LOCUS       NZ_CP135670             4064 bp    DNA     circular CON 07-OCT-2023
DEFINITION  Escherichia coli strain TUM9975 plasmid pMTY9975_untypable2,
            complete sequence.
ACCESSION   NZ_CP135670
VERSION     NZ_CP135670.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN35769058
            Assembly: GCF_032375245.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4064)
  AUTHORS   Komori,K., Aoki,K., Ishii,Y. and Tateda,K.
  TITLE     Analysis of the Plasmid-Driven Acquisition of blaCTX-M-14 in
            Escherichia coli ST131 Subclone H30
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4064)
  AUTHORS   Komori,K., Aoki,K., Ishii,Y. and Tateda,K.
  TITLE     Direct Submission
  JOURNAL   Submitted (21-SEP-2023) Department of Microbiology and Infectious
            Diseases, Toho University, 5-21-16, Omori-Nishi, Ota-Ku, Tokyo
            143-8540, Japan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 13-SEP-2021
            Assembly Method                   :: SPAdes v. v3.15.5
            Assembly Name                     :: Toho-u_TUM9975_Comp_v1.1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Reference-guided Assembly         :: missing
            Genome Coverage                   :: 115x
            Sequencing Technology             :: Complete Genomics
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 10/07/2023 14:57:12
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,412
            CDSs (total)                      :: 5,300
            Genes (coding)                    :: 5,071
            CDSs (with protein)               :: 5,071
            Genes (RNA)                       :: 112
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 229
            CDSs (without protein)            :: 229
            Pseudo Genes (ambiguous residues) :: 0 of 229
            Pseudo Genes (frameshifted)       :: 88 of 229
            Pseudo Genes (incomplete)         :: 161 of 229
            Pseudo Genes (internal stop)      :: 41 of 229
            Pseudo Genes (multiple problems)  :: 53 of 229
            Pseudo Genes (short protein)      :: 3 of 229
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP135670.1.
            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..4064
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="TUM9975"
                     /db_xref="taxon:562"
                     /plasmid="pMTY9975_untypable2"
                     /geo_loc_name="Japan"
                     /collection_date="2010"
                     /collected_by="Toho University School of Medicine"
     gene            33..725
                     /locus_tag="RS167_RS27050"
                     /old_locus_tag="RS167_27050"
     CDS             33..725
                     /locus_tag="RS167_RS27050"
                     /old_locus_tag="RS167_27050"
                     /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_044326273.1"
                     /translation="MSDLIAYKSNALVEASYKLTLQEQRFLLLCISRLKSGADAELQKT
                     MTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKNDEKREEFRWIQYRAQYAKG
                     EAKARITFSDAVMPYLTQLKGQFTRVVIKNISGLSSSYSIRIYEFLQQFRCTGERIIAL
                     NDFRSMLGIENKYKQFRDLNKILIKPCVDELNKKSDLAVTVETIKKGRTVVALHFRFKE
                     DKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(973..3132)
                     /gene="mobQ"
                     /locus_tag="RS167_RS27055"
                     /old_locus_tag="RS167_27055"
     CDS             complement(973..3132)
                     /gene="mobQ"
                     /locus_tag="RS167_RS27055"
