LOCUS       NZ_CP135678             3373 bp    DNA     circular CON 07-OCT-2023
DEFINITION  Escherichia coli strain TUM9803 plasmid pMTY9803_untypable3,
            complete sequence.
ACCESSION   NZ_CP135678
VERSION     NZ_CP135678.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN35769040
            Assembly: GCF_032382315.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3373)
  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  JOURNAL   Unpublished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 3373)
  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_TUM9803_Comp_v1.1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Reference-guided Assembly         :: missing
            Genome Coverage                   :: 179x
            Sequencing Technology             :: Complete Genomics
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 10/07/2023 15:02:47
            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)                     :: 6,120
            CDSs (total)                      :: 6,000
            Genes (coding)                    :: 5,606
            CDSs (with protein)               :: 5,606
            Genes (RNA)                       :: 120
            rRNAs                             :: 7, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 7, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 394
            CDSs (without protein)            :: 394
            Pseudo Genes (ambiguous residues) :: 0 of 394
            Pseudo Genes (frameshifted)       :: 148 of 394
            Pseudo Genes (incomplete)         :: 272 of 394
            Pseudo Genes (internal stop)      :: 84 of 394
            Pseudo Genes (multiple problems)  :: 93 of 394
            Pseudo Genes (short protein)      :: 4 of 394
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP135678.1.
            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..3373
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="TUM9803"
                     /db_xref="taxon:562"
                     /plasmid="pMTY9803_untypable3"
                     /geo_loc_name="Japan"
                     /collection_date="2010"
                     /collected_by="Toho University School of Medicine"
     gene            complement(362..553)
                     /locus_tag="RS166_RS30565"
                     /old_locus_tag="RS166_30565"
     CDS             complement(362..553)
                     /locus_tag="RS166_RS30565"
                     /old_locus_tag="RS166_30565"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165979.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_000165979.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNDLDADEQADICESLHDHA
                     DELYRSCLARFGDDGESN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            617..940
                     /locus_tag="RS166_RS30570"
                     /old_locus_tag="RS166_30570"
     CDS             617..940
                     /locus_tag="RS166_RS30570"
                     /old_locus_tag="RS166_30570"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000956000.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_001696562.1"
                     /translation="MLTIRVTDEEHARLLERCEGKRLAEWMRRVCLGEPVARTGKLPTL
                     APPLLRHLAAIGNNLNQTARKVNSGQWSSIDRVHVVAALMAIEGELRQLRQAVREQGVR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            1149..>1589
                     /locus_tag="RS166_RS30575"
                     /old_locus_tag="RS166_30575"
                     /pseudo=""
     CDS             1149..>1589
                     /locus_tag="RS166_RS30575"
                     /old_locus_tag="RS166_30575"
                     /inference="COORDINATES: protein motif:HMM:NF015397.3"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            1618..2178
                     /locus_tag="RS166_RS30580"
                     /old_locus_tag="RS166_30580"
     CDS             1618..2178
                     /locus_tag="RS166_RS30580"
                     /old_locus_tag="RS166_30580"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000067488.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_000067486.1"
                     /translation="MSNLLQMGTDFEKKLKERAASTENMLNSEFRKLEESVDKALSLNR
                     QKIRDAISEHTTSVKKQLDTLSTTVSMQFSTTEAELSRQQKKLLWRVIKGRILFPALTA
                     LSVTGGIFLGCWGLMEWQESKIAKNILTIREQENTLAKLEAKTWGVTFVNGENGKFLVL
                     PDGMKGENTWTVGDKNAVRLVRE"
                     /name="MbeB family mobilization protein"
     gene            2185..2418
                     /locus_tag="RS166_RS30585"
                     /old_locus_tag="RS166_30585"
     CDS             2185..2418
                     /locus_tag="RS166_RS30585"
                     /old_locus_tag="RS166_30585"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137389.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_000137389.1"
