LOCUS       NZ_CP041342             5057 bp    DNA     circular CON 23-JUN-2024
DEFINITION  Escherichia coli strain CCUG 73778 plasmid pSUH-5, complete
            sequence.
ACCESSION   NZ_CP041342
VERSION     NZ_CP041342.1
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 5057)
  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  JOURNAL   Unpublished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 5057)
  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
            CP041342.1.
            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..5057
                     /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-5"
                     /geo_loc_name="Sweden:Gothenburg"
                     /collection_date="2008-12-18"
     gene            join(4968..5057,1..102)
                     /locus_tag="FMA85_RS26090"
                     /old_locus_tag="FMA85_26910"
     CDS             join(4968..5057,1..102)
                     /locus_tag="FMA85_RS26090"
                     /old_locus_tag="FMA85_26910"
                     /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_153435665.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DKLYRSCLARFGGDGENL"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(254..472)
                     /locus_tag="FMA85_RS26970"
                     /old_locus_tag="FMA85_26915"
     CDS             complement(254..472)
                     /locus_tag="FMA85_RS26970"
                     /old_locus_tag="FMA85_26915"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001441803.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_350338012.1"
                     /translation="MFFPALSPDSVDNRITAFECADTARRSRTTERSESVSEEAEERLK
                     WHFLLTHLCGISHRIWCTLSTICTDAA"
                     /name="hypothetical protein"
     gene            773..904
                     /locus_tag="FMA85_RS26975"
     CDS             773..904
                     /locus_tag="FMA85_RS26975"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001422066.1"
                     /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_249820084.1"
                     /translation="MHEPPVQPDRCALSGNYRLESNPVRHDLTPLAAATGKGCTRYY"
                     /name="replication initiation protein"
     gene            1269..2327
                     /locus_tag="FMA85_RS26095"
                     /old_locus_tag="FMA85_26920"
     CDS             1269..2327
                     /locus_tag="FMA85_RS26095"
                     /old_locus_tag="FMA85_26920"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012508929.1"
                     /GO_function="GO:0005524 - ATP binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="ParA family protein"
                     /protein_id="WP_094905242.1"
                     /translation="MAIYAVWNNKGGVGKSYLTFQLASEYARQNPTKKVLVIDLCPQAN
                     SSSMLLGGMVNGENTLNQIHSATQRKTISGYIEDRIRSPYIPTNTGSNYVINVSTYNSR
                     IPDNLYLVTGDEQLELQASRVVGASFPGPHDAWRTVHLWINDLISDICNSWDNGDSCVF
                     IDCNPSFSIYTELALTAAERLLIPFSADGSSKRAVKAVLSLVYGERRHLNEPQSDFYLN
                     SNRYSMSLPQIYMYVGNRLTQMNNSSASAFKTVVTEIGDEIWKVWQTKPSLFCIHPNGS
                     STPNNKKSFRNMFQYEVNDANTASVVSGALGIPIATLTAGNKNVAGRTIKVNQTQLDKQ
                     VPNIVALAGMIE"
                     /name="ParA family protein"
     gene            complement(2357..2611)
