LOCUS       NZ_CP053386             5153 bp    DNA     circular CON 14-JUN-2023
DEFINITION  Escherichia coli strain SCU-107 plasmid pSCU-107-2, complete
            sequence.
ACCESSION   NZ_CP053386
VERSION     NZ_CP053386.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN14609772
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5153)
  AUTHORS   Stephens,C., Arismendi,T., Wright,M., Gonzalez,A., Gill,M.,
            Hartman,A., Pandori,M. and Hess,D.
  TITLE     F plasmids are the major carriers of antibiotic resistance genes in
            human-associated commensal E. coli
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5153)
  AUTHORS   Stephens,C., Arismendi,T., Wright,M., Gonzalez,A., Gill,M.,
            Hartman,A., Pandori,M. and Hess,D.
  TITLE     Direct Submission
  JOURNAL   Submitted (10-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              :: 54x
            Sequencing Technology :: Illumina MiSeq, Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider          :: NCBI RefSeq
            Annotation Date              :: 06/14/2023 02:44:45
            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)                :: 8
            CDSs (total)                 :: 8
            Genes (coding)               :: 8
            CDSs (with protein)          :: 8
            Genes (RNA)                  :: 0
            tRNAs                        :: 0
            ncRNAs                       :: 0
            Pseudo Genes (total)         :: 0
            CDSs (without protein)       :: 0
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP053386.1.
            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..5153
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="SCU-107"
                     /isolation_source="rectal swab from healthy college
                     student"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pSCU-107-2"
                     /geo_loc_name="USA: California"
                     /collection_date="2015"
     gene            complement(131..454)
                     /gene="mobA"
                     /locus_tag="HHJ25_RS00005"
                     /old_locus_tag="HHJ25_23840"
     CDS             complement(131..454)
                     /gene="mobA"
                     /locus_tag="HHJ25_RS00005"
                     /old_locus_tag="HHJ25_23840"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052604.1"
                     /GO_process="GO:0006355 - regulation of DNA-templated
                     transcription [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization protein MobA"
                     /protein_id="WP_001437508.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEEQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="mobA"
     gene            738..932
                     /locus_tag="HHJ25_RS00010"
                     /old_locus_tag="HHJ25_23845"
     CDS             738..932
                     /locus_tag="HHJ25_RS00010"
                     /old_locus_tag="HHJ25_23845"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041639.1"
                     /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_001041621.1"
                     /translation="MNKQQQAVLNMAGFIKSQSLTLLEKLDALDADEQATMCEKLHELA
                     EELQNSIQTRFEVENSTER"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(1060..1215)
                     /locus_tag="HHJ25_RS00015"
     CDS             complement(1060..1215)
                     /locus_tag="HHJ25_RS00015"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016570191.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001490772.1"
                     /translation="MSVDFCDARQGGGAYGKTPAALASSGALLFAHMFFPALSPDSVDN
                     RITAFE"
                     /name="hypothetical protein"
