LOCUS       NZ_CP018967             5167 bp    DNA     circular CON 13-JUN-2024
DEFINITION  Escherichia coli strain Ecol_542 plasmid pEC542_3, complete
            sequence.
ACCESSION   NZ_CP018967
VERSION     NZ_CP018967.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN05511186
            Assembly: GCF_002012025.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5167)
  AUTHORS   Stoesser et al,N.
  TITLE     Direct Submission
  JOURNAL   Submitted (20-DEC-2016) Microbiology (Research), University of
            Oxford, Headley Way, Oxford OX3 9DU, United Kingdom (Great Britain)
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: HGAP v. unspecified
            Genome Coverage                   :: XX
            Sequencing Technology             :: PacBio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_002012025.1-RS_2024_06_13
            Annotation Date                   :: 06/13/2024 03:40:06
            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)                     :: 5,434
            CDSs (total)                      :: 5,314
            Genes (coding)                    :: 5,082
            CDSs (with protein)               :: 5,082
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 93
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 232
            CDSs (without protein)            :: 232
            Pseudo Genes (ambiguous residues) :: 0 of 232
            Pseudo Genes (frameshifted)       :: 85 of 232
            Pseudo Genes (incomplete)         :: 166 of 232
            Pseudo Genes (internal stop)      :: 47 of 232
            Pseudo Genes (multiple problems)  :: 55 of 232
            Pseudo Genes (short protein)      :: 1 of 232
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP018967.1.
            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..5167
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="Ecol_542"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pEC542_3"
                     /geo_loc_name="Viet Nam: Ho Chi Minh City"
                     /lat_lon="10.82 N 106.62 E"
                     /collection_date="2011"
                     /collected_by="Merck Study for Monitoring of Antimicrobial
                     Resistance Trends (SMART)"
     gene            join(4898..5167,1..129)
                     /locus_tag="BE966_RS00025"
                     /old_locus_tag="BE966_00025"
     CDS             join(4898..5167,1..129)
                     /locus_tag="BE966_RS00025"
                     /old_locus_tag="BE966_00025"
                     /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(333..1247)
                     /locus_tag="BE966_RS00030"
                     /old_locus_tag="BE966_00030"
     CDS             complement(333..1247)
                     /locus_tag="BE966_RS00030"
                     /old_locus_tag="BE966_00030"
                     /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_001271348.1"
                     /translation="MSAALQYFDENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWLVMEWREEAYTLDELADYLDLSASE
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLEAVIQRVEMYNASLPVPLSL
                     AECRAIGKSIAKYTHRNFTPETFAQYVADTHTPEIQAARGRKGGSKSKRSTVATSARTL
                     KPWEALGISRAWYYQLKKRGLVE"
                     /name="replication initiation protein"
     gene            2984..3193
                     /locus_tag="BE966_RS00035"
                     /old_locus_tag="BE966_00035"
     CDS             2984..3193
                     /locus_tag="BE966_RS00035"
                     /old_locus_tag="BE966_00035"
                     /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(3259..3792)
                     /locus_tag="BE966_RS00040"
                     /old_locus_tag="BE966_00040"
     CDS             complement(3259..3792)
                     /locus_tag="BE966_RS00040"
                     /old_locus_tag="BE966_00040"
