LOCUS       NZ_OP378616             5754 bp    DNA     circular CON 26-MAR-2024
DEFINITION  Escherichia coli strain EC00609 plasmid pEC00609_4, complete
            sequence.
ACCESSION   NZ_OP378616
VERSION     NZ_OP378616.1
DBLINK      BioProject: PRJNA224116
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5754)
  AUTHORS   Evans,D., Sundermann,A., Griffith,M., Srinivasa,V., Mustapha,M.,
            Chen,J., Dubrawski,A., Cooper,V., Harrison,L. and Van Tyne,D.
  TITLE     Empirical genomic methods for tracking plasmid spread among
            healthcare-associated bacteria
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5754)
  AUTHORS   Evans,D., Sundermann,A., Griffith,M., Srinivasa,V., Mustapha,M.,
            Chen,J., Dubrawski,A., Cooper,V., Harrison,L. and Van Tyne,D.
  TITLE     Direct Submission
  JOURNAL   Submitted (04-SEP-2022) Medicine/Infectious Diseases, University of
            Pittsburgh, 3550 Terrace Street, Scaife Hall S853, Pittsburgh, PA
            15213, USA
COMMENT     ##Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.7
            Sequencing Technology             :: Illumina; MinION
            ##Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_028737845.1-RS_2024_03_26
            Annotation Date                   :: 03/26/2024 01:18:29
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 9
            CDSs (total)                      :: 9
            Genes (coding)                    :: 8
            CDSs (with protein)               :: 8
            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
            OP378616.1.
            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..5754
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="EC00609"
                     /isolation_source="Clinical"
                     /db_xref="taxon:562"
                     /plasmid="pEC00609_4"
     gene            432..1175
                     /locus_tag="PWB93_RS00005"
     CDS             432..1175
                     /locus_tag="PWB93_RS00005"
                     /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_000950379.1"
                     /translation="MLSMYILVQAPVLTGLSKNQTESLTTNNKRGRGCILSHKKHLQHE
                     FYRIDFIKNEIYSPIKVFYMKDMKAVVVFTGKDLNIMRTEGGSGYWHARTDRLNDADYL
                     IAVRNRRETWAVKDLEHGTAFLIAKITGCFKSPDYDDRNVITFDEYAEIHTPKAWKMLT
                     DGQRYPVAYLSAQEAFLRIGVTPEQLEWKKFHPSSPSVPNTVIPGLAEEKTEKLSLNEA
                     IERAKKDISNATGIDSSAITISIKI"
                     /name="hypothetical protein"
     gene            complement(1374..1589)
                     /locus_tag="PWB93_RS00010"
     CDS             complement(1374..1589)
                     /locus_tag="PWB93_RS00010"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137421.1"
                     /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_000137421.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWENAFAEWRTMSGLMQRENA
                     ALSERVTGLSRQVQSLSEQLRRLSQG"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(1593..2078)
                     /locus_tag="PWB93_RS00015"
     CDS             complement(1593..2078)
                     /locus_tag="PWB93_RS00015"
                     /inference="COORDINATES: protein motif:HMM:NF016710.4"
                     /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_139244276.1"
                     /translation="MNSLLTLAKDLEQKSKAQQQSTSEMLKAAFSEHEKSVRAELSESE
                     KRISAAILDHDRKLSSAMSQRTKGMVRMVSQTWLTIVLVSALLTASGASILWWQGQQIL
                     DNYTIIREQKSTQAMLSERNSGVQLSTCGEQRRRCVRVNPEAGRFGEDSSWMILAGK"