                     /locus_tag="FMA85_RS26100"
                     /old_locus_tag="FMA85_26925"
     CDS             complement(2357..2611)
                     /locus_tag="FMA85_RS26100"
                     /old_locus_tag="FMA85_26925"
                     /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_023259653.1"
                     /translation="MDSNNSQKNLQDKHADLLDKTYTLGWLDGYSEGYDDAIEDCQNAL
                     NKLENENELLNEIIENKDNVISEMASSVGRALQTVKKNK"
                     /name="hypothetical protein"
     gene            complement(2601..2786)
                     /locus_tag="FMA85_RS26105"
                     /old_locus_tag="FMA85_26930"
     CDS             complement(2601..2786)
                     /locus_tag="FMA85_RS26105"
                     /old_locus_tag="FMA85_26930"
                     /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_074518866.1"
                     /translation="MTEDNVKNISDYRKNNDAVDANSSAISGKSAPAKLSEKLRNTVPS
                     GLRAQMRQQMRNKHGF"
                     /name="hypothetical protein"
     gene            complement(3144..3377)
                     /locus_tag="FMA85_RS26110"
                     /old_locus_tag="FMA85_26940"
     CDS             complement(3144..3377)
                     /locus_tag="FMA85_RS26110"
                     /old_locus_tag="FMA85_26940"
                     /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_001427885.1"
                     /translation="MTELERHLLNALEQLQQDYMQRLNEWESAFVELQKMFSLTQRDNA
                     MLNERVMQLSQQVQHLSEQTERLSQLYSENWR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(3384..3902)
                     /locus_tag="FMA85_RS26115"
                     /old_locus_tag="FMA85_26945"
     CDS             complement(3384..3902)
                     /locus_tag="FMA85_RS26115"
                     /old_locus_tag="FMA85_26945"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001447511.1"
                     /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_153435667.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTETMLNDEFRKLGESVSKAVTLNE
                     TKIKDAIALFTTSTEESLKKHREGVKEAMMQHRKDVLKLAGSSGMRLLGIVFLLFTASG
                     GTLWYLGGRIQANLEEIRIQEETLQKLNAKTWGVEFVQDGRRKFLVLPYGKSAEVTHYQ
                     GKDWIQLTE"
                     /name="MbeB family mobilization protein"
     gene            complement(<3940..4590)
                     /locus_tag="FMA85_RS26755"
                     /old_locus_tag="FMA85_26950"
                     /pseudo=""
     CDS             complement(<3940..4590)
                     /locus_tag="FMA85_RS26755"
                     /old_locus_tag="FMA85_26950"
                     /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            complement(4580..4903)
                     /gene="mobC"
                     /locus_tag="FMA85_RS26125"
                     /old_locus_tag="FMA85_26955"
     CDS             complement(4580..4903)
                     /gene="mobC"
                     /locus_tag="FMA85_RS26125"
                     /old_locus_tag="FMA85_26955"
                     /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="plasmid mobilization relaxosome protein MobC"
                     /protein_id="WP_153435669.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTVRKVNSGQWSSGDRVQVVAALMAIERELRSLRQVVREQGAR
                     DDS"
                     /name="mobC"
