LOCUS       NZ_CP116133             4069 bp    DNA     circular CON 25-FEB-2024
DEFINITION  Escherichia coli strain DETEC-P666 plasmid pDETEC30, complete
            sequence.
ACCESSION   NZ_CP116133
VERSION     NZ_CP116133.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN31988472
            Assembly: GCF_027944795.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4069)
  AUTHORS   Moran,R.A., Baomo,L., Doughty,E.L., Guo,Y., Ba,X., van Schaik,W.,
            Zhuo,C. and McNally,A.
  TITLE     Extended-spectrum beta-lactamase genes traverse the Escherichia coli
            populations of ICU patients, staff and environment
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4069)
  AUTHORS   Moran,R.A., Baomo,L., Doughty,E.L., Guo,Y., Ba,X., van Schaik,W.,
            Zhuo,C. and McNally,A.
  TITLE     Direct Submission
  JOURNAL   Submitted (11-JAN-2023) Institute of Microbiology and Infection,
            University of Birmingham, Institute of Microbiology and Infection,
            Birmingham B15 2TT, United Kingdom
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 10x
            Sequencing Technology             :: Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/25/2024 02:06:33
            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)                     :: 5,170
            CDSs (total)                      :: 5,049
            Genes (coding)                    :: 4,837
            CDSs (with protein)               :: 4,837
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 212
            CDSs (without protein)            :: 212
            Pseudo Genes (ambiguous residues) :: 0 of 212
            Pseudo Genes (frameshifted)       :: 83 of 212
            Pseudo Genes (incomplete)         :: 145 of 212
            Pseudo Genes (internal stop)      :: 42 of 212
            Pseudo Genes (multiple problems)  :: 52 of 212
            Pseudo Genes (short protein)      :: 3 of 212
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP116133.1.
            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..4069
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="DETEC-P666"
                     /isolation_source="ICU patient oral swab"
                     /db_xref="taxon:562"
                     /plasmid="pDETEC30"
                     /geo_loc_name="China: Guangzhou"
                     /collection_date="2019-09-10"
     gene            complement(join(2846..4069,1..936))
                     /gene="mobQ"
                     /locus_tag="PIB57_RS25770"
                     /old_locus_tag="PIB57_25775"
     CDS             complement(join(2846..4069,1..936))
                     /gene="mobQ"
                     /locus_tag="PIB57_RS25770"
                     /old_locus_tag="PIB57_25775"
                     /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_029976510.1"
                     /translation="MAIYHLSMKIISRNSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAEHRKNSQLAREIELAIPRELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPARRVADLLNIVLPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQTAFEKQWQQWGASGLAALRVQL
                     LKREEELRRKEQEDTERSRAERRAEQLRKNDNAVMDSGVLSAVVTGYGEAPMPGNGEMT
                     CYLLLHNRNGEYTLWGNELEKYRTRIFERVDLMRDRSGYICDRSEIGQHPPLQRVYSSA
                     TFEQLLTQVCQTWPQYTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLLPTL
                     MPVMSSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKG
                     LRYAGYGVAVNHDADSHISPAPELMEFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRT
