LOCUS       CP048859                5219 bp    DNA     circular BCT 22-DEC-2020
DEFINITION  Escherichia coli strain US31 plasmid pUS31_2, complete sequence.
ACCESSION   CP048859
VERSION     CP048859.1
DBLINK      BioProject: PRJNA592372
            BioSample: SAMN13423075
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5219)
  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 5219)
  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                   :: 51x; 166x
            Sequencing Technology             :: Illumina MiSeq; PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 02/18/2020 18:06:25
            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)                     :: 5,152
            CDSs (total)                      :: 5,031
            Genes (coding)                    :: 4,860
            CDSs (with protein)               :: 4,860
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 93
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 171
            CDSs (without protein)            :: 171
            Pseudo Genes (ambiguous residues) :: 0 of 171
            Pseudo Genes (frameshifted)       :: 73 of 171
            Pseudo Genes (incomplete)         :: 85 of 171
            Pseudo Genes (internal stop)      :: 36 of 171
            Pseudo Genes (multiple problems)  :: 20 of 171
            ##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..5219
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="US31"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pUS31_2"
                     /geo_loc_name="Belgium: Antwerp"
                     /lat_lon="51.16 N 4.41 E"
                     /collection_date="2017"
                     /collected_by="LMM, University of Antwerp"
     gene            1146..1535
                     /locus_tag="G4275_25720"
     CDS             1146..1535
                     /locus_tag="G4275_25720"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001679965.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QMX12429.1"
                     /translation="MFKSSVKSITSSTILTLLIGCSSTETNKNIVYKVGGDSIILNKYC
                     ILKMYPSQSEKNKGVIIEVNTDSLCKKKLNEITSKNIGKPLISYFDGKVISQPAIIHSA
                     LNPTHYYQPVNDETTVMEIIKAYSK"
                     /name="hypothetical protein"
     gene            complement(1599..1883)
                     /locus_tag="G4275_25725"
     CDS             complement(1599..1883)
                     /locus_tag="G4275_25725"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000625497.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QMX12430.1"
                     /translation="MISQNVWAPPFFFGPWVELENHTGDIAYTVYFDTLSNVPGPFIAF
                     IWYAPNGPRTVNVIGPASYQISCKGAGVDKIKFKSVSGTGQIIHVYTTL"
                     /name="hypothetical protein"
     gene            complement(1901..2098)
                     /locus_tag="G4275_25730"
     CDS             complement(1901..2098)
                     /locus_tag="G4275_25730"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001335786.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QMX12431.1"
                     /translation="MKEEKVLLHRFLFVVRNKNGCELSCSADLMGTRDDVYKYFSDSVS
                     GLDVELIDVSCESEWEEHSH"
                     /name="hypothetical protein"
     gene            2310..2606
                     /locus_tag="G4275_25735"
     CDS             2310..2606
                     /locus_tag="G4275_25735"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001679964.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QMX12432.1"
                     /translation="MSKTKSGRHRLSKTDKRLLAALIAAGYEERTARDLIQKHVYTLTQ
                     ADLRHLVSEISNGVGQSQAYDAIYQARRIRLARKFLNGKKPEEGLNAWKGDLP"
                     /name="hypothetical protein"
     gene            complement(3151..3384)
                     /gene="mbeD"
                     /locus_tag="G4275_25740"
     CDS             complement(3151..3384)
                     /gene="mbeD"
                     /locus_tag="G4275_25740"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137445.1"
                     /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="QMX12433.1"
                     /translation="MTELERHLLNALEQLQQDYMQRLNEWESAFVELQKMFSLTQRDNA
                     MLNERVMQLSQQVQHLSEQTERLSQLYSENRR"
                     /name="mbeD"
