LOCUS       NZ_CP135662             4082 bp    DNA     circular CON 07-OCT-2023
DEFINITION  Escherichia coli strain TUM10008 plasmid pMTY10008_untypable,
            complete sequence.
ACCESSION   NZ_CP135662
VERSION     NZ_CP135662.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN35769064
            Assembly: GCF_032375225.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4082)
  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  JOURNAL   Unpublished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 4082)
  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_TUM10008_Comp_v1.1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Reference-guided Assembly         :: missing
            Genome Coverage                   :: 196x
            Sequencing Technology             :: Complete Genomics
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 10/07/2023 14:08:22
            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)                     :: 5,263
            CDSs (total)                      :: 5,143
            Genes (coding)                    :: 4,853
            CDSs (with protein)               :: 4,853
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 90
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 290
            CDSs (without protein)            :: 290
            Pseudo Genes (ambiguous residues) :: 0 of 290
            Pseudo Genes (frameshifted)       :: 72 of 290
            Pseudo Genes (incomplete)         :: 213 of 290
            Pseudo Genes (internal stop)      :: 50 of 290
            Pseudo Genes (multiple problems)  :: 48 of 290
            Pseudo Genes (short protein)      :: 5 of 290
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP135662.1.
            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..4082
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="TUM10008"
                     /db_xref="taxon:562"
                     /plasmid="pMTY10008_untypable"
                     /geo_loc_name="Japan"
                     /collection_date="2010"
                     /collected_by="Toho University School of Medicine"
     gene            complement(join(2977..4082,1..1054))
                     /gene="mobQ"
                     /locus_tag="RS168_RS26295"
                     /old_locus_tag="RS168_26295"
     CDS             complement(join(2977..4082,1..1054))
                     /gene="mobQ"
                     /locus_tag="RS168_RS26295"
                     /old_locus_tag="RS168_26295"
                     /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_063610029.1"
                     /translation="MAIYHLSMKIISRNSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCMNRAELWNAVEKAERRKNSQLAREIELAIPRELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPARRVADLLNIVLPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQTAFEKQWQQWGASGLAALRVQL
                     LKREEELRRKEQEDTERSRAERRAEQLRKNDNAVMDSGVLSAVVTGYGEAPMPGNGEMT
                     CYLLLHNRNGEYTLWGNELEKYRTRIFERVDLMRDRSGYICDRSEIGQHPPLQRVYSSA
                     TFEQLLTQVCQTWPQYTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLLPTL
                     MPVMSSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKG
                     LRYAGYGVAVNHDADSHISPAPELMEFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRT
                     WDEWRREEDARTHATERRHDRGWSQ"
                     /name="mobQ"
     gene            1233..1487
