LOCUS       NZ_CP128911             4087 bp    DNA     circular CON 07-JUL-2023
DEFINITION  Escherichia coli strain TUM13881 plasmid pMTY13881_untypable,
            complete sequence.
ACCESSION   NZ_CP128911
VERSION     NZ_CP128911.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN35654555
            Assembly: GCF_030389275.1
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  JOURNAL   Unpublished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 (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_TUM13881_Comp_v1.1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Reference-guided Assembly         :: missing
            Genome Coverage                   :: 66x
            Sequencing Technology             :: Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/05/2023 07:21:31
            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)                     :: 5,008
            CDSs (total)                      :: 4,898
            Genes (coding)                    :: 4,692
            CDSs (with protein)               :: 4,692
            Genes (RNA)                       :: 110
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 83
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 206
            CDSs (without protein)            :: 206
            Pseudo Genes (ambiguous residues) :: 0 of 206
            Pseudo Genes (frameshifted)       :: 95 of 206
            Pseudo Genes (incomplete)         :: 128 of 206
            Pseudo Genes (internal stop)      :: 35 of 206
            Pseudo Genes (multiple problems)  :: 46 of 206
            Pseudo Genes (short protein)      :: 3 of 206
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP128911.1.
            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="TUM13881"
                     /isolation_source="drain drainage"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pMTY13881_untypable"
                     /geo_loc_name="Japan"
                     /collection_date="2013"
                     /collected_by="Toho University School of Medicine"
     gene            join(2976..4087,1..1048)
                     /gene="mobQ"
                     /locus_tag="QVN13_RS25030"
                     /old_locus_tag="QVN13_25030"
     CDS             join(2976..4087,1..1048)
                     /gene="mobQ"
                     /locus_tag="QVN13_RS25030"
                     /old_locus_tag="QVN13_25030"
                     /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            complement(1304..2011)
                     /locus_tag="QVN13_RS25035"
                     /old_locus_tag="QVN13_25035"
     CDS             complement(1304..2011)
                     /locus_tag="QVN13_RS25035"
                     /old_locus_tag="QVN13_25035"
                     /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(2543..2797)
                     /gene="mobC"
                     /locus_tag="QVN13_RS25040"
                     /old_locus_tag="QVN13_25040"
     CDS             complement(2543..2797)
                     /gene="mobC"
                     /locus_tag="QVN13_RS25040"
                     /old_locus_tag="QVN13_25040"
                     /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(2799..2975)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          2976..3334
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(1305..2011)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          3..1045
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.425"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          2890..4085
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.749"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 ggacattccc gcgagtcaga cggcatttga aaaacagtgg cagcagtggg gggcatccgg
       61 ccttgcagct ctcagagtcc agttgcttaa acgtgaagag gaattgcgcc ggaaggagca
      121 ggaggataca gaacgtagtc gcgcggagcg acgagcggaa cagctcagga aaaatgacaa
      181 tgccgttatg gattcagggg tactgagcgc agtcgttacg gagtatggcg aggcccccat
      241 gcctggtaac ggggaaatga cctgttacct tctgcttcac aaccggaacg gagaatacac
      301 gctctggggg aacgagctgg agaaataccg caccagaatc tttgagcgtg ttgatttaat
      361 gcgtgacagg agtggttata tctgtgaccg aagcgaaatc ggtcaacatc caccactgca
      421 acgtgtttat tcctctgcga cctttgagca acttctgacg caggtttgcc agacatggcc
      481 gcaatatacc cgcaatctcc gccagccgaa gacatggccg gagtctttct gtcttggaga
      541 agaccgccag ccagccatgc catcactggc agcaaggaag gtggatttta cgcagggacg
