LOCUS       NZ_CP059124             4082 bp    DNA     circular CON 31-AUG-2023
DEFINITION  Escherichia coli strain Ec42 plasmid pEc42_5, complete sequence.
ACCESSION   NZ_CP059124
VERSION     NZ_CP059124.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15486687
            Assembly: GCF_019355455.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4082)
  AUTHORS   Mahazu,S., Wakano,S., Ayibieke,A., Prah,I., Ablordey,A. and Saito,R.
  TITLE     Whole genome analysis of ESBL producing E.coli ST131 from Ghana
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4082)
  AUTHORS   Mahazu,S., Wakano,S., Ayibieke,A., Prah,I., Ablordey,A. and Saito,R.
  TITLE     Direct Submission
  JOURNAL   Submitted (08-JUL-2020) Molecular Microbiology, Tokyo Medical and
            Dental University, 1-5-45 Yushima, Bunkyo-ku, Tokyo 113-8510, Japan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 2020
            Assembly Method                   :: Unicycler v. v0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 1300x
            Sequencing Technology :: Oxford Nanopore MiniION; Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 08/29/2023 04:37:24
            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)                     :: 5,188
            CDSs (total)                      :: 5,067
            Genes (coding)                    :: 4,805
            CDSs (with protein)               :: 4,805
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 262
            CDSs (without protein)            :: 262
            Pseudo Genes (ambiguous residues) :: 0 of 262
            Pseudo Genes (frameshifted)       :: 90 of 262
            Pseudo Genes (incomplete)         :: 181 of 262
            Pseudo Genes (internal stop)      :: 50 of 262
            Pseudo Genes (multiple problems)  :: 56 of 262
            Pseudo Genes (short protein)      :: 4 of 262
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP059124.1.
            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="Ec42"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pEc42_5"
                     /geo_loc_name="Ghana"
                     /collection_date="2016"
     gene            complement(join(3917..4082,1..536))
                     /locus_tag="H0X94_RS25640"
                     /old_locus_tag="H0X94_25525"
     CDS             complement(join(3917..4082,1..536))
                     /locus_tag="H0X94_RS25640"
                     /old_locus_tag="H0X94_25525"
                     /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"
     gene            complement(1069..1323)
                     /gene="mobC"
                     /locus_tag="H0X94_RS25645"
                     /old_locus_tag="H0X94_25530"
     CDS             complement(1069..1323)
                     /gene="mobC"
                     /locus_tag="H0X94_RS25645"
                     /old_locus_tag="H0X94_25530"
                     /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            1502..3661
                     /gene="mobQ"
                     /locus_tag="H0X94_RS25650"
                     /old_locus_tag="H0X94_25535"
     CDS             1502..3661
                     /gene="mobQ"
                     /locus_tag="H0X94_RS25650"