                     /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(3795..4721)
                     /locus_tag="BE966_RS00045"
                     /old_locus_tag="BE966_00045"
     CDS             complement(3795..4721)
                     /locus_tag="BE966_RS00045"
                     /old_locus_tag="BE966_00045"
                     /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_001331297.1"
                     /translation="MATYHLSVKFGGKGQAANHADYIERKEKYRDRQDLEYSAHGNMPE
                     WARDNPSHFWQAADQFERANGSTYRELEIALPRELTPEQRLELVQDFVRQEAGERHAWS
                     FAIHNPKASIDGGEQPHAHIMMSQRVNDGIERTPEQYFRRYNARYPERGGAKKDSGSLT
                     LTQQKEQLRELRKRWEVKHNEHMRKHGFERGFIDCRTLKEQGIERRPEVHLGFEAAGRL
                     DDAQRHDIMQKRSEPDYSRHLEQARTVGHDIREWLDTPVKQHELVRRLQHDVAREHGFD
                     MRDRVSRQNRTAPERVKSPSRGFSMGF"
                     /name="MobA/MobL family protein"
     Typing          complement(473..1247)
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.778"
                     /coverage="83.0"
                     /evalue="0.0"
     Typing          complement(3799..4721)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.052"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gggctactga tcgaagcagg actggtagac acaaaaacag gcgagctatg ctataaaaaa
       61 gacaggatat tacaagcact taaggaactt aagtacgatc tggagacatc cccaaaccca
      121 gacgcgtaag tgcctccatc cgtgttccga ttccctggtg cttcctcgct cattcgctcg
      181 ctacgctcgg tcatgagact gcggcgagca ctaccaccac aatcacgcgg aaagccgcgc
      241 cattgcaggg ctgaacgggg aaaaacggca aaaaacctgc tgctcaaaaa gacgccagaa
      301 aggcgctgtt atctgatata ggcttatttg gtctactcta cgagacctcg ttttttcagt
      361 tggtaatacc aggcgcgact gatccctaat gcctcccacg gtttcagcgt gcgtgcagat
      421 gtagctactg tgctgcgctt agacttagaa ccgcccttgc gaccgcgtgc agcctgaatt
      481 tctggcgtgt gcgtatcagc cacatactgt gcgaaagttt ccggcgtgaa gttcctgtgc
      541 gtgtatttcg caatgctctt gccaatagcc cgacattcag ccagtgaaag cggaacggga
      601 agcgatgcat tgtacatttc gacacgctgg atcaccgctt caagccactg tgagaacgct
      661 ggccagccct gacgaatcgc cctgtaagcc catttgcgcg tcatttcgaa caggtggcag
      721 tttcgcccca tcccgtaatg tttatcgatg ctacgacgct ctgaggcgct caaatcgaga
      781 taatcagcca gttcatcgag ggtataggct tcctcgcgcc actccatcac cagccattcc
      841 aggtggaacg gatttttgca aatcaggccg ctgtagttca catccgcaca aagtttctca
      901 cacagcgaac gttcaaccgc tgcggcatat ttcagcgcct taaccgaggc atcaggcgcg
      961 gttctcacgg cgatgttgag tgcgtagagc aggtgagcgt gtccgttcac aggattttta
     1021 acggtgatgt tcggcgcggg agcgttccgg tcgctccagt caatcgcagc cccctcgcgg
     1081 tcaacgtcaa aaaccagcca gaactgcgca tgaggctggt tctgctgtat gtaccgcgca
     1141 agaagcgcac gccctttgcc ggagatgcga agaccaaaag cgagatcatc cgtgtgatag
     1201 ggacgatggg gtaaattttc gtcgaagtat tgaagcgcgg cgctcatgtg ttacgattct
     1261 ctccgggtta tgcgacctac acgccctctg tatttcatgt tgaatcttgc cggatctgga
     1321 catgatttca ggggcgtttg tttttcagtc gcttacacta cacccaacgg caaatcctgt
     1381 cgaaccttcc cgaaaacccg atccatttac cataactccc gttgtacgcc ccccttaaaa
     1441 cgccctcagt cgctttctgg cgcaaaaaac gcaaaaagac aagaaaacac caggccaaac
     1501 cagaaaaacg cgtcagaatc gttttcaggg cgttgcataa ctatgcacga aagcgatgtg
     1561 cgatcggttt cgtgcgttct gaacaccgaa cggctcaaaa cgacaagttt tctcccctgg
     1621 tgcgtggcgc tctgacgggg tttcctgttt ccaaacttca catctcgcca ggacaaaaaa
     1681 aaaccgacct ggggtcggtg gcaagaatca gagtctatgg gaaatatttt agttatcgga
     1741 tgctcaatat tcacaaacgc aaaaaatgcc tcagtgatgc cctaaaacaa cctttccaga
     1801 aggagtccgc gctttacgat gcacggaaga gataaaaaac cccacaaaag tggggaacca
     1861 agagaaacaa caattacagg ttgttggttg tgttcgaaca acgatgaagt agctacgcta
     1921 aataataatt accgtacagg ccctacatat tcaacactaa atttaagatc ctgacgaagg
     1981 atttataaat gcacgaaaac acatagacag acaaattcac taaattcata cacaaaaaca
     2041 agtgtagttt tctaagtaaa ttagattcga caaccaatta gtttatccac atcgcattcc
