LOCUS       NZ_CP041340             5627 bp    DNA     circular CON 23-JUN-2024
DEFINITION  Escherichia coli strain CCUG 73778 plasmid pSUH-3, complete
            sequence.
ACCESSION   NZ_CP041340
VERSION     NZ_CP041340.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN12169096
            Assembly: GCF_009577985.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5627)
  AUTHORS   Jaen-Luchoro,D., Busquets,A., Salva-Serra,F., Ahren,C., Karami,N.
            and Moore,E.R.B.
  TITLE     Complete genome sequence of the ESBL producing Escherichia coli
            strain CCUG 73778
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5627)
  AUTHORS   Jaen-Luchoro,D., Busquets,A., Salva-Serra,F., Ahren,C., Karami,N.
            and Moore,E.R.B.
  TITLE     Direct Submission
  JOURNAL   Submitted (01-JUL-2019) Infectious Diseases, University of
            Gothenburg - CCUG, Guldhedsgatan 10, Box 7193, Gothenburg, Vastra
            Gotaland 40234, Sweden
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: SPAdes v. 3.11.1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 200.0x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_009577985.1-RS_2024_06_23
            Annotation Date                   :: 06/23/2024 04:13:19
            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)                     :: 5,303
            CDSs (total)                      :: 5,189
            Genes (coding)                    :: 4,967
            CDSs (with protein)               :: 4,967
            Genes (RNA)                       :: 114
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 222
            CDSs (without protein)            :: 222
            Pseudo Genes (ambiguous residues) :: 0 of 222
            Pseudo Genes (frameshifted)       :: 89 of 222
            Pseudo Genes (incomplete)         :: 154 of 222
            Pseudo Genes (internal stop)      :: 44 of 222
            Pseudo Genes (multiple problems)  :: 56 of 222
            Pseudo Genes (short protein)      :: 1 of 222
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP041340.1.
            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..5627
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="CCUG 73778"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /culture_collection="CCUG:73778"
                     /db_xref="taxon:562"
                     /plasmid="pSUH-3"
                     /geo_loc_name="Sweden:Gothenburg"
                     /collection_date="2008-12-18"
     gene            41..364
                     /locus_tag="FMA85_RS26030"
                     /old_locus_tag="FMA85_26830"
     CDS             41..364
                     /locus_tag="FMA85_RS26030"
                     /old_locus_tag="FMA85_26830"
                     /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_000955999.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIGDELRRLRLAVREQGAR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            573..>1004
                     /locus_tag="FMA85_RS26750"
                     /old_locus_tag="FMA85_26835"
                     /pseudo=""
     CDS             573..>1004
                     /locus_tag="FMA85_RS26750"
                     /old_locus_tag="FMA85_26835"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /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            1042..1572
                     /locus_tag="FMA85_RS26040"
                     /old_locus_tag="FMA85_26840"
     CDS             1042..1572
                     /locus_tag="FMA85_RS26040"
                     /old_locus_tag="FMA85_26840"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001673158.1"