                     WDEWRREEDARTHATERRHDRGWSQ"
                     /name="mobQ"
     gene            1115..1369
                     /gene="mobC"
                     /locus_tag="PIB57_RS25775"
                     /old_locus_tag="PIB57_25780"
     CDS             1115..1369
                     /gene="mobC"
                     /locus_tag="PIB57_RS25775"
                     /old_locus_tag="PIB57_25780"
                     /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            1901..2608
                     /locus_tag="PIB57_RS25780"
                     /old_locus_tag="PIB57_25785"
     CDS             1901..2608
                     /locus_tag="PIB57_RS25780"
                     /old_locus_tag="PIB57_25785"
                     /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_024623342.1"
                     /translation="MTSNPLIAYKSNALVEASYKLTLQEQRFLLLCISRLNSGTDVASP
                     ELQKTMTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKDDEKREEFRWIQYRA
                     QYARGEGKAQITFSDAVMPYLTQLKGQFTRVVIKNISNLSRSYSIRIYEILQQFRSTGE
                     RIIALDDFKSSLMLDGKYKDFKTLNRDLIQPCVDELNKKSDLAVTVETIKKGRTVVALH
                     FRFKEDKQIKMTI"
                     /name="replication initiation protein"
     Typing          complement(579..937)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.444"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          938..1114
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          1902..2608
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.859"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(2..1023)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.413"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(3309..4069)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="83.0"
                     /evalue="2.5500000000000003e-156"
ORIGIN
        1 ctttcgttcg gtgttcagct cttcccagcg tctgcgcgtc gcctgcatat ctgccatcat
       61 cgacatggca ttactggtga gtttccatgc cgcattactg tccttcggca acgcttcgat
      121 gatgtcacgt agtgtgtacg aagttgcgtt gtcaggaagc acgatattca gaaggtcagc
      181 cacacggcgg gcaggctctg tcagcccgct gtttctgagt tcggtacggg aaatctgtat
      241 ttccaggtta agtctgttaa tcagacgatt ctgttcgccg cgttctgttt cgataccgcg
      301 tgtttccatc gcacaggcag actttccgag gtgaatacca ggcgttttct caagcccctg
      361 tcgctcgtat gaacgatggt ctatctcttc ctgataaccg gcgttcgcca gtgccctgtt
      421 cgcatggtca gcccatgatg cacgccacgt ctcggcatgt gtccggtcgt tccagtccct
      481 gacctttcca ccgaatccag caggtccgac agctctcgtg gtcagcatga tgtgcgcatg
      541 gggatttgtt ttatccatgt gatggaacgc cacatcagca atcatgccct gactgacaaa
      601 gttttctctg acaaaggcga gaacggtttc ccgtgcggca tcctgcggca gttcgcgggg
      661 gatggcgagt tcaatttccc gcgcaagttg tgagttcttc cggtgttcgg ccttctcaac
      721 ggcattccag agttcggcac ggttcgtaca ccaggcaggg gctgtcgcgg gagtcagaat
      781 cacagcttca gccacaccgc ttttgcgggt gtagtcgtga gtcagtccgg tacgctcatc
      841 aagcatcagt gaaccggaac gataggcagc agaagcaacg gcgctgtagc cgctgtttct
      901 ggagatgatt ttcatgctga gatgataaat cgccatttct gccgtaatgc ctttttgtgg
      961 ttttctttca gccccgcagg gcgcacacaa tcgaaacgga gtggagattg tataagtgcg
     1021 cacttcgtga ttttccgtgc attatgccag ctcagttttt aaactaccag tgacgcgcta
     1081 aaatgcgatt tttcatcgcg cacggagtta catcatgagc agaacactcg aacagaagat
     1141 tgctgatgct gaggccagat tacagcgcct gaaggcgaag agcaggagtc tggacacagc
     1201 gcagaaggtc attgtgggtg cagcattgct ggcaaaggtc agaaagccgg aggaggtgca
