LOCUS       NZ_CP128885             4076 bp    DNA     circular CON 07-JUL-2023
DEFINITION  Escherichia coli strain TUM14759 plasmid pMTY14759_untypable3,
            complete sequence.
ACCESSION   NZ_CP128885
VERSION     NZ_CP128885.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN35654571
            Assembly: GCF_030389215.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4076)
  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  JOURNAL   Unpublished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 4076)
  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_TUM14759_Comp_v1.1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Reference-guided Assembly         :: missing
            Genome Coverage                   :: 61x
            Sequencing Technology             :: Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/05/2023 07:44:22
            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)                     :: 5,236
            CDSs (total)                      :: 5,117
            Genes (coding)                    :: 4,856
            CDSs (with protein)               :: 4,856
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 261
            CDSs (without protein)            :: 261
            Pseudo Genes (ambiguous residues) :: 0 of 261
            Pseudo Genes (frameshifted)       :: 146 of 261
            Pseudo Genes (incomplete)         :: 132 of 261
            Pseudo Genes (internal stop)      :: 34 of 261
            Pseudo Genes (multiple problems)  :: 45 of 261
            Pseudo Genes (short protein)      :: 4 of 261
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP128885.1.
            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..4076
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="TUM14759"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pMTY14759_untypable3"
                     /geo_loc_name="Japan"
                     /collection_date="2014"
                     /collected_by="Toho University School of Medicine"
     gene            join(2168..4076,1..239)
                     /gene="mobQ"
                     /locus_tag="QVN09_RS26145"
                     /old_locus_tag="QVN09_26145"
     CDS             join(2168..4076,1..239)
                     /gene="mobQ"
                     /locus_tag="QVN09_RS26145"
                     /old_locus_tag="QVN09_26145"
                     /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_072646424.1"
                     /translation="MAIYHLSMKIISRSNGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPRELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANADYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPARRVADLLNIGLPDNATSYTLRDIIEALPKDSN
                     SAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQMAFEKQWQQWGESGLAALRAQL
                     LKREEELRRKEQEDTERSRAEQLRKNDNAVMDSGVLRAVVTGYGEAPMPGNGEMTCYLL
                     LHNRNGEYTLWGNELEKYRTRIFESVDLMRDRSGYICDRSEIGQRPPLQRVYSSATFEQ
                     LLTQVCQTWPQHTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLPPTLMPVM
                     SSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKGLRYA
                     GYGVAVNHDADSHISPAPELMEFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRTWDEW
                     RREEDARTHTTERRHDRGWSQ"
                     /name="mobQ"
