LOCUS       NZ_CP054385             3373 bp    DNA     circular CON 14-JUN-2023
DEFINITION  Escherichia coli strain SCU-175 plasmid pSCU-175-6, complete
            sequence.
ACCESSION   NZ_CP054385
VERSION     NZ_CP054385.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN14943546
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3373)
  AUTHORS   Stephens,C., Arismendi,T., Wright,M., Hartman,A., Gonzalez,A.,
            Gill,M., Pandori,M. and Hess,D.
  TITLE     Title: F plasmids are the major carriers of antibiotic resistance
            genes in human-associated commensal E. coli
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3373)
  AUTHORS   Stephens,C., Arismendi,T., Wright,M., Hartman,A., Gonzalez,A.,
            Gill,M., Pandori,M. and Hess,D.
  TITLE     Direct Submission
  JOURNAL   Submitted (18-MAY-2020) Biology, Santa Clara University, 500 El
            Camino Real, Santa Clara, CA 95054, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 81x
            Sequencing Technology :: Illumina MiSeq, Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/14/2023 02:41:59
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 6
            CDSs (total)                      :: 6
            Genes (coding)                    :: 5
            CDSs (with protein)               :: 5
            Genes (RNA)                       :: 0
            tRNAs                             :: 0
            ncRNAs                            :: 0
            Pseudo Genes (total)              :: 1
            CDSs (without protein)            :: 1
            Pseudo Genes (ambiguous residues) :: 0 of 1
            Pseudo Genes (frameshifted)       :: 0 of 1
            Pseudo Genes (incomplete)         :: 1 of 1
            Pseudo Genes (internal stop)      :: 0 of 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP054385.1.
            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..3373
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="SCU-175"
                     /isolation_source="rectal swab from healthy college
                     student"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pSCU-175-6"
                     /geo_loc_name="USA: California"
                     /collection_date="2017"
     gene            join(3291..3373,1..241)
                     /locus_tag="HPE51_RS00005"
                     /old_locus_tag="HPE51_27705"
     CDS             join(3291..3373,1..241)
                     /locus_tag="HPE51_RS00005"
                     /old_locus_tag="HPE51_27705"
                     /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_001696562.1"
                     /translation="MLTIRVTDEEHARLLERCEGKRLAEWMRRVCLGEPVARTGKLPTL
                     APPLLRHLAAIGNNLNQTARKVNSGQWSSIDRVHVVAALMAIEGELRQLRQAVREQGVR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            450..>890
                     /locus_tag="HPE51_RS00030"
                     /old_locus_tag="HPE51_27710"
                     /pseudo=""
     CDS             450..>890
                     /locus_tag="HPE51_RS00030"
                     /old_locus_tag="HPE51_27710"
                     /inference="COORDINATES: protein motif:HMM:NF015397.2"
                     /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            919..1479
                     /locus_tag="HPE51_RS00015"
                     /old_locus_tag="HPE51_27715"