                     /name="MbeB family mobilization protein"
     gene            complement(<2113..2817)
                     /locus_tag="PWB93_RS00050"
                     /pseudo=""
     CDS             complement(<2113..2817)
                     /locus_tag="PWB93_RS00050"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /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            complement(2756..3079)
                     /locus_tag="PWB93_RS00025"
     CDS             complement(2756..3079)
                     /locus_tag="PWB93_RS00025"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /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_001445156.1"
                     /translation="MLTMWVTEDEHRRLLERCDGKQLAAWMRQTCLDEKPARAGKLPSI
                     SPALLRQLAGMGNNLNQIARQVNAGGGSGHDRVQVVAALMAIDAGLERLRHAVLEKGAD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            complement(3288..3491)
                     /locus_tag="PWB93_RS00030"
     CDS             complement(3288..3491)
                     /locus_tag="PWB93_RS00030"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001347451.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000415556.1"
                     /translation="MEKRQRRILFQPFLISAKSLYPAIRELATPAAVSRQERSDRVSEE
                     ASYHRNLHFLLYALQLHFSPAT"
                     /name="hypothetical protein"
     gene            3720..3866
                     /locus_tag="PWB93_RS00035"
     CDS             3720..3866
                     /locus_tag="PWB93_RS00035"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001354639.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_050863271.1"
                     /translation="MHEPPVQSDCCALSGNYHLESNPERHAKAPLAAANGKRMYKRLLT
                     QSS"
                     /name="hypothetical protein"
     gene            complement(4324..4887)
                     /locus_tag="PWB93_RS00040"
     CDS             complement(4324..4887)
                     /locus_tag="PWB93_RS00040"
                     /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_000999222.1"
                     /translation="MNDMKAVRHRYKQRYDFAASEVVGAFDELRSLDWSLEIASLSDVE
                     MSKRWIGAVDPNGVARLPPNGGWDWVKLYNGYLKNPSAFVCAIKSEGKLCALIGGGVSD
                     SKVVTKLHYLESAPYDTALSGYALDISVTYVVTVANAMGSEYSAIYEPNSKVREIAIND
                     YGFSEDNLFGTSKDFALYLPMSRI"
                     /name="hypothetical protein"
     gene            complement(4884..5402)
                     /locus_tag="PWB93_RS00045"
     CDS             complement(4884..5402)
                     /locus_tag="PWB93_RS00045"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_009310049.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001445155.1"
                     /translation="MSEKAKKVGRRSLSKRRESLIKELWGDELSELNIWNRKEHDGFTT
                     IPRTLNYINRIIDYLAGAGSPVSQTYLSLWCRVFDEGFVEIRDKDALAFESGFSGQRAV
                     TTWLGRMKKLRELGLISTKPGTSGEFHYVIMLNPLYVIKKSYESNGWARDERYNALFSR
                     MQEVGAEWE"
                     /name="hypothetical protein"
     Typing          complement(3181..3368)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="85.864"
                     /coverage="87.0"
                     /evalue="5.83e-49"
     Typing          3314..3829
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="90.019"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(1271..2766)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.984"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gattcctcga cgtcgtagtt cggcttcaat agcatcacag gaatcacgca aaatcttcgt