     gene            complement(497..1204)
                     /locus_tag="QVN09_RS26150"
                     /old_locus_tag="QVN09_26150"
     CDS             complement(497..1204)
                     /locus_tag="QVN09_RS26150"
                     /old_locus_tag="QVN09_26150"
                     /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(1735..1989)
                     /gene="mobC"
                     /locus_tag="QVN09_RS26155"
                     /old_locus_tag="QVN09_26155"
     CDS             complement(1735..1989)
                     /gene="mobC"
                     /locus_tag="QVN09_RS26155"
                     /old_locus_tag="QVN09_26155"
                     /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_000091749.1"
                     /translation="MSRTLEQKIAEAEARLQRLKAKSRSLDTAQKVIVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPEQ"
                     /name="mobC"
     Typing          complement(1994..2167)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.286"
                     /coverage="98.0"
                     /evalue="2.6299999999999998e-81"
     Typing          2168..2526
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.222"
                     /coverage="100.0"
                     /evalue="3.97e-172"
     Typing          complement(498..1204)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          2082..4075
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.16"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 atggtgttgc cgtaaatcac gatgcagaca gccacatatc acctgcgccg gaacttatgg
       61 agtttcatct gaaaacccgt gaggcaccgc tttttgctgc cgtcaacaca ccagaaaaac
      121 agccggatca tctgttccgc tcgctgggtt tcaatcgtac ctgggacgaa tggcggcgcg
      181 aggaagatgc aagaacacac accaccgaga ggagacatga tcgcggttgg tcacagtgaa
      241 tgtgaacaat attttgtttt gtttaacatc gtgttatgtt cgtcgatgtt cttcgatgtt
      301 catcgacagg gatgaatgca agaagcacac tcacataatg caagcatagt tttgtttttc
      361 cgcccccaaa aattgggggt tctttttttg ctgcatcaga gcgtttttga cgcaactttt
      421 cacttcaatg gtaccttcgt attcctgaca caagaaaaac gcgacagtga gcgttttagg
      481 tgccttaaaa tcgattctag atcgtcatct tgatctgttt gtcttccttg aagcgaaaat
      541 gcagggctac aaccgtgcgc ccctttttga tcgtctcaac cgttacagcc aggtcgcttt
      601 ttttgttcag ttcgtcaaca cagggtttta ttagatccct gtttaacgtt ttgaaatctt
      661 tatatttacc atcaagcatc agtgatgatt taaaatcatc gagggcgata atacgttccc
      721 cagtactgcg gaattgctgg agaatttcgt atattcttat gctgtaactt cttgataaat
      781 tagaaatatt tttaatgacg actctggtga attgcccctt caactgtgtc agataaggca
      841 ttaccgcgtc agaaaaagtg atttgtgctt tcccctctcc cctcgcgtac tgtgcccgat
      901 actgaatcca gcggaactcc tcgcgcttct cgtcgtcctt gagaatgatc gacctgtccc
      961 acaaacgatc gatcgcttcc tgtagctgaa cctcggcatt tttccgcccc atatcaggga
     1021 atgaatcaaa atattccgca gctgtaatgg tcattgtctt ttgcaattca ggtgaagcta
     1081 cgtcagtacc ggagttaagt cggcttatgc agagcaataa gaaacgctgt tcttgtaaag
     1141 ttagcttgta actggcctca accagcgcat tggacttata ggctatcaga gggtttgatg
     1201 tcattttaac caccaggcca aaaatgaggt gaaataaaaa cctatcacct ttagcattgg
     1261 tgagcaatta tattttcacc ccccattttc ctgtgaatat taccttaaat ctcctcacct
     1321 ttaccttaaa ttacctcacc caagcacctt aaattatatc acctttacct taaattcccc
     1381 cacctatgca cgtgtaacgc attgttttta atcaggaatt tcgaccctaa aacaagtatt