     1261 gttgcgtgcc tggttactcc agttcctgaa ggcagaggtg acacgacagg ctgatgtgac
     1321 gcgcatactg ccgctgatta acgagctgga agcgctgcca ggacagtgat tgtatcgtcc
     1381 gctcgccgca gtcccagcga ccgagcgtta gcgagcgagt gggcgaggaa gcggaagtga
     1441 atccgtcgcc tgattgagca catacgcacg gtttttcggg aggtgatatg cgctgaaccc
     1501 gcatgaatac tggatttcca cagggttgga gggggtgtat tcggaacttg caattctgct
     1561 tttttgcaac gcattgtttt tattggtttt ttgttttcag cactccaagt tatccacagg
     1621 ctcgtcgtta agtttttaga tcttgttttt aagatcttgt ttttaatact tgttttagcg
     1681 ccaaaattcc ttatagaaaa caaaatgtta caacgctata ggtgatatga tttaaggtaa
     1741 aggtgatata atttaaggtg cttgggtgag gtaatttaag gtaaaggtga ggagatttaa
     1801 ggtaatattc acaggaaaat ggggggtgaa aatataattg ctcaccaatg ctaaaggtga
     1861 taggttttta tttcacctca tttttggcct ggtggttaaa atgacatcaa accctctgat
     1921 agcctataag tccaatgcgc tggttgaggc cagttacaag ctaactttac aagaacagcg
     1981 tttcttattg ctctgcataa gccgacttaa ctccggtact gacgtagctt cacctgaatt
     2041 gcaaaagaca atgaccatta cagctgcgga atattttgat tcattccctg atatggggcg
     2101 gaaaaatgcc gaggttcagc tacaggaagc gatcgatcgt ttgtgggaca ggtcgatcat
     2161 tctcaaggac gacgagaagc gcgaggagtt ccgctggatt cagtatcggg cacagtacgc
     2221 gaggggagag gggaaagcac aaatcacttt ttctgacgcg gtaatgcctt atctgacaca
     2281 gttgaagggg caattcacca gagtcgtcat taaaaatatt tctaatttat caagaagtta
     2341 cagcataaga atatacgaaa ttctccagca attccgcagt actggggaac gtattatcgc
     2401 cctcgatgat tttaaatcat cactgatgct tgatggtaaa tataaagatt tcaaaacgtt
     2461 aaacagggat ctaatacaac cctgtgttga cgaactgaac aaaaaaagcg acctggctgt
     2521 aacggttgag acgatcaaaa aggggcgcac ggttgtagcc ctgcattttc gcttcaagga
     2581 agacaaacag atcaagatga cgatctagaa tcgattttaa ggcacctaaa acgctccctg
     2641 ctgcgttttt tttgtgttag tagtgcgaag gtactattga agtgaaaaat tgcgtcaaaa
     2701 gcgctctaat gcagcgaaaa aagaaccccc aatttttggg ggcggaaaaa caaaactatg
     2761 ctgtgtgtgc ttcttgcatt catccctgtc gatgaacatc gacgaacata acacgatgtt
     2821 aaacaaaaca aaatattgtt cacattcact gtgaccaacc gcgatcatgt ctcctctcgg
     2881 tggcgtgtgt tcgtgcatct tcctcgcgcc gccattcgtc ccaggtacga ttaaaaccca
     2941 gcgagcggaa cagatgatcc ggctgttttt ctggtgtgtt gacggcagca aaaagcggtg
     3001 cctcacgggt tttcagatga aactccataa gttccggcgc aggtgatatg tggctgtctg
     3061 catcgtgatt tacggcaaca ccataccctg cataccgtaa ccccttatcg gtcagtgcac
     3121 tgatgaccag ctggctgtta tcggctgagg gaacggcaaa cgcgggatac agcgtaccat
     3181 taagccggac aacaccgccc agagagtcat ccacgcccat gaccagcaaa agctgaagct
     3241 ggcgggtttc ccggtcgaca gaactcatta ccggcatcag cgtcggtagc agacgtccct
     3301 gcgtaaaatc caccttcctt gctgccagtg atggcatggc tggctggcgg tcttctccaa
     3361 gacagaaaga ctccggccat gtcttcggct ggcggagatt gcgggtatat tgcggccatg
     3421 tctggcaaac ctgcgtcaga agttgctcaa aggtcgcaga ggaataaaca cgttgcagtg
     3481 gtggatgttg accgatttcg cttcggtcac agatataacc actcctgtca cgcattaaat
     3541 caacacgctc aaagattctg gtgcggtatt tctccagctc gttcccccag agcgtgtatt
     3601 ctccgttccg gttgtgaagc agaaggtaac aggtcatttc cccgttacca ggcatggggg
     3661 cctcgccata ccccgtaacg actgcgctca gtacccctga atccataacg gcattgtcat
     3721 ttttcctgag ctgttccgct cgtcgctccg cgcgactacg ttctgtatcc tcctgctcct
     3781 tccggcgcaa ttcctcttca cgtttaagca actggactct gagagctgca aggccggatg
     3841 ccccccactg ctgccactgt ttttcaaatg ccgtctgact cgcgggaatg tcctgtttct
     3901 ccaccttccg gtaatgctgt cgcaattttt ccatttgctg gctcagcgac tggatttttc
     3961 cctgttcgct acggtattcc ggtgccgccc attgcatcag gggaatacgg gaaaaaccgg
     4021 acgaaaacgg cgatgatttt ttcaggctgg cagcatggct catcgcttc
//
