LOCUS       NZ_CP024804             1934 bp    DNA     circular CON 16-JUN-2024
DEFINITION  Escherichia coli strain AMA1167 plasmid pAMA1167-5, complete
            sequence.
ACCESSION   NZ_CP024804
VERSION     NZ_CP024804.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN07983336
            Assembly: GCF_002803905.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1934)
  AUTHORS   Overballe-Petersen,S., Roer,L., Ng,K., Hansen,F., Justesen,U.S.,
            Andersen,L.P., Stegger,M., Hammerum,A.M. and Hasman,H.
  TITLE     Complete Nucleotide Sequence of a ST410 Escherichia coli strain
            carrying blaNDM-5 on an IncF multidrug resistance plasmid and
            blaOXA-181 on an IncX3 plasmid
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1934)
  AUTHORS   Overballe-Petersen,S., Hasman,H. and Hammerum,A.M.
  TITLE     Direct Submission
  JOURNAL   Submitted (09-NOV-2017) Microbiology and Infection Control, Statens
            Serum Institut, Artillerivej 5, Copenhagen S 2300, Denmark
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 2017
            Assembly Method                   :: other v. October-2017
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 20.0x
            Sequencing Technology             :: other; Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_002803905.1-RS_2024_06_15
            Annotation Date                   :: 06/15/2024 01:59:40
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,826
            CDSs (total)                      :: 4,709
            Genes (coding)                    :: 4,460
            CDSs (with protein)               :: 4,460
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 249
            CDSs (without protein)            :: 249
            Pseudo Genes (ambiguous residues) :: 0 of 249
            Pseudo Genes (frameshifted)       :: 79 of 249
            Pseudo Genes (incomplete)         :: 163 of 249
            Pseudo Genes (internal stop)      :: 51 of 249
            Pseudo Genes (multiple problems)  :: 36 of 249
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP024804.1.
            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..1934
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="AMA1167"
                     /isolation_source="liver"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pAMA1167-5"
                     /geo_loc_name="Denmark"
                     /collection_date="2015"
                     /collected_by="Statens Serum Institut"
     gene            join(1741..1934,1..109)
                     /locus_tag="CUC42_RS24520"
                     /old_locus_tag="CUC42_24510"
     CDS             join(1741..1934,1..109)
                     /locus_tag="CUC42_RS24520"
                     /old_locus_tag="CUC42_24510"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_100608383.1"
                     /translation="MAGSIRARSLYLYLRDNSGDKKWHQALRTKASWLICVVEGFGSIL
                     LGVVALKATPATTAIVRGCDHLQKFDSKRQPTGDTAMITRQMSHRPAWGGVHAKP"
                     /name="hypothetical protein"
     gene            96..1082
                     /locus_tag="CUC42_RS24525"
                     /old_locus_tag="CUC42_24515"
     CDS             96..1082
                     /locus_tag="CUC42_RS24525"
