LOCUS       NZ_CP054384             5164 bp    DNA     circular CON 02-JUL-2023
DEFINITION  Escherichia coli strain SCU-175 plasmid pSCU-175-5, complete
            sequence.
ACCESSION   NZ_CP054384
VERSION     NZ_CP054384.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN14943546
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5164)
  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  JOURNAL   Unpublished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 5164)
  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              :: 07/02/2023 04:35:54
            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)               :: 6
            CDSs (with protein)          :: 6
            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
            CP054384.1.
            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..5164
                     /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-175-5"
                     /geo_loc_name="USA: California"
                     /collection_date="2017"
     gene            join(5003..5164,1..237)
                     /locus_tag="HPE51_RS00005"
                     /old_locus_tag="HPE51_27680"
     CDS             join(5003..5164,1..237)
                     /locus_tag="HPE51_RS00005"
                     /old_locus_tag="HPE51_27680"
                     /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_001222914.1"
                     /translation="MRISNIEWLKKRIGFIRKLGEQTARQRQIIDLIDNEAGLTEQERK
                     LLHVLATAEKNDLQAQESERKQAVQKRIEGKKQRRERNHRLFLAAGLLIEAGLVDTKTG
                     ELCYKKDRILQALKELKYDLETSPNPDA"
                     /name="hypothetical protein"
     gene            complement(441..1355)
                     /locus_tag="HPE51_RS00010"
                     /old_locus_tag="HPE51_27685"
     CDS             complement(441..1355)
                     /locus_tag="HPE51_RS00010"
                     /old_locus_tag="HPE51_27685"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001738986.1"
                     /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_001271363.1"
                     /translation="MSAALQYFEENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWLVMEWREEAYTLDELADYLDLSASE
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLEAVIQRVEMYNASLPVPLSL
                     AECRAIGKSIAKYTHRNFTPETFAQYVADTHTPEIQAARGRKGGSKSKRSTVATSARTL
                     KPWEALGISRAWYYQLKKRGLVE"
                     /name="replication initiation protein"
     gene            1528..1941
                     /locus_tag="HPE51_RS00015"
     CDS             1528..1941
                     /locus_tag="HPE51_RS00015"
                     /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_181695826.1"
                     /translation="MYVPCKTPSIAFWRKKRKKTRKHQAKPEKRVRNVFRALHNYARKR
                     CAIGFVRSEHRTAQNDKFSPLVRGALTGFPVSKLHISPGQKKTDLGSVARIRVYGKYFS
                     YRMLNIHKRKKCLSDALKQPFQKESALYDARKR"
                     /name="hypothetical protein"
     gene            3089..3298
                     /locus_tag="HPE51_RS00020"
                     /old_locus_tag="HPE51_27690"
     CDS             3089..3298
                     /locus_tag="HPE51_RS00020"
                     /old_locus_tag="HPE51_27690"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001618649.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001096196.1"
                     /translation="MAKLGENTPHIIDATVDFMASSQAFREYLKKLPPDNTIPPALTDE
                     HVPLYIRRLEYYRLLYRPKQTESY"
                     /name="hypothetical protein"
     gene            complement(3364..3897)
                     /locus_tag="HPE51_RS00025"
                     /old_locus_tag="HPE51_27695"
     CDS             complement(3364..3897)
                     /locus_tag="HPE51_RS00025"
                     /old_locus_tag="HPE51_27695"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221103.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000168770.1"
