LOCUS       NZ_CP135717             4074 bp    DNA     circular CON 07-OCT-2023
DEFINITION  Escherichia coli strain TUM1586 plasmid pMTY1586_untypable2,
            complete sequence.
ACCESSION   NZ_CP135717
VERSION     NZ_CP135717.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN35768946
            Assembly: GCF_032375165.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4074)
  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  JOURNAL   Unpublished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 4074)
  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_TUM1586_Comp_v1.1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Reference-guided Assembly         :: missing
            Genome Coverage                   :: 90x
            Sequencing Technology             :: Complete Genomics
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 10/07/2023 14:16:09
            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)                     :: 5,396
            CDSs (total)                      :: 5,269
            Genes (coding)                    :: 5,070
            CDSs (with protein)               :: 5,070
            Genes (RNA)                       :: 127
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 99
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 199
            CDSs (without protein)            :: 199
            Pseudo Genes (ambiguous residues) :: 0 of 199
            Pseudo Genes (frameshifted)       :: 68 of 199
            Pseudo Genes (incomplete)         :: 148 of 199
            Pseudo Genes (internal stop)      :: 29 of 199
            Pseudo Genes (multiple problems)  :: 43 of 199
            Pseudo Genes (short protein)      :: 4 of 199
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP135717.1.
            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..4074
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="TUM1586"
                     /db_xref="taxon:562"
                     /plasmid="pMTY1586_untypable2"
                     /geo_loc_name="Japan"
                     /collection_date="2002"
                     /collected_by="Toho University School of Medicine"
     gene            126..827
                     /locus_tag="RS158_RS26965"
                     /old_locus_tag="RS158_26965"
     CDS             126..827
                     /locus_tag="RS158_RS26965"
                     /old_locus_tag="RS158_26965"
                     /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_001281396.1"
                     /translation="MSDLIAYKSNALIEASYKLTLQEQRFLLVCISRLKSGEDSPSPDE
                     QKTMTITAAEFHDAFPDMGRQHAEARLKEAIDRLWDRSVIIKNEEKREEFRWVQYRAQY
                     FKGEAKVEITFSDAIMPYLTQLKGQFTRVVVKNVSSLSSTYSIRIYELLQQFRSTGDRT
                     IAIDDFRTMLAVEDKYQQFKDLNKMIIKPAIAELNEKSDLVVTVETIKKGRTVVALHFR
                     FKEDKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(1069..3234)
                     /gene="mobQ"
                     /locus_tag="RS158_RS26970"
                     /old_locus_tag="RS158_26970"
     CDS             complement(1069..3234)
                     /gene="mobQ"
                     /locus_tag="RS158_RS26970"
                     /old_locus_tag="RS158_26970"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001029350.1"
                     /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_061309377.1"
                     /translation="MAIYHLSMKIISRSNGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPHELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQKEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPARRVADLLNIGLPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQTAFEKQWQQWGESGLAALRAQL
                     LKREDELRRKELEDTERSRAERRAEQLRKNDNAVMDSGVLRAVVTGYGEAPMPGNGEMT
                     CYLLLHNRNGEYTLWGNELEKYRTRIFESVDLIRGRSGYICDRSEIGQHPPLQRIYSSA
                     TFEQLLTQVCQTWPQHTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLPPTL
                     MPVMSSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKG
                     LRYAGYGVAVNHDADSHISPAPELMEFHLKTREAPLFAVVNTPEKQPDHLFRSLGFNRT
                     WDEWRREEDARTHATERRPDRGWSQGM"
                     /name="mobQ"
     gene            3413..3667
                     /gene="mobC"
                     /locus_tag="RS158_RS26975"
                     /old_locus_tag="RS158_26975"
     CDS             3413..3667
                     /gene="mobC"
                     /locus_tag="RS158_RS26975"
                     /old_locus_tag="RS158_26975"
                     /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_000091744.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVIVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPEQ"
                     /name="mobC"
     Typing          complement(2877..3235)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.5"
                     /coverage="100.0"
                     /evalue="8.52e-174"
     Typing          3236..3412
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          127..826
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.287"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(1079..3321)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.326"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gggtgataag tggagctttt gggggtgtaa tccacagaaa aaaggggttg caaaaaaaaa
       61 acttccacca atatgatagg tggcgtacag taaaaaaacg ccaccaatag caacgagcaa
      121 gcgaaatgtc agatctgata gcttacaaat caaacgccct tatcgaggca agctacaagc
      181 tcactttgca ggaacagcgc ttcctgctgg tctgtatcag ccgcctgaaa tccggagaag
      241 attccccttc gccggatgaa caaaaaacca tgaccatcac ggctgcagag tttcatgatg
      301 cctttcctga catgggacgg cagcacgctg aagctaggct caaggaagcg atagatcgcc
      361 tctgggacag gtcagtaatc atcaagaacg aggaaaaacg agaagagttc cgctgggtgc
      421 agtaccgggc gcagtatttc aaaggtgagg cgaaagtaga gatcaccttc tccgatgcca
      481 tcatgccgta tctgacacag ctcaaggggc agtttacgcg ggtagtcgtg aagaacgtct
      541 ccagcctctc cagcacctac agcatccgca tttacgagct gctccagcag ttccgcagca
      601 ccggtgacag aacgatagct atcgatgatt tccgaaccat gcttgccgtt gaagataaat
      661 atcaacaatt caaagacttg aataagatga taatcaagcc agccatcgcc gaactgaacg
      721 aaaaaagcga tctggttgta acggttgaga cgatcaaaaa ggggcgcacg gttgtagccc
      781 tgcactttcg cttcaaggaa gacaaacaga tcaagatgac gatctagaat cgattttaag
      841 gcacctaaaa cgctcactgt cgcgtttttc ttgtgtcagg aatgcgaagg tactattgaa
      901 gtgaaaagtt gcgtcaaaaa cgctctgatg cagcaaaaaa agaaccccca atttttgggg
      961 gcggaaaaac aaaactatgt ttgcgctatg tgagtgtgct tcttgcattc atccctgtcg
     1021 atgaacatcg acgaacataa cacgatgtta aacaaaacaa aatattgttc acattccctg
     1081 tgaccaaccg cgatcaggtc tcctctcggt ggcgtgtgtt cgtgcatctt cctcgcgccg
     1141 ccattcgtcc caggtacgat tgaaacccag cgagcggaac agatgatccg gctgtttttc
     1201 tggtgtgttg acgacagcaa aaagcggtgc ctcacgggtt ttcagatgaa actccataag
     1261 ttccggtgca ggtgatatgt ggctgtctgc atcatgattt acggcaacac cataccctgc
