LOCUS       CP048864                4593 bp    DNA     circular BCT 22-DEC-2020
DEFINITION  Escherichia coli strain US12 plasmid pUS12_1, complete sequence.
ACCESSION   CP048864
VERSION     CP048864.1
DBLINK      BioProject: PRJNA592372
            BioSample: SAMN13423058
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4593)
  AUTHORS   Biggel,M., Xavier,B.B., Johnson,J.R., Nielsen,K.L.,
            Frimodt-Moller,N., Matheeussen,V., Goossens,H., Moons,P. and Van
            Puyvelde,S.
  TITLE     Horizontally acquired papGII-containing pathogenicity islands
            underlie the emergence of invasive uropathogenic Escherichia coli
            lineages
  JOURNAL   Nat Commun 11 (1), 5968 (2020)
   PUBMED   33235212
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 4593)
  AUTHORS   Biggel,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (14-FEB-2020) Vaccine & Infectious Disease Institute, LMM,
            University of Antwerp, Universiteitsplein 1, Antwerpen 2610, Belgium
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 2019
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 72x; 132x
            Sequencing Technology             :: Illumina MiSeq; PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 02/18/2020 18:18:37
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 4.11
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 5,241
            CDSs (total)                      :: 5,119
            Genes (coding)                    :: 4,938
            CDSs (with protein)               :: 4,938
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 94
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 181
            CDSs (without protein)            :: 181
            Pseudo Genes (ambiguous residues) :: 0 of 181
            Pseudo Genes (frameshifted)       :: 92 of 181
            Pseudo Genes (incomplete)         :: 79 of 181
            Pseudo Genes (internal stop)      :: 46 of 181
            Pseudo Genes (multiple problems)  :: 32 of 181
            ##Genome-Annotation-Data-END##
            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/
FEATURES             Location/Qualifiers
     source          1..4593
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="US12"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pUS12_1"
                     /geo_loc_name="Belgium: Antwerp"
                     /lat_lon="51.16 N 4.41 E"
                     /collection_date="2016"
                     /collected_by="LMM, University of Antwerp"
     gene            complement(78..269)
                     /locus_tag="G4277_26170"
     CDS             complement(78..269)
                     /locus_tag="G4277_26170"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165979.1"
                     /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="QMX22060.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGESN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            332..655
                     /locus_tag="G4277_26175"
     CDS             332..655
                     /locus_tag="G4277_26175"
                     /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="QMX22061.1"
                     /translation="MLTIRVSDEEHARLLERCEGKRLAEWMRRVCLGEPVARTGKLPTL
                     SPPLLRHLAAIGNNLNQTARKVNSGHWSSIDRVHVVAALMAIEGELRQLRQAVREQGGR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            813..1358
                     /locus_tag="G4277_26180"
                     /pseudo=""
     CDS             813..1358
                     /locus_tag="G4277_26180"
                     /inference="COORDINATES: protein motif:HMM:NF015397.1"
                     /note="incomplete; partial on complete genome; missing
                     N-terminus and 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            1333..1893
                     /locus_tag="G4277_26185"
     CDS             1333..1893
                     /locus_tag="G4277_26185"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000067488.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="mobilization protein"
                     /protein_id="QMX22062.1"
                     /translation="MSNLLQMGTDFEKKLKERAASTENMLNSEFRKLEESVDKALSLNR
                     QKIRDAISEHTTSVKQQLDTLSTTVSTQLSTTEAELSRQQKNLLWQVIKGRVLFPALTA
