LOCUS       NZ_CP041341             5166 bp    DNA     circular CON 23-JUN-2024
DEFINITION  Escherichia coli strain CCUG 73778 plasmid pSUH-4, complete
            sequence.
ACCESSION   NZ_CP041341
VERSION     NZ_CP041341.1
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 5166)
  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  JOURNAL   Unpublished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 5166)
  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
            CP041341.1.
            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..5166
                     /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-4"
                     /geo_loc_name="Sweden:Gothenburg"
                     /collection_date="2008-12-18"
     gene            join(4644..5166,1..392)
                     /locus_tag="FMA85_RS26065"
                     /old_locus_tag="FMA85_26880"
     CDS             join(4644..5166,1..392)
                     /locus_tag="FMA85_RS26065"
                     /old_locus_tag="FMA85_26880"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001738986.1"
                     /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_001271348.1"
                     /translation="MSAALQYFDENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWLVMEWREEAYTLDELADYLDLSASE
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLEAVIQRVEMYNASLPVPLSL
                     AECRAIGKSIAKYTHRNFTPETFAQYVADTHTPEIQAARGRKGGSKSKRSTVATSARTL
                     KPWEALGISRAWYYQLKKRGLVE"
                     /name="replication initiation protein"
     gene            complement(596..994)
                     /locus_tag="FMA85_RS26070"
                     /old_locus_tag="FMA85_26885"
     CDS             complement(596..994)
                     /locus_tag="FMA85_RS26070"
                     /old_locus_tag="FMA85_26885"
                     /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_001222914.1"
                     /translation="MRISNIEWLKKRIGFIRKLGEQTARQRQIIDLIDNEAGLTEQERK
                     LLHVLATAEKNDLQAQESERKQAVQKRIEGKKQRRERNHRLFLAAGLLIEAGLVDTKTG
                     ELCYKKDRILQALKELKYDLETSPNPDA"
                     /name="hypothetical protein"
     gene            1171..2097
                     /locus_tag="FMA85_RS26075"
                     /old_locus_tag="FMA85_26890"
     CDS             1171..2097
                     /locus_tag="FMA85_RS26075"
                     /old_locus_tag="FMA85_26890"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221102.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="WP_001331297.1"
                     /translation="MATYHLSVKFGGKGQAANHADYIERKEKYRDRQDLEYSAHGNMPE
                     WARDNPSHFWQAADQFERANGSTYRELEIALPRELTPEQRLELVQDFVRQEAGERHAWS
                     FAIHNPKASIDGGEQPHAHIMMSQRVNDGIERTPEQYFRRYNARYPERGGAKKDSGSLT
                     LTQQKEQLRELRKRWEVKHNEHMRKHGFERGFIDCRTLKEQGIERRPEVHLGFEAAGRL
                     DDAQRHDIMQKRSEPDYSRHLEQARTVGHDIREWLDTPVKQHELVRRLQHDVAREHGFD
                     MRDRVSRQNRTAPERVKSPSRGFSMGF"
                     /name="MobA/MobL family protein"
     gene            2100..2633
                     /locus_tag="FMA85_RS26080"
                     /old_locus_tag="FMA85_26895"
     CDS             2100..2633
                     /locus_tag="FMA85_RS26080"
                     /old_locus_tag="FMA85_26895"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221103.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000168770.1"
                     /translation="MASTEEKLLTLLLSVEHLQHTAMEQQKAVADSLAVARETLRGYRD
                     ISDGVAKQVRDEVRNEVQKLDVAGLIGERISQDFQRLEESVANMKANADALNRDIATIH
                     SNIVQEYNTLKGYSWKWLGGVSVAFLVMFCVLGWGMKTILDRNYNATAAVYQKVVTLED
                     KLVEKPVTGKSRKN"