                     /gene="mobC"
                     /locus_tag="RS168_RS26300"
                     /old_locus_tag="RS168_26300"
     CDS             1233..1487
                     /gene="mobC"
                     /locus_tag="RS168_RS26300"
                     /old_locus_tag="RS168_26300"
                     /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            2020..2721
                     /locus_tag="RS168_RS26305"
                     /old_locus_tag="RS168_26305"
     CDS             2020..2721
                     /locus_tag="RS168_RS26305"
                     /old_locus_tag="RS168_26305"
                     /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_001281397.1"
                     /translation="MSDLIAYKSNALVEASYKLTLQEQRFLLLCIGRLKSGADAESPKL
                     QKTMTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKDDEKREEFRWIQYRAQY
                     AKGEARAQITFSDAVMPYLTQLQGQFTRVVIKNISRLSRSYSIRIYELLQQFRSTGERI
                     IALDDFRSMLDIEHKYQTYKSLNQQLLRPCIDELNKKSDLAVTVETIKKGRTVVALHFR
                     FKEDKQIKMTI"
                     /name="replication initiation protein"
     Typing          complement(697..1055)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.722"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          1056..1232
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.438"
                     /coverage="100.0"
                     /evalue="2.610000000000001e-86"
     Typing          2021..2721
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(3..1141)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.474"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(2981..4080)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 ggatttttcc ctgttcgcta cggtattccg gtgccgccca ttgcatcagg ggaatacggg
       61 aaaaaccgga cgaaaacggc gatgattttt tcaggctggc agcatggctc atcgcttcct
      121 ttcgttcggt gttcagctct tcccagcgtc tgcgcgtcgc ctgcatatct gccatcatcg
      181 acatggcatt actggtgagt ttccatgccg cattactgtc cttcggcaac gcttcgatga
      241 tgtcacgtag tgtgtacgaa gttgcgttgt caggaagcac gatattcaga aggtcagcca
      301 cacggcgggc aggctctgtc agcccgctgt ttctgagttc ggtacgggaa atctgtattt
      361 ccaggttaag tctgttaatc agacgattct gttcgccgcg ttctgtttcg ataccgcgtg
      421 tttccatcgc acaggcagac tttccgaggt gaataccagg cgttttctca agcccctgtc
      481 gctcgtatga acgatggtct atctcttcct gataaccggc gttcgccagt gccctgttcg
      541 catggtcagc ccatgatgca cgccacgtct cggcatgtgt ccggtcgttc cagtccctga
      601 cctttccacc gaatccagca ggtccgacag ctctcgtggt cagcatgatg tgcgcatggg
      661 gatttgtttt atccatgtga tggaacgcca catcagcaat catgccctga ctgacaaagt
      721 tttctctgac aaaggcgaga acggtttccc gtgcggcatc ctgcggtagt tcgcggggga
      781 tggcgagttc aatttcccgc gcaagttgtg agttcttccg gcgttcggcc ttctcaacgg
      841 cattccagag ttcggcacgg ttcatacacc aggcaggggc tgtcgcggga gtcagaatca
      901 cagcttcagc cacaccgctt ttgcgggtgt agtcgtgagt cagtccggta cgctcatcaa
      961 gcatcagtga accggaacga taggcagcag aagcaacggc gctgtagccg ctgtttctgg
     1021 agatgatttt catgctgaga tgataaatcg ccatttctgc cgtaatgcct ttttgtggtt
     1081 ttctttcagc cccgcagggc gcacacaatc gaaacggagt ggagattgta taagtgcgca
     1141 cttcgtgatt ttccatgcat tatgccagct cagtttttaa actaccagtg acgcgctaaa
     1201 atgcgatttt tcatcgcgca cggagttaca tcatgagcag aacactcgaa cagaagattg
     1261 ctgatgctga ggccagatta cagcgcctga aggcgaagag caggagtctg gacacagcgc
     1321 agaaggtcat tgtgggtgca gcattgctgg caaaggtcag aaagccggag gaggtgcagt