                     /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_001673158.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTEKMLNDEFRKLEESVNRELTSNE
                     SLIRNAINDHTTALKELLERYQKTTVDTMDAHWKTVLKMSVKRWLWLIIVSVLMFATTG
                     SLLWYQGMKINANMNILREQKESLEKLNAKTWGVRYHEDSNGRFLVLPKGMKAETNWTK
                     DNGKLNAVRLVQE"
                     /name="MbeB family mobilization protein"
     gene            1579..1812
                     /locus_tag="FMA85_RS26045"
                     /old_locus_tag="FMA85_26845"
     CDS             1579..1812
                     /locus_tag="FMA85_RS26045"
                     /old_locus_tag="FMA85_26845"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137438.1"
                     /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_000137437.1"
                     /translation="MTELERHLLNALEQLQQDYMQRLNEWENAFVELQKMFSLTQRDNA
                     MLNGRVMQLSQQVQHLSERTERLSQLYSENRR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            2293..3345
                     /locus_tag="FMA85_RS26050"
                     /old_locus_tag="FMA85_26855"
     CDS             2293..3345
                     /locus_tag="FMA85_RS26050"
                     /old_locus_tag="FMA85_26855"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001557502.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001053268.1"
                     /translation="MNLQQRINKLPQLSSSFSFGKDIDNIHSFIFNETSKDKIEDLLRK
                     WVSGNQPCVFGKLASKKIKGLDFHLSIVNSPQLYNDDGHLFDFLRNERVRFKERARRGE
                     VSAHLIYFIHPQLAFARPSEELVDIQKYICSLHMPECYPIKEDVIYTESVPFQDKDGLK
                     IYKAGVNVFYSSAHRTRNHDRRIPGGILISVNAPGHFMRLAIEKGFYKDQEQALADIRN
                     MTIQSVGKGGYSHPEGISTTWHSESNLDRFGCPVHTGNSSYYSGFYHTDVLIPGELTKD
                     ERLLHEIENSDPMIFNWNVLFYVSLEEFPIDDPYYGEFIGIPVDDASMFFNSFQPRKFE
                     NKPLYEKEDD"
                     /name="hypothetical protein"
     gene            3347..4213
                     /locus_tag="FMA85_RS26055"
                     /old_locus_tag="FMA85_26860"
     CDS             3347..4213
                     /locus_tag="FMA85_RS26055"
                     /old_locus_tag="FMA85_26860"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001335763.1"
                     /GO_function="GO:0005215 - transporter activity [Evidence
                     IEA]"
                     /GO_process="GO:0055085 - transmembrane transport [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DMT family transporter"
                     /protein_id="WP_001335763.1"
                     /translation="MIKGMLFAFLAAFSWGAAIVMSKKGVEELDAGGVFFWQICSAVIL
                     SWIVLFIKRKKLPLNSKAILAYATGVFEPFLAYTFTLYGLYFISAGSASIIFSLESVFI
                     LVLSVLICSVKINSPQYFILFLIGAIVGSILVALPDISNGSNNIVGYCLVVAGVLSAAF
                     YVVISSRLIKSFEPITLLSGQLTFSLILSSLFIFISKSSIYLPLESVIIVFSSGILQYF
                     LAFCFYLNSLRWLPVHLAGIMLYFIPLVALFLSWLFLDEQFTFLQGVGFIVTVLSVYFL
                     NRKYSEE"
                     /name="DMT family transporter"
     gene            complement(5413..5604)
                     /locus_tag="FMA85_RS26060"
                     /old_locus_tag="FMA85_26875"
     CDS             complement(5413..5604)
                     /locus_tag="FMA85_RS26060"
                     /old_locus_tag="FMA85_26875"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165985.1"
                     /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_000165985.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENL"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          5241..5328
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="6.86e-39"
