LOCUS       NZ_CP128891             4077 bp    DNA     circular CON 07-JUL-2023
DEFINITION  Escherichia coli strain TUM14697 plasmid pMTY14697_untypable,
            complete sequence.
ACCESSION   NZ_CP128891
VERSION     NZ_CP128891.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN35654570
            Assembly: GCF_030389235.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4077)
  AUTHORS   Ikegaya,K., Aoki,K., Komori,K., Ishii,Y. and Tateda,K.
  TITLE     Analysis of the stepwise acquisition of blaCTX-M-2 and subsequent
            acquisition of either blaIMP-1 or blaIMP-6 in highly conserved
            IncN-pST5 plasmids
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4077)
  AUTHORS   Ikegaya,K., Aoki,K., Komori,K., Ishii,Y. and Tateda,K.
  TITLE     Direct Submission
  JOURNAL   Submitted (22-JUN-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                     :: 01-JUN-2023
            Assembly Method                   :: SPAdes v. v3.15.5
            Assembly Name                     :: Toho-u_TUM14697_Comp_v1.1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Reference-guided Assembly         :: missing
            Genome Coverage                   :: 177x
            Sequencing Technology             :: Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/05/2023 07:15:44
            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)                     :: 4,809
            CDSs (total)                      :: 4,694
            Genes (coding)                    :: 4,546
            CDSs (with protein)               :: 4,546
            Genes (RNA)                       :: 115
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 148
            CDSs (without protein)            :: 148
            Pseudo Genes (ambiguous residues) :: 0 of 148
            Pseudo Genes (frameshifted)       :: 55 of 148
            Pseudo Genes (incomplete)         :: 95 of 148
            Pseudo Genes (internal stop)      :: 33 of 148
            Pseudo Genes (multiple problems)  :: 31 of 148
            Pseudo Genes (short protein)      :: 3 of 148
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP128891.1.
            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..4077
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="TUM14697"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pMTY14697_untypable"
                     /geo_loc_name="Japan"
                     /collection_date="2014"
                     /collected_by="Toho University School of Medicine"
     gene            join(3120..4077,1..1202)
                     /gene="mobQ"
                     /locus_tag="QVN08_RS24035"
                     /old_locus_tag="QVN08_24035"
     CDS             join(3120..4077,1..1202)
                     /gene="mobQ"
                     /locus_tag="QVN08_RS24035"
                     /old_locus_tag="QVN08_24035"
                     /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_109043141.1"
                     /translation="MAIYHLSMKIISRNSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPRELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPDRRVADLLNIVLPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQTAFEKQWQQWGASGLAALRVQL
                     LKREEELRRKEQEDTERSRAERRAEQLRKNDNAVMDSGVLSAVVTEYGEAPMPGNGEMT
                     CYLLLHNRNGEYTLWGNELEKYRTRIFERVDLMRDRSGYICDRSEIGQHPPLQRVYSSA
                     TFEQLLTQVCQTWPQYTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLLATL
                     MPVMSSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKG
                     LRYAGYGVAVNHDADSHISPAPELMEFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRT
                     WDEWRREEDARTHATERRHDRGWSQ"
                     /name="mobQ"
     gene            complement(1448..2155)
                     /locus_tag="QVN08_RS24040"
                     /old_locus_tag="QVN08_24040"
     CDS             complement(1448..2155)
                     /locus_tag="QVN08_RS24040"
                     /old_locus_tag="QVN08_24040"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001296720.1"
                     /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_001296720.1"
                     /translation="MTSNPLIAYKSNALVEASYKLTLQEQRFLLLCISRLNSGTDVASP
                     ELQKTMTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKDDEKREEFRWIQYRA
                     QYARGEGKAQITFSDAVMPYLTQLKGQFTRVVIKNISNLSRSYSIRIYEILQQFRSTGE
                     RIIALDDFKSSLMLDGKYKDFKTLNRDLIKPCVDELNKKSDLAVTVETIKKGRTVVALH
                     FRFKEDKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(2687..2941)
                     /gene="mobC"
                     /locus_tag="QVN08_RS24045"
                     /old_locus_tag="QVN08_24045"
     CDS             complement(2687..2941)
                     /gene="mobC"
                     /locus_tag="QVN08_RS24045"
                     /old_locus_tag="QVN08_24045"
                     /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(2943..3119)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          3120..3478
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(1449..2155)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          4..1199
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.499"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          3034..4076
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.425"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 gcctgaaaaa atcatcgccg ttttcgtccg gtttttcccg tattcccctg atgcaatggg
       61 cggcaccgga ataccgtagc gaacagggaa aaatccagtc gctgagccag caaatggaaa
      121 aattgcgaca gcattaccgg aaggtggaga aacaggacat tcccgcgagt cagacggcat
      181 ttgaaaaaca gtggcagcag tggggggcat ccggccttgc agctctcaga gtccagttgc
      241 ttaaacgtga agaggaattg cgccggaagg agcaggagga tacagaacgt agtcgcgcgg
      301 agcgacgagc ggaacagctc aggaaaaatg acaatgccgt tatggattca ggggtactga
      361 gcgcagtcgt tacggagtat ggcgaggccc ccatgcctgg taacggggaa atgacctgtt
      421 accttctgct tcacaaccgg aacggagaat acacgctctg ggggaacgag ctggagaaat
      481 accgcaccag aatctttgag cgtgttgatt taatgcgtga caggagtggt tatatctgtg
      541 accgaagcga aatcggtcaa catccaccac tgcaacgtgt ttattcctct gcgacctttg
      601 agcaacttct gacgcaggtt tgccagacat ggccgcaata tacccgcaat ctccgccagc
      661 cgaagacatg gccggagtct ttctgtcttg gagaagaccg ccagccagcc atgccatcac
      721 tggcagcaag gaaggtggat tttacgcagg gacgtctgct agcgacgctg atgccggtaa
      781 tgagttctgt cgaccgggaa acccgccagc ttcagctttt gctggtcatg ggcgtggatg
      841 actctctggg cggtgttgtc cggcttaatg gtacgctgta tcccgcgttt gccgttccct
      901 cagccgataa cagccagctg gtcatcagtg cactgaccga taaggggtta cggtatgcag
      961 ggtatggtgt tgccgtaaat cacgatgcag acagccacat atcacctgcg ccggaactta
     1021 tggagtttca tctgaaaacc cgtgaggcac cgctttttgc tgccgtcaac acaccagaaa
     1081 aacagccgga tcatctgttc cgctcgctgg gttttaatcg tacctgggac gaatggcggc
     1141 gcgaggaaga tgcacgaaca cacgccaccg agaggagaca tgatcgcggt tggtcacagt
     1201 gaatgtgaac aatattttgt tttgtttaac atcgtgttat gttcgtcgat gttcatcgac