     CDS             919..1479
                     /locus_tag="HPE51_RS00015"
                     /old_locus_tag="HPE51_27715"
                     /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="MbeB family mobilization protein"
                     /protein_id="WP_000067487.1"
                     /translation="MSNLLQMGTDFEKKLKERAASTENMLNSEFRKLEESVDKALSLNR
                     QKIRDAISEHTTSVKKQLDTLSTTVSMQFSTTEAELSRQQKKLLWRVIKGRILFPALTA
                     LSVTGGIFLGCWGLMEWQESKIAKNILTIREQENTLAKLEAKTWGVTFVNGENGKFLVL
                     PDGVKGENTWTVGDKNAVRLVRE"
                     /name="MbeB family mobilization protein"
     gene            1486..1719
                     /locus_tag="HPE51_RS00020"
                     /old_locus_tag="HPE51_27720"
     CDS             1486..1719
                     /locus_tag="HPE51_RS00020"
                     /old_locus_tag="HPE51_27720"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137389.1"
                     /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_000137389.1"
                     /translation="MTELEGHLLNALEHLQQDYMRRLNEWESAFAELQKMHEVTQRNNA
                     ILNERVVILSQQVQRLAGQVDRLSRLFIANNS"
                     /name="MbeD family mobilization/exclusion protein"
     gene            1893..2027
                     /locus_tag="HPE51_RS00035"
     CDS             1893..2027
                     /locus_tag="HPE51_RS00035"
                     /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_001672207.1"
                     /translation="MQHPENAFHAFLGIQPGENMVFLLFERKDVKNLVIALAIFRRRA"
                     /name="hypothetical protein"
     gene            complement(3036..3227)
                     /locus_tag="HPE51_RS00025"
                     /old_locus_tag="HPE51_27725"
     CDS             complement(3036..3227)
                     /locus_tag="HPE51_RS00025"
                     /old_locus_tag="HPE51_27725"
                     /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="WP_000165979.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNDLDADEQADICESLHDHA
                     DELYRSCLARFGDDGESN"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          2872..2955
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="87.059"
                     /coverage="95.0"
                     /evalue="8.83e-18"
     Typing          232..1802
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.628"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gcgggtctgt ctgggggagc cggttgcacg cacaggaaaa ctgccgacac tggcaccgcc
       61 attgctgcgg catctggctg ccatcgggaa caacctgaac cagacagccc ggaaggtgaa
      121 cagcggccag tggtcttcga ttgaccgggt tcatgtggtg gccgcactga tggccatcga
      181 gggtgaattg cgccagttgc ggcaggctgt cagggaacag ggggtacggg atgatagtta
      241 aatttcatgc cagggggaaa ggcggtggaa gtggcccggt cgattacctg ctggggcggg
      301 agcgtaaccg cgaaggcgca acggtgctcc ggggtaaccc ggaagaagtg cgggaactca
      361 ttgattccac gccattttcg aagaaataca cgtcaggcgt tctgtcgttc gcggagaagg
      421 agctaccacc gggtgaacgc gaaagagtga tgacgagctt tgagcgtgtt cttatgcccg
      481 gtctcgaaaa agaccagtac agcattctct gggtggaaca ccaggataag gggcggctcg
      541 aactgaattt tgtcatcccg aacatggagc tacagagcgg taagcgcctc cagccgtact
      601 acgaccgtgc ggacaggccg aggataaatg cctggcagac gctggttaat catcattacg
      661 ggctgcgtga cccgaacgca ccggagaaca gacggacgct tgtcacgcca aataatctgc