                     /translation="MASTEEKLLTLLLSVEHLQHTAMEQQKAVADSLAVARETLRGYRD
                     ISDGVAKQVRDEVRNEVQKLDVAGLIGERISQDFQRLEESVANMKANADALNRDIATIH
                     SNIVQEYNTLKGYSWKWLGGVSVAFLVMFCVLGWGMKTILDRNYNATAAVYQKVVTLED
                     KLVEKPVTGKSRKN"
                     /name="hypothetical protein"
     gene            complement(3900..4826)
                     /locus_tag="HPE51_RS00030"
                     /old_locus_tag="HPE51_27700"
     CDS             complement(3900..4826)
                     /locus_tag="HPE51_RS00030"
                     /old_locus_tag="HPE51_27700"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221102.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="WP_151309484.1"
                     /translation="MATYHLSVKFGGKGQAANHADYIERKEKYRDRQDLEYSAHGNMPE
                     WARDNPSHFWQAADQFERANGSTYRELEIALPRELTPEQRLELVQDFVRQEAGERHAWS
                     FAIHNPKASIDGGEQPHAHIMMSQRVNDGIERTPEQYFRRYNARYPERGGAKKDSGSLT
                     LTQQKEQLRELRKRWEVKHNEHMRKHGFERGFIDCRTLKEQGIERRPEVHLGFEAAGRL
                     DDAQRHDIMQKRSEPDYSRHLEQARTVGHDIREWLDTPVKQHELVRRLQHDVAREHGFD
                     MRDRVSKQNRTAPERVKSPSRGFSMGF"
                     /name="MobA/MobL family protein"
     Typing          complement(442..1355)
                     /name="rep_cluster_2131"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.909"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(3904..4826)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.727"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 aaaaacgact tacaggcaca ggagagcgaa cgaaaacagg cggtccaaaa acgaatcgag
       61 ggaaaaaaac aacgacggga acgcaatcac cggctctttc tcgcggctgg gctactgatc
      121 gaagcaggac tggtagacac aaaaacaggc gagctatgct ataaaaaaga caggatatta
      181 caggcactta aggaacttaa gtacgatctg gagacatccc caaacccaga cgcgtaagtg
      241 cctccatccg tgttccgatt ccctggtgct tcctcgctca ttcgctcgct acgctcggtc
      301 atgagactgc ggcgagcact accaccacaa tcacgcggaa agccgcgcca ttgcagggct
      361 gaacggggaa aaacggcaaa aaacctgctg ctcaaaaaga cgccagaaag gcgctgttat
      421 ctgatatagg cttatttggt ctactctacg agacctcgtt ttttcagttg gtaataccag
      481 gcgcgactga tccctaatgc ctcccacggt ttcagcgtgc gtgcagatgt agctactgtg
      541 ctgcgcttag acttagaacc gcccttgcga ccgcgtgcag cctgaatttc tggcgtgtgc
      601 gtatcagcca catactgtgc gaaagtttcc ggcgtgaagt tcctgtgcgt gtatttcgca
      661 atgctcttgc caatagcccg acattcagcc agtgaaagcg gaacgggaag cgatgcattg
      721 tacatttcga cacgctggat caccgcttca agccactgtg agaacgctgg ccagccctga
      781 cgaatcgccc tgtaagccca tttgcgcgtc atttcgaaca ggtggcagtt tcgccccatc
      841 ccgtaatgtt tatcgatgct acgacgctct gaggcgctca aatcgagata atcagccagt
      901 tcatcgaggg tataggcttc ctcgcgccac tccatcacca gccattccag gtggaacgga
      961 tttttgcaaa tcaggccgct gtagttcaca tccgcacaaa gtttctcaca cagcgaacgt
     1021 tcaaccgctg cggcatattt cagcgcctta accgaggcat caggcgcggt tctcacggcg
     1081 atgttgagtg cgtagagcag gtgagcgtgt ccgttcacag gatttttaac ggtgatgttc
     1141 ggcgcgggag cgttccggtc gctccagtca atcgcagccc cctcgcggtc aacgtcaaaa
     1201 accagccaga actgtgcatg aggctggttc tgctggatat accgtgcaag aagcgcgcgc
     1261 cctttgccgg agatacgaag gccgaaagcg agatcatccg tgtgataggg acggtggggt
     1321 aaattttctt cgaagtattg aagcgcggcg ctcatgtgtt acgattcctt ccaggttatc
     1381 gaccgacatc gcccctgtat tttcgtgaaa gtcttggcgg atagacacga atttcagggg
     1441 cgtttgtttt tcagtcgctt acactacccc caacgacaaa acctgtcgag ccttcccgca
     1501 aatccgatcc atttaccata actcccgttg tacgtaccct gtaaaacgcc ctcaatcgct
     1561 ttctggcgca aaaaacgcaa aaagacaaga aaacaccagg ccaaaccaga aaaacgcgtc
     1621 agaaacgttt tcagggcgtt gcataactat gcacgaaagc gatgtgcgat cggtttcgtg
     1681 cgttctgaac accgaacggc tcaaaacgac aagttttctc ccctggtgcg tggcgctctg
     1741 acggggtttc ctgtttccaa acttcacatc tcgccaggac aaaaaaaaac cgacctgggg
     1801 tcggtggcaa gaatcagagt ctatgggaaa tattttagtt atcggatgct caatattcac
     1861 aaacgcaaaa aatgcctcag tgatgcccta aaacaacctt tccagaagga gtccgcgctt
     1921 tacgatgcac ggaagagata aaaaacccca caaaagtggg gaaccaagag aaacaacaat