     Typing          complement(188..273)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.851"
                     /coverage="100.0"
                     /evalue="3.99e-36"
     Typing          295..845
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(3041..4590)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.176"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gcagatgaac aggcagatat ctgtgaatcg cttcacgacc acgccgataa gctttaccgc
       61 agctgcctcg cacgtttcgg gggtgacggt gaaaacctct gacacatgca gctcccggag
      121 acggtcacag cttgtctgtg agcggatgcc gggagcagac aagcccgtca gggcgcgtca
      181 gcgggtttta gcgggtgtcg gggcgcagcc ctgacccagt cacgtagcga tagcggagtg
      241 tatactggct taactatgcg gcatcagtgc agattgtact gagagtgcac catatgcggt
      301 gtgaaatacc gcacagatgc gtaaggagaa aatgccactt aaggcgctct tccgcttcct
      361 cgctcactga ctcgctgcgc tcggtcgttc ggctgcggcg agcggtgtct gcgcactcaa
      421 aagcggtaat acggttatcc acagaatcag gggataacgc cggaaagaac atgcgagcaa
      481 aaagacgaag ggctagagaa aagccgcgga aatggcgttt ttccataggc tccgcccccc
      541 tgacgagcat cacaaaaacc gacgctcaag tcagaggtgg cgaaacccga caggactata
      601 aagataccag gcgtttcccc ctggaagctc cctcgtgcgc tctcctgttc cgaccctgcc
      661 gcttaccgga tacctgtccg cctttctccc ttcgggaagc gtggcgcttt ctcatagctc
      721 acgctgtagg tatctcagtt cggtgtaggt cgttcgctcc aagctgggct gtgtgcacga
      781 accccccgtt cagcccgacc gctgcgcctt atccggtaac tatcgtcttg agtccaaccc
      841 ggtaagacac gacttaacgc cactggcagc agccactggt aagggatgta caagatatta
      901 ctaacgcaga gttcttgaag ttgaagccta actacagcta aactgaaagg acagatttgg
      961 tggcagtggt cttgtacacc ctgttaccac ggttcagaag ttccccaact tactgatcct
     1021 tcgaaaaacc acctccccag gtggtttttt cgtttacagt gcagaagatt acatcccacg
     1081 aataaggatc tcaagaaatc ctttcaatca cgttcctact atgctgaaaa ggtcatgcca
     1141 atacggacac cctcatctaa ccataccgct cgaaacacag tcagttagct gaaagaaact
     1201 aacagtagaa caataatctc tagtactctg acttaaagct aacaacaaaa ctatattagg
     1261 agtgatagat ggcgatctat gccgtatgga ataacaaagg cggagtgggg aaaagttatc
     1321 ttacctttca actagcctct gagtacgcca gacagaaccc gacaaaaaag gttctggtga
     1381 ttgatctatg cccacaagct aactcatcct caatgttact tggcgggatg gttaatggcg
     1441 aaaatacgct aaatcagatt cattctgcaa cacaaagaaa gactatttct ggatatattg
     1501 aggataggat cagaagtcca tatattccga caaatacagg ttctaactac gtaatcaacg
     1561 tatctacata caatagcaga atcccagata atctatatct tgttactggc gatgagcaat
     1621 tagaacttca agcatcaaga gttgttggag catcattccc tggacctcat gacgcatgga
     1681 gaactgttca tctttggatt aacgatctaa ttagtgacat ttgtaactca tgggataatg
     1741 gcgacagctg cgttttcatc gactgtaatc ccagcttctc tatttatacc gagttagcat
     1801 taaccgcagc tgaacgccta ttaattccat tctctgctga tggttcatca aaaagagctg
     1861 ttaaagcagt tctttcttta gtttatggcg agcgacgtca tctgaacgaa ccacagtcag
     1921 atttctattt aaacagcaat cgttattcta tgtcattacc acaaatatac atgtatgttg
     1981 gaaacagatt aactcaaatg aacaactcat cagctagcgc attcaaaact gtggtaacag
     2041 agatcggcga tgaaatttgg aaagtgtggc aaacaaaacc aagtttattc tgcattcatc
     2101 caaatggaag ctcaacgccg aataataaaa aatcctttag gaacatgttc cagtatgaag
     2161 taaatgatgc caatacagca tctgtcgtat caggagcact tggtattcca attgccacac
     2221 taaccgcagg aaataagaat gttgcgggaa gaacaataaa ggtaaatcag acacagcttg
     2281 ataagcaagt gcccaacatt gtcgctcttg ccggtatgat tgagtaaaaa aaaggccctt
     2341 tctcaagggc ctttttttat ttatttttct ttaccgtttg caacgccctg cccacactag