      601 tctgctagcg acgctgatgc cggtaatgag ttctgtcgac cgggaaaccc gccagcttca
      661 gcttttgctg gtcatgggcg tggatgactc tctgggcggt gttgtccggc ttaatggtac
      721 gctgtatccc gcgtttgccg ttccctcagc cgataacagc cagctggtca tcagtgcact
      781 gaccgataag gggttacggt atgcagggta tggtgttgcc gtaaatcacg atgcagacag
      841 ccacatatca cctgcgccgg aacttatgga gtttcatctg aaaacccgtg aggcaccgct
      901 ttttgctgcc gtcaacacac cagaaaaaca gccggatcat ctgttccgct cgctgggttt
      961 taatcgtacc tgggacgaat ggcggcgcga ggaagatgca cgaacacacg ccaccgagag
     1021 gagacatgat cgcggttggt cacagtgaat gtgaacaata ttttgttttg tttaacatcg
     1081 tgttatgttc gtcgatgttc ttcgatgttc atcgacaggg atgaatgcaa gaagcacaca
     1141 cataatgcaa gcatagtttt gtttttccgc ccccgaaaaa tgggggttct tttttcgctg
     1201 cattagagcg cttttgacgc aatttttcac ttcaatagta ccttcgcact actaacacaa
     1261 aaaaaacgca gcagggagcg ttttaggtgc cttaaaatcg attctagatc gtcatcttga
     1321 tctgtttgtc ttccttgaag cgaaaatgca gggctacaac cgtgcgcccc tttttgatcg
     1381 tctcaaccgt tacagccagg tcgctttttt tgttcagttc gtcaacacag ggttttatta
     1441 gatccctgtt taacgttttg aaatctttat atttaccatc aagcatcagt gatgatttaa
     1501 aatcatcgag ggcgataata cgttccccag tactgcggaa ttgctggaga atttcgtata
     1561 ttcttatgct gtaacttctt gataaattag aaatattttt aatgacgact ctggtgaatt
     1621 gccccttcaa ctgtgtcaga taaggcatta ccgcgtcaga aaaagtgatt tgtgctttcc
     1681 cctctcccct cgcgtactgt gcccgatact gaatccagcg gaactcctcg cgcttctcgt
     1741 cgtccttgag aatgatcgac ctgtcccaca aacgatcgat cgcttcctgt agctgaacct
     1801 cggcattttt ccgccccata tcagggaatg aatcaaaata ttccgcagct gtaatggtca
     1861 ttgtcttttg caattcaggt gaagctacgt cagtaccgga gttaagtcgg cttatgcaga
     1921 gcaataagaa acgctgttct tgtaaagtta gcttgtaact ggcctcaacc agcgcattgg
     1981 acttataggc tatcagaggg tttgatgtca ttttaaccac caggccaaaa atgaggtgaa
     2041 ataaaaacct atcaccttta gcattggtga gcaattatat tttcaccccc cattttcctg
     2101 tgaatattac cttaaatctc ctcaccttta ccttaaatta cctcacccaa gcaccttaaa
     2161 ttatatcacc tttaccttaa atcatatcac ctatagcgtt gtaacatttt gttttctata
     2221 aggaattttg gcgctaaaac aagtattaaa aacaagatct taaaaacaag atctaaaaac
     2281 ttaacgacga gcctgtggat aacttggagt gctgaaaaca aaaaaccaat aaaaacaatg
     2341 cgttgcaaaa aagcagaatt gcaagttccg aatacacccc ctccaaccct gtggaaatcc
     2401 agtattcatg cgggttcagc gcatatcacc tcccgaaaaa ccgtgcgtat gtgctcaatc
     2461 aggcgacgga ttcacttccg cttcctcgcc cactcgctcg ctaacgctcg gtcgctggga
     2521 ctgcggcgag cggacgatac aatcactgtc ctggcagcgc ttccagctcg ttaatcagcg
     2581 gcagtatgcg cgtcacatca gcctgtcgtg tcacctctgc cttcaggaac tggagtaacc
     2641 aggcacgcaa ctgcacctcc tccggctttc tgacctttgc cagcaatgct gcacccacaa
     2701 tgaccttctg cgctgtgtcc agactcctgc tcttcgcctt caggcgctgt aatctggcct
     2761 cagcatcagc aatcttctgt tcgagtgttc tgctcatgat gtaactccgt gcgcgatgaa
     2821 aaatcgcatt ttagcgcgtc actggtagtt taaaaactga gctggcataa tgcacggaaa
     2881 atcacgaagt gcgcacttat acaatctcca ctccgtttcg attgtgtgcg ccctgcgggg
     2941 ctgaaagaaa accacaaaaa ggcattacgg cagaaatggc gatttatcat ctcagcatga
     3001 aaatcatctc cagaaacagc ggctacagcg ccgttgcttc tgctgcctat cgttccggtt
     3061 cactgatgct tgatgagcgt accggactga ctcacgacta cacccgcaaa agcggtgtgg
     3121 ctgaagctgt gattctgact cccgcgacag cccctgcctg gtgtacgaac cgtgccgaac
     3181 tctggaatgc cgttgagaag gccgaacgcc ggaagaactc acaacttgcg cgggaaattg
     3241 aactcgccat cccccgcgaa ctaccgcagg atgccgcacg ggaaaccgtt ctcgcctttg
     3301 tcagagaaaa ctttgtcagt cagggcatga ttgctgatgt ggcgttccat cacatggata
     3361 aaacaaatcc ccatgcgcac atcatgctga ccacgagagc tgtcggacct gctggattcg
     3421 gtggaaaggt cagggactgg aacgaccgga cacatgccga gacgtggcgt gcatcatggg
     3481 ctgaccatgc gaacagggca ctggcgaacg ccggttatca ggaagagata gaccatcgtt
     3541 catacgagcg acaggggctt gagaaaacgc ctggtattca cctcggaaag tctgcctgtg
     3601 cgatggaaac acgcggtatc gaaacagaac gcggcgaaca gaatcgtctg attaacagac
     3661 ttaacctgga aatacagatt tcccgtaccg aactcagaaa cagcgggctg acagagcctg
     3721 cccgccgtgt ggctgacctt ctgaatatcg tgcttcctga caacgcaact tcgtacacac
     3781 tacgtgacat catcgaagcg ttgccgaagg acagtaatgc ggcatggaaa ctcaccagta
     3841 atgccatgtc gatgatggca gatatgcagg cgacgcgcag acgctgggaa gagctgaaca
     3901 ccgaacgaaa ggaagcgatg agccatgctg ccagcctgaa aaaatcatcg ccgttttcgt
     3961 ccggtttttc ccgtattccc ctgatgcaat gggcggcacc ggaataccgt agcgaacagg
     4021 gaaaaatcca gtcgctgagc cagcaaatgg aaaaattgcg acagcattac cggaaggtgg
     4081 agaaaca
//