                     /old_locus_tag="H0X94_25535"
                     /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_001029343.1"
                     /translation="MAIYHLSMKIISRNSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPRELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPARRVADLLNIVLPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQTAFEKQWQQWGASGLAALRVQL
                     LKREEELRRKEQEDTERSRAERRAEQLRKNDNAVMDSGVLSAVVTGYGEAPMPGNGEMT
                     CYLLLHNRNGEYTLWGNELEKYRTRIFERVDLMRDRSGYICDRSEIGQHPPLQRVYSSA
                     TFEQLLTQVCQTWPQYTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLLPTL
                     MPVMSSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKG
                     LRYAGYGVAVNHDADSHISPAPELMEFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRT
                     WDEWRREEDARTHATERRHDRGWSQ"
                     /name="mobQ"
     Typing          complement(1325..1501)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          1502..1860
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(2..536)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          1416..3658
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.866"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tatttatgct ctatatcaag cattgagcga aaatcatcga gagcgataat acgttcgcca
       61 gtactgcgga actgctggag gagttcgtat atccttatac tgtaacttct tgataatcta
      121 gatatattct tgattacaac tctagtaaat tgcccttgta gttgtgtcaa ataaggcatt
      181 actgcgtcag aaaatgttat ttgtgctctg gcctcgcctt tagcgtactg tgcccgatac
      241 tggatccagc ggaactcctc acgtttctcg tcatccttga gaatgattga cctgtcccac
      301 aaacgatcaa ttgcttcctg taactgaacc tcggcatttt tccgccccat gtcagggaat
      361 gaatcgaaat attccgcagc tgtaatggtc attgtctttt gcaattttgg agattctgca
      421 tcagccccag acttcaatcg accgatgcaa agtaacaaaa atcgctgttc ctgtagggtc
      481 aatttataac tggcttcaac cagcgcattg gatttatagg caattagatc cgacatagag
      541 catccctccc caaaaggtaa tgaataaaag ataaacatac cctcaacgaa aggcaatgcc
      601 tttttatttt aatatccctt tttctgtgaa tattacctta aatcatattg cctttacctt
      661 aaattccccc acctaaacac cttaaatcat attaccttta ccttaaatca cattacctat
      721 agcattgtaa cattttgttt tctataagga attttggcgc taaaacaagt attaaaaaca
      781 agatcttaaa aacaagatct aaaaacttaa cgacgagcct gtggataact tggagtactg
      841 aaaacaaaaa accaataaaa acaatgcgtt gcaaaaaagc agaattgcaa gttccgaata
      901 caccccctcc aaccctgtgg aaatccagta ttcatgcggg ttcagcgcat atcacctccc
      961 gaaaaaccgt gcgtatgtgc tcaatcaggc gacggattca cttccgcttc ctcgcccact
     1021 cgctcgctaa cgctcggtcg ctgggactgc ggcgagcgga cgatacaatc actgtcctgg
     1081 cagcgcttcc agctcgttaa tcagcggcag tatgcgcgtc acatcagcct gtcgtgtcac
     1141 ctctgccttc aggaactgga gtaaccaggc acgcaactgc acctcctccg gctttctgac
     1201 ctttgccagc aatgctgcac ccacaatgac cttctgcgct gtgtccagac tcctgctctt
     1261 cgccttcagg cgctgtaatc tggcctcagc atcagcaatc ttctgttcga gtgttctgct
     1321 catgatgtaa ctccgtgcgc gatgaaaaat cgcattttag cgcgtcactg gtagtttaaa
     1381 aactgagctg gcataatgca cggaaaatca cgaagtgcgc acttatacaa tctccactcc
     1441 gtttcgattg tgtgcgccct gcggggctga aagaaaacca caaaaaggca ttacggcaga
     1501 aatggcgatt tatcatctca gcatgaaaat catctccaga aacagcggct acagcgccgt
