LOCUS       NZ_AP021949             4073 bp    DNA     circular CON 14-JUN-2023
DEFINITION  Escherichia coli strain WP2-S18-ESBL-08 plasmid pWP2-S18-ESBL-08_3,
            complete sequence.
ACCESSION   NZ_AP021949
VERSION     NZ_AP021949.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00194372
            Sequence Read Archive: DRR199208
            Assembly: GCF_014168755.1
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. WP2-S18-ESBL-08
            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  JOURNAL   Unpublished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                   :: 168x
            Sequencing Technology             :: Sequel; NextSeq 500
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/14/2023 05:16:10
            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)                     :: 5,394
            CDSs (total)                      :: 5,274
            Genes (coding)                    :: 4,923
            CDSs (with protein)               :: 4,923
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 351
            CDSs (without protein)            :: 351
            Pseudo Genes (ambiguous residues) :: 1 of 351
            Pseudo Genes (frameshifted)       :: 123 of 351
            Pseudo Genes (incomplete)         :: 260 of 351
            Pseudo Genes (internal stop)      :: 60 of 351
            Pseudo Genes (multiple problems)  :: 83 of 351
            Pseudo Genes (short protein)      :: 4 of 351
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP021949.1.
            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="WP2-S18-ESBL-08"
                     /isolation_source="wastewater"
                     /db_xref="taxon:562"
                     /plasmid="pWP2-S18-ESBL-08_3"
                     /geo_loc_name="Japan:Tokyo"
                     /lat_lon="35.6640 N 139.4378 E"
                     /collection_date="2018-08-06"
     gene            complement(101..2248)
                     /gene="mobQ"
                     /locus_tag="H7R07_RS26585"
                     /old_locus_tag="WP2S18E08_P30010"
     CDS             complement(101..2248)
                     /gene="mobQ"
                     /locus_tag="H7R07_RS26585"
                     /old_locus_tag="WP2S18E08_P30010"
                     /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_001029354.1"
                     /translation="MAIYHLSMKIISRSSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPHELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAIGPAGFSGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNGGLTEPARRVADLLNIGLPDNATSYTLRDIIEALPKDSN
                     SAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQMAFEKQWQQWGESGLAALRAQL
                     LKREEELRRKEQEDTERSRAEQLRKNDNAVMDSGVLRAVVTGYGEAPMPGNGEMTCYLL
                     LHNRNGEYTLWGNELEKYRTRIFESVDLMRDRSGYICDRSEIGQRPPLQRVYSSATFEQ
                     LLTQVCQTWPQHTRNLRQPKTWPESFCLGEDRQPAMPSPAARKVDFMQGRLPPTLMPVM
                     SSVDRETRQLQLLLVMGVDDSLGGVIRLNGTLYPAFAVPSADNRHLVISALTDKGLRYA
                     GYGVAVNHDADSHISPAPELMQFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRTWEEW
                     QREEDARTHTTERRHDRGWSQ"
                     /name="mobQ"
     gene            2427..2681
                     /gene="mobC"
                     /locus_tag="H7R07_RS26590"
                     /old_locus_tag="WP2S18E08_P30020"
     CDS             2427..2681
                     /gene="mobC"
                     /locus_tag="H7R07_RS26590"
                     /old_locus_tag="WP2S18E08_P30020"
                     /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"
     gene            3215..3916
                     /locus_tag="H7R07_RS26595"
                     /old_locus_tag="WP2S18E08_P30030"
     CDS             3215..3916
                     /locus_tag="H7R07_RS26595"
                     /old_locus_tag="WP2S18E08_P30030"
                     /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"
     Typing          complement(1891..2249)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          2250..2426
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          3216..3916
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(105..2335)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.989"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gttatgtgag tgtgcttctt gcattcatcc ctgtcgatga acatcgaaga acatcgacga
       61 acataacacg atgttaaaca aaacaaaata ttgttcacat tcactgtgac caaccgcgat
      121 catgtctcct ctcggtggtg tgtgttcgtg catcttcctc gcgctgccat tcctcccagg
      181 tacgattaaa acccagcgag cggaacagat gatccggctg tttttctggt gtgttgacgg
      241 cagcaaaaag cggtgcctca cgggttttca gatgaaactg catcagttct ggtgcaggtg
      301 atatgtggct gtctgcatcg tgatttacgg caacaccata ccctgcatac cgtaacccct
      361 tatcggtcag cgcactgatg accagatgcc tgttatcggc tgagggaacg gcaaacgcgg
      421 gatacagcgt accattaagc cggataacac cgcccagaga gtcatccacg cccatgacca
      481 gcaaaagctg aagctggcgg gtttcccggt cgacagaact catgaccggc atcagcgtcg
      541 gtggcagacg tccctgcata aaatccacct tccttgccgc tggtgatggc atggctggct
      601 ggcggtcttc tccaagacag aaagactccg gccatgtctt cggctggcgg agattgcggg
      661 tatgttgcgg ccatgtctgg caaacctgcg tcagcagttg ctcaaaggtt gcagaggaat
      721 aaacacgttg cagtggcgga cgttggccga tttcgcttcg gtcacagata taaccactcc
      781 tgtcacgcat taaatcaaca ctctcaaaga ttctggtgcg gtatttctcc agctcgttcc
      841 cccagagcgt atattctccg ttccggttgt gaagcagaag gtaacaggtc atttccccgt
      901 taccaggcat gggagcctcg ccataccccg taacgactgc tctcagcacc cctgaatcca
      961 taacggcatt gtcatttttc ctgagctgct ccgcgcgact acgttcagta tcttcctgtt
     1021 ccttccggcg caattcctct tcacgtttaa gcaactgggc tctgagagct gcaaggccgg
     1081 attcccccca ctgctgccac tgtttttcaa atgccatctg actcgcggga atgtcctgtt
     1141 tctccacctt ccggtaatgc tgtcgtaatt tttccatttg ctggctcaga gactggattt
     1201 ttccctgctc actacggtat tccggtgccg cccattgcat caggggaata cgggaaaaac
     1261 cggacgaaaa cggcgatgat tttttcaggc tggcagcatg gctcatcgct tcctttcgtt
     1321 cggtgttcag ctcttcccag cgtctgcgcg tcgcctgcat atctgccatc atcgacatgg
     1381 cattactggt gagtttccat gccgagttac tgtccttcgg caacgcttcg ataatgtcac
     1441 gtagtgtgta cgaagttgcg ttgtcaggaa gcccgatatt cagaaggtca gccacacggc
     1501 gggcaggctc tgtcagccct ccgttcctga gttcggtgcg ggaaatctgt atttccaggt
