LOCUS       NZ_AP022051             5167 bp    DNA     circular CON 14-JUN-2023
DEFINITION  Escherichia coli strain WP4-S17-ESBL-08 plasmid pWP4-S17-ESBL-08_2,
            complete sequence.
ACCESSION   NZ_AP022051
VERSION     NZ_AP022051.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00194455
            Sequence Read Archive: DRR199291
            Assembly: GCF_014169035.1
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. WP4-S17-ESBL-08
            isolated from wastewater treatment plant effluent
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5167)
  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                   :: 177x
            Sequencing Technology             :: Sequel; NextSeq 500
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/14/2023 05:32:47
            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)                     :: 5,014
            CDSs (total)                      :: 4,892
            Genes (coding)                    :: 4,678
            CDSs (with protein)               :: 4,678
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 214
            CDSs (without protein)            :: 214
            Pseudo Genes (ambiguous residues) :: 0 of 214
            Pseudo Genes (frameshifted)       :: 89 of 214
            Pseudo Genes (incomplete)         :: 145 of 214
            Pseudo Genes (internal stop)      :: 38 of 214
            Pseudo Genes (multiple problems)  :: 52 of 214
            Pseudo Genes (short protein)      :: 3 of 214
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP022051.1.
            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..5167
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="WP4-S17-ESBL-08"
                     /isolation_source="wastewater"
                     /db_xref="taxon:562"
                     /plasmid="pWP4-S17-ESBL-08_2"
                     /geo_loc_name="Japan:Tokyo"
                     /lat_lon="35.6514 N 139.4813 E"
                     /collection_date="2017-07-10"
     gene            101..1015
                     /locus_tag="H7R14_RS24700"
                     /old_locus_tag="WP4S17E08_P20010"
     CDS             101..1015
                     /locus_tag="H7R14_RS24700"
                     /old_locus_tag="WP4S17E08_P20010"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001738986.1"
                     /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_001271348.1"
                     /translation="MSAALQYFDENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWLVMEWREEAYTLDELADYLDLSASE
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLEAVIQRVEMYNASLPVPLSL
                     AECRAIGKSIAKYTHRNFTPETFAQYVADTHTPEIQAARGRKGGSKSKRSTVATSARTL
                     KPWEALGISRAWYYQLKKRGLVE"
                     /name="replication initiation protein"
     gene            complement(1219..1617)
                     /locus_tag="H7R14_RS24705"
                     /old_locus_tag="WP4S17E08_P20020"
     CDS             complement(1219..1617)
                     /locus_tag="H7R14_RS24705"
                     /old_locus_tag="WP4S17E08_P20020"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001222914.1"
                     /translation="MRISNIEWLKKRIGFIRKLGEQTARQRQIIDLIDNEAGLTEQERK