     gene            complement(1774..1911)
                     /locus_tag="HHJ25_RS00020"
                     /old_locus_tag="HHJ25_23860"
     CDS             complement(1774..1911)
                     /locus_tag="HHJ25_RS00020"
                     /old_locus_tag="HHJ25_23860"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001405930.1"
                     /GO_component="GO:0019867 - outer membrane [Evidence IEA]"
                     /GO_process="GO:0019835 - cytolysis [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="colicin release lysis protein"
                     /protein_id="WP_001329514.1"
                     /translation="MRKRFFVGIFAINLLVGCQANYIRDVQGGTVAPSSSSKLTGISVQ
                     "
                     /name="colicin release lysis protein"
     gene            2073..2300
                     /locus_tag="HHJ25_RS00025"
                     /old_locus_tag="HHJ25_23865"
     CDS             2073..2300
                     /locus_tag="HHJ25_RS00025"
                     /old_locus_tag="HHJ25_23865"
                     /inference="COORDINATES: protein motif:HMM:NF015489.2"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="colicin E1 immunity protein"
                     /protein_id="WP_015056439.1"
                     /translation="MLYAIVISTILCPYSKYAIEHIFFKFIKKDFFRKRKNLNNAPVAK
                     LNLFMLYNLLCLVLAIPFGLLGLFISIKNN"
                     /name="colicin E1 immunity protein"
     gene            complement(2297..3862)
                     /locus_tag="HHJ25_RS00030"
                     /old_locus_tag="HHJ25_23870"
     CDS             complement(2297..3862)
                     /locus_tag="HHJ25_RS00030"
                     /old_locus_tag="HHJ25_23870"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000447006.1"
                     /GO_component="GO:0016020 - membrane [Evidence IEA]"
                     /GO_process="GO:0019835 - cytolysis [Evidence IEA];
                     GO:0050829 - defense response to Gram-negative bacterium
                     [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="colicin-like pore-forming protein"
                     /protein_id="WP_000447003.1"
                     /translation="METAVAYYKDGVPYDDKGQVIITLLNGNPDGSGSGGGGGTGGSKS
                     ESSAAIHATAKWSTAQLKKTQAEQAARAKAAAEAQAKAKANRDALTQHLKDIVNEALRH
                     NSTHPEVIDLAHANNAAMQAEAERLRLAKAEEKARKEAEAAEKAFQEAEQRRKEIEKEQ
                     AETERQLKLAEDEEKRLAALSEEARAVEVAQKNLAAAQSELAKVDEEINTLNTRLSSSI
                     HARDAETNTLSGKRNELDQASAKYKELDERVKLLSPRANDPLQSRPFFEATRLRARAGD
                     EMEEKQKQVTASETRLNQISSEINGIQEAISQANNKRSTAVSRIHDAEDNLKTAQTNLL
                     NSQIKDAVDATVSFYQTLSEKYGEKYSKMAQELADKSKGKKISNVNEALAAFEKYKDVL
                     NKKFSKADRDAIFNALEAVKYEDWAKHLDQFAKYLKITGHVSFGYDVVSDILKIKDTGD
                     WKPLFLTLEKKAVDAGVSYVVVLLFSVLAGTTLGIWGIAIVTGILCAFIDKNKLNTINE
                     VLGI"
                     /name="colicin-like pore-forming protein"
     gene            4122..4559
                     /locus_tag="HHJ25_RS00035"
                     /old_locus_tag="HHJ25_23875"
     CDS             4122..4559
                     /locus_tag="HHJ25_RS00035"
                     /old_locus_tag="HHJ25_23875"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001749514.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001318234.1"
                     /translation="MGHCNFMAWHTLRDALKMTGRSRSQFYRDMRSGLVSYRTSQDGRR
                     EFETSELIRAYGELKRNETPERHTQGHSEKPHDQQTERILRELNELKQCLTLMLEDKQA
                     QDTERRRQEAERKQLQNEIAQLRQALEQEKKRGFWSRLFGH"
                     /name="hypothetical protein"
     gene            4640..5059
                     /locus_tag="HHJ25_RS00040"
                     /old_locus_tag="HHJ25_23880"
     CDS             4640..5059
