LOCUS       NZ_CP082126             2088 bp    DNA     circular CON 11-OCT-2023
DEFINITION  Escherichia coli strain PC-NDM34 plasmid unnamed2, complete
            sequence.
ACCESSION   NZ_CP082126
VERSION     NZ_CP082126.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN20857175
            Assembly: GCF_019843995.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2088)
  AUTHORS   Manyahi,J., Moyo,S.J., Blomberg,B., Langland,N. and Roberts,A.
  TITLE     NDM-5 Tanzania
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2088)
  AUTHORS   Manyahi,J., Moyo,S.J., Blomberg,B., Langland,N. and Roberts,A.
  TITLE     Direct Submission
  JOURNAL   Submitted (20-AUG-2021) Clinical Science, University of Bergen,
            Haukelands veien 208, Bergen 5020, Norway
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.8.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 53.2x
            Sequencing Technology             :: Oxford Nanopore; Illumina HiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 10/11/2023 03:44:53
            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)                     :: 5,102
            CDSs (total)                      :: 4,982
            Genes (coding)                    :: 4,783
            CDSs (with protein)               :: 4,783
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 199
            CDSs (without protein)            :: 199
            Pseudo Genes (ambiguous residues) :: 0 of 199
            Pseudo Genes (frameshifted)       :: 68 of 199
            Pseudo Genes (incomplete)         :: 124 of 199
            Pseudo Genes (internal stop)      :: 46 of 199
            Pseudo Genes (multiple problems)  :: 38 of 199
            Pseudo Genes (short protein)      :: 3 of 199
            CRISPR Arrays                     :: 4
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP082126.1.
            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..2088
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="PC-NDM34"
                     /isolation_source="rectal swab from HIV infected patient"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="unnamed2"
                     /geo_loc_name="Tanzania:Dar es Salaam"
                     /lat_lon="6.7924 S 39.2083 E"
                     /collection_date="2018-02-20"
                     /collected_by="Joel Manyahi"
     gene            join(1548..2088,1..425)
                     /locus_tag="K5P75_RS25305"
                     /old_locus_tag="K5P75_25305"
     CDS             join(1548..2088,1..425)
                     /locus_tag="K5P75_RS25305"
                     /old_locus_tag="K5P75_25305"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012421200.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_039064478.1"
                     /translation="MSEDKFLSDYSPRDAVWDTQRTLTDSVGGIYQTAAEFERYALRMA
                     SCSGLLRFGWSTIMETGETRLRLRSAQFCRVRHCPVCQWRRTLMWQARFYQALPKIVVD
                     YPSSRWLFLTLTVRNCEIGELGTVLTAMNAAFKRMEKRKELSPVQGWIRATEVTRGKDG
                     SAHPHFHCLLMVQPSWFKGKNYVKHERWVELWRDCLRVNYEPNIDIRAVKTKTGEVVAN
                     VAEQLQSAVAETLKYSVKPEDMANDPEWFLELTRQLHKRRFISTGGALKNVLQLDRETN
                     EDLAIADDVGDGTDDGKRTAFVWDSGKRRYKRAPEKDKSD"
                     /name="protein rep"
     gene            429..695