     1381 tgcgtgcctg gttactccag ttcctgaagg cagaggtgac acgacaggct gatgtgacgc
     1441 gcatactgcc gctgattaac gagctggaag cgctgccagg acagtgattg tatcgtccgc
     1501 tcgccgcagt cccagcgacc gagcgttagc gagcgagtgg gcgaggaagc ggaagtgaat
     1561 ccgtcgcctg attgagcaca tacgcacggt ttttcgggag gtgatatgcg ctgaacccgc
     1621 atgaatactg gatttccaca gggttggagg gggtgtattc ggaacttgca attctgcttt
     1681 tttgcaacgc attgttttta ttggtttttt gttttcagca ctccaagtta tccacaggct
     1741 cgtcgttaag tttttagatc ttgtttttaa gatcttgttt ttaatacttg ttttagcgcc
     1801 aaaattcctt atagaaaaca aaatgttaca acgctatagg taatatgatt taaggtaaag
     1861 gtaatatgat ttaaggtgtt taggtggagg aatttaaggt aaaggcaata tgatttaagg
     1921 taatattcac agaaaaaggg atattaaaat aaaaaggcat tgcctttcgt tgagggtatg
     1981 tttatctttt attcattacc ttttggggag ggatgctcta tgtcggatct aattgcctat
     2041 aaatccaatg cgctggttga agccagttat aaattgaccc tacaggaaca gcgatttttg
     2101 ttactttgca tcggtcgatt gaagtctggg gctgatgcag aatctccaaa attgcaaaag
     2161 acaatgacca ttacagctgc ggaatatttc gattcattcc ctgacatggg gcggaaaaat
     2221 gccgaggttc agttacagga agcaattgat cgtttgtggg acaggtcaat cattctcaag
     2281 gatgacgaga aacgtgagga gttccgctgg atccagtatc gggcacagta cgctaaaggc
     2341 gaggccagag cacaaataac attttctgac gcagtaatgc cttatttgac acaactacaa
     2401 gggcaattta ctagagttgt aatcaagaat atatctagat tatcaagaag ttacagtata
     2461 aggatatacg aactcctcca gcagttccgc agtactggcg aacgtattat cgctctcgat
     2521 gattttcgct caatgcttga tatagagcat aaatatcaaa catataaatc acttaaccag
     2581 caattattaa gaccctgcat tgacgaactg aacaaaaaaa gcgacctggc tgtaacggtt
     2641 gagacgatca aaaaggggcg cacggttgta gccctgcatt ttcgcttcaa ggaagacaaa
     2701 caaatcaaga tgacgatcta aaatcgattt taaggcacct aaaacgctcc ctgctgcgtt
     2761 ttttttgtgt tagtagtgcg aaggtactat tgaagtgaaa aattgcgtca aaagcgctct
     2821 aatgcagcga aaaaagaacc cccatttttt gggggcggaa aaacaaaact atgcttgcat
     2881 tatgtgtgtg cttcttgcat tcatccctgt cgatgaacat cgaagaacat cgacgaacat
     2941 aacacgatgt taaacaaaac aaaatattgt tcacattcac tgtgaccaac cgcgatcatg
     3001 tctcctctcg gtggcgtgtg ttcgtgcatc ttcctcgcgc cgccattcgt cccaggtacg
     3061 attaaaaccc agcgagcgga acagatgatc cggctgtttt tctggtgtgt tgacggcagc
     3121 aaaaagcggt gcctcacggg ttttcagatg aaactccata agttccggcg caggtgatat
     3181 gtggctgtct gcatcgtgat ttacggcaac accataccct gcataccgta accccttatc
     3241 ggtcagtgca ctgatgacca gctggctgtt atcggctgag ggaacggcaa acgcgggata
     3301 cagcgtacca ttaagccgga caacaccgcc cagagagtca tccacgccca tgaccagcaa
     3361 aagctgaagc tggcgggttt cccggtcgac agaactcatt accggcatca gcgtcggtag
     3421 cagacgtccc tgcgtaaaat ccaccttcct tgctgccagt gatggcatgg ctggctggcg
     3481 gtcttctcca agacagaaag actccggcca tgtcttcggc tggcggagat tgcgggtata
     3541 ttgcggccat gtctggcaaa cctgcgtcag aagttgctca aaggtcgcag aggaataaac
     3601 acgttgcagt ggtggatgtt gaccgatttc gcttcggtca cagatataac cactcctgtc
     3661 acgcattaaa tcaacacgct caaagattct ggtgcggtat ttctccagct cgttccccca
     3721 gagcgtgtat tctccgttcc ggttgtgaag cagaaggtaa caggtcattt ccccgttacc
     3781 aggcatgggg gcctcgccat accccgtaac gactgcgctc agtacccctg aatccataac
     3841 ggcattgtca tttttcctga gctgttccgc tcgtcgctcc gcgcgactac gttctgtatc
     3901 ctcctgctcc ttccggcgca attcctcttc acgtttaagc aactggactc tgagagctgc
     3961 aaggccggat gccccccact gctgccactg tttttcaaat gccgtctgac tcgcgggaat
     4021 gtcctgtttc tccaccttcc ggtaatgctg tcgcaatttt tccatttgct ggctcagcga
     4081 ct
//