       61 gttgtagtac ctacccatct ttcttcggat aatatcgtca agcaaggcat tgttatggtc
      121 taacgttttg agtaggtata gggtttctct atccatctta ggatctccat tttttgttga
      181 tgagcttatt gctcgccagt atttattccg tctgcaaatt acctactcag aatggcgtca
      241 aaactcgagt tttcgcttac acctcagaaa ccatttacca taacatccct tgcccgcacc
      301 gctccggacg ggttcagcgt gaaagcggcg ttagcccggt aaaaccggca gtaaactccc
      361 cgctaaaccg cgcattctgc gcctgataaa tttcacgcga ctgcatagcc atgcagccac
      421 gtgaatggct catgctttca atgtatatcc tcgtccaagc ccctgtttta accggtttat
      481 caaaaaacca aacagaaagc cttaccacta acaataaaag aggtaggggc tgtattttat
      541 cgcataaaaa acatttacaa cacgaattct atcgtataga tttcataaaa aatgaaattt
      601 actcacctat taaggttttc tatatgaaag atatgaaagc tgttgtggtt tttaccggga
      661 aggatttgaa cataatgaga actgaggggg ggtcaggcta ctggcatgcc agaacagaca
      721 ggctcaacga tgccgattac ctcatagcag taagaaacag aagggaaacg tgggcagtaa
      781 aagacctgga acacggcaca gcattcctga tcgccaaaat taccgggtgt tttaaaagcc
      841 ctgattacga cgacaggaac gtcataacct ttgatgaata cgcagaaatt cacacgccaa
      901 aagcatggaa aatgctaacc gatggtcagc gctatccggt tgcttacctg agcgcacagg
      961 aagctttttt acgtattggg gtaacaccgg aacaactgga atggaagaaa ttccatcctt
     1021 catccccatc ggttcctaat acagtgattc ctggtctggc tgaagagaaa acagaaaaac
     1081 tctcccttaa cgaggcaatt gaaagagcca aaaaggatat tagcaacgca acagggattg
     1141 atagctcagc cataacaata agcatcaaga tctgatgaag cgtgaacaac aagatagcag
     1201 cctcatgttc tagaactgaa cctgtgcgcc agaaacagca agcccatgct tttccggcgc
     1261 acagattcaa agtgacggac cgttgtacgt tcgctgtcgc tgagatcgtt ccagctccag
     1321 cgttttctga tgctgcgccg cccgttcctg ctcacgatgt gcctctatca cgttcagcct
     1381 tgtgacaacc ggcgcagctg ctcgctcaaa ctctgcacct gcctgctcaa gcccgtgacg
     1441 cgctcgctca gcgccgcgtt ctcccgttgc ataagaccag acatcgtccg ccattccgcg
     1501 aaggcgttct cccactcgtc cagccttttc gagtagtcct gctgtagctg ctctaatgcg
     1561 ctcagcaact gtttttccag ctccgtcatg tgctatttcc ccgccagtat catccagctc
     1621 gaatcctctc cgaaccgtcc cgcttccggg ttcaccctca cgcagcggcg tctctgctct
     1681 ccgcaggtcg agagctgcac gccgctgttc ctctcggaca gcatggcctg cgtgctcttc
     1741 tgctcccgga tgatcgtgta attgtcgagt atctgctgcc cctgccacca cagaatgctt
     1801 gcgcccgatg ctgtcagcag tgcagacacc aggacgatgg tcagccacgt ctggctgacc
     1861 atacgcacca tgcctttcgt gcgctggctc atggctgagg acagcttccg gtcgtggtcg
     1921 aggatggcgg cgctgattct cttctcgctt tcgctcagtt ccgctctgac agacttctcg
     1981 tgctcgctga atgcggcttt cagcatctcg ctggtactct gctgctgcgc tttcgatttc
     2041 tgctctaagt cctttgccag cgttaaaaga ctgttcatag atggctccct tcagtcggat
     2101 gtttcgcccc ccgtccgggt cggcaatgct gatgctgctt tttgtggtgc gtaccacctc
     2161 aaaacctgcg ctttccagcg cctcagtgac gtcctggcgg gttttcagct ccccggatga
     2221 ggctaaggcc agtaaacccc gtgtaattgc ctgagcggct tcctgcttcg ttttcggcag
     2281 cgcggacggc gtgaccagcg cccgccggtt ttcaggcgcg ttcgggtcat gcagccccag
     2341 cctgccgttc acgatggtct gccaggcatc aatgcgcgga cggtcggcgc ggtcgtaata
     2401 cggctggaga cgcttgccgg tcagcagctc catgttcggg atcaggaagt tcagctccag
     2461 tcgcccctta tcctggtgct caacccacag cacgctgtac tggtctttat cgagtccggg
     2521 catcagaacc cgttcaaagc tcgccatcag cttttcgcgc tgcccgggcg gtaaatcctt
     2581 ttcggcaaag gacaggacgc cggatgtgta cttttttgcg tagggcgagg cgtcgataag
     2641 ctccctgact tcttccggct tcccctgcag aacggtggcg ccgtcgcgct gtcggtcttt
     2701 ccccagcaga taatccaccg gaccggcgcc accgccgcgc cctcgcgggt gaaacttaac
     2761 gatcatcgtc tgcacccttt tccagcacag catgccgcag ccgctcgagt ccggcatcta
     2821 tggccatcag cgcggcgacg acctgcacgc ggtcgtgccc gctgccacca ccggcgttaa
     2881 cctgccgggc aatctggttg aggttgttcc ccatgccggc aagctgacga agcagcgccg