     1561 taagcctgtt aatcagacga ttctgttcgc cgcgttctgt ttcgataccg cgtgtttcca
     1621 tcgcacaggc agactttccg aggtgaatac caggcgtttt ctcaagcccc tgtcgctcgt
     1681 atgaacgatg gtctatctct tcctgataac cggcgttcgc cagtgccctg tttgcatggt
     1741 cagcccatga tgcccgccac gtctcggcat gtgtccggtc gttccagtcc ctgacctttc
     1801 cgctgaaccc agcaggtccg atagccctcg tggtcagcat gatgtgcgca tggggatttg
     1861 ttttatccat gtgatggaac gccacatcag caatcatgcc ctgactgaca aagttttctc
     1921 tgacaaaggc gagaacggtt tcccgtgcgg catcctgcgg cagttcgtgg gggatggcga
     1981 gttcaatttc ccgcgcaagt tgtgagttct tccggcgttc ggccttctca acggcattcc
     2041 agagttcggc acggttcgta caccaggcag gggcggtggc gggggtcaga atcacagcct
     2101 cagccacacc gcttttgcgg gtgtagtcgt gagtcagtcc ggtacgctca tcaagcatca
     2161 gtgaaccgga acgataggca gcggaagcta cggcgctgta gccgctgctt ctggagataa
     2221 ttttcatgct gagatgataa atcgccattt ctgccgtaat gcctttttgt agttttcttt
     2281 cagccccgca gggcgcacac aatcgaaacg gagtggagat tgtataagtg cgcacttcgt
     2341 gatttgccgt gcattatgcc agctcagttt ttaaactacc agtgacgcgc taaaatgcga
     2401 tttttcatcg cgcacggagt tacatcatga gcagaacgct cgaacagaag attgctgatg
     2461 ctgaggcgag attacagcgc ctgaaggcga agagccggag cctggacaca gcgcagaagg
     2521 ttgttgtggg tgctgcattg ctggcaaagg tcagaaagcc ggaggaggtg cagttgcgtg
     2581 cctggttact ccagttcctg aaggcagagg tgacacgaca ggctgatgtg acgcgcatac
     2641 tgccgctgat taacgagctg gaggcgctgc cagaacagtg attgtatcgt ccgctcgccg
     2701 cagccccagc gaccgagcgt tagcgagcga gtgggcgagg aagcggaagt gaatcagtcg
     2761 ccaggttgag cacatacgca cggtttttcg gcaggtgata tgcgctgaac ccgcatgaat
     2821 actgggtttc cacagggttg gagggggtgt attcgaaact tgcaattctg ctttattgca
     2881 acgcattgtt tttattggtt ttttgttttc agcaccccaa gttatccaca ggctcgccgt
     2941 taagttttta agatcttatt tttagatctt tttttttaaa acctttttag gtcttgtaac
     3001 accatgattt taaagatgtt ctggcaagat aagtggagct tttgggggtg aaaggtggag
     3061 cttttggggg tgaaaggtgg agcttttggg ggtgaaaggt ggagcttttg ggggtgtaat
     3121 ccacagaaaa agggggttgc aaaaaaaaaa cttccaccca tatgataagt ggcgtacagt
     3181 aaaaaaacgc caccaatagc aacgagcaag cgaaatgtca gatctgatag cttacaaatc
     3241 aaacgccctt atcgaggcaa gctacaagct cactttgcag gaacagcgct tcctgctggt
     3301 ctgtatcagc cgcctaaaat ccggagaaga ttccccttcg ccggatgaac aaaaaaccat
     3361 gaccatcacg gctgcagagt ttcatgatgc ctttcctgac atgggacggc agcacgctga
     3421 agctaggctc aaggaagcga tagatcgcct ctgggacagg tcagtaatca tcaagaacga
     3481 ggaaaaacga gaagagttcc gctgggtgca gtaccgggcg cagtatttca aaggtgaggc
     3541 gaaagtagat atcaccttct ccgatgccat catgccgtat ctgacacagc tcaaggggca
     3601 gtttacgcgg gtagtcgtga agaacgtctc cagcctttcc agcacctaca gcatccgcat
     3661 ttacgagctg ctccagcagt tccgcagcac cggtgacaga acgatagcta tcgatgattt
     3721 ccgaaccatg cttgccgttg aagataaata tcaacaattc aaagacttga ataagatgat
     3781 aatcaagcca gccatcgccg aactgaacga aaaaagcgat ctggttgtaa ctgttgagac
     3841 gatcaaaaag gggcgcacgg ttgtagccct gcattttcgc ttcaaggaag acaaacagat
     3901 caagatgacg atctaaaatc gattttaagg cacctaaaac gctccctgct gcgttttttt
     3961 tgtgttagta gtgcgaaggt actattgaag tgaaaaattg cgtcaaaaac gctctgatgc
     4021 agcgaaaaaa gaccccccaa tttttggggg cggaaaaaca aaactatgct tgc
//