     Typing          4597..4784
                     /name="rep_cluster_2401"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="4.63e-94"
     Typing          355..1916
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.808"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ttctgttcat ggggtaatga taccgatgaa acgcgagagg atgctcacga tacgggttac
       61 tgatgatgaa catgcccggt tactggaacg ctgtgagggt aaacaactgg cggtatggat
      121 gcggcgggtc tgcctgggtg agccggttgc ccgttccggg aagctgccga cactggcacc
      181 gccgttactg cgtcagctgg ccgccatcgg gaataacctt aaccagacag cgaggaaggt
      241 gaacagcggg cagtggtctt ccggtgaccg ggttcaggtg gtggccgcac tgatggccat
      301 cggggatgag ctgcgccggc tgcgtctggc tgtcagggaa cagggggcgc gggatgatag
      361 ttaaatttca tgccagggga aaaggtggtg gcagtggtcc ggttgattac ctgctgggga
      421 gggagcgtaa ccgcgaaggc gcaacggtgc ttcagggtaa tccggaagaa gtccgggaac
      481 tcatcgatgc cacgccattt gcgaagaaat acacgtccgg tgttctgtcg ttcgcggaga
      541 aggagctgcc gccgggagga cgtgaaaaag tgatggcgag ctttgagcgt gtactgatgc
      601 ccggtctcga aaaaaatcag tacagcatcc tgtgggtgga gcaccaggac aagggacggc
      661 ttgagctgaa ttttgtcatt ccgaacatgg agctacagac cggaaaacgc ctccagccgt
      721 actacgaccg cgcagacagg cctagaattg atgcctggca gacgctggtg aatcaccatt
      781 acgggctgca tgacccgaac gccccggaga accgcaggac gctgacactc cctgataacc
      841 tgcctgaaac gaaacaggcg cttgctgagg gcgtcacgcg aggtatagat gcactttacc
      901 atgccggaga gataaaaggc cgtcaggatg tgattcaggc gctcactgag gcggggctgg
      961 aagtggtcag ggtgacgcga agcagtatca gcattgcaga tccgaacggc gggaagaata
     1021 tcaggctgaa aggagcattt tatgagcaat cttttacaga cgggcgcgga gttcgagaaa
     1081 aagctgaaag agagagccga atctacagag aaaatgctga acgacgagtt caggaagctc
     1141 gaagaatctg taaacaggga actgacctca aacgaatctt taatcaggaa cgctatcaac
     1201 gaccatacaa cagccctgaa agaactgctg gagaggtatc agaaaacgac cgtcgatacg
     1261 atggacgcgc actggaaaac cgtactgaaa atgagcgtga aacgctggct gtggctgatt
     1321 atcgtctcag tactgatgtt tgccacgacc gggagtctgc tgtggtacca gggcatgaag
     1381 ataaacgcga atatgaatat tctccgcgag cagaaagaga gtctggagaa gctgaacgcg
     1441 aagacatggg gcgtgcgtta tcacgaggac agcaacggac gttttctggt gttgccgaag
     1501 gggatgaaag ccgaaacgaa ctggacgaag gacaacggca aactgaacgc agtgagactg
     1561 gtgcaggagt gacagagcat gacggagctg gaaagacatt tgctgaacgc attagagcaa
     1621 ctgcaacagg actatatgca gcggctgaac gaatgggaga acgccttcgt ggaattgcag
     1681 aaaatgtttt cgcttacgca acgggacaac gcgatgctga acgggcgagt catgcagttg
     1741 agtcagcagg tgcagcactt gagcgagcgg acagaacgct tgagccagtt atacagcgag
     1801 aacaggagat aagggatgaa cggctgatgc aggaacgcga acatgagtta tctctggagc
     1861 gggagcgtca gccggaaatc caggagcgga cactggatgg cccttcgctg ggatggtgaa
     1921 accatgaaaa atgacgtgtt cagtggatta aggcgggcta atgtggcctg tagcatctgg
     1981 ttgcataggt attcatgcgg ttaaaattta tcaggtgcga tcgcggcagt ttttcgggtg
     2041 gtttgttgcc atttttacct gtctgctgcc gtgatcgcac cgaacgcgtt ttggcggtgc
     2101 gtacaatgcg acgttatggt aaatggagcg gattttcagg aaggagtgat actaacaact
     2161 cgaacactgt gcaaataatg atttttttaa aatatcggta acgataataa attatttcgt
     2221 tttacgccgg taataaatat aatgtagttt cagtatataa aaaaatatat gaggtgtctt
     2281 gtgggagctt tcatgaatct tcaacaacgt ataaataaac taccacaatt atcatccagt
     2341 ttttcatttg gaaaagatat tgataatatt cattcattta tctttaacga aacttctaaa
     2401 gataaaattg aagatttact aagaaaatgg gtgtcaggca atcagccctg tgtatttggt
     2461 aaattggcaa gcaagaaaat taaagggctt gatttccatt tatctattgt aaatagcccc
     2521 caactatata atgatgatgg tcatttgttt gattttttgc gtaatgaaag agttcgtttt
     2581 aaagaacgcg caagaagagg agaggtcagt gcgcatctca tttattttat tcatccacaa
     2641 cttgcctttg ctcgtccatc agaagagtta gtggacatac aaaaatatat ttgttcgctg
