081 gtctcctctc ggtggcgtgt gttcgtgcat cttcctcgcg ccgccattcg tcccaggtac
     1141 gattaaaacc cagcgagcgg aacagatgat ccggctgttt ttctggtgtg ttgacggcag
     1201 caaaaagcgg tgcctcacgg gttttcagat gaaactccat aagttccggc gcaggtgata
     1261 tgtggctgtc tgcatcgtga tttacggcaa caccataccc tgcataccgt aaccccttat
     1321 cggtcagtgc actgatgacc agctggctgt tatcggctga gggaacggca aacgcgggat
     1381 acagcgtacc attaagccgg acaacaccgc ccagagagtc atccacgccc atgaccagca
     1441 aaagctgaag ctggcgggtt tcccggtcga cagaactcat taccggcatc agcgtcggta
     1501 gcagacgtcc ctgcgtaaaa tccaccttcc ttgctgccag tgatggcatg gctggctggc
     1561 ggtcttctcc aagacagaaa gactccggcc atgtcttcgg ctggcggaga ttgcgggtat
     1621 attgcggcca tgtctggcaa acctgcgtca gaagttgctc aaaggtcgca gaggaataaa
     1681 cacgttgcag tggtggatgt tgaccgattt cgcttcggtc acagatataa ccactcctgt
     1741 cacgcattaa atcaacacgc tcaaagattc tggtgcggta tttctccagc tcgttccccc
     1801 agagcgtgta ttctccgttc cggttgtgaa gcagaaggta acaggtcatt tccccgttac
     1861 caggcatggg ggcctcgcca taccccgtaa cgactgcgct cagtacccct gaatccataa
     1921 cggcattgtc atttttcctg agctgttccg ctcgtcgctc cgcgcgacta cgttctgtat
     1981 cctcctgctc cttccggcgc aattcctctt cacgtttaag caactggact ctgagagctg
     2041 caaggccgga tgccccccac tgctgccact gtttttcaaa tgccgtctga ctcgcgggaa
     2101 tgtcctgttt ctccaccttc cggtaatgct gtcgcaattt ttccatttgc tggctcagcg
     2161 actggatttt tccctgttcg ctacggtatt ccggtgccgc ccattgcatc aggggaatac
     2221 gggaaaaacc ggacgaaaac ggcgatgatt ttttcaggct ggcagcatgg ctcatcgctt
     2281 cctttcgttc ggtgttcagc tcttcccagc gtctgcgcgt cgcctgcata tctgccatca
     2341 tcgacatggc attactggtg agtttccatg ccgcattact gtccttcggc aacgcttcga
     2401 tgatgtcacg tagtgtgtac gaagttgcgt tgtcaggaag cacgatattc agaaggtcag
     2461 ccacacggcg ggcaggctct gtcagcccgc tgtttctgag ttcgatacgg gaaatctgta
     2521 tttccaggtt aagtctgtta atcagacgat tctgttcgcc gcgttctgtt tcgataccgc
     2581 gtgtttccat cgcacaggca gactttccga ggtgaatacc aggcgttttc tcaagcccct
     2641 gtcgctcgta tgaacgatgg tctatctctt cctgataacc ggcgttcgcc agtgccctgt
     2701 tcgcatggtc agcccatgat gcacgccacg tctcggcatg tgtccggtcg ttccagtccc
     2761 tgacctttcc accgaatcca gcaggtccga cagctctcgt ggtcagcatg atgtgcgcat
     2821 ggggatttgt tttatccatg tgatggaacg ccacatcagc aatcatgccc tgactgacaa
     2881 agttttctct gacaaaggcg agaacggttt cccgtgcggc atcctgcggt agttcgcggg
     2941 ggatggcgag ttcaatttcc cgcgcaagtt gtgagttctt ccggcgttcg gccttctcaa
     3001 cggcattcca gagttcggca cggttcgtac accaggcagg ggctgtcgcg ggagtcagaa
     3061 tcacagcttc agccacaccg cttttgcggg tgtagtcgtg agtcagtccg gtacgctcat
     3121 caagcatcag tgaaccggaa cgataggcag cagaagcaac ggcgctgtag ccgctgtttc
     3181 tggagatgat tttcatgctg agatgataaa tcgccatttc tgccgtaatg cctttttgtg
     3241 gttttctttc agccccgcag ggcgcacaca atcgaaacgg agtggagatt gtataagtgc
     3301 gcacttcgtg attttccgtg cattatgcca gctcagtttt taaactacca gtgacgcgct
     3361 aaaatgcgat ttttcatcgc gcacggagtt acatcatgag cagaacactc gaacagaaga
     3421 ttgctgatgc tgaggccaga ttacagcgcc tgaaggcgaa gagcaggagt ctggacacag
     3481 cgcagaaggt cattgtgggt gcagcattgc tggcaaaggt cagaaagccg gaggaggtgc
     3541 agttgcgtgc ctggttactc cagttcctga aggcagaggt gacacgacag gctgatgtga
     3601 cgcgcatact gccgctgatt aacgagctgg aagcgctgcc aggacagtga ttgtatcgtc
     3661 cgctcgccgc agtcccagcg accgagcgtt agcgagcgag tgggcgagga agcggaagtg
     3721 aatccgtcgc ctgattgagc acatacgcac ggtttttcgg gaggtgatat gcgctgaacc
     3781 cgcatgaata ctggatttcc acagggttgg agggggtgta ttcggaactt gcaattctgc
     3841 ttttttgcaa cgcattgttt ttattggttt tttgttttca gcactccaag ttatccacag
     3901 gctcgtcgtt aagtttttag atcttgtttt taagatcttg tttttaatac ttgttttagc
     3961 gccaaaattc cttatagaaa acaaaatgtt acaatgctat aggtaatgtg atttaaggta
     4021 aaggtaatat gatttaaggt gtttaggtgg gggaatttaa ggtaaaggca atatgattta
     4081 ag
//