                     LSVTGGIFLGCWGLIQWQESRIAKNILTIREQENTLAKLEAKTWGVTFVNGENGKFLVL
                     PDGVKGENTWTVGDKNAVRLVRE"
                     /name="mobilization protein"
     gene            1900..2133
                     /gene="mbeD"
                     /locus_tag="G4277_26190"
     CDS             1900..2133
                     /gene="mbeD"
                     /locus_tag="G4277_26190"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137388.1"
                     /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="QMX22063.1"
                     /translation="MTELEGHLLNALEHLQQDYMRRLNEWESAFAELQKMHAVTQQNNA
                     ILNERVVNLSQQVQLLAGQVDRLSRLFITNNR"
                     /name="mbeD"
     gene            complement(2821..3660)
                     /locus_tag="G4277_26195"
     CDS             complement(2821..3660)
                     /locus_tag="G4277_26195"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001354646.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QMX22064.1"
                     /translation="MLTLFIFFVLLIAACFFCFAPPRRGYDRNEIIPYKIKLSINKYRL
                     YIYSSGKVRQYLLFLVILSLYYSIAEPFKSELIKNISYSLMAAFIFDTGLNFSKENITK
                     GVISTRWHNDLYSSFERMKAINKIYYPSNKEINTEGLSKAITSSLFNDDANSFAKRDFR
                     LMWDLSSEKYLSYKEIIIRKGDKLDAVCLRFINDDYKFLVNFNRDEEVFKYFPSIMQPS
                     LKTYRALSRLVNSIKDPSRFKFTTESLEMELLEYLELRNELFNDIEEVMGSYAQRAP"
                     /name="hypothetical protein"
     gene            complement(3920..4300)
                     /locus_tag="G4277_26200"
     CDS             complement(3920..4300)
                     /locus_tag="G4277_26200"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012421782.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QMX22065.1"
                     /translation="MSKRPGTGRRPRRWRFSIGSAPLTSITKTDAQVRGGETRQDYKDT
                     RRFPLEAPSCALLFRPCRLPDTCPPFSLREAWRFLIAHAVGISARCRSFAPSWAVCTNP
                     PFSPTAAPYPVTIVLSPTRKDT"
                     /name="hypothetical protein"
     gene            complement(4297..4479)
                     /locus_tag="G4277_26205"
     CDS             complement(4297..4479)
                     /locus_tag="G4277_26205"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001317079.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QMX22066.1"
                     /translation="MRCEIPHRCVRRKCRIRRSSASSLTDSLRSVVRLRRAVSAHSKTV
                     MRLSTESGDNAKRNM"
                     /name="hypothetical protein"
     Typing          4499..4583
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.03e-37"
     Typing          complement(3930..4488)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.761"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          646..2231
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gacgcgccct gacgggcttg tctgctcccg gcatccgctc acaggcaagc tgtgaacgtc
       61 tccgggagct gcatgtttca gttgctttca ccgtcatcgc cgaagcgtgc gaggcaacta
      121 cggtagagtt cgtcggcgtg gtcgtgaagt gattcgcaga tgtctgcctg ttcgtccgcg
      181 tccagctcgt tgagtttttc cagcagggtc agcgtctggc ttctgataaa gcgggccatg
      241 ttaagggctg ttttttcctg tttggtcatg gtcttaaggc tccttaatag gggatttttt
      301 agggggaatg ataccgatga aacgcgagaa gatgctcacg atacgggtta gcgatgagga
      361 gcacgcccgg ttactggaac gctgcgaggg taaacgactg gcagaatgga tgcggcgggt
      421 ctgtctgggg gagccggttg cgcgcacagg aaaactgccg acactatcgc cgccattgct
      481 gcggcatctg gctgccatcg ggaacaatct gaaccagaca gcccggaagg tgaacagcgg
      541 ccactggtct tcgattgacc gggttcatgt ggtggccgct ctgatggcca tcgagggtga
      601 attgcgccag ttgcggcagg ctgtcaggga acagggggga cgggatgata gttaaatttc
      661 atgccagggg gaaaggcggt ggaagtggcc cggtcgatta cctgctgggg cgggagcgta
      721 accgcgaagg cgcaacggtg ctccggggta acccggaaga aatccgggaa ctcattgatg
      781 ccacgccatt ttcgaagaaa tacacgtcag gcgttctgtc gttcgcggag aaggagttac
      841 cgccgggtga acgcgaaaga gtgatgacga gctttgagcg tgttcttatg cccggtctcg
      901 aaaaagacca gtacagcatt ctctgggtgg aacaccagga taaggggcgg ctcgaactga
      961 attttgtcat tccgaacatg gaactacaga gcggtaagcg cctccagccg tactacgacc
     1021 gtgcggacag gccgaggata aatgcctggc agacgctggt taatcatcat tacgggctgc
     1081 gtgacccgaa cgcaccggag aacagacgga cgcttgtcac accgaataat ctgccaaaag
     1141 cgaaacagga ggccgcagaa gcgattacac ggggtcttga ggcgctttac cgtgccggag