                     /locus_tag="K5P75_RS25310"
                     /old_locus_tag="K5P75_25310"
     CDS             429..695
                     /locus_tag="K5P75_RS25310"
                     /old_locus_tag="K5P75_25310"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001024536.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001024536.1"
                     /translation="MNINIEYLNGNKTIGLFFLRSEAVIPDRFKNLILLIDGLSFGTFG
                     FHPHEGFEDELILYIQKTNERVKTLFVKIDLNGIKFGFLRTHS"
                     /name="hypothetical protein"
     Typing          2..85
                     /name="Col(BS512)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.84e-36"
ORIGIN
        1 aagggaagaa ctacgttaag cacgaacgtt gggtagaact ctggcgcgat tgcttgcggg
       61 tgaactatga gccgaatatc gatattcggg cagtaaaaac taagacaggt gaggttgtgg
      121 ccaacgttgc cgagcaactg caaagcgcgg ttgctgaaac gctgaaatac tccgttaaac
      181 cggaagatat ggcaaacgat cctgagtggt ttcttgagct gacgcggcag cttcacaagc
      241 gccgttttat ctcgaccggt ggagcgctaa aaaacgtcct ccagttggat cgagaaacca
      301 atgaggatct tgccattgcc gacgatgtag gggatggcac tgatgacggg aagcggacgg
      361 cgtttgtctg ggattcaggt aaacggcgtt acaaacgcgc ccctgagaag gataaatcgg
      421 attaacgtat gaatattaat attgaatacc tgaatggaaa taagactatt ggtttatttt
      481 ttttaagaag tgaagcggtg attcctgaca ggtttaaaaa ccttattttg cttattgatg
      541 gattaagttt tggcacattt ggttttcatc cgcacgaagg ttttgaggat gaattaattt
      601 tatatattca gaaaacaaac gagagggtaa aaactctttt tgtgaaaata gatttaaacg
      661 gtatcaagtt tggattttta agaacgcatt cttagttctg gaaaagagcc agcggcaggc
      721 tgaggtgata ggtacgagat tgcatgcaat ctctagtgct ctgtctatcc tgcattatcc
      781 tcagcattat cctcagcctt gccaactcga caccaatgca ggatagacaa tccgatgtca
      841 aatgttaaca ctctgcgagt ggtacatttt ccccggatta tcgtcctgag cctgccgctg
      901 gctctctttc taccgcctcg ctttgctcgt tgctcaacgc ctcacagaca cggattaaaa
      961 tccgcatccg ttcaccgttt tttaaagtcc gttaaaagca tgatgccatc tccgagagtt
     1021 aatctcgtca aatgctaaat cgtgggggtc ccctttgggg ttccgattta gtgattgacg
     1081 acaccaccga ttaaaaaact tatgcggggt ggatggtttc acgaagtgag gccatccacc
     1141 tgtaagacag ggttttgttt ttatcccctg ttttggtgat cgggtgtgtg gaaaaggttg
     1201 gggtaagccg ttcggggtgc ttgttttggg gggttaaaat tgtggttatt ttttgcgcaa
     1261 ttctcgcgcg tgatccttgt atttatactt aagggataaa tggcgggtat gaaatagtgg
     1321 tttagcccag taatgacgag gctttgagtg ggttttgaca ggtcaaagaa aatggagcag
     1381 aattgaggcg tttttaatcg gcgttgggga gtgcgtcaac actccccaac atttcgaatg
     1441 tgtcacctca gcggcaaact ctggtgacat gtactggctc gcaatgcaca ggtacgtgat
     1501 gaatatacca catcaaatca cagcctgccc agatcggagc aggcttaatg tcagaagata
     1561 aattcctttc ggactacagc ccccgtgatg cagtttggga tacccagcgc acgcttaccg
     1621 attctgtcgg gggtatctac cagactgctg ctgaattcga gcgctatgca ctccgtatgg
     1681 cctcctgtag cggtttgtta cgttttggtt ggtctaccat catggaaacc ggagaaacgc
     1741 gcctacggct tcgtagtgcg caattttgcc gtgtccgtca ttgccctgtc tgccagtgga
     1801 gaagaaccct catgtggcaa gcccgttttt atcaggctct accgaaaatc gttgtggatt
     1861 acccgtcttc ccgatggttg tttctgacgt taactgtcag gaactgcgag ataggtgaac
     1921 ttggaacagt ccttacagca atgaatgcgg cgtttaagcg aatggaaaag cgaaaggagc
     1981 tatcacctgt tcaggggtgg atcagggcta cggaggtgac gcgaggtaag gatggcagcg
     2041 cacatccgca ttttcactgt ctgctgatgg tgcaaccttc ttggttta
//
