LOCUS       NZ_CP128949             4087 bp    DNA     circular CON 07-JUL-2023
DEFINITION  Escherichia coli strain TUM2826 plasmid pMTY2826_untypable, complete
            sequence.
ACCESSION   NZ_CP128949
VERSION     NZ_CP128949.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN35768989
            Assembly: GCF_030389755.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4087)
  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  JOURNAL   Unpublished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 4087)
  AUTHORS   Ikegaya,K., Aoki,K., Komori,K., Ishii,Y. and Tateda,K.
  TITLE     Direct Submission
  JOURNAL   Submitted (20-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                     :: 18-NOV-2021
            Assembly Method                   :: SPAdes v. v3.15.5
            Assembly Name                     :: Toho-u_TUM2826_Comp_v1.1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Reference-guided Assembly         :: missing
            Genome Coverage                   :: 75x
            Sequencing Technology             :: Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/05/2023 07:49:29
            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)                     :: 4,894
            CDSs (total)                      :: 4,786
            Genes (coding)                    :: 4,617
            CDSs (with protein)               :: 4,617
            Genes (RNA)                       :: 108
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 81
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 169
            CDSs (without protein)            :: 169
            Pseudo Genes (ambiguous residues) :: 0 of 169
            Pseudo Genes (frameshifted)       :: 66 of 169
            Pseudo Genes (incomplete)         :: 118 of 169
            Pseudo Genes (internal stop)      :: 31 of 169
            Pseudo Genes (multiple problems)  :: 41 of 169
            Pseudo Genes (short protein)      :: 3 of 169
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP128949.1.
            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..4087
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="TUM2826"
                     /db_xref="taxon:562"
                     /plasmid="pMTY2826_untypable"
                     /geo_loc_name="Japan"
                     /collection_date="2006"
                     /collected_by="Toho University School of Medicine"
     gene            complement(join(3152..4087,1..1224))
                     /gene="mobQ"
                     /locus_tag="QVM95_RS24460"
                     /old_locus_tag="QVM95_24460"
     CDS             complement(join(3152..4087,1..1224))
                     /gene="mobQ"
                     /locus_tag="QVM95_RS24460"
                     /old_locus_tag="QVM95_24460"
                     /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_023142279.1"
                     /translation="MAIYHLSMKIISRNSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPRELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPARRVADLLNIVLPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQTAFEKQWQQWGASGLAALRVQL
                     LKREEELRRKEQEDTERSRAERRAEQLRKNDNAVMDSGVLSAVVTEYGEAPMPGNGEMT
                     CYLLLHNRNGEYTLWGNELEKYRTRIFERVDLMRDRSGYICDRSEIGQHPPLQRVYSSA
                     TFEQLLTQVCQTWPQYTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLLATL
                     MPVMSSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKG
                     LRYAGYGVAVNHDADSHISPAPELMEFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRT
                     WDEWRREEDARTHATERRHDRGWSQ"
                     /name="mobQ"
     gene            1403..1657
                     /gene="mobC"
                     /locus_tag="QVM95_RS24465"
                     /old_locus_tag="QVM95_24465"
     CDS             1403..1657
                     /gene="mobC"
                     /locus_tag="QVM95_RS24465"
                     /old_locus_tag="QVM95_24465"
                     /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"
     gene            2189..2896
                     /locus_tag="QVM95_RS24470"
                     /old_locus_tag="QVM95_24470"
     CDS             2189..2896
                     /locus_tag="QVM95_RS24470"
                     /old_locus_tag="QVM95_24470"
                     /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"
     Typing          complement(867..1225)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          1226..1402
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          2190..2896
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(44..1311)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.764"
                     /coverage="98.0"
                     /evalue="0.0"
     Typing          complement(3156..4075)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.349"
                     /coverage="98.0"
                     /evalue="0.0"
ORIGIN
        1 ccggcgcaat tcctcttcac gtttaagcaa ctggactctg agagctgcaa ggccggatgc
       61 cccccactgc tgccactgtt tttcaaatgc cgtctgactc gcgggaatgt cctgtttctc
      121 caccttccgg taatgctgtc gcaatttttc catttgctgg ctcagcgact ggatttttcc
      181 ctgttcgcta cggtattccg gtgccgccca ttgcatcagg ggaatacggg aaaaaccgga
      241 cgaaaacggc gatgattttt tcaggctggc agcatggctc atcgcttcct ttcgttcggt
      301 gttcagctct tcccagcgtc tgcgcgtcgc ctgcatatct gccatcatcg acatggcatt
      361 actggtgagt ttccatgccg cattactgtc cttcggcaac gcttcgatga tgtcacgtag
      421 tgtgtacgaa gttgcgttgt caggaagcac gatattcaga aggtcagcca cacggcgggc
      481 aggctctgtc agcccgctgt ttctgagttc ggtacgggaa atctgtattt ccaggttaag
      541 tctgttaatc agacgattct gttcgccgcg ttctgtttcg ataccgcgtg tttccatcgc
      601 acaggcagac tttccgaggt gaataccagg cgttttctca agcccctgtc gctcgtatga
      661 acgatggtct atctcttcct gataaccggc gttcgccagt gccctgttcg catggtcagc
      721 ccatgatgca cgccacgtct cggcatgtgt ccggtcgttc cagtccctga cctttccacc
      781 gaatccagca ggtccgacag ctctcgtggt cagcatgatg tgcgcatggg gatttgtttt
      841 atccatgtga tggaacgcca catcagcaat catgccctga ctgacaaagt tttctctgac
      901 aaaggcgaga acggtttccc gtgcggcatc ctgcggtagt tcgcggggga tggcgagttc
      961 aatttcccgc gcaagttgtg agttcttccg gcgttcggcc ttctcaacgg cattccagag
     1021 ttcggcacgg ttcgtacacc aggcaggggc tgtcgcggga gtcagaatca cagcttcagc
     1081 cacaccgctt ttgcgggtgt agtcgtgagt cagtccggta cgctcatcaa gcatcagtga
     1141 accggaacga taggcagcag aagcaacggc gctgtagccg ctgtttctgg agatgatttt
     1201 catgctgaga tgataaatcg ccatttctgc cgtaatgcct ttttgtggtt ttctttcagc
     1261 cccgcagggc gcacacaatc gaaacggagt ggagattgta taagtgcgca cttcgtgatt
     1321 ttccgtgcat tatgccagct cagtttttaa actaccagtg acgcgctaaa atgcgatttt
     1381 tcatcgcgca cggagttaca tcatgagcag aacactcgaa cagaagattg ctgatgctga