                     /old_locus_tag="CUC42_24515"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001529700.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_016245711.1"
                     /translation="MQNPKLQNLTDYSPSDAPWDAHKSVSDDVGGIYLLAAEYERYGAR
                     MASCGGLLRFGWSTLKETGETRLRLREAHFCRVRHCPVCQWRRSLMWQARFYQSLPRIV
                     ADYPDARWMFLTLTVRNCAIGELGETLNRMNMAFQRLKDRKEFRPVQGWIRTTEVTRGS
                     DGSAHPHFHTLMMVPPSMFTRDYVKHDRWVELWRECLRVNYDPNVDVRAVKPRKPKDGE
                     SLASATAELVRGAVAETLKYSTKPADMVADPEWFLELTKQTHKRRFVATGGALKDILKL
                     DQETDADMVIGDDIPEGDDDGSRIAFEWKTESKKYRRSPSKDKAESD"
                     /name="protein rep"
     Typing          complement(809..997)
                     /name="ColpVC"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="88.947"
                     /coverage="98.0"
                     /evalue="1.39e-59"
ORIGIN
        1 ccacctgcag aaattcgatt cgaagcgaca accaacaggt gatacggcaa tgataacacg
       61 tcaaatgagc catcgcccag catggggcgg tgtgcatgca aaaccctaaa ctccagaacc
      121 tcacggatta ctccccctca gacgcgccct gggacgctca caaaagcgtt tctgacgacg
      181 taggtgggat ttaccttctc gcagccgaat atgagcgcta cggggcgcgt atggcttcct
      241 gtggcggttt actgaggttt ggttggtcta ccctcaaaga aactggagaa actcgcctta
      301 ggctacgtga ggcgcatttc tgccgtgtcc ggcactgtcc tgtctgccag tggaggcgat
      361 ccctgatgtg gcaagcccgt ttttatcagt ccctgccgcg tattgttgcg gattatccag
      421 atgcacgctg gatgttcctg accctcacag tgcgaaactg cgcgatcggg gaattgggtg
      481 agacacttaa ccgaatgaac atggccttcc agcgacttaa ggatcgcaaa gagtttcgac
      541 ctgttcaggg ctggatccgc accacggaag ttacacgtgg aagtgacggt agtgcgcacc
      601 cgcactttca cactctgatg atggttcctc cctcaatgtt cacgcgagat tacgttaaac
      661 atgaccgctg ggtagagctt tggcgagagt gtttgcgtgt gaattacgat ccgaatgttg
      721 atgttcgagc agtaaaaccc cgcaagccta aggacggaga atcattggct tctgcaactg
      781 cggaacttgt acggggcgca gtggctgaaa ccctgaaata ttccacgaag ccggctgaca
      841 tggttgctga tcctgaatgg ttcctcgaat tgactaagca gacacataag cgccgatttg
      901 tggctaccgg tggcgcactc aaagacatac tgaaactcga tcaggaaact gatgccgata
      961 tggtaatcgg ggatgatatt cccgaaggcg atgatgatgg ttcacgcatt gcttttgagt
     1021 ggaaaaccga atccaaaaag taccgtcgct caccgtcaaa agataaagct gaatcagact
     1081 gacagggtat cggggcgcag ccctgaccac gacgtttttg agaggacgcc gcttgtcggc
     1141 ggtactccaa aaacacatct tgtcctatta gttctactcc gatgcaggat agggctaacg
     1201 ccgcaaagtg acgtcactca attactgagt tcggtttccg aactcagttg ggacaagatg
     1261 tgtttttggt acaccgccat cacgatgtcg gtgccaaaaa cgattcgtca gggctgcgcc
     1321 ccgacaccct gccaacacct cacgcagtca gattaaaatc tgccagcgct cgccgtttcc
     1381 gaaatcgtca aactctaaat cgtggggtcc cgctggcttg ccagtgggtt ccgatttagt
     1441 gattgacgac attgctgatt gaaaaattgg ctgaggtggt tggattcacg aagtgaggcc
     1501 aaccacctgg aagacggttt ttaattgtct ggtaccggat acaaccagaa cgaatggagt
     1561 tggttctgtc gtgatgcgaa aaagtatggg ttcgcaaatc acagactaaa tagatttacc
     1621 caattccatt cgagtgaggt tgttatgttt tttgaggttc ttaatcatgt tgatagtgcg
     1681 ttgagcgttg ctgtttcgct cctagcgttg tggcagtttt tggtggcagg tgggcgttga
     1741 atggctggtt cgatccgcgc gcgatccttg tatttatact taagggataa ctctggcgat
     1801 aaaaaatggc atcaagcctt gcgtaccaag gcttcgtggc ttatttgcgt tgtagaaggt
     1861 tttggaagta ttctgttggg agtggtcgcc ttaaaagcga cccccgcaac gacggccatc
     1921 gttcgggggt gtga
//