     2401 atgccatttc actgattaca ttatctttgt tttcaataat ttcattgagc aattcgtttt
     2461 cattttccag tttattcaag gcattttgac aatcttcaat ggcatcatca tacccttctg
     2521 aatacccatc caaccagccg agagtataag ttttatccag aagatcagca tgcttatctt
     2581 gaaggttttt ctgactgtta ttagaatcca tgtttattcc tcatttgttg gcgcatttgg
     2641 gccctcagtc cagaaggaac tgtatttcta agtttctcac tcagcttagc cggagcgctt
     2701 ttacctgaaa tagcactact attagcatca acagcatcat tattctttct gtagtcgcta
     2761 atattcttaa cgttatcttc agtcatagaa cattacacct attactgtaa acagcccaat
     2821 atacgctgga gaattgaaca taactcccct tgtacgcacc gctaaaatgc gttcatcgcg
     2881 atcacggcag cagacaggta aaaatggcaa caaaccaccc gaaaaactgc cgcgatcgcg
     2941 cctgataaat tttaaccgta tgaataccta tgcaaccaga tggtacaggc cacattaccc
     3001 ccacttaatc cactgaagct gccatttttc atggtttcac catcccagcg aagggccatc
     3061 cagcgtgcgt tcctgtattt ccggctgacg ctcccgttcc agggataaca catgttcgcg
     3121 ctcctgtatc aaccgttcct ctcttatctc cagttctcgc tgtataactg gctcaagcgt
     3181 tctgtctgct cgctcaagtg ctgcacctgc tgactcaact gcatgacccg ctcgttcagc
     3241 atcgcgttgt cccgttgcgt aagcgaaaac atcttctgta attccacgaa ggcgctctcc
     3301 cattcgttca gccgctgcat atagtcctgt tgcagctgct ctaaggcgtt cagcaaatgt
     3361 ctttccagct ctgtcattcc gtatcactcc gtcagttgta tccagtcctt cccctgatag
     3421 tgagtcacct ctgctgattt cccgtacgga aggaccagaa atttccttct cccgtcctgc
     3481 acaaactcca cgccccatgt cttcgcgttc agtttctgca atgtttcttc ctgtatcctg
     3541 atttcttcca ggttcgcctg tatcctcccg ccaagatacc agagcgtccc gccactcgcg
     3601 gtaaacagga gaaagactat ccccagcaac ctcatgcccg aactccctgc cagctttaac
     3661 acgtccttcc ggtgctgcat catcgcctct ttcacccctt cccggtgttt tttcagtgat
     3721 tcctctgtcg acgttgtgaa cagggctata gcgtctttga ttttcgtctc gtttaaggtc
     3781 acagccttgc tgacagactc gccgagcttc ctgaactcgt cgttcagcat tgtctctgta
     3841 gattcggctc tctctttcag ctttttctcg aactccgcgc ccgtctgtaa aagattgctc
     3901 ataaaatgct ccttttagcc tgatattctt cccgccgttc gggtctgcaa tgctgatact
     3961 gcttcgcgtc accctgacca cttcaagccc cgcctctgtg agcgcctgaa tcacatcctg
     4021 acggcctttt atctccccga catgataaag agcgtctatc ccccgtgtaa cgccctcagc
     4081 aagcgcctgt ttcgtttccg gcaggttatc agggagagtc agcgtccggc ggttctccgg
     4141 ggcgttcggg tcatgcagcc cgtagtggtg attaaccagc gtctgccagg catcaattct
     4201 cggcctgtct gcccggtcgt agtacggctg gaggcgtttt ccgctctgta gctccatgtt
     4261 cggaatgaca aaattcagct caagacgccc cttgtcctgg tgctccaccc acagaatgct
     4321 gtactgattt ttttcgagac cgggcatcag tacgcgctca aagctctcca tcactttttc
     4381 acgtcctccc ggcggcagtt ccttctctgc gaacgacaga acaccggacg tgtatttctt
     4441 cgcaaatggc gtggcatcaa taagctcccg gacttcttcc gggttaccct gaagtaccgt
     4501 tgcaccttcc cggttacgct ccctccccag aaggtaatca accggaccac tgccaccacc
     4561 ttttccccgg gcatgaaact taactatcat cccgcgctcc ctgttccctg acgacctgcc
     4621 gtaagctgcg caactctctc tcgatggcca tcagtgcggc caccacctga acccggtcgc
     4681 cggaagacca ctgcccgctg ttcaccttcc tcaccgtctg attcaggtta ttcccgatgg
     4741 cagccagctg acgcagtaac ggcggtgcca gtgtcggcag cttcccggaa cgggcaaccg
     4801 gctcacccag gcagacccgc cgcatccata ctgccagttg tttaccctca cagcgttcca
     4861 gtaaccgggc atgttcatca tcagtaaccc gtatcgtgag catcctctcg cgtttcatcg
     4921 gtatcattac ccccatgaac agaaatcccc cttacacgga ggcatcagtg actaaacagg
     4981 aaaaaaccgc ccttaacatg gcccgcttta tcagaagcca gacattaacg ctgctggaga
     5041 agctcaacga actggac
//