     1201 caataaaaac gcgtcaggat gtcactgagg cgctcacagc ggcaggtttt gaggtggtga
     1261 ggacaaccag aagcagtatc agtattgccg acccggaggg ggggcggaat ctcaggctaa
     1321 agggggcgct gtatgagcaa tcttttacaa atgggaacgg acttcgagaa gaaactgaaa
     1381 gagcgagccg cttctaccga gaacatgctg aacagcgagt tcaggaagct agaagagtct
     1441 gtagacaagg cactgagctt aaacaggcag aaaatcagag acgctatcag cgaacataca
     1501 acatccgtga aacagcaact ggatacgctg agcaccaccg tgagcacgca gctcagcacc
     1561 acagaggccg aactgtcccg gcagcagaaa aacctgctct ggcaggtgat caaagggcgg
     1621 gtactgtttc cggcgctgac cgcgctcagc gtcacgggcg gcattttcct ggggtgctgg
     1681 gggctgattc agtggcagga aagcaggatt gcgaaaaata tcttgaccat cagagagcag
     1741 gaaaacacgc tggcgaaact cgaggcaaaa acctgggggg tgacgttcgt caatggcgag
     1801 aacgggaaat ttctggtgct gccggacggg gtgaaagggg aaaacacctg gacggtgggc
     1861 gacaagaacg ccgtgaggct ggtcagggag taaacgagta tgacggaact ggaagggcat
     1921 ttgctgaacg ccttagagca tttgcaacag gactatatgc ggcggctgaa cgagtgggag
     1981 agcgccttcg cagaattgca gaagatgcac gcggttacgc aacagaacaa cgcgatactg
     2041 aacgagcgtg tcgtgaactt gagtcagcag gtgcagctat tagccggaca agtcgaccgc
     2101 ttgagtcggt tatttatcac gaacaacaga taagggatga acaggagcgt caggcgcagg
     2161 agcttgcccg gcgctggcat gaagagcagg aacccgaagc gcggatctgg cgtggcccgt
     2221 caatggggat gtgaccgggg taccccctga aatcgagcca gtttgtggca cgccctaccc
     2281 ggatggcgcc aatgttaatg tacgtacatt agcattaaca atatccaaac ctccccattt
     2341 tgccccgttc gacggctgga acgtgcgaaa ctgatcgtca ttcagtttcg cgcataacta
     2401 tgcatgaggt taaaatttac caggcgcgat cgcggcagtt tttcgggtgg tttgttgctg
     2461 tttttacctg tctgctgccg tgatcgcgct gaacgcgttt aagcggtacg cgcaatgcga
     2521 cgttatggta aatacggagt attttaattg cgggcctttg ttgtatatct ctgtcgtttg
     2581 tccccggggg gaagcattac tgctaacaag tcccgtgaga aaactgcgca atcgtattgc
     2641 gcaccatgaa cctattctca accgcaatct ggaggatgat tttgctacga taaagagaat
     2701 tatcgcgtat cggtgtcagc attcattgga gtggatgctg aaaaaccagg tgttactccc
     2761 tctacttaca cttaaacctc tctaaaaata taagtaagta ctatcgaggg ctatcatgaa
     2821 ctatggtgcc ctctgagcat agctacccat tacttcttct atgtcattga ataattcatt
     2881 tcttaactct aagtattcta gtaactccat ttctaatgac tctgtcgtga acttaaatct
     2941 agaaggatct ttgattgagt ttactagtct tgataacgct ctatatgttt tgagtgaagg
     3001 ttgcattata gatggaaagt atttgaaaac ctcttcatct ctgttgaaat taactaaaaa
     3061 cttgtagtca tcatttataa atctcaagca tacagcgtca agcttatcgc cttttcttat
     3121 tattatttct ttataggaaa gatatttttc agaagataag tcccacatca agcgaaaatc
     3181 tctctttgcg aacgagttcg cgtcatcatt gaaaagagat gatgtgatgg ctttggatag
     3241 accttctgtg tttatctctt tgttggatgg gtagtaaatt ttattaattg ctttcattct
     3301 ctcaaatgat gaatataggt cattatgcca ccttgttgaa atcactcctt tagttatatt
     3361 ctccttgcta aaattaagcc ctgtatcaaa aataaatgca gccatcagtg aatatgatat
     3421 gttttttatt aactcagact taaatggttc cgctatggag tagtacagtg ataaaataac
     3481 taaaaataaa aggtattgtc ttacctttcc cgatgagtat atgtaaaggc gatatttatt
     3541 tattgatagt tttattttgt atggaatgat ctcatttctg tcatatcctc ttcgtggtgg
     3601 agcaaaacaa aagaaacatg cagctattaa taaaacaaaa aagatgaaca gtgtaagcaa
     3661 gttcggctcc tgtgtatgct cactatgcat gattgtcttg agatctaacg atcctgaagg
     3721 tagtcttgtc cgtaaacgaa aaaaccgccc agcaaggcgg cttttcgaag gttctcagag
     3781 cagcaactct ttgaaccaag gtaactggct tggaggagca cagccaccaa atctgtcctt
     3841 tcagtttagc cttaaccggc gcataacttc aagactaact cctctaaacg gttaccaatg
     3901 gctgctgcca gtggcgtttt tacgtgtctt tccgggttgg actcaagacg atagttaccg
     3961 gataaggcgc agcggtcggg ctgaacgggg ggttcgtgca cacagcccag cttggagcga
     4021 acgacctaca ccgggccgag ataccaacag cgtgagctat gagaaagcgc cacgcttccc
     4081 gaagggagaa aggcggacag gtatccggta agcggcaggg tcggaacagg agagcgcacg
     4141 agggagcttc cagggggaaa cgcctggtat ctttatagtc ctgtcgggtt tcgccacctc
     4201 tgacttgagc atctgttttt gtgatgctcg tcaggggggc ggagcctatg gaaaaacgcc
     4261 agcggcgcgg ccttcttcct gttcctggcc ttttgctcac atgtttcttt tggcgttatc
     4321 ccctgattct gtggataacc gcatcaccgt ctttgagtga gctgataccg ctcgccgcag
     4381 ccgaacgacc gagcgtagcg agtcagtgag cgaggaagcg gaagagcgcc tgatgcggca
     4441 ttttctcctt acgcatctgt gcggtatttc acaccgcata tggtgcactt ttcttataat
     4501 ccgcactgat gccacatagt taagccagta tacactccgc tatcgctacg tgactgggtc
     4561 agggctgcgc cccgacaccc gctaaaaccc gct
//