     2941 gcgagatcga gggaagcttg ccggcgcggg cgggtttctc gtccaggcac gtctggcgca
     3001 tccaggctgc aagctgttta ccgtcgcagc gttccaacag acggcggtgc tcatcttcgg
     3061 tcacccacat cgtgagcatt ttactgcgtt tgtctgccaa tccagcctcc tgataacgcc
     3121 gggacgggcg ggaaatcttt tcccggtcgg cgcggtgttg gacaagccgc aggcgcgtca
     3181 gtggttttag caggtttcgg ggcgcagccc tgaaccagtc acgtagcgct agcggagtgt
     3241 atactggctc aatatgttat ggcggagtaa cacttaatga aagtgcttca tgtggcaggg
     3301 gaaaaatgca gctgcagggc gtacaggaga aaatggaggt tacggtgata tgacgcctcc
     3361 tcgctcactc ggtcgctgcg ctcctgccgt gagactgcgg cgggcgttgc aagctcacga
     3421 atggctggat aaagagactt agcggaaatc aggaagggct gaaaaaggat gcggcgttgc
     3481 cgtttttcca taggctccgc ccccctgaca agcatcacga aatctgacgc tcaaatcaga
     3541 ggcggcgaaa cccgacagga ctataaagat cccaggcgtt tccccctggt agctccctcg
     3601 tgcgctctcc tgttcctgcc tttcggttta ccggtgtcac tccgctgtta tggccgcggt
     3661 ttctcattcc acgcctgaca ctcagttccg ggtaggcagt tcgctccaag ctggactgta
     3721 tgcacgaacc ccccgttcag tccgactgct gcgccttatc cggtaactat catcttgagt
     3781 ccaacccgga aagacatgca aaagcgccac tggcagcagc caacggtaag aggatgtaca
     3841 agagattact aacgcagagt tcttgaagta tcagcccaac tacggctaaa ctggaaggac
     3901 gaatttggtg gcagtggtct tgtacaccct gttaccacgg ttcataaact tgccggttta
     3961 atgaaccttc gaaaaaccac cttgccgggt ggttttttcg ttttcaaaga agatacgcgt
     4021 ttactcttcg cctcgtcaat gaagggtcgc attaattctg cgacttgcgc atctcttcta
     4081 caatacagta cagttactat gaagttgacg tatccgtcac ctcatatgct ttgtactaac
     4141 tcacgaaaaa acggaaataa tatgttagct cacgcggtcg aacttaaaaa agcgacggaa
     4201 ccatgctctt ctggcacagc cggagcattt cgccagcgcg tgaaagcaag acgagcagag
     4261 caaggccgat caaaccaaca gccagaaaaa ctctacggcg tactggtagg ataaatgagc
     4321 cggttaaatc cggctcattg gtagatacag agcgaaatct ttacttgtcc caaacaagtt
     4381 gtcctcgcta aatccataat catttatagc tatctctctg actttgctat ttggctcata
     4441 gatggctgag tattcgcttc ccatcgcatt cgcgacagta acaacatacg taacagaaat
     4501 atccagtgca tatcctgaaa gagccgtgtc ataaggggct gattcaaggt aatgcagctt
     4561 agttaccact ttactatcag aaaccccgcc accaatcaga gcgcatagct tgccttctga
     4621 tttaatggca cagacgaatg cgctagggtt cttcaaatag ccgttataga gcttaaccca
     4681 gtcccatcca ccgttaggtg gtagtcttgc aacaccgtta ggatcaacag ccccaatcca
     4741 tctctttgac atttccacgt cacttaaaga tgcgatttct aaactccaat ccaaacttct
     4801 aagttcatca aacgccccca ctacttctga cgcagcaaaa tcatatctct gcttatatcg
     4861 gtgacgaaca gctttcatgt cgttcattcc cactccgccc ccacttcctg catcctagaa
     4921 aatagagcgt tgtaacgctc atcccttgcc catccatttg attcatatga ctttttaatt
     4981 acgtaaagtg gattcaacat aattacataa tgaaactcgc cagaagtacc aggcttcgtt
     5041 gatatcagtc ccagctcccg tagctttttc attcttccta gccaagtagt caccgctcgc
     5101 tgcccactaa accctgactc aaatgccaga gcatctttat ccctaatttc gacgaatccc
     5161 tcgtcaaaaa ctcgacacca taaactgagg tatgtctgtg acacaggaga tccagcgcca
     5221 gcaaggtaat cgattatcct attgatataa ttcaatgttc ttgggattgt tgtaaatcca
     5281 tcgtgttctt tcctgttcca tatattaagt tcggaaagct catcccccca gagctctttt
     5341 attagacttt ctcttctttt tgatagagag cgcctaccta ctttttttgc cttctctgac
     5401 atttatcccc caaaagtcaa ttcaacatga aaatattatc aacaaaaaac ctattatatt
     5461 caatgagtta tgtgtaataa cacaaaaacc aagcacatca ttaaccaaca tctcatttga
     5521 tatgattctt tttttttgtc aatacaaata ttgagatgta atatttttta caattacggt
     5581 tttatttttc aattagttat gcgctatttt gtactcgctg ttctcaatgt actctaatgt
     5641 aatcgttgtg ctcgctgtgc tgaatggggt tcttaggggg gttaaggggg ggggaagggg
     5701 tgccctgaat gcgcaatgaa aaagcccaca taagcgggct tcgtcttttt aaat
//