                     /old_locus_tag="RS167_27055"
                     /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_042042005.1"
                     /translation="MAIYHLSMKIISRSSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPRELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPARRVADLLNIVLPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRNEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQTAFEKQWQQWGASGLAALRVQL
                     LKREEELRRKEQEDTERSRTERRAEQLRKNDNAVMDSGVLSAVVTGYGEAPMPGNGEMT
                     CYLLLHNRNGEYTLWGNELEKYRTRIFERVDLMRDRSGYICDRSEIGQHPPLQRVYSSA
                     TFEQLLTQVCQTWPQYTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLPPTL
                     MPVMSSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKG
                     LRYAGYGVAVNHDADSHISPAPELMEFHLKTREVPLFAAVNTPEKQPDHLFRSLGFNRT
                     WDEWRREEDARTHTTERRHDRGWSQ"
                     /name="mobQ"
     gene            3311..3565
                     /gene="mobC"
                     /locus_tag="RS167_RS27060"
                     /old_locus_tag="RS167_27060"
     CDS             3311..3565
                     /gene="mobC"
                     /locus_tag="RS167_RS27060"
                     /old_locus_tag="RS167_27060"
                     /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_000091747.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVVVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPGQ"
                     /name="mobC"
     Typing          complement(2775..3133)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.333"
                     /coverage="100.0"
                     /evalue="8.460000000000002e-179"
     Typing          3134..3310
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          34..725
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.821"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(977..3219)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.93"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 aaagcatcac cacatttgaa cgggatcttt gtatgtcgga cttgattgcc tacaagtcga
       61 atgctttggt tgaggccagc tacaagttga ccctacagga acaacgtttt ctgttgctgt
      121 gtatcagtcg attgaaatct ggtgctgatg ctgaattgca aaagacaatg accattaccg
      181 ctgcggaata ttttgattca ttccctgaca tggggcggaa aaatgccgag gttcagttac
      241 aggaagcgat cgatcgttta tgggacaggt cgatcattct caagaatgac gagaagcgtg
      301 aggagttccg ctggatccag tatcgggcac agtacgctaa aggtgaggcc aaggctcgaa
      361 taaccttttc tgacgcggta atgccttatc tgacgcaact gaaggggcaa ttcacgcgcg
      421 ttgttataaa aaacatatca ggtttatcaa gtagttacag tataagaata tacgagttcc
      481 tccagcaatt ccgctgtacg ggagagagaa ttattgctct taatgacttt cgttcaatgt
      541 tagggattga aaataaatac aaacaattca gagacttaaa taaaatacta ataaaaccct
      601 gtgttgacga actgaacaaa aaaagcgacc tggctgtaac ggttgagacg atcaaaaagg
      661 ggcgcacggt tgtagccctg cattttcgct tcaaggaaga caaacagatc aagatgacga
      721 tctaaaatcg attttaatgc acctaaaacg ctccctgctg cgtttttttt gtgttagtag
      781 tgcgaaggta ctattgaagt gaaaaattgc gccaaaaacg ctctgatgca gcgaaaaaag
      841 aacccccaat ttttgggggc ggaaaaacaa aactatgctt gcgttatgtg agtgtgcttc
      901 ttgcattcat ccctgtcgat gaacatcgac gaacataaca cgatgttaaa caaaacaaaa
      961 tattgttcac attcactgtg accaaccgcg atcatgtctc ctctcggtgg tgtgtgttct
     1021 tgcatcttcc tcgcgccgcc attcgtccca ggtacgattg aaacccagcg agcggaacag
     1081 atgatccggc tgtttttctg gtgtgttgac ggcagcaaaa agcggtacct cacgggtttt
     1141 cagatgaaac tccataagtt ccggcgcagg tgatatgtgg ctgtctgcat cgtgatttac