     gene            complement(3391..3921)
                     /locus_tag="G4275_25745"
     CDS             complement(3391..3921)
                     /locus_tag="G4275_25745"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000067502.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="mobilization protein"
                     /protein_id="QMX12434.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTETMLNDEFRKLEKSVSKAVTSNE
                     TKIKDAIALFTASTEESLKKHREGVKEAMMQHRKDVLKLAGNTGMMLLGMVIFLFTVSG
                     GTLWYLGGMIQANLEEIRKQNENLEKLNAKTWGVRYHEGSNGRFLVLPEGMKAETNWTM
                     ENGKQNAVRLVQE"
                     /name="mobilization protein"
     gene            complement(3899..4621)
                     /locus_tag="G4275_25750"
                     /pseudo=""
     CDS             complement(3899..4621)
                     /locus_tag="G4275_25750"
                     /inference="COORDINATES: protein motif:HMM:NF015397.1"
                     /note="incomplete; partial on complete genome; 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(4599..4922)
                     /locus_tag="G4275_25755"
     CDS             complement(4599..4922)
                     /locus_tag="G4275_25755"
                     /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="QMX12435.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIERELRSLRQVVREHGAR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            4987..5178
                     /locus_tag="G4275_25760"
     CDS             4987..5178
                     /locus_tag="G4275_25760"
                     /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="QMX12436.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENL"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(46..132)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.43e-38"
     Typing          143..699
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.642"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(3048..4609)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.616"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ggatgccggg agcagacaag cccgtcaggg cgcgtcagcg ggtgttagcg ggtgtcgggg
       61 cgcagccatg acccagtcac gtagcgatag cggagtgtat actggcttaa ccatgcggca
      121 tcagtgcgga ttgtatgaaa cgtgcgccat accgggtgtg aaatgccgca cagatgcgta
      181 aggagaaaat gcacgtccag gcgcttttcc gcttcctagc tcactgactc gctacgctcg
      241 gtcgttcgac tgcggcgagc ggtatctact cactcaaaaa cgaaatgctg ttatccacag
      301 aatcagggga taacaccgga aaaaacatgt gagcaaaaga ccaggaacag gaagaaggcc
      361 gcgccgctgg cgtttttcca taggctccgc ccccctgacg agcatcacaa aaatcgacgc
      421 tcaagtcaga ggtggcgaaa cccgacagga cttaaagata ccaggcgttt ccccccggaa
      481 gctccctcgt gcgctctcct gttccgacct taccgtttac cggatacctg tccgcctttc
      541 tcccttcggg aagcgtggcg ctttctcata gctcacgctg taggtatctc agttcggtgt
      601 aggtcgttcg ctccaagctg ggctgtgtgc acgaaccccc cgttcagccc gaccgctgcg
      661 ccttatccgg taactatcgt cttgagtcca acccggtaag acacgactta acgccactgg
      721 cagcagccat tggtaactaa aaagtggatt tagatacgca gaactcttga agttgaagcc
      781 ttatagcggc tacactgaaa ggacatcttt tggtatctgt gctccactta agccagctac
      841 ccggttaggt aatctgccag gattagctaa ccttcgaaaa accacctgcc agggtggttt
      901 tttcgtttac aggcagcaga ttacgcgcag aaaaaaagga tctcaagaag atcctttgat
      961 cttttttctc taaactgcaa tcccatcagt tcaggagaga aagatagtat aattgccctc
     1021 tcttatatgg aaccaccatt caatcacatc atggggataa tataagtgaa aacgttcgca
     1081 ttgtttattt ttacgtgtat atgtatttat agattggaat tttaacaaaa taaaatggag
     1141 ttaatatgtt caaatcatca gtaaagtcaa taacatcgag tactatactg accttactta
     1201 taggatgttc aagtactgaa acaaacaaaa acattgttta caaagttggt ggtgacagca
     1261 tcattctgaa taaatattgc atacttaaaa tgtacccttc ccaatcagaa aaaaacaaag
     1321 gcgtcataat agaagtaaac acagatagtt tatgtaagaa aaaactaaac gaaataacta
     1381 gtaaaaatat agggaaaccc ctgatttcat attttgatgg aaaagtaata tcccaacctg
     1441 caatcattca ttctgcacta aatccaaccc attattatca acctgtgaac gatgaaacaa
     1501 cagtaatgga aatcataaaa gcatattcaa aataatatta atagatataa tcttgcttaa
     1561 ggtatagctt aggcaggatt atatttattc agctcttatt ataaggtagt gtatacatga
     1621 ataatctgcc ctgtcccact gacactttta aatttaattt tatcaacacc agcgcccttg
     1681 caagagatct gataagatgc tggaccaata acgttaactg ttcttggccc attaggggca
     1741 taccagataa aagcaataaa tggaccgggt acattagaca atgtatcaaa atagacagtg