                     LLHVLATAEKNDLQAQESERKQAVQKRIEGKKQRRERNHRLFLAAGLLIEAGLVDTKTG
                     ELCYKKDRILQALKELKYDLETSPNPDA"
                     /name="hypothetical protein"
     gene            1794..2720
                     /locus_tag="H7R14_RS24710"
                     /old_locus_tag="WP4S17E08_P20030"
     CDS             1794..2720
                     /locus_tag="H7R14_RS24710"
                     /old_locus_tag="WP4S17E08_P20030"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221102.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="WP_001331297.1"
                     /translation="MATYHLSVKFGGKGQAANHADYIERKEKYRDRQDLEYSAHGNMPE
                     WARDNPSHFWQAADQFERANGSTYRELEIALPRELTPEQRLELVQDFVRQEAGERHAWS
                     FAIHNPKASIDGGEQPHAHIMMSQRVNDGIERTPEQYFRRYNARYPERGGAKKDSGSLT
                     LTQQKEQLRELRKRWEVKHNEHMRKHGFERGFIDCRTLKEQGIERRPEVHLGFEAAGRL
                     DDAQRHDIMQKRSEPDYSRHLEQARTVGHDIREWLDTPVKQHELVRRLQHDVAREHGFD
                     MRDRVSRQNRTAPERVKSPSRGFSMGF"
                     /name="MobA/MobL family protein"
     gene            2723..3256
                     /locus_tag="H7R14_RS24715"
                     /old_locus_tag="WP4S17E08_P20040"
     CDS             2723..3256
                     /locus_tag="H7R14_RS24715"
                     /old_locus_tag="WP4S17E08_P20040"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221103.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000168770.1"
                     /translation="MASTEEKLLTLLLSVEHLQHTAMEQQKAVADSLAVARETLRGYRD
                     ISDGVAKQVRDEVRNEVQKLDVAGLIGERISQDFQRLEESVANMKANADALNRDIATIH
                     SNIVQEYNTLKGYSWKWLGGVSVAFLVMFCVLGWGMKTILDRNYNATAAVYQKVVTLED
                     KLVEKPVTGKSRKN"
                     /name="hypothetical protein"
     gene            complement(3322..3531)
                     /locus_tag="H7R14_RS24720"
                     /old_locus_tag="WP4S17E08_P20050"
     CDS             complement(3322..3531)
                     /locus_tag="H7R14_RS24720"
                     /old_locus_tag="WP4S17E08_P20050"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001618649.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001096196.1"
                     /translation="MAKLGENTPHIIDATVDFMASSQAFREYLKKLPPDNTIPPALTDE
                     HVPLYIRRLEYYRLLYRPKQTESY"
                     /name="hypothetical protein"
     gene            complement(4680..4988)
                     /locus_tag="H7R14_RS24725"
     CDS             complement(4680..4988)
                     /locus_tag="H7R14_RS24725"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_023909142.1"
                     /translation="MALHNYARKRCAIGFVRSEHRTAQNDKFSPLVRGALTGFPVSKLH
                     ISPGQKKTDLGSVARIRVYGKYFSYRMLNIHKRKKCLSDALKQPFQKESALYDARKR"
                     /name="hypothetical protein"
     Typing          102..876
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.778"
                     /coverage="83.0"
                     /evalue="0.0"
     Typing          1795..2717
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.052"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tgaaaaacaa acgcccctga aatcatgtcc agatccggca agattcaaca tgaaatacag