     2701 catatgccag agtgctatcc aataaaagag gatgttattt atactgaaag cgtaccattt
     2761 caggataaag atgggctaaa aatatataag gctggtgtta atgtttttta ctcttctgct
     2821 catagaacaa gaaatcatga tagaagaata ccagggggaa tacttatttc tgtaaatgcc
     2881 ccggggcatt ttatgaggct ggcgatagaa aaaggtttct ataaagatca agaacaagcg
     2941 ttagcggata ttcgtaacat gactattcag tctgttggta agggtgggta ttcacatccg
     3001 gaagggattt ctacaacatg gcattcagaa tctaatttgg atcgttttgg atgcccagtg
     3061 cacaccggta atagttctta ttacagcggt ttttatcata ctgatgtatt aattccagga
     3121 gaattaacta aggatgaaag attgctccat gaaatagaaa atagtgatcc aatgatcttc
     3181 aactggaatg tattgtttta tgtttcatta gaagagtttc ctatagatga tccttattat
     3241 ggagagttta ttggtattcc tgtagatgat gcatctatgt tttttaactc ctttcaacca
     3301 aggaaatttg aaaacaaacc cctttatgag aaagaggatg attaatatga ttaaaggaat
     3361 gctttttgct tttttagcag cgttctcatg gggggcagct atcgtaatga gcaaaaaagg
     3421 agttgaagaa ctagatgccg gaggggtgtt tttctggcag atttgtagtg cagtaatact
     3481 atcttggata gttcttttta taaaaagaaa aaaactccca ttaaactcaa aagcgatact
     3541 tgcttatgcg acaggcgttt ttgaaccatt cttagcgtat acttttacac tctacggact
     3601 ttattttatt tcagcaggaa gcgcatcaat tattttttca cttgaatcag tgtttatatt
     3661 ggtgttgtct gttcttattt gctcagttaa aattaattcc ccgcaatatt ttatattgtt
     3721 ccttataggt gcaattgttg gcagtatttt ggtagccttg ccagacatca gtaatggatc
     3781 gaataatatt gttggatatt gtcttgttgt tgccggtgtg ttatcggcag cattttatgt
     3841 tgttatatcg tctcgcctta ttaaatcgtt tgagcctatc acattattga gcggacagtt
     3901 gacattctcc cttatactgt catcgctctt tatttttata tctaaatcat caatttatct
     3961 tccgttggaa tccgtgatta ttgttttttc atctggaata ttacaatatt ttttagcttt
     4021 ttgtttttac ttgaactcct tgcgttggct cccagttcat ttggcaggga taatgttgta
     4081 ctttattccg ctagttgcat tatttttgtc atggttgttt ttggatgaac aattcacatt
     4141 cttacagggg gtaggattta ttgtaactgt gctaagtgta tattttctta acagaaaata
     4201 ctcagaggag taacattctg ttcaggattg ccccccggcc tccatcgata ccgtgccaaa
     4261 tgcacgtaaa aaacgggagc gtttctggtg tcggaatgta accaaggggg tcagaggcgc
     4321 gctaaaacgc tctcagggga gtcaaataga gacgtttgta acaaaaagat caaaggatcc
     4381 tcttgagatc ctttttttct gcgcgtaatc tgctgcctgt aaacgaaaaa accgccttgc
     4441 agggcggttt gatcgaaggt taagtcagct tgcagactgc ttaaccaggt aactgtctta
     4501 tgcgagacga gtcaccaaaa ttgttcttct agtgtagccg cactccggca gccacttcaa
     4561 gtactctcta aatatctcgc acatgacttt taccaatggc tgctgccagt ggcgctttgt
     4621 ggtgtctttt ccgggttgga cccaagagaa cagttaccgg agaaggcgca gcagtcgggc
     4681 tgaacggggg gttcctgcat acagcccagc ccggagcgaa ctgcctaagt cgccccgaga
     4741 taccagaaga cgtgagctat gagaaagcgc cacgtgtccc gtaagggaga aaggcggaaa
     4801 aggtatccgg taatcgatat ggcgggaacg tgggggcgca ggagggagcg attcaccgga
     4861 aacggtgatg atctttaagc cacgtcgggt ttcgccaccg ctggcggatt tcatggttga
     4921 gccgcaaggc tcccacagat gcaccgaaaa agtgtctgtt ttgtgaagtc cgtcaggggg
     4981 gcggagccta tggaaaaagc gcctccggcg cggcctttcc cggggtttcg ttttttgcgc
     5041 acatgttctt tcctggttta tccccgggtt ctgtggataa cagggttagc gtttttgaga
     5101 aaggagagtc cgctcgccgc agccgaacga ccgagcgtag cgagtcagtg agcgaggaag
     5161 cggaagagcg cctgaactgg cattttctcc ttacgcatct gtgcggcatt tcacaccgga
     5221 catggcgcac ttttcataca atccgcactg atgccgcatg gttaagccag tatacactcc
     5281 gctatcgcta cgtgactggg tcagggctgc gccccgacac ccgctaaaac ctgctgacgc
     5341 gccctgacgg gcttgtcagc tcccggcatc cgctcacaga caagctgtga ccgtctccgg
     5401 gagctgcatg tgtcagaggt tttcaccgtc atccccgaaa cgtgcgagac agctgcggta
     5461 aagctcatcg gcgtggtcgt gaagcgattc acaaatatcg gcctgttcat ctgcgtccag
     5521 ttcgttgagc ttctccagca gcgttaatgt ctggcttctg ataaagcggg ccatgttaag
     5581 ggcggttttt tcctgtttag tcactgatgc ctccgtgtaa gggggat
//