      721 caaaagcgaa acaggaggcc gcagaagcga ttacacgggg tcttgaggct ctttaccatg
      781 ccggagcaat aaaaacgcgt caggatgtca cagaggcgct tacagcggca ggttttgagg
      841 tggtgaggac aaccaaaagc agcatcagta ttgccgaccc ggaggggggg cggaatctca
      901 ggctaaaggg ggcgctgtat gagcaatctt ttacaaatgg gaacagactt cgagaagaaa
      961 ctgaaagagc gagccgcttc taccgagaac atgctgaaca gcgagttcag gaagctcgaa
     1021 gagtctgtag acaaggcatt gagcttaaac aggcagaaaa tcagagacgc tatcagcgaa
     1081 catacaacat ccgtgaaaaa gcaactggat acgctgagca ccaccgtgag catgcagttc
     1141 agcaccacag aggccgaact gtcccggcag cagaaaaaac tgctctggcg ggtgatcaaa
     1201 gggcggatac tgtttccggc gctgaccgcg ctcagcgtca cgggcgggat tttcctgggg
     1261 tgctgggggc tgatggagtg gcaggaaagc aagattgcga aaaatatcct gactatcaga
     1321 gagcaggaaa acacgctggc gaaactcgag gcaaaaacct ggggggtgac gttcgtcaat
     1381 ggcgagaacg ggaaatttct ggtgttgccg gacggggtga aaggggaaaa cacctggacg
     1441 gtgggcgaca agaacgccgt gaggctggtc agggagtaaa cgagtatgac ggaactggaa
     1501 gggcatttgc tgaacgcctt agagcatttg caacaggact atatgcggcg gctgaacgag
     1561 tgggagagcg ccttcgcgga attgcagaag atgcacgagg ttacgcaacg gaacaacgcg
     1621 atactgaacg agcgcgtcgt gatattgagt cagcaggtgc agagattagc cgggcaagtg
     1681 gatcgcttga gtcggttatt tatcgcgaac aacagctaag ggatgaacag gagcgtgccc
     1741 ggtacagaca tgaggtacag gaacgcgcgg cacgggttcg gagtgggcca tcaatggaga
     1801 tgtgaccggg gaagtgacga aatcttgcca ttttgacccg ttcgacggct ggggcgagcg
     1861 aaacaaatcg tgtgccgtat ttgtgcatag ctatgcaaca tcctgaaaac gcatttcacg
     1921 cttttttggg gattcagcca ggggaaaaca tggttttttt actttttgag cgtaaagacg
     1981 tgaaaaatct cgttattgca cttgcgatct ttcgtcggcg ggcgtagaac gaaaacagct
     2041 cgccaggaag gcgagctgtt tcgggttcat tgaggtctct gacctcctca atgttcctgt
     2101 ggaaactgtt gagatccaca acagaaacca gttcattcag tttgcatgag ccttctgtat
     2161 tcttcaagaa tttttcaaca gcacagtctc ccaggaaccc cgaaaaaaac ctgtttttgc
     2221 agatacttgc gtatttgcga gaatcgtttg cggttggggg agctgtgacg acggcgaccg
     2281 cacgcgtgag agttccgcta ccggcgcaga gagtttcatc gacagcggac acctgatgag
     2341 ttgccacaaa aaccgtatgt agcgcggcta gattggttga gttagacctt ggcggcagtt
     2401 cccggtatgt ggtggcgtga cgggtgagat ggtgcggcga agacgcatac gtcacgcagg
     2461 cgcgggttct tccactgacg cgccccgtga tcgatggcct tggctccgtc cggcatatcg
     2521 agagcggcaa actacccgtc ccttcactgg gaggggtgag ttgttgccgt tccctccgac
     2581 cttccaccat ccagcatatc gcacgatccc atgtgcaccg ctactcctga taactccagt
     2641 gcaaaaaaaa aaacggatct gcatcacaac gagagtgatc ccaccgctcg ccgcagcccc
     2701 agcgaccgaa cgtagtgagc gagtgggcga ggaagcggaa gagtcacaga ggcaagcatt
     2761 gtgcacttac gcgcctgtgc cagtgtccgc gtgtgtgttg tttatcgggc gcgctgtttt
     2821 tacgcatctg tgcggctttt tactcctgac atggtgcact tcccatccac tctgcaccga
     2881 tgcaaaatga ggtaagccag tatacacatc gctatcgctc tgtgaactgg gtcagggctg
     2941 cgccccgaca cccgcactga cgcgccctgg cgggcttgtc tgctcccggc atccgctcac
     3001 aggcaagctg tgaacgtctc cgggagctgc atgtttcagt tgctttcacc gtcatcgccg
     3061 aagcgtgcga ggcaactgcg gtagagttcg tcggcgtggt cgtgaagtga ttcgcagatg
     3121 tctgcctgtt cgtccgcgtc cagatcgttg agtttttcca gcagggttag cgtctggctt
     3181 ctgataaagc gagccatgtt aagggctgtt ttttcctgtt tggtcatggt cttaaggctc
     3241 cttgtatggg ggatttgtta gggggaatga taccgatgaa acgcgagaag atgctcacga
     3301 tacgggttac cgatgaggag cacgcccggt tactggaacg ctgcgagggt aaacgactgg
     3361 cggaatggat gcg
//