     2101 actcttgcta caccaatcac atttcttgat atgtaatagc agaaaaaata aaaccagaca
     2161 ccaatagacc aaaaaacaaa cattcaacaa gaaacatttt gaacaatatc acaaaactgt
     2221 cacaaccatc atcagactat tgaaaaaaac tggttgctgt tttataaaag cgactgtaac
     2281 aacctccact ctatagttcc attagtttaa agtgtcacac aaactgagca tccatttgtt
     2341 ttccttactt ttgcccctgt attccaaggg gtttttttat aacttaaaga ttagcacacc
     2401 acacaaaaac aataaaaaaa aacgacaagt tatacaataa aaccagtact atccatacag
     2461 ctaattacat ataaatacta ttaaaccatc tggacattaa aaataaactc ttataacata
     2521 aaattaatgc ggttccggta ccatatgtca gggataatgt gcaaatggag gtatcggaac
     2581 tgcatttcag ttcattatta attaatgaca aaaaaaacct ctgcgagcgc agagggggta
     2641 aggaatgttc ccggtcataa tatgtcgata gtgtttatat acatacagaa caagaacaac
     2701 aaccagccaa ctaataaata ttttattttt tagagctgaa accttaaagc tcacttccat
     2761 tccatacatt gttataaacc ttatgttgaa aactgaaagt aagtacggca gacttattaa
     2821 gttgcgtgca gtcttttcac gttatacaaa caagaacacc tgcgaagtta tttctcctta
     2881 catatccccc tatgccaacg ggggattttt tctggttcac taacgcataa ataatagtga
     2941 caccctatca ttcacaaacc gtgataatat aaggattatc atcatggcaa aattaggtga
     3001 aaacacccca catattatcg atgctactgt agattttatg gcatcaagcc aggcatttcg
     3061 tgagtatctg aaaaaacttc cccctgataa cacaataccg ccagctctta ctgatgagca
     3121 cgtaccgtta tatatacgaa ggctggaata ctatcgtctg ctttatcgac caaagcagac
     3181 agaatcatat tgaaaaaaac ggtgaacggt tcgcgaaatt ctttcgcggg tcgtgaggcg
     3241 ttggacaagc gaagcgcgtc agtttttccg gctcttcccc gtgacaggtt tctccaccag
     3301 tttatcttcc agtgtcacaa ctttctgata caccgccgct gtggcgttgt agttcctgtc
     3361 gagtattgtt ttcattcccc atccgagcac acagaacata accagaaaag ccactgacac
     3421 cccacccagc catttccagc tatacccttt aagggtgttg tattcctgca cgatattgct
     3481 gtgaattgtc gcaatatccc tgttcagggc atccgcgttt gccttcatgt ttgcgactga
     3541 ctcttccagc cgctgaaaat cctggctgat gcgctcacct atcagtcctg ccacgtccag
     3601 cttctgcacc tcatttctga cttcatccct gacctgtttt gccacaccgt cagaaatatc
     3661 ccgatatccg cgaagagttt cccttgccac agccagagaa tcagcaacag ctttctgttg
     3721 ctccattgcg gtatgttgca gatgctccac cgataacagg agcgtaagta atttttcttc
     3781 tgtgctggcc atgttcagaa tcccatagaa aatccacgtg acggtgattt aacccgttca
     3841 ggtgcagttc ggttctgtct gctcactctg tctctcatgt caaagccatg ctcccgcgca
     3901 acatcatgtt gcagccttct gaccagttca tgttgcttaa ccggagtgtc cagccattcc
     3961 ctgatgtcat gcccgaccgt tcgcgcctgt tcaagatggc gggaatagtc cggttcagac
     4021 cgtttttgca tgatgtcatg acgctgggca tcatcaagcc gtccggcagc ttcaaaaccc
     4081 agatgcactt cgggacgtcg ttcaatgccc tgttctttca gcgtccggca gtcaatgaag
     4141 cccctttcaa agccatgctt tctcatatgt tcgttgtgct tcacctccca gcgttttcgc
     4201 aattcccgca actgctcttt ttgctgagtg agagtcaggc ttccggaatc ctttttcgca
     4261 cctccccgct cgggatacct ggcgttatag cgccggaaat actgttccgg tgtacgttca
     4321 atgccatcat tcacacgctg actcatcatg atatgcgcat gaggctgttc gccgccgtca
     4381 atgctcgctt tcggattgtg aatggcaaaa ctccaggcgt gccgttcgcc agcttcctga
     4441 cgtacaaaat cctgcaccag ttcaaggcgc tgttccggtg tcagttcacg gggtaatgca
     4501 atttcaagtt ccctataggt cgaaccgttc gcacgttcaa actggtcagc cgcctgccag
     4561 aaatgggaag gattatccct ggcccattcc ggcatgtttc cgtgtgcgga atattccaaa
     4621 tcctgacggt cgcggtattt ctctttgcgc tcgatgtaat cggcgtggtt tgcagcctgc
     4681 cccttgccac caaatttaac gctgaggtga taggttgcca cggtttcagc cctctgcagg
     4741 agcgcactgt ttctcgacga aggagagaaa catataagtg cgcttccttc taattttacg
     4801 aattagcacg gaagataccc cctgcacccg ccgaccgcaa gcgatatact gcacgaccac
     4861 aacacaccgc aaaaaaacac cagggagcat cacgaacatg cgcatcagca acatcgaatg
     4921 gctgaagaaa cggatcggat tcatcaggaa gctcggagaa cagaccgcac gacagagaca
     4981 gattattgac ctgatcgaca acgaagccgg actcacagaa caggaacgca aacttctcca
     5041 cgtactggca acagcggaaa aaaacgactt acaggcacag gagagcgaac gaaaacaggc
     5101 ggtccaaaaa cgaatcgagg gaaaaaaaca acgacgggaa cgcaatcacc ggctctttct
     5161 cgcggct
//