                     /locus_tag="HHJ25_RS00040"
                     /old_locus_tag="HHJ25_23880"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016247941.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Exc2 family lipoprotein"
                     /protein_id="WP_001254967.1"
                     /translation="MRRTGNKLCLIAMITATVALTACTPKGSVEQHTRHYVYASDDGFD
                     PNFSTQKADTTRMMVPFFRQFWDMGAKDKATGKSRSDVQQRIQQFHSQEFLNSLRGTTQ
                     FAGTDYRSKDLTPKKSRLLADTISAVYLDGYEGRQ"
                     /name="Exc2 family lipoprotein"
     Typing          complement(464..703)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.585"
                     /coverage="100.0"
                     /evalue="3.54e-121"
     Typing          962..1491
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.59"
                     /coverage="97.0"
                     /evalue="0.0"
     Typing          complement(135..454)
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.131"
                     /coverage="100.0"
                     /evalue="1.24e-61"
ORIGIN
        1 gaaaaacagg aaggatgcgt caggatcgtt ttcagctctc tgcatagcta tgcatgaaag
       61 cgaatggtga tcactttggg agcttacggt gttcataccg tcagttttcg acagttttct
      121 ctccgggaag ctaatctgcc ataagcctgg ataacagggc acggtgatac tccgtaatag
      181 cgatcagcac ctccgcatac tccctgtccc cgacacgctt gccgtcgata aagagttttt
      241 tctgtaacgc ccccagtctc ataacttctt tcagtacccg atcatcagtc agtgagttaa
      301 ctttcttacc gagagctgcc gcccgtaaaa aaccggaaac ggtcttgccg cattcagcag
      361 ccctttttct gatttcctgt tcttcttctg ccgtcagacg aacagggcga ctgatagccc
      421 gcctgcgcgt attacttcca cttcgttttg tcataaaaca tggctccgta tctgacatgg
      481 gtgtcggggc aaagccctga ccagagtaat tgtaatagcg tgcatgtatg cgcggtataa
      541 caattacaca tcctgtcctg tcagcaagtt cgaattaccg acaaaggcac ggcagttttt
      601 tggcagtgac agtattgtca ggcagaaata cccgtcaaag cgtcagacgg cagaataccg
      661 gcggtaaaac agtcgaaaag tggtacgcga tataatcaca caacgcagat gacagacaga
      721 acggagaaaa cgaaaagatg aacaagcagc agcaagccgt actcaacatg gcaggattca
      781 taaaaagcca aagcctgacg ctgctcgaaa agctggacgc actcgatgct gacgaacagg
      841 ctaccatgtg tgagaagctg cacgaactcg cagaagaact ccagaacagc atccagacac
      901 gctttgaagt agaaaatagc acagagagat aacgctcagg acaggatgcc gaacggcaca
      961 acagagcgta aggagaaaat gtcacataag gcgctcttcc gcttcctcgc tcactgactc
     1021 gctacgctcg gacgttcgac tgcggcgagc ggtgtcagct cactcaaaag cggtaatacg
     1081 gttatccaca gaatcagggg ataaagccgg aaagaacatg tgagcaaaaa gcaaagcacc
     1141 ggaagaagcc agcgccgcag gcgtttttcc ataggctccg cccccctgac gagcatcaca
     1201 aaaatcgacg ctcaagccag aggtggcgaa acccgacagg actataaaga taccaggcgt
     1261 ttccccctgg aagctccctc gtgcgctctc ctgttccgac cctgccgctt accggatacc
     1321 tgtccgcctt tctcccttcg ggaagcgtgg cgctttctca tagctcacgc tgttggtatc
     1381 tcggctcggt gtaggtcgtt cgctccaagc tgggctgtgt gcacgaaccc cccgttcagc
     1441 ccgaccgctg cgccttatcc ggtaactatc gtcttgagtc caacccggta agacacgact
     1501 tagcgccact ggcagcagcc gttggtaact tggttagcag agcgatgatg gcgcaaatgg
     1561 tgcaacagag ttcttgaagt agtggcccga ctacggctac actggaagga cagtatttgg
     1621 tatctgcgct ctgctgaagc cagttacctc ggttaagcag ttccccaact gacttaacct
     1681 tcgatcaaac cgcctcccca ggcggttttt tcgtttacag gcagcagatt acgcgcagaa
     1741 aaaaaggatc tcaagaagat cctttgatct tttctactga acagagatcc ccgtcaattt
     1801 agaagaagat gatggagcca cagtccctcc ctgaacatca cgtatatagt tagcctgaca
     1861 tccaacaagg aggtttatag cgaatattcc cacaaaaaat cttttcctca taactcgatc
     1921 cttataaaat gaaaagaata tataacgagg tttaatttat gagtttaaga tactacataa
     1981 aaaatatttt gtttggccta tactgcgcac ttatatatat ataccttata acaaaaaaca
     2041 acgaagggta ttatttccta gcgtcagata agatgctata cgcaatagtg ataagcacta
     2101 ttctatgccc atattcaaaa tatgctattg aacacatatt ttttaagttc ataaagaaag