                     /name="hypothetical protein"
     gene            complement(2699..2908)
                     /locus_tag="FMA85_RS26085"
                     /old_locus_tag="FMA85_26900"
     CDS             complement(2699..2908)
                     /locus_tag="FMA85_RS26085"
                     /old_locus_tag="FMA85_26900"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001618649.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001096196.1"
                     /translation="MAKLGENTPHIIDATVDFMASSQAFREYLKKLPPDNTIPPALTDE
                     HVPLYIRRLEYYRLLYRPKQTESY"
                     /name="hypothetical protein"
     Typing          22..392
                     /name="rep_cluster_2131"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          4645..5166
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="97.132"
                     /coverage="83.0"
                     /evalue="0.0"
     Typing          1172..2094
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.052"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gaaactgcca cctgttcgaa atgacgcgca aatgggctta cagggcgatt cgtcagggct
       61 ggccagcgtt ctcacagtgg cttgaagcgg tgatccagcg tgtcgaaatg tacaatgcat
      121 cgcttcccgt tccgctttca ctggctgaat gtcgggctat tggcaagagc attgcgaaat
      181 acacgcacag gaacttcacg ccggaaactt tcgcacagta tgtggctgat acgcacacgc
      241 cagaaattca ggctgcacgc ggtcgcaagg gcggttctaa gtctaagcgc agcacagtag
      301 ctacatctgc acgcacgctg aaaccgtggg aggcattagg gatcagtcgc gcctggtatt
      361 accaactgaa aaaacgaggt ctcgtagagt agaccaaata agcctatatc agataacagc
      421 gcctttctgg cgtctttttg agcagcaggt tttttgccgt ttttccccgt tcagccctgc
      481 aatggcgcgg ctttccgcgt gattgtggtg gtagtgctcg ccgcagtctc atgaccgagc
      541 gtagcgagcg aatgagcgag gaagcaccag ggaatcggaa cacggatgga ggcacttacg
      601 cgtctgggtt tggggatgtc tccagatcgt acttaagttc cttaagtgct tgtaatatcc
      661 tgtctttttt atagcatagc tcgcctgttt ttgtgtctac cagtcctgct tcgatcagta
      721 gcccagccgc gagaaagagc cggtgattgc gttcccgtcg ttgttttttt ccctcgattc
      781 gtttttggac cgcctgtttt cgttcgctct cctgtgcctg taagtcgttt ttttccgctg
      841 ttgccagtac gtggagaagt ttgcgttcct gttctgtgag tccggcttcg ttgtcgatca
      901 ggtcaataat ctgtctctgt cgtgcggtct gttctccgag cttcctgatg aatccgatcc
      961 gtttcttcag ccattcgatg ttgctgatgc gcatgttcgt gatgctccct ggtgtttttt
     1021 tgcggtgtgt tgtggtcgtg cagtatatcg cttgcggtcg gcgggtgcag ggggtatctt
     1081 ccgtgctaat tcgtaaaatt agaaggaagc gcacttatat gtttctctcc ttcgtcgaga
     1141 aacagtgcgc tcctgcagag ggctgaaacc gtggcaacct atcacctcag cgttaaattt
     1201 ggtggcaagg ggcaggctgc aaaccacgcc gattacatcg agcgcaaaga gaaataccgc
     1261 gaccgtcagg atttggaata ttccgcacac ggaaacatgc cggaatgggc cagggataat
     1321 ccttcccatt tctggcaggc ggctgaccag tttgaacgtg cgaacggttc gacctatagg
     1381 gaacttgaaa ttgcattacc ccgtgaactg acaccggaac agcgccttga actggtgcag
     1441 gattttgtac gtcaggaagc tggcgaacgg cacgcctgga gttttgccat tcacaatccg
     1501 aaagcgagca ttgacggcgg cgaacagcct catgcgcata tcatgatgag tcagcgtgtg
     1561 aatgatggca ttgaacgtac accggaacag tatttccggc gctataacgc caggtatccc
     1621 gagcggggag gtgcgaaaaa ggattccgga agcctgactc tcactcagca aaaagagcag
     1681 ttgcgggaat tgcgaaaacg ctgggaggtg aagcacaacg aacatatgag aaagcatggc
     1741 tttgaaaggg gcttcattga ctgccggacg ctgaaagaac agggcattga acgacgtccc
     1801 gaagtgcatc tgggttttga agctgccgga cggcttgatg atgcccagcg tcatgacatc
     1861 atgcaaaaac ggtctgaacc ggactattcc cgccatcttg aacaggcgcg aacggtcggg
     1921 catgacatca gggaatggct ggacactccg gttaagcaac atgaactggt cagaaggctg
     1981 caacatgatg ttgcgcggga gcatggcttt gacatgagag acagagtgag cagacagaac
     2041 cgaactgcac ctgaacgggt taaatcaccg tcacgtggat tttctatggg attctgaaca
     2101 tggccagcac agaagaaaaa ttactcacgc tcctgttatc ggtggagcat ctgcaacata