     1441 ggccagatta cagcgcctga aggcgaagag caggagtctg gacacagcgc agaaggtcat
     1501 tgtgggtgca gcattgctgg caaaggtcag aaagccggag gaggtgcagt tgcgtgcctg
     1561 gttactccag ttcctgaagg cagaggtgac acgacaggct gatgtgacgc gcatactgcc
     1621 gctgattaac gagctggaag cgctgccagg acagtgattg tatcgtccgc tcgccgcagt
     1681 cccagcgacc gagcgttagc gagcgagtgg gcgaggaagc ggaagtgaat ccgtcgcctg
     1741 attgagcaca tacgcacggt ttttcgggag gtgatatgcg ctgaacccgc atgaatactg
     1801 gatttccaca gggttggagg gggtgtattc ggaacttgca attctgcttt tttgcaacgc
     1861 attgttttta ttggtttttt gttttcagca ctccaagtta tccacaggct cgtcgttaag
     1921 tttttagatc ttgtttttaa gatcttgttt ttaatacttg ttttagcgcc aaaattcctt
     1981 atagaaaaca aaatgttaca acgctatagg tgatatgatt taaggtaaag gtgatataat
     2041 ttaaggtgct tgggtgaggt aatttaaggt aaaggtgagg agatttaagg taatattcac
     2101 aggaaaatgg ggggtgaaaa tataattgct caccaatgct aaaggtgata ggtttttatt
     2161 tcacctcatt tttggcctgg tggttaaaat gacatcaaac cctctgatag cctataagtc
     2221 caatgcgctg gttgaggcca gttacaagct aactttacaa gaacagcgtt tcttattgct
     2281 ctgcataagc cgacttaact ccggtactga cgtagcttca cctgaattgc aaaagacaat
     2341 gaccattaca gctgcggaat attttgattc attccctgat atggggcgga aaaatgccga
     2401 ggttcagcta caggaagcga tcgatcgttt gtgggacagg tcgatcattc tcaaggacga
     2461 cgagaagcgc gaggagttcc gctggattca gtatcgggca cagtacgcga ggggagaggg
     2521 gaaagcacaa atcacttttt ctgacgcggt aatgccttat ctgacacagt tgaaggggca
     2581 attcaccaga gtcgtcatta aaaatatttc taatttatca agaagttaca gcataagaat
     2641 atacgaaatt ctccagcaat tccgcagtac tggggaacgt attatcgccc tcgatgattt
     2701 taaatcatca ctgatgcttg atggtaaata taaagatttc aaaacgttaa acagggatct
     2761 aataaaaccc tgtgttgacg aactgaacaa aaaaagcgac ctggctgtaa cggttgagac
     2821 gatcaaaaag gggcgcacgg ttgtagccct gcattttcgc ttcaaggaag acaaacagat
     2881 caagatgacg atctagaatc gattttaagg cacctaaaac gctccctgct gcgttttttt
     2941 tgtgttagta gtgcgaaggt actattgaag tgaaaaattg cgtcaaaagc gctctaatgc
     3001 agcgaaaaaa gaacccccat ttttcggggg cggaaaaaca aaactatgct tgcattatgt
     3061 gtgtgcttct tgcattcatc cctgtcgatg aacatcgaag aacatcgacg aacataacac
     3121 gatgttaaac aaaacaaaat attgttcaca ttcactgtga ccaaccgcga tcatgtctcc
     3181 tctcggtggc gtgtgttcgt gcatcttcct cgcgccgcca ttcgtcccag gtacgattaa
     3241 aacccagcga gcggaacaga tgatccggct gtttttctgg tgtgttgacg gcagcaaaaa
     3301 gcggtgcctc acgggttttc agatgaaact ccataagttc cggcgcaggt gatatgtggc
     3361 tgtctgcatc gtgatttacg gcaacaccat accctgcata ccgtaacccc ttatcggtca
     3421 gtgcactgat gaccagctgg ctgttatcgg ctgagggaac ggcaaacgcg ggatacagcg
     3481 taccattaag ccggacaaca ccgcccagag agtcatccac gcccatgacc agcaaaagct
     3541 gaagctggcg ggtttcccgg tcgacagaac tcattaccgg catcagcgtc gctagcagac
     3601 gtccctgcgt aaaatccacc ttccttgctg ccagtgatgg catggctggc tggcggtctt
     3661 ctccaagaca gaaagactcc ggccatgtct tcggctggcg gagattgcgg gtatattgcg
     3721 gccatgtctg gcaaacctgc gtcagaagtt gctcaaaggt cgcagaggaa taaacacgtt
     3781 gcagtggtgg atgttgaccg atttcgcttc ggtcacagat ataaccactc ctgtcacgca
     3841 ttaaatcaac acgctcaaag attctggtgc ggtatttctc cagctcgttc ccccagagcg
     3901 tgtattctcc gttccggttg tgaagcagaa ggtaacaggt catttccccg ttaccaggca
     3961 tgggggcctc gccatactcc gtaacgactg cgctcagtac ccctgaatcc ataacggcat
     4021 tgtcattttt cctgagctgt tccgctcgtc gctccgcgcg actacgttct gtatcctcct
     4081 gctcctt
//