                     /translation="MTELEGHLLNALEHLQQDYMRRLNEWESAFAELQKMHEVTQRNNA
                     ILNERVVILSQQVQRLAGQVDRLSRLFIANNS"
                     /name="MbeD family mobilization/exclusion protein"
     Typing          198..281
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="87.059"
                     /coverage="95.0"
                     /evalue="8.83e-18"
     Typing          931..2501
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.439"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gtgatcccac cgctcgccgc agccccagcg accgaacgta gtgagcgagt gggcgaggaa
       61 gcggaagagt cacagaggca agcattgtgc acttacgcgc ctgtgccagt gtccgcgtgt
      121 gtgttgttta tcgggcgcgc tgtttttacg catctgtgcg gctttttact cctgacatgg
      181 tgcacttccc atccactctg caccgatgca aaatgaggta agccagtata cacatcgcta
      241 tcgctctgtg aactgggtca gggctgcgcc ccgacacccg cactgacgcg ccctggcggg
      301 cttgtctgct cccggcatcc gctcacaggc aagctgtgaa cgtctccggg agctgcatgt
      361 ttcagttgct ttcaccgtca tcgccgaagc gtgcgaggca actgcggtag agttcgtcgg
      421 cgtggtcgtg aagtgattcg cagatgtctg cctgttcgtc cgcgtccaga tcgttgagtt
      481 tttccagcag ggttagcgtc tggcttctga taaagcgagc catgttaagg gctgtttttt
      541 cctgtttggt catggtctta aggctccttg tatgggggat ttgttagggg gaatgatacc
      601 gatgaaacgc gagaagatgc tcacgatacg ggttaccgat gaggagcacg cccggttact
      661 ggaacgctgc gagggtaaac gactggcgga atggatgcgg cgggtctgtc tgggggagcc
      721 ggttgcacgc acaggaaaac tgccgacact ggcaccgcca ttgctgcggc atctggctgc
      781 catcgggaac aacctgaacc agacagcccg gaaggtgaac agcggccagt ggtcttcgat
      841 tgaccgggtt catgtggtgg ccgcactgat ggccatcgag ggtgaattgc gccagttgcg
      901 gcaggctgtc agggaacagg gggtacggga tgatagttaa atttcatgct agggggaaag
      961 gcggtggaag tggcccggtc gattacctgc tggggcggga gcgtaaccgc gaaggcgcaa
     1021 cggtgctccg gggtaacccg gaagaagtgc gggaactcat tgattccacg ccattttcga
     1081 agaaatacac gtcaggcgtt ctgtcgttcg cggagaagga gctaccaccg ggtgaacgcg
     1141 aaagagtgat gacgagcttt gagcgtgttc ttatgcccgg tctcgaaaaa gaccagtaca
     1201 gcattctctg ggtggaacac caggataagg ggcggctcga actgaatttt gtcatcccga
     1261 acatggagct acagagcggt aagcgcctcc agccgtacta cgaccgtgcg gacaggccga
     1321 ggataaatgc ctggcagacg ctggttaatc atcattacgg gctgcgtgac ccgaacgcac
     1381 cggagaacag acggacgctt gtcacgccaa ataatctgcc aaaagcgaaa caggaggccg
     1441 cagaagcgat tacacggggt cttgaggctc tttaccatgc cggagcaata aaaacgcgtc
     1501 aggatgtcac agaggcgctt acagcggcag gttttgaggt ggtgaggaca accaaaagca
     1561 gcatcagtat tgccgacccg gagggggggc ggaatctcag gctaaagggg gcgctgtatg
     1621 agcaatcttt tacaaatggg aacagacttc gagaagaaac tgaaagagcg agccgcttct
     1681 accgagaaca tgctgaacag cgagttcagg aagctcgaag agtctgtaga caaggcattg
     1741 agcttaaaca ggcagaaaat cagagacgct atcagcgaac atacaacatc cgtgaaaaag
     1801 caactggata cgctgagcac caccgtgagc atgcagttca gcaccacaga ggccgaactg
     1861 tcccggcagc agaaaaaact gctctggcgg gtgatcaaag ggcggatact gtttccggcg
     1921 ctgaccgcgc tcagcgtcac gggcgggatt ttcctggggt gctgggggct gatggagtgg
     1981 caggaaagca agattgcgaa aaatatcctg actatcagag agcaggaaaa cacgctggcg
     2041 aaactcgagg caaaaacctg gggggtgacg ttcgtcaatg gcgagaacgg gaaatttctg
     2101 gtgttgccgg acgggatgaa aggggaaaac acctggacgg tgggcgacaa gaacgccgtg
     2161 aggctggtca gggagtaaac gagtatgacg gaactggaag ggcatttgct gaacgcctta
     2221 gagcatttgc aacaggacta tatgcggcgg ctgaacgagt gggagagcgc cttcgcggaa
     2281 ttgcagaaga tgcacgaggt tacgcaacgg aacaacgcga tactgaacga gcgcgtcgtg
     2341 atattgagtc agcaggtgca gagattagcc gggcaagtgg atcgcttgag tcggttattt
     2401 atcgcgaaca acagctaagg gatgaacagg agcgtgcccg gtacagacat gaggtacagg
     2461 aacgcgcggc acgggttcgg agtgggccat caatggagat gtgaccgggg aagtgacgaa
     2521 atcttgccat tttgacccgt tcgacggctg gggcgagcga aacaaatcgt gtgccgtatt
     2581 tgtgcatagc tatgcaacat cctgaaaacg catttcacgc gtttttgggg attcagccag
     2641 gggaaaacat ggttttttta ctttttgagc gtaaagacgt gaaaaatctc gttattgcac
     2701 ttgcgatctt tcgtcggcgg gcgtagaacg aaaacagctc gccaggaagg cgagctgttt
     2761 cgggttcatt gaggtctctg acctcctcaa tgttcctgtg gaaactgttg agatccacaa
     2821 cagaaaccag ttcattcagt ttgcatgagc cttctgtatt cttcaagaat ttttcaacag
     2881 cacagtctcc caggaacccc gaaaaaaacc tgtttttgca gatacttgcg tatttgtgag
     2941 aatcgtttgc ggttggggga gctgtgacga cggcgaccgc acgcgtgaga gttccgctac
     3001 cggcgcagag agtttcatcg acagcggaca cctgatgagt tgccacaaaa accgtatgta
     3061 gcgcggctag attggttgag ttagaccttg gcggcagttc ccggtatgtg gtggcgtgac
     3121 gggtgagatg gtgcggcgaa gacgcatacg tcacgcaggc gcgggttctt ccactgacgc
     3181 gccccgtgat cgatggcctt ggctccgtcc ggcatatcga gagcggcaaa ctacccgtcc
     3241 cttcactggg aggggtgagt tgttgccgtt ccctccgacc ttccaccatc cagcatatcg
     3301 cacgatccca tgtgcaccgc tactcctgat aactccagtg caaaaaaaaa aacggatctg
     3361 catcacaacg aga
//