     1561 tgcttctgct gcctatcgtt ccggttcact gatgcttgat gagcgtaccg gactgactca
     1621 cgactacacc cgcaaaagcg gtgtggctga agctgtgatt ctgactcccg cgacagcccc
     1681 tgcctggtgt acgaaccgtg ccgaactctg gaatgccgtt gagaaggccg aacgccggaa
     1741 gaactcacaa cttgcgcggg aaattgaact cgccatcccc cgcgaactac cgcaggatgc
     1801 cgcacgggaa accgttctcg cctttgtcag agaaaacttt gtcagtcagg gcatgattgc
     1861 tgatgtggcg ttccatcaca tggataaaac aaatccccat gcgcacatca tgctgaccac
     1921 gagagctgtc ggacctgctg gattcggtgg aaaggtcagg gactggaacg accggacaca
     1981 tgccgagacg tggcgtgcat catgggctga ccatgcgaac agggcactgg cgaacgccgg
     2041 ttatcaggaa gagatagacc atcgttcata cgagcgacag gggcttgaga aaacgcctgg
     2101 tattcacctc ggaaagtctg cctgtgcgat ggaaacacgc ggtatcgaaa cagaacgcgg
     2161 cgaacagaat cgtctgatta acagacttaa cctggaaata cagatttccc gtaccgaact
     2221 cagaaacagc gggctgacag agcctgcccg ccgtgtggct gaccttctga atatcgtgct
     2281 tcctgacaac gcaacttcgt acacactacg tgacatcatc gaagcgttgc cgaaggacag
     2341 taatgcggca tggaaactca ccagtaatgc catgtcgatg atggcagata tgcaggcgac
     2401 gcgcagacgc tgggaagagc tgaacaccga acgaaaggaa gcgatgagcc atgctgccag
     2461 cctgaaaaaa tcatcgccgt tttcgtccgg tttttcccgt attcccctga tgcaatgggc
     2521 ggcaccggaa taccgtagcg aacagggaaa aatccagtcg ctgagccagc aaatggaaaa
     2581 attgcgacag cattaccgga aggtggagaa acaggacatt cccgcgagtc agacggcatt
     2641 tgaaaaacag tggcagcagt ggggggcatc cggccttgca gctctcagag tccagttgct
     2701 taaacgtgaa gaggaattgc gccggaagga gcaggaggat acagaacgta gtcgcgcgga
     2761 gcgacgagcg gaacagctca ggaaaaatga caatgccgtt atggattcag gggtactgag
     2821 cgcagtcgtt acggggtatg gcgaggcccc catgcctggt aacggggaaa tgacctgtta
     2881 ccttctgctt cacaaccgga acggagaata cacgctctgg gggaacgagc tggagaaata
     2941 ccgcaccaga atctttgagc gtgttgattt aatgcgtgac aggagtggtt atatctgtga
     3001 ccgaagcgaa atcggtcaac atccaccact gcaacgtgtt tattcctctg cgacctttga
     3061 gcaacttctg acgcaggttt gccagacatg gccgcaatat acccgcaatc tccgccagcc
     3121 gaagacatgg ccggagtctt tctgtcttgg agaagaccgc cagccagcca tgccatcact
     3181 ggcagcaagg aaggtggatt ttacgcaggg acgtctgcta ccgacgctga tgccggtaat
     3241 gagttctgtc gaccgggaaa cccgccagct tcagcttttg ctggtcatgg gcgtggatga
     3301 ctctctgggc ggtgttgtcc ggcttaatgg tacgctgtat cccgcgtttg ccgttccctc
     3361 agccgataac agccagctgg tcatcagtgc actgaccgat aaggggttac ggtatgcagg
     3421 gtatggtgtt gccgtaaatc acgatgcaga cagccacata tcacctgcgc cggaacttat
     3481 ggagtttcat ctgaaaaccc gtgaggcacc gctttttgct gccgtcaaca caccagaaaa
     3541 acagccggat catctgttcc gctcgctggg ttttaatcgt acctgggacg aatggcggcg
     3601 cgaggaagat gcacgaacac acgccaccga gaggagacat gatcgcggtt ggtcacagtg
     3661 aatgtgaaca atattttgtt ttgtttaaca tcgtgttatg ttcgtcgatg ttcttcgatg
     3721 ttcatcgaca gggatgaatg caagaagcac acacataatg caagcatagt tttgtttttc
     3781 cgcccccaaa aaatgggggt tcttttttcg ctgcattaga gcgcttttga cgcaattttt
     3841 cacttcaata gtaccttcgc actactaaca caaaaaaaac gcagcaggga gcgttttatg
     3901 tgccttaaaa tcgattttag atcgtcatct tgatttgttt gtcttccttg aagcgaaaat
     3961 gcagggctac aaccgtgcgc ccctttttga tcgtctcaac cgttacagcc aggtcgcttt
     4021 ttttgttcag ttcgtcaatg cagggtctta ataattgctg gttaagtgat ttatatgttt
     4081 ga
//