       61 agggcgtgta ggtcgcataa cccggagaga atcgtaacac atgagcgccg cgcttcaata
      121 cttcgacgaa aatttacccc atcgtcccta tcacacggat gatctcgctt ttggtcttcg
      181 catctccggc aaagggcgtg cgcttcttgc gcggtacata cagcagaacc agcctcatgc
      241 gcagttctgg ctggtttttg acgttgaccg cgagggggct gcgattgact ggagcgaccg
      301 gaacgctccc gcgccgaaca tcaccgttaa aaatcctgtg aacggacacg ctcacctgct
      361 ctacgcactc aacatcgccg tgagaaccgc gcctgatgcc tcggttaagg cgctgaaata
      421 tgccgcagcg gttgaacgtt cgctgtgtga gaaactttgt gcggatgtga actacagcgg
      481 cctgatttgc aaaaatccgt tccacctgga atggctggtg atggagtggc gcgaggaagc
      541 ctataccctc gatgaactgg ctgattatct cgatttgagc gcctcagagc gtcgtagcat
      601 cgataaacat tacgggatgg ggcgaaactg ccacctgttc gaaatgacgc gcaaatgggc
      661 ttacagggcg attcgtcagg gctggccagc gttctcacag tggcttgaag cggtgatcca
      721 gcgtgtcgaa atgtacaatg catcgcttcc cgttccgctt tcactggctg aatgtcgggc
      781 tattggcaag agcattgcga aatacacgca caggaacttc acgccggaaa ctttcgcaca
      841 gtatgtggct gatacgcaca cgccagaaat tcaggctgca cgcggtcgca agggcggttc
      901 taagtctaag cgcagcacag tagctacatc tgcacgcacg ctgaaaccgt gggaggcatt
      961 agggatcagt cgcgcctggt attaccaact gaaaaaacga ggtctcgtag agtagaccaa
     1021 ataagcctat atcagataac agcgcctttc tggcgtcttt ttgagcagca ggttttttgc
     1081 cgtttttccc cgttcagccc tgcaatggcg cggctttccg cgtgattgtg gtggtagtgc
     1141 tcgccgcagt ctcatgaccg agcgtagcga gcgaatgagc gaggaagcac cagggaatcg
     1201 gaacacggat ggaggcactt acgcgtctgg gtttggggat gtctccagat cgtacttaag
     1261 ttccttaagt gcttgtaata tcctgtcttt tttatagcat agctcgcctg tttttgtgtc
     1321 taccagtcct gcttcgatca gtagcccagc cgcgagaaag agccggtgat tgcgttcccg
     1381 tcgttgtttt tttccctcga ttcgtttttg gaccgcctgt tttcgttcgc tctcctgtgc
     1441 ctgtaagtcg tttttttccg ctgttgccag tacgtggaga agtttgcgtt cctgttctgt
     1501 gagtccggct tcgttgtcga tcaggtcaat aatctgtctc tgtcgtgcgg tctgttctcc
     1561 gagcttcctg atgaatccga tccgtttctt cagccattcg atgttgctga tgcgcatgtt
     1621 cgtgatgctc cctggtgttt ttttgcggtg tgttgtggtc gtgcagtata tcgcttgcgg
     1681 tcggcgggtg cagggggtat cttccgtgct aattcgtaaa attagaagga agcgcactta
     1741 tatgtttctc tccttcgtcg agaaacagtg cgctcctgca gagggctgaa accgtggcaa
     1801 cctatcacct cagcgttaaa tttggtggca aggggcaggc tgcaaaccac gccgattaca
     1861 tcgagcgcaa agagaaatac cgcgaccgtc aggatttgga atattccgca cacggaaaca
     1921 tgccggaatg ggccagggat aatccttccc atttctggca ggcggctgac cagtttgaac
     1981 gtgcgaacgg ttcgacctat agggaacttg aaattgcatt accccgtgaa ctgacaccgg
     2041 aacagcgcct tgaactggtg caggattttg tacgtcagga agctggcgaa cggcacgcct
     2101 ggagttttgc cattcacaat ccgaaagcga gcattgacgg cggcgaacag cctcatgcgc
     2161 atatcatgat gagtcagcgt gtgaatgatg gcattgaacg tacaccggaa cagtatttcc
     2221 ggcgctataa cgccaggtat cccgagcggg gaggtgcgaa aaaggattcc ggaagcctga
     2281 ctctcactca gcaaaaagag cagttgcggg aattgcgaaa acgctgggag gtgaagcaca
     2341 acgaacatat gagaaagcat ggctttgaaa ggggcttcat tgactgccgg acgctgaaag
     2401 aacagggcat tgaacgacgt cccgaagtgc atctgggttt tgaagctgcc ggacggcttg
     2461 atgatgccca gcgtcatgac atcatgcaaa aacggtctga accggactat tcccgccatc
     2521 ttgaacaggc gcgaacggtc gggcatgaca tcagggaatg gctggacact ccggttaagc