     1321 ataccgtaac cccttatcgg tcagtgcact gataaccagc tggctgttat cggctgaggg
     1381 aacggcaaac gcgggataca gcgtaccatt aagccggaca acaccgccca gagagtcatc
     1441 cacgcccatg accagcaaaa gctgaagctg gcgggtttcc cggtcgacag aactcatgac
     1501 cggcatcagc gtcggtggca gacgtccctg cgtaaaatcc accttccttg ctgccagtga
     1561 tggcatggct ggctggcggt cttctccaag acagaaagac tccggccatg tcttcggctg
     1621 gcggagattg cgggtatgtt gcggccatgt ctggcaaacc tgcgtcagaa gttgctcaaa
     1681 ggtcgcagag gaataaatac gttgcagtgg tggatgttga ccgatttcgc ttcggtcaca
     1741 gatataacca ctcctgccac gtattaaatc aacactctca aagatcctgg tgcggtattt
     1801 ctccagctcg ttcccccaga gcgtgtattc tccgttccgg ttgtgaagca gaaggtaaca
     1861 agtcatttcc ccgttaccag gcatgggagc ctcgccatac cccgtaacga ctgctctcag
     1921 cacccctgaa tccataacgg cattgtcatt tttcctgagc tgttccgctc gtcgctccgc
     1981 gcgactacgt tctgtatcct ccagctcctt ccggcgtaat tcatcttcac gtttaagcaa
     2041 ctgggctctg agagctgcaa ggccggattc cccccactgc tgccactgtt tttcaaatgc
     2101 cgtctgactc gcgggaatgt cctgtttctc caccttccgg taatgctgtc gcaatttttc
     2161 catttgctgg ctcagagact ggatttttcc ctgctcacta cggtattccg gtgcagccca
     2221 ttgcatcagg ggaatacggg aaaaaccgga cgaaaacggc gatgattttt tcaggctggc
     2281 agcatggctc atcgcttcct ttcgttcggt gttcagctct tcccagcgtc tgcgcgtcgc
     2341 ctgcatatct gccatcatcg acatggcgtt actggtgagt ttccatgccg cgttactgtc
     2401 cttcggcaac gcttcgatga tgtcacgtag tgtgtacgaa gttgcgttgt caggaagccc
     2461 gatattcaga aggtcagcca cacggcgggc aggctctgtc agcccgctgt tcctgagttc
     2521 ggtgcgggaa atctgtattt ccaggttaag cctgttaatc agacgattct gttcgccgcg
     2581 ttctgtttcg ataccgcgtg tttccatcgc acaggcagac tttccgaggt gaatacccgg
     2641 cgttttctca agcccctgtc gctcgtatga acgatggtct atctctttct gataaccggc
     2701 gttcgccagt gccctgtttg catggtcagc ccatgatgca cgccacgtct cggcatgtgt
     2761 ccggtcgttc cagtccctga cctttccgcc gaaccccgca ggtccgacag ccctcgtggt
     2821 cagcataatg tgcgcatggg gatttgtttt atccatgtga tggaacgcca catcagcaat
     2881 catgccctga ctgacaaagt tttctctgac aaaggcgaga acggtttccc gtgcggcatc
     2941 ctgcggcagt tcgtggggga tggcgagttc aatttcccgc gcaagttgtg agttcttccg
     3001 gcgttcggcc ttctcaacgg cattccagag ttcggcacgg ttcgtacacc aggcaggggc
     3061 tgtcgcgggg gtcagaatca cagcctcagc cacaccgctt ttgcgggtgt agtcgtgagt
     3121 cagtccggta cgctcatcaa gcattagtga accagaacga taggcagcag aagcaacggc
     3181 gctgtagccg ttgcttctgg agatgatttt catactgaga tgataaatcg ccatttctgc
     3241 cgtaatgcct ttttgcagtt ttctttcagc cccgcagggc gcacacaatc gaaacggagt
     3301 ggagattgta taagtgcgca cttcgtgatt tgccgtgcat tatgccagct cagtttttaa
     3361 actaccagtg acgcgctaaa atgcgatttt tcatcgcgca tggagttaca tcatgagcag
     3421 aacgctcgaa cagaagattg ctgatgctga ggcgagatta cagcgcctga aggcgaagag
     3481 ccggagcctg gacacagcgc agaaggtcat tgtgggtgca gcattgctgg caaaggtcag
     3541 aaagccggag gaagtgcagt tgcgagcctg gttactccag ttcctgaagg cagaggtgac
     3601 acggcaggct gatgtgacgc gaatactgcc gctgattaac gagctggagg cgctgccaga
     3661 gcagtgattg tatcgtccgc tcgccgcagc ccagcgaccg agcgttagcg agcgagtggg
     3721 cgaggaagcg gaagtgaatc agtcgccatg ttgagcacat acgcacggtt tttcgacagg
     3781 tgatatgcgc tgaacccgca tgaatactgg atttccacag ggttggaggg ggtgtattcg
     3841 gaatcttcaa tcctggtttt ttgcaacaca ttgtttttat tggattttta ttttcagcac
     3901 cccaagttat ccacaggctc gccgttaagt ttttaagatc ttatttttag atcttttttt
     3961 ttaaaacctt tttaggtctt gtaaccacat gattttaaag gtgttctggc gagataggtg
     4021 gagcttttgg gggtgatagg tggagctttt gggggtgata ggtggagctt ttgg
//