     2161 attttttcag aaaaagaaaa aacctaaata atgcccccgt ggcaaaatta aacctattta
     2221 tgctatacaa tctactttgt ttggtcctag caatcccatt tggattgcta ggactgttta
     2281 tatcaataaa gaataattaa atacccaaca cctcatttat agtattaagt ttattcttat
     2341 caataaaggc acatagaatg cctgtaacaa tagcaatccc ccagatacct aatgtagttc
     2401 cagcaagcac actaaaaagt aaaacaacaa cataactaac tccagcatct acagctttct
     2461 tctctaatgt aagaaatagc ggcttccagt cacctgtatc cttaattttt aggatatcag
     2521 ataccacatc atatccaaaa gaaacatgtc ccgtaatctt caagtacttg gcaaactgat
     2581 ctaaatgctt agcccagtct tcatacttaa ccgcctccag tgcattgaaa attgcatcac
     2641 ggtctgcttt gctgaatttc ttatttaata catccttgta tttctcaaaa gcagctagag
     2701 cttcattcac attgctgatt ttcttacctt tagatttatc agcaagttcc tgtgccattt
     2761 ttgaatattt ttcaccatat ttttcagata gcgtttgata aaagctaact gttgcatcca
     2821 cagcatcctt aatctgcgag ttcaggagat tagtctgtgc tgttttcaaa ttatcttcag
     2881 catcatgaat acgtgaaact gctgtacttc gcttattatt agcctgagaa atagcctctt
     2941 ggattccatt tatctcagag ctaatctggt taagacgcgt ttctgatgct gttacctgct
     3001 tttgtttttc ctccatctca tcaccagctc tcgcccgtag tctggtggcc tcaaaaaaag
     3061 gacgactctg aagcggatca ttcgccctag gagataaaag tttaaccctt tcatccagtt
     3121 ctttatattt agcagatgcc tgatccaact catttcgttt tccggacagc gtattcgttt
     3181 ctgcatcacg ggcatgaata ctggagctta aacgggtatt gagcgtatta atctcttcat
     3241 ccactttcgc cagctcagat tgtgcagcag caagattttt ttgtgccacc tccacagccc
     3301 gggcctcttc actcaatgct gccaggcgtt tctcttcatc ctcagccagt ttcaattggc
     3361 gttctgtttc agcctgctcc ttctctatct ctttacgtcg ttgttctgct tcctgaaaag
     3421 ccttttccgc agcttccgct tctttacggg ctttttcttc tgcttttgca aggcgcaacc
     3481 gctctgcttc tgcctgcatc gctgcattat tggcatgagc caggtcaata acctccggat
     3541 gagtggaatt atggcgaagc gcctcattca caatatcctt cagatgttga gtcagcgcat
     3601 cccggtttgc ttttgcttta gcctgtgctt ctgcggcagc ttttgctcgg gcagcctgtt
     3661 ctgcctgcgt tttcttcaat tgagcagtag accatttagc tgtggcatga atggctgcag
     3721 aactttcact tttgctacct ccagttccac caccaccgcc agagccactc ccgtctggat
     3781 taccattcaa aagagtaatg attacctgcc ccttatcatc ataaggaaca ccatctttat
     3841 agtacgctac agctgtttcc attataaaat cctctttgac attaaaaaca aatagttaaa
     3901 agcaatatac tgtatatata atcactggtt ttatatacag tttaaaatta cgccgctgca
     3961 ttttccctgt caaccctgtg gattttcatt tttgtgaaaa cgatcaaaaa aacagccacc
     4021 cacaccacgt gctatttcca cccgatgcca caaaaaccag cacaaacatt accgttctca
     4081 gacctcatta tgttttactg aaaccatgag atgagacacc tatgggacac tgtaacttta
     4141 tggcatggca cacactccgg gacgcactga aaatgactgg aagatcgcgt tcacagtttt
     4201 accgtgatat gcgctcaggt cttgtcagtt accgtaccag ccaggacgga cgacgggagt
     4261 ttgaaaccag tgaactgatc cgggcatacg gcgaattaaa gcggaatgag acaccagaaa
     4321 ggcacactca aggacactca gaaaaacctc atgatcagca gacagaacgc attctccggg
     4381 aactgaatga gctgaaacaa tgcctgacgc tgatgcttga ggataaacaa gcccaggata
     4441 cggagcgccg gcgccaggaa gcagaacgga aacagctaca gaatgagata gcccagctca
     4501 ggcaggctct ggagcaggaa aagaaacggg gattctggtc caggctgttc ggtcactgaa
     4561 cgcgctcaga aactgatgat aagataatct tcggataata actcaccgag aataaatact
     4621 ttaaggtagg gagacactca tgagacgtac cggaaacaaa ctttgtctta tcgccatgat
     4681 aacagcaaca gtagctctca cagcctgtac cccaaagggc agcgtggaac aacatacccg
     4741 gcattacgta tatgcttctg atgacggttt tgatcccaac ttttccaccc aaaaagccga
     4801 cacaacacga atgatggtgc ctttttttcg gcagttctgg gatatgggag ctaaagataa
     4861 agcgacagga aaatcacgga gtgatgtgca acaacgcatt caacagtttc acagccagga
     4921 atttttaaac tcactccggg gcacaactca atttgcgggt actgattacc gcagcaaaga
     4981 ccttaccccg aaaaaatcca ggctgctggc tgacacgatt tctgcggttt atctcgatgg
     5041 ctacgagggc agacagtaag tggatttacc ataatccctt aattgtacgc accactgaaa
     5101 cgcgctgaac gcgattctga cgcagacacc gcaaaaagag atgttttacc ccg
//