     1261 agggatgaat gcaagaagca cacacataat gcaagcatag ttttgttttt ccgcccccga
     1321 aaaatggggg ttcttttttc gctgcattag agcgcttttg acgcaatttt tcacttcaat
     1381 agtaccttcg cactactaac acaaaaaaaa cgcagcaggg agcgttttag gtgccttaaa
     1441 atcgattcta gatcgtcatc ttgatctgtt tgtcttcctt gaagcgaaaa tgcagggcta
     1501 caaccgtgcg cccctttttg atcgtctcaa ccgttacagc caggtcgctt tttttgttca
     1561 gttcgtcaac acagggtttt attagatccc tgtttaacgt tttgaaatct ttatatttac
     1621 catcaagcat cagtgatgat ttaaaatcat cgagggcgat aatacgttcc ccagtactgc
     1681 ggaattgctg gagaatttcg tatattctta tgctgtaact tcttgataaa ttagaaatat
     1741 ttttaatgac gactctggtg aattgcccct tcaactgtgt cagataaggc attaccgcgt
     1801 cagaaaaagt gatttgtgct ttcccctctc ccctcgcgta ctgtgcccga tactgaatcc
     1861 agcggaactc ctcgcgcttc tcgtcgtcct tgagaatgat cgacctgtcc cacaaacgat
     1921 cgatcgcttc ctgtagctga acctcggcat ttttccgccc catatcaggg aatgaatcaa
     1981 aatattccgc agctgtaatg gtcattgtct tttgcaattc aggtgaagct acgtcagtac
     2041 cggagttaag tcggcttatg cagagcaata agaaacgctg ttcttgtaaa gttagcttgt
     2101 aactggcctc aaccagcgca ttggacttat aggctatcag agggtttgat gtcattttaa
     2161 ccaccaggcc aaaaatgagg tgaaataaaa acctatcacc tttagcattg gtgagcaatt
     2221 atattttcac cccccatttt cctgtgaata ttaccttaaa tctcctcacc tttaccttaa
     2281 attacctcac ccaagcacct taaattatat cacctttacc ttaaatcata tcacctatag
     2341 cgttgtaaca ttttgttttc tataaggaat tttggcgcta aaacaagtat taaaaacaag
     2401 atcttaaaaa caagatctaa aaacttaacg acgagcctgt ggataacttg gagtgctgaa
     2461 aacaaaaaac caataaaaac aatgcgttgc aaaaaagcag aattgcaagt tccgaataca
     2521 ccccctccaa ccctgtggaa atccagtatt catgcgggtt cagcgcatat cacctcccga
     2581 aaaaccgtgc gtatgtgctc aatcaggcga cggattcact tccgcttcct cgcccactcg
     2641 ctcgctaacg ctcggtcgct gggactgcgg cgagcggacg atacaatcac tgtcctggca
     2701 gcgcttccag ctcgttaatc agcggcagta tgcgcgtcac atcagcctgt cgtgtcacct
     2761 ctgccttcag gaactggagt aaccaggcac gcaactgcac ctcctccggc tttctgacct
     2821 ttgccagcaa tgctgcaccc acaatgacct tctgcgctgt gtccagactc ctgctcttcg
     2881 ccttcaggcg ctgtaatctg gcctcagcat cagcaatctt ctgttcgagt gttctgctca
     2941 tgatgtaact ccgtgcgcga tgaaaaatcg cattttagcg cgtcactggt agtttaaaaa
     3001 ctgagctggc ataatgcacg gaaaatcacg aagtgcgcac ttatacaatc tccactccgt
     3061 ttcgattgtg tgcgccctgc ggggctgaaa gaaaaccaca aaaaggcatt acggcagaaa
     3121 tggcgattta tcatctcagc atgaaaatca tctccagaaa cagcggctac agcgccgttg
     3181 cttctgctgc ctatcgttcc ggttcactga tgcttgatga gcgtaccgga ctgactcacg
     3241 actacacccg caaaagcggt gtggctgaag ctgtgattct gactcccgcg acagcccctg
     3301 cctggtgtac gaaccgtgcc gaactctgga atgccgttga gaaggccgaa cgccggaaga
     3361 actcacaact tgcgcgggaa attgaactcg ccatcccccg cgaactaccg caggatgccg
     3421 cacgggaaac cgttctcgcc tttgtcagag aaaactttgt cagtcagggc atgattgctg
     3481 atgtggcgtt ccatcacatg gataaaacaa atccccatgc gcacatcatg ctgaccacga
     3541 gagctgtcgg acctgctgga ttcggtggaa aggtcaggga ctggaacgac cggacacatg
     3601 ccgagacgtg gcgtgcatca tgggctgacc atgcgaacag ggcactggcg aacgccggtt
     3661 atcaggaaga gatagaccat cgttcatacg agcgacaggg gcttgagaaa acgcctggta
     3721 ttcacctcgg aaagtctgcc tgtgcgatgg aaacacgcgg tatcgaaaca gaacgcggcg
     3781 aacagaatcg tctgattaac agacttaacc tggaaataca gatttcccgt accgaactca
     3841 gaaacagcgg gctgacagag cctgaccgcc gtgtggctga ccttctgaat atcgtgcttc
     3901 ctgacaacgc aacttcgtac acactacgtg acatcatcga agcgttgccg aaggacagta
     3961 atgcggcatg gaaactcacc agtaatgcca tgtcgatgat ggcagatatg caggcgacgc
     4021 gcagacgctg ggaagagctg aacaccgaac gaaaggaagc gatgagccat gctgcca
//