     2581 aacatgaact ggtcagaagg ctgcaacatg atgttgcgcg ggagcatggc tttgacatga
     2641 gagacagagt gagcagacag aaccgaactg cacctgaacg ggttaaatca ccgtcacgtg
     2701 gattttctat gggattctga acatggccag cacagaagaa aaattactca cgctcctgtt
     2761 atcggtggag catctgcaac ataccgcaat ggagcaacag aaagctgttg ctgattctct
     2821 ggctgtggca agggaaactc ttcgcggata tcgggatatt tctgacggtg tggcaaaaca
     2881 ggtcagggat gaagtcagaa atgaggtgca gaagctggac gtggcaggac tgataggtga
     2941 gcgcatcagc caggattttc agcggctgga agagtcagtc gcaaacatga aggcaaacgc
     3001 ggatgccctg aacagggata ttgcgacaat tcacagcaat atcgtgcagg aatacaacac
     3061 ccttaaaggg tatagctgga aatggctggg tggggtgtca gtggcttttc tggttatgtt
     3121 ctgtgtgctc ggatggggaa tgaaaacaat actcgacagg aactacaacg ccacagcggc
     3181 ggtgtatcag aaagttgtga cactggaaga taaactggtg gagaaacctg tcacggggaa
     3241 gagccggaaa aactgacgcg cttcgcttgt ccaacgcctc acgacccgcg aaaggatttc
     3301 gcgaaccgtt caccgttttt ttcaatatga ttctgtctgc tttggtcgat aaagcagacg
     3361 atagtattcc agccttcgta tatataacgg tacgtgctca tcagtaagag ctggcggtat
     3421 tgtgttatca gggggaagtt ttttcagata ctcacgaaat gcctggcttg atgccataaa
     3481 atctacagta gcatcgataa tatgtggggt gttttcacct aattttgcca tgatgataat
     3541 ccttatatta tcacggtttg tgaatgatag ggtgtcacta ttatttatgc gttagtgaac
     3601 cagaaaaaat cccccgttgg cataggggga tatgtaagga gaaataactt cgcaggtgtt
     3661 cttgtttgta taacgtgaaa agactgcacg caacttaata agtctgccgt acttactttc
     3721 agttttcaac ataaggttta taacaatgta tggaatggaa gtgagcttta aggtttcagc
     3781 tctaaaaaat aaaatattta ttagttggct ggttgttgtt cttgttctgt atgtatataa
     3841 acactatcga catattatga ccgggaacat tccttacccc ctctgcgctc gcagaggttt
     3901 tttttgtcat taattaataa tgaactgaaa tgcagttccg atacctccat ttgcacatta
     3961 tccctgacat atggtaccgg aaccgcatta attttatgtt ataagagttt atttttaatg
     4021 tccagatggt ttaatagtat ttatatgtaa ttagctgtat ggatagtact ggttttattg
     4081 tataacttgt cgtttttttt tattgttttt gtgtggtgtg ctaatcttta agttataaaa
     4141 aaaccccttg gaatacaggg gcaaaagtaa ggaaaacaaa tggatgctca gtttgtgtga
     4201 cactttaaac taatggaact atagagtgga ggttgttaca gtcgctttta taaaacagca
     4261 accagttttt ttcaatagtc tgatgatggt tgtgacagtt ttgtgatatt gttcaaaatg
     4321 tttcttgttg aatgtttgtt ttttggtcta ttggtgtctg gttttatttt ttctgctatt
     4381 acatatcaag aaatgtgatt ggtgtagcaa gagtggaatg cgatgtggat aaactaattg
     4441 gttgtcgaat ctaatttact tagaaaacta cacttgtttt tgtgtatgaa tttagtgaat
     4501 ttgtctgtct atgtgttttc gtgcatttat aaatccttcg tcaggatctt aaatttagtg
     4561 ttgaatatgt agggcctgta cggtaattat tatttagcgt agctacttca tcgttgttcg
     4621 aacacaacca acaacctgta attgttgttt ctcttggttc cccacttttg tggggttttt
     4681 tatctcttcc gtgcatcgta aagcgcggac tccttctgga aaggttgttt tagggcatca
     4741 ctgaggcatt ttttgcgttt gtgaatattg agcatccgat aactaaaata tttcccatag
     4801 actctgattc ttgccaccga ccccaggtcg gttttttttt gtcctggcga gatgtgaagt
     4861 ttggaaacag gaaaccccgt cagagcgcca cgcaccaggg gagaaaactt gtcgttttga
     4921 gccgttcggt gttcagaacg cacgaaaccg atcgcacatc gctttcgtgc atagttatgc
     4981 aacgccatga aaacgattct gacgcgtttt tctggtttgg cctggtgttt tcttgtcttt
     5041 ttgcgttttt tgcgccagaa agcgactgag ggcgttttaa ggggggcgta caacgggagt
     5101 tatggtaaat ggatcgggtt ttcgggaagg ttcgacagga tttgccgttg ggtgtagtgt
     5161 aagcgac
//