     1981 tacaggttgt tggttgtgtt cgaacaacga tgaagtagct acgctaaata ataattaccg
     2041 tacaggccct acatattcaa cactaaattt aagatcctga cgaaggattt ataaatgcac
     2101 gaaaacacat agacagacaa attcactaaa ttcatacaca aaaacaagtg tagttttcta
     2161 agtaaattag attcgacaac caattagttt atccacatcg cattccactc ttgctacacc
     2221 aatcacattt cttgatatgt aatagcagaa aaaataaaac cagacaccaa tagaccaaaa
     2281 aacaaacatt caacaagaaa cattttgaac aatatcacaa aactgtcaca accatcatca
     2341 gactattgaa aaaaactggt tgctgtttta taaaagcgac tgtaacaacc tccactctat
     2401 agttccatta gtttaaagtg tcacacaaac tgagcatcca tttgttttcc ttacttttgc
     2461 ccctgtattc caagggtttt ttttataact taaagattag cacaccacac aaaaacaata
     2521 aaaaaaacga caagttatac aataaaacca gtactatcca tacagctaat tacatataaa
     2581 tactattaaa ccatctggac attaaaaata aactcttata acataaaatt aatgcggttc
     2641 cggtaccata tgtcagggat aatgtgcaaa tggaggtatc ggaactgcat ttcagttcat
     2701 tattaattaa tgacaaaaaa aacctctgcg agcgcagagg gggtaaggaa tgttcccggt
     2761 cataatatgt cgatagtgtt tatatacata cagaacaaga acaacaacca gccaactaat
     2821 aaatatttta ttttttagag ctgaaacctt aaagctcact tccattccat acattgttat
     2881 aaaccttatg ttgaaaactg aaagtaagta cggcagactt attaagttgc gtgcagtctt
     2941 ttcacgttat acaaacaaga acacctgcga agttatttct ccttacatat ccccctatgc
     3001 caacggggga ttttttctgg ttcactaacg cataaataat agtgacaccc tatcattcac
     3061 aaaccgtgat aatataagga ttatcatcat ggcaaaatta ggtgaaaaca ccccacatat
     3121 tatcgatgct actgtagatt ttatggcatc aagccaggca tttcgtgagt atctgaaaaa
     3181 acttccccct gataacacaa taccgccagc tcttactgat gagcacgtac cgttatatat
     3241 acgaaggctg gaatactatc gtctgcttta tcgaccaaag cagacagaat catattgaaa
     3301 aaaacggtga acggttcgcg aaatcctttc gcgggtcgtg aggcgttgga caagcgaagc
     3361 gcgtcagttt ttccggctct tccccgtgac aggtttctcc accagtttat cttccagtgt
     3421 cacaactttc tgatacaccg ccgctgtggc gttgtagttc ctgtcgagta ttgttttcat
     3481 tccccatccg agcacacaga acataaccag aaaagccact gacaccccac ccagccattt
     3541 ccagctatac cctttaaggg tgttgtattc ctgcacgata ttgctgtgaa ttgtcgcaat
     3601 atccctgttc agggcatccg cgtttgcctt catgtttgcg actgactctt ccagccgctg
     3661 aaaatcctgg ctgatgcgct cacctatcag tcctgccacg tccagcttct gcacctcatt
     3721 tctgacttca tccctgacct gttttgccac accgtcagaa atatcccgat atccgcgaag
     3781 agtttccctt gccacagcca gagaatcagc aacagctttc tgttgctcca ttgcggtatg
     3841 ttgcagatgc tccaccgata acaggagcgt gagtaatttt tcttctgtgc tggccatgtt
     3901 cagaatccca tagaaaatcc acgtgacggt gatttaaccc gttcaggtgc agttcggttc
     3961 tgtttgctca ctctgtctct catgtcaaag ccatgctccc gcgcaacatc atgttgcagc
     4021 cttctgacca gttcatgttg cttaaccgga gtgtccagcc attccctgat gtcatgcccg
     4081 accgttcgcg cctgttcaag atggcgggaa tagtccggtt cagaccgttt ttgcatgatg
     4141 tcatgacgct gggcatcatc aagccgtccg gcagcttcaa aacccagatg cacttcggga
     4201 cgtcgttcaa tgccctgttc tttcagcgtc cggcagtcaa tgaagcccct ttcaaagcca
     4261 tgctttctca tatgttcgtt gtgcttcacc tcccagcgtt ttcgcaattc ccgcaactgc
     4321 tctttttgct gagtgagagt caggcttccg gaatcctttt tcgcacctcc ccgctcggga
     4381 tacctggcgt tatagcgccg gaaatactgt tccggtgtac gttcaatgcc atcattcaca
     4441 cgctgactca tcatgatatg cgcatgaggc tgttcgccgc cgtcaatgct cgctttcgga
     4501 ttgtgaatgg caaaactcca ggcgtgccgt tcgccagctt cctgacgtac aaaatcctgc
     4561 accagttcaa ggcgctgttc cggtgtcagt tcacggggta atgcaatttc aagttcccta
     4621 taggtcgaac cgttcgcacg ttcaaactgg tcagccgcct gccagaaatg ggaaggatta
     4681 tccctggccc attccggcat gtttccgtgt gcggaatatt ccaaatcctg acggtcgcgg
     4741 tatttctctt tgcgctcgat gtaatcggcg tggtttgcag cctgcccctt gccaccaaat
     4801 ttaacgctga ggtgataggt tgccacggtt tcagccctct gcaggagcgc actgtttctc
     4861 gacgaaggag agaaacatat aagtgcgctt ccttctaatt ttacgaatta gcacggaaga
     4921 taccccctgc acccgccgac cgcaagcgat atactgcacg accacaacac accgcaaaaa
     4981 aacaccaggg agcatcacga acatgcgcat cagcaacatc gaatggctga agaaacggat
     5041 cggattcatc aggaagctcg gagaacagac cgcacgacag agacagatta ttgacctgat
     5101 cgacaacgaa gccggactca cagaacagga acgcaaactt ctccacgtac tggcaacagc
     5161 ggaa
//