     1801 tacgcgatat caccagtatg attttcaagt tcaacccaag gaccaaaaaa gaaaggagga
     1861 gcccaaacat tttgagaaat catataatct cctgattagt tcaatgcgaa tgttcttccc
     1921 attcactctc gcaagaaaca tctataagct caacatctag cccactaaca gaatcagaga
     1981 aatacttata aacatcatcc cttgttccca taaggtctgc cgaacatgat agttcacaac
     2041 cattcttatt cctaactaca aataagaaac ggtgaagcaa tactttttct tctttcattt
     2101 tatccctccc tttatttaca cagaatatac tgtatatata aatactagtt ttatatacag
     2161 tataaattac gccgcattat ttttcctgtc aatgatatga attttcattt ttgtgatctg
     2221 aatcaccctt ataaaaatca ggaagggaag attcgcagca gaaaaacagc accggataac
     2281 atcaggagaa aaaacagaga ggagataacg tgagcaaaac aaaatctggt cgccaccgac
     2341 tgagcaaaac agacaaacgc ctgctggctg cacttatcgc tgccggatac gaagagcgga
     2401 cagcccgtga cctcatccag aaacacgttt acacactgac acaggccgac ctgcgccatc
     2461 tggtcagtga aatcagtaac ggtgtgggac agtcacaggc ctacgatgcg atttaccagg
     2521 caagacgcat tcgtctcgcc cgtaaattcc tgaacggaaa aaaaccggaa gaagggctga
     2581 acgcctggaa gggtgattta ccataatcac ttattgtacg caccgctgaa acgcgttcgg
     2641 cgcgatcacg gcagcagaca ggtaaaaatg gcaacaaacc acccgaaaaa ctgccgcgat
     2701 cgcacccggt aaattttaac cacatgcata gctatgcagc catgtgaatc atgcaggaat
     2761 tgccagccag agacagctga aacggatttt tttcatgctt tcggaagcga agaagacggg
     2821 gaccggagcg ggaaaacaga agttcagggg aatgagcgcg atctggcaat agaggcaaaa
     2881 cacagcaaca aaagacacac cagaatcgcg cccgtatgcg ttttaacgcg ttcctgtgtt
     2941 ttcagcaagg tctgactgaa gcgcgttccc ggtgcccccg aaccaaccat tatcccaaaa
     3001 aatgcaccgg aaacgcgctg acaacatttt agcctgtctc tgattaccat cccagcgaag
     3061 ggccatccag tgtccgttcc tgtatttcca gctggcgctc acgctccagg gataacgcat
     3121 gttcgcgttc ctgtatcagc cgttcgtccc ttatctcctg ttctcgctgt ataactggct
     3181 caagcgttct gtctgctcgc tcaagtgctg cacctgctga ctcaactgca tgacccgctc
     3241 gttcagcatc gcgttgtccc gttgcgtaag cgaaaacatt ttctgcaatt ccacgaaggc
     3301 gctctcccat tcgttcagcc gctgcatata gtcctgttgc agttgctcta atgcgttcag
     3361 caaatgtctt tccagctccg tcatgctctg ttactcctgt accagcctta cggcattctg
     3421 tttcccgttt tccatcgtcc agttcgtttc ggctttcatc ccctcgggca acaccagaaa
     3481 acgtccgttg ctcccctcgt gataacgcac gccccatgtc ttcgcgttca gcttctccag
     3541 attctcgttc tgcttcctga tttcttccag gttcgcctgt atcatcccgc caagatacca
     3601 gagcgtcccg ccactcacgg taaacaggaa aatgaccatc cccagtaaca tcatgcccgt
     3661 attccctgcc agctttaaca cgtccttcct gtgctgcatc atcgcctctt tcaccccttc
     3721 ccggtgtttt ttcagtgatt cctctgtcga agctgtgaac agggctatag cgtctttgat
     3781 tttcgtctcg tttgatgtca cagccttgct tacagatttt tcgagcttcc tgaactcgtc
     3841 gttcagcatt gtctctgtag attcggctct ctctttcagc tttttctcga actccgcgcc
     3901 cgtctgtaaa agattgctca tagaatgctc ctttcagtct gatattcttc ccgccgttcg
     3961 ggtctgcaat gctgagactg cttcgcgtca ccctgaccac ttcaagccct gcctctgtga
     4021 gcgcctgaat cacatcctga cggcctttta tctccccgac atgataaaga gcgtctatcc
     4081 cgcgtgtgac gctctctgca agcgcctgtt tcgtttccgg caggttatca gggagagtca
     4141 gtatccggcg gttctccggg gcgttggggt catgcagccc gtaatggtga ttaaccagcg
     4201 tctgccaggc atcaattctc ggcctgtctg cccggtcgta gtacggctgg aggcgttttc
     4261 cgctctgtag ctccatgttc ggaatgacaa aattcagctc aagccgtccc ttgtcctggt
     4321 gctccaccca caggatgctg tactgatttt tttcgagacc gggcatcagt acacgctcaa
     4381 agctcgccat cactttttca cgtcctcccg gcggcagctc cttctccgcg aacgacagaa
     4441 caccggacgt gtatttcttc gcaaatggcg tggcatcgat gagttcccgg acttcttccg
     4501 gattaccctg aagcaccgtt gccccttccc ggttacgctc ccttcccagc aggtaatcaa
     4561 ccggaccact gccaccgcct tttcccctgg catgaaactt aactatcatc ccgcgctcca
     4621 tgttccctga cgacctgccg taagctgcgc aactctctct cgatggccat cagtgcggcc
     4681 accacctgaa cccggtcacc ggaagaccac tgcccgctgt tcaccttcct cgccgtctga
     4741 ttcaggttat tcccgatggc agccagctgg cgcagtaacg gcggtgccag tgtcggcagc
     4801 ttcccggaac gggcaaccgg ctcacccaga cagacccgcc gcatccatac cgccagctgt
     4861 ttaccctcac agcgttccag taaccgggca tgttcatcat cagtaacccg tatcgtgagc
     4921 atcctctcgc gtttcatcgg tatcattacc ccatgaacag aaatcccccc ttacacggag
     4981 gcatcagtga ctaaacagga aaaaaccgcc cttaacatgg cccgctttat cagaagccag
     5041 acattaacgc tgctggaaaa gctcaacgaa ctggacgcgg atgaacaggc agacatctgt
     5101 gaatcgcttc acgaccacgc cgatgagctt taccgcagct gcctcgcacg cttcggggat
     5161 gacggtgaaa acctctgaca catacagctc ccggagacgg tcacagcttg tctgtgagc
//