     2161 ccgcaatgga gcaacagaaa gctgttgctg attctctggc tgtggcaagg gaaactcttc
     2221 gcggatatcg ggatatttct gacggtgtgg caaaacaggt cagggatgaa gtcagaaatg
     2281 aggtgcagaa gctggacgtg gcaggactga taggtgagcg catcagccag gattttcagc
     2341 ggctggaaga gtcagtcgca aacatgaagg caaacgcgga tgccctgaac agggatattg
     2401 cgacaattca cagcaatatc gtgcaggaat acaacaccct taaagggtat agctggaaat
     2461 ggctgggtgg ggtgtcagtg gcttttctgg ttatgttctg tgtgctcgga tggggaatga
     2521 aaacaatact cgacaggaac tacaacgcca cagcggcggt gtatcagaaa gttgtgacac
     2581 tggaagataa actggtggag aaacctgtca cggggaagag ccggaaaaac tgacgcgctt
     2641 cgcttgtcca acgcctcacg acccgcgaaa ggatttcgcg aaccgttcac cgtttttttc
     2701 aatatgattc tgtctgcttt ggtcgataaa gcagacgata gtattccagc cttcgtatat
     2761 ataacggtac gtgctcatca gtaagagctg gcggtattgt gttatcaggg ggaagttttt
     2821 tcagatactc acgaaatgcc tggcttgatg ccataaaatc tacagtagca tcgataatat
     2881 gtggggtgtt ttcacctaat tttgccatga tgataatcct tatattatca cggtttgtga
     2941 atgatagggt gtcactatta tttatgcgtt agtgaaccag aaaaaatccc ccgttggcat
     3001 agggggatat gtaaggagaa ataacttcgc aggtgttctt gtttgtataa cgtgaaaaga
     3061 ctgcacgcaa cttaataagt ctgccgtact tactttcagt tttcaacata aggtttataa
     3121 caatgtatgg aatggaagtg agctttaagg tttcagctct aaaaaataaa atatttatta
     3181 gttggctggt tgttgttctt gttctgtatg tatataaaca ctatcgacat attatgaccg
     3241 ggaacattcc ttaccccctc tgcgctcgca gaggtttttt ttgtcattaa ttaataatga
     3301 actgaaatgc agttccgata cctccatttg cacattatcc ctgacatatg gtaccggaac
     3361 cgcattaatt ttatgttata agagtttatt tttaatgtcc agatggttta atagtattta
     3421 tatgtaatta gctgtatgga tagtactggt tttattgtat aacttgtcgt tttttttatt
     3481 gtttttgtgt ggtgtgctaa tctttaagtt ataaaaaaac cccttggaat acaggggcaa
     3541 aagtaaggaa aacaaatgga tgctcagttt gtgtgacact ttaaactaat ggaactatag
     3601 agtggaggtt gttacagtcg cttttataaa acagcaacca gtttttttca atagtctgat
     3661 gatggttgtg acagttttgt gatattgttc aaaatgtttc ttgttgaatg tttgtttttt
     3721 ggtctattgg tgtctggttt tattttttct gctattacat atcaagaaat gtgattggtg
     3781 tagcaagagt ggaatgcgat gtggataaac taattggttg tcgaatctaa tttacttaga
     3841 aaactacact tgtttttgtg tatgaattta gtgaatttgt ctgtctatgt gttttcgtgc
     3901 atttataaat ccttcgtcag gatcttaaat ttagtgttga atatgtaggg cctgtacggt
     3961 aattattatt tagcgtagct acttcatcgt tgttcgaaca caaccaacaa cctgtaattg
     4021 ttgtttctct tggttcccca cttttgtggg gttttttatc tcttccgtgc atcgtaaagc
     4081 gcggactcct tctggaaagg ttgttttagg gcatcactga ggcatttttt gcgtttgtga
     4141 atattgagca tccgataact aaaatatttc ccatagactc tgattcttgc caccgacccc
     4201 aggtcggttt ttttttgtcc tggcgagatg tgaagtttgg aaacaggaaa ccccgtcaga
     4261 gcgccacgca ccaggggaga aaacttgtcg ttttgagccg ttcggtgttc agaacgcacg
     4321 aaaccgatcg cacatcgctt tcgtgcatag ttatgcaacg ccctgaaaac gattctgacg
     4381 cgtttttctg gtttggcctg gtgttttctt gtctttttgc gttttttgcg ccagaaagcg
     4441 actgagggcg ttttaagggg ggcgtacaac gggagttatg gtaaatggat cgggttttcg
     4501 ggaaggttcg acaggatttg ccgttgggtg tagtgtaagc gactgaaaaa caaacgcccc
     4561 tgaaatcatg tccagatccg gcaagattca acatgaaata cagagggcgt gtaggtcgca
     4621 taacccggag agaatcgtaa cacatgagcg ccgcgcttca atacttcgac gaaaatttac
     4681 cccatcgtcc ctatcacacg gatgatctcg cttttggtct tcgcatctcc ggcaaagggc
     4741 gtgcgcttct tgcgcggtac atacagcaga accagcctca tgcgcagttc tggctggttt
     4801 ttgacgttga ccgcgagggg gctgcgattg actggagcga ccggaacgct cccgcgccga
     4861 acatcaccgt taaaaatcct gtgaacggac acgctcacct gctctacgca ctcaacatcg
     4921 ccgtgagaac cgcgcctgat gcctcggtta aggcgctgaa atatgccgca gcggttgaac
     4981 gttcgctgtg tgagaaactt tgtgcggatg tgaactacag cggcctgatt tgcaaaaatc
     5041 cgttccacct ggaatggctg gtgatggagt ggcgcgagga agcctatacc ctcgatgaac
     5101 tggctgatta tctcgatttg agcgcctcag agcgtcgtag catcgataaa cattacggga
     5161 tggggc
//