     1201 ggcaacacca taccctgcat accgtaaccc cttatcggtc agtgcactga tgaccagctg
     1261 gctgttatcg gctgagggaa cggcaaacgc gggatacagc gtaccattaa gccggacaac
     1321 accgcccaga gagtcatcca cgcccatgac cagcaaaagc tgaagctggc gggtttcccg
     1381 gtcgacagaa ctcattaccg gcatcagcgt cggtggcaga cgtccctgcg taaaatccac
     1441 cttccttgct gccagtgatg gcatggctgg ctggcggtct tctccaagac agaaagactc
     1501 cggccatgtc ttcggctggc ggagattgcg ggtatattgc ggccatgtct ggcaaacctg
     1561 cgtcagaagt tgctcaaagg tcgcagagga ataaacacgt tgcagtggtg gatgttgacc
     1621 gatttcgctt cggtcacaga tataaccact cctgtcacgc attaaatcaa cacgctcaaa
     1681 gattctggtg cggtatttct ccagctcgtt cccccagagc gtgtattctc cgttccggtt
     1741 gtgaagcaga aggtaacagg tcatttcccc gttaccaggc atgggggcct cgccataccc
     1801 cgtaacgact gcgctcagta cccctgaatc cataacggca ttgtcatttt tcctgagctg
     1861 ttccgctcgt cgctccgtgc gactacgttc tgtatcctcc tgctccttcc ggcgcaattc
     1921 ctcttcacgt ttaagcaact ggactctgag agctgcaagg ccggatgccc cccactgctg
     1981 ccactgtttt tcaaatgccg tctgactcgc gggaatgtcc tgtttctcca ccttccggta
     2041 atgctgtcgc aatttttcca tttgctggct cagcgactga atttttccct gttcgttacg
     2101 gtattccggt gccgcccatt gcatcagggg aatacgggaa aaaccggacg aaaacggtga
     2161 tgattttttc aggctggcag catggctcat cgcttccttt cgttcggtgt tcagctcttc
     2221 ccagcgtctg cgcgtcgcct gcatatctgc catcatcgac atggcattac tggtgagttt
     2281 ccatgccgca ttactgtcct tcggcaacgc ttcgatgatg tcacgtagtg tgtacgaagt
     2341 tgcgttgtca ggaagcacga tattcagaag gtcagccaca cggcgggcag gctctgtcag
     2401 cccgctgttc ctgagttcag tgcgggaaat ctgtatttcc aggttaagcc tgttaatcag
     2461 acgattctgt tcgccgcgtt ctgtttcgat accgcgtgtt tccatcgcac aggcagactt
     2521 tccgaggtga ataccaggcg ttttctcaag cccctgtcgc tcgtatgaac gatggtctat
     2581 ctcttcctga taaccggcgt tcgccagtgc tctgtttgca tggtcagccc atgatgcacg
     2641 ccacgtctcg gcatgtgtcc ggtcgttcca gtccctgacc tttccgccga acccagcagg
     2701 tccgacagcc ctcgtggtca gcatgatgtg cgcatgggga tttgttttat ccatgtgatg
     2761 gaacgccaca tcagcaatca tgccctgact gacaaagttt tctctgacaa aggcgagaac
     2821 ggtttcccgt gcggcatcct gcggcagttc acgggggata gcgagttcaa tttcccgcgc
     2881 aagttgtgag ttcttccggc gttcggcctt ctcaacggca ttccagagtt cggcacggtt
     2941 cgtacaccag gcaggggctg tcgcgggggt cagaatcaca gcttcagcca caccgctttt
     3001 gcgggtgtag tcgtgagtca gtccggtacg ctcatcaagc atcagtgaac cggaacgata
     3061 ggcagcggaa gctacggcgc tgtagccgct gcttctggag ataattttca tgctgagatg
     3121 ataaatcgcc atttctgccg taatgccttt ttgtagtttt ctttcagccc cgcagggcgc
     3181 acacaatcga aacggagtgg agattgtata agtgcgcact tcgtgatttg ccgtgcatta
     3241 tgccagctca gtttttaaac taccagtgac gcgctaaaat gcgatttttc atcgcgcacg
     3301 gagttacatc atgagcagaa cgctcgaaca gaagattgct gatgctgagg cgagattaca
     3361 gcgcctgaag gcgaagagcc ggagcttgga cacagcgcag aaggttgttg tgggtgcagc
     3421 attgctggca aaggtcagaa agccggagga ggtgcagttg cgtgcctggt tactccagtt
     3481 cctgaaggca gaggtgacac gacaggctga tgtgacgcgc atactgccgc tgattaacga
     3541 gctggaggcg ctgccaggac agtgattgta tcgtccgctc gccgcagccc cagcgaccga
     3601 gcgttagcga gcgagtgggc gaggaagcgg aagtgaatcc gtcgccaggt tgagcacata
     3661 cgcacggttt ttcggcaggt gatatgcgct gaacccgcat gaatactgga tttccacagg
     3721 gttggaaggg gagtattcgg aacttgcaat tctactttct tgcaacacat tgtttttatt
     3781 tgttttttgt tttcagcacc ccaagttatc cacaggctcg ccgttaagtt tttagatctt
     3841 gtttttaaga tcttgttttt aatacttgtt ttaggggcga aattcattaa taaaatcaat
     3901 atgttgcagt ggtatatgtg gaggaattta aggtatatgt ggaggaattt aaggtgttta
     3961 ggtggaggaa tttaaggtaa aggtggagga atttaaggtg ttattcacag aaatgtgagg
     4021 atataaaaaa aaatattcca catttcttat ttgtggggca catt
//