     1441 aaaaacaaga tcttaaaaac aagatctaaa aacttaacgg cgagcctgtg gataacttgg
     1501 ggtgctgaaa ataaaaatca aataaaaaca atgtattgca aaaaatcagg attgaaaatt
     1561 ccgaatacac cccctccaac cctgtggaaa tccagtattc atgcgggttc agcgcatatc
     1621 acctgtcgaa aaaccgtgcg tatgtgctca acctggcgac tgattcactt ccgcttcctc
     1681 gcccactcgc tcgctaacgt tcggtcgctg ggctgcggcg agcggacgat acaatcactg
     1741 ctctggcagc gcctccagct cgttaatcag cggcagtatt cgcgtcacat cagcctgccg
     1801 tgtcacctct gccttcagga actggagtaa ccaagctcgc aactgcactt cctccggctt
     1861 tctgaccttt gccagcaatg ctgcacccac aatgaccttc tgcgctgtgt ccaggctccg
     1921 gctcttcgcc ttcaggcgct gtaatctggc ctcagcttcg gcaatcttct gttcgagtgt
     1981 tctgctcatt tcgtgactcc gtgcgcggtg aaaaatcgca ttttagcgcg tcactggtag
     2041 tttaaaaact gagctggcat aatgcacggc aaatcacgaa gtgcgcactt atacaatctc
     2101 cactccgttt cgattgtgtg cgccctgcgg ggctgaaaga aaactgcaaa aaggcattac
     2161 ggcagaaatg gcgatttatc atctcagtat gaaaatcatc tccagaagca acggctacag
     2221 cgccgttgct tctgctgcct atcgttctgg ttcactaatg cttgatgagc gtaccggact
     2281 gactcacgac tacacccgca aaagcggtgt ggctgaggct gtgattctga cccccgcgac
     2341 agcccctgcc tggtgtacga accgtgccga actctggaat gccgttgaga aggccgaacg
     2401 ccggaagaac tcacaacttg cgcgggaaat tgaactcgct atcccccgtg aactgccgca
     2461 ggatgccgca cgggaaaccg ttctcgcctt tgtcagagaa aactttgtca gtcagggcat
     2521 gattgctgat gtggcgttcc atcacatgga taaaacaaat ccccatgcgc acatcatgct
     2581 gaccacgagg gctgtcggac ctgctgggtt cggcggaaag gtcagggact ggaacgaccg
     2641 gacacatgcc gagacgtggc gtgcatcatg ggctgaccat gcaaacagag cactggcgaa
     2701 cgccgattat caggaagaga tagaccatcg ttcatacgag cgacaggggc ttgagaaaac
     2761 gcctggtatt cacctcggaa agtctgcctg tgcgatggaa acacgcggta tcgaaacaga
     2821 acgcggcgaa cagaatcgtc tgattaacag gcttaacctg gaaatacaga tttcccgcac
     2881 tgaactcagg aacagcgggc tgacagagcc tgcccgccgt gtggctgacc ttctgaatat
     2941 cgggcttcct gacaacgcaa cttcgtacac actacgtgac attatcgaag cgttgccgaa
     3001 ggacagtaac tcggcatgga aactcaccag taatgccatg tcgatgatgg cagatatgca
     3061 ggcgacgcgc agacgctggg aagagctgaa caccgaacga aaggaagcga tgagccatgc
     3121 tgccagcctg aaaaaatcat cgccgttttc gtccggtttt tcccgtattc cccttatgca
     3181 atgggcggca ccggaatacc gtagtgagca gggaaaaatc cagtctctga gccagcaaat
     3241 ggaaaaatta cgacagcatt accggaaggt ggagaaacag gacattcccg cgagtcagat
     3301 ggcatttgaa aaacagtggc agcagtgggg ggaatccggc cttgcagctc tcagagccca
     3361 gttgcttaaa cgtgaagagg aattgcgccg gaaggaacag gaagatactg aacgtagtcg
     3421 cgcggagcag ctcaggaaaa atgacaatgc cgttatggat tcaggggtgc tgagagcagt
     3481 cgttacgggg tatggcgagg ctcccatgcc tggtaacggg gaaatgacct gttaccttct
     3541 gcttcacaac cggaacggag aatatacgct ctgggggaac gagctggaga aataccgcac
     3601 cagaatcttt gagagtgttg atttaatgcg tgacaggagt ggttatatct gtgaccgaag
     3661 cgaaatcggc caacgtccgc cactgcaacg tgtttattcc tctgcaacct ttgagcaact
     3721 gctgacgcag gtttgccaga catggccgca acatacccgc aatctccgcc agccgaagac
     3781 atggccggag tctttctgtc ttggagaaga ccgccagcca gccatgccat cactggcagc
     3841 aaggaaggtg gattttacgc agggacgtct gccaccgacg ctgatgccgg taatgagttc
     3901 tgtcgaccgg gaaacccgcc agcttcagct tttgctggtc atgggcgtgg atgactctct
     3961 gggcggtgtt gtccggctta atggtacgct gtatcccgcg tttgccgttc cctcagccga
     4021 taacagccag ctggtcatca gtgcactgac cgataagggg ttacggtatg cagggt
//
