LOCUS       NZ_CP076695             4084 bp    DNA     circular CON 18-JUL-2023
DEFINITION  Escherichia coli strain S103EC plasmid pS103EC_C, complete sequence.
ACCESSION   NZ_CP076695
VERSION     NZ_CP076695.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN19700014
            Assembly: GCF_018972265.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4084)
  AUTHORS   Alvarez-Fraga,L., Phan,M.D., Goh,K.G.K., Nguyen,T.K.N.,
            Hancock,S.J., Allsopp,L.P., Peters,K.M., Forde,B.M., Roberts,L.W.,
            Totsika,M., Beatson,S.A., Ulett,G.C. and Schembri,M.A.
  TITLE     Differential Afa/Dr fimbriae expression in the multidrug resistant
            Escherichia coli ST131 clone
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4084)
  AUTHORS   Alvarez-Fraga,L., Phan,M.D., Goh,K.G.K., Nguyen,T.K.N.,
            Hancock,S.J., Allsopp,L.P., Peters,K.M., Forde,B.M., Roberts,L.W.,
            Totsika,M., Beatson,S.A., Ulett,G.C. and Schembri,M.A.
  TITLE     Direct Submission
  JOURNAL   Submitted (14-JUN-2021) School of Chemistry and Molecular
            Biosciences, University of Queensland, Building 76 Cooper road,
            Brisbane, Queensland 4072, Australia
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: JUN-2021
            Assembly Method                   :: flye v. 2.5
            Assembly Name                     :: S103EC
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 149x
            Sequencing Technology             :: Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/18/2023 04:24:40
            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)                     :: 5,293
            CDSs (total)                      :: 5,176
            Genes (coding)                    :: 4,954
            CDSs (with protein)               :: 4,954
            Genes (RNA)                       :: 117
            rRNAs                             :: 9, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 222
            CDSs (without protein)            :: 222
            Pseudo Genes (ambiguous residues) :: 0 of 222
            Pseudo Genes (frameshifted)       :: 83 of 222
            Pseudo Genes (incomplete)         :: 162 of 222
            Pseudo Genes (internal stop)      :: 41 of 222
            Pseudo Genes (multiple problems)  :: 56 of 222
            Pseudo Genes (short protein)      :: 3 of 222
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP076695.1.
            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..4084
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="S103EC"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pS103EC_C"
                     /geo_loc_name="Australia:Brisbane"
                     /collection_date="2010-01"
     gene            1..2160
                     /gene="mobQ"
                     /locus_tag="KQ261_RS26215"
                     /old_locus_tag="KQ261_26215"
     CDS             1..2160
                     /gene="mobQ"
                     /locus_tag="KQ261_RS26215"
                     /old_locus_tag="KQ261_26215"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016240513.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobQ family relaxase"
                     /protein_id="WP_001029343.1"
                     /translation="MAIYHLSMKIISRNSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPRELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPARRVADLLNIVLPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQTAFEKQWQQWGASGLAALRVQL
                     LKREEELRRKEQEDTERSRAERRAEQLRKNDNAVMDSGVLSAVVTGYGEAPMPGNGEMT
                     CYLLLHNRNGEYTLWGNELEKYRTRIFERVDLMRDRSGYICDRSEIGQHPPLQRVYSSA
                     TFEQLLTQVCQTWPQYTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLLPTL
                     MPVMSSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKG
                     LRYAGYGVAVNHDADSHISPAPELMEFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRT
                     WDEWRREEDARTHATERRHDRGWSQ"
                     /name="mobQ"
     gene            complement(2418..3119)
                     /locus_tag="KQ261_RS26220"
                     /old_locus_tag="KQ261_26220"
     CDS             complement(2418..3119)
                     /locus_tag="KQ261_RS26220"
                     /old_locus_tag="KQ261_26220"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001281399.1"
                     /GO_function="GO:0003887 - DNA-directed DNA polymerase
                     activity [Evidence IEA]"
                     /GO_process="GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /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_001281397.1"
                     /translation="MSDLIAYKSNALVEASYKLTLQEQRFLLLCIGRLKSGADAESPKL
                     QKTMTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKDDEKREEFRWIQYRAQY
                     AKGEARAQITFSDAVMPYLTQLQGQFTRVVIKNISRLSRSYSIRIYELLQQFRSTGERI
                     IALDDFRSMLDIEHKYQTYKSLNQQLLRPCIDELNKKSDLAVTVETIKKGRTVVALHFR
                     FKEDKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(3652..3906)
                     /gene="mobC"
                     /locus_tag="KQ261_RS26225"
                     /old_locus_tag="KQ261_26225"
     CDS             complement(3652..3906)
                     /gene="mobC"
                     /locus_tag="KQ261_RS26225"
                     /old_locus_tag="KQ261_26225"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000091747.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase accessory protein MobC"
                     /protein_id="WP_000091745.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVIVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPGQ"
                     /name="mobC"
     Typing          2..359
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(3908..4084)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.438"
                     /coverage="100.0"
                     /evalue="2.610000000000001e-86"
     Typing          complement(2419..3119)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          2..2157
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atggcgattt atcatctcag catgaaaatc atctccagaa acagcggcta cagcgccgtt
       61 gcttctgctg cctatcgttc cggttcactg atgcttgatg agcgtaccgg actgactcac
      121 gactacaccc gcaaaagcgg tgtggctgaa gctgtgattc tgactcccgc gacagcccct
      181 gcctggtgta cgaaccgtgc cgaactctgg aatgccgttg agaaggccga acgccggaag
      241 aactcacaac ttgcgcggga aattgaactc gccatccccc gcgaactacc gcaggatgcc
      301 gcacgggaaa ccgttctcgc ctttgtcaga gaaaactttg tcagtcaggg catgattgct
      361 gatgtggcgt tccatcacat ggataaaaca aatccccatg cgcacatcat gctgaccacg
      421 agagctgtcg gacctgctgg attcggtgga aaggtcaggg actggaacga ccggacacat
      481 gccgagacgt ggcgtgcatc atgggctgac catgcgaaca gggcactggc gaacgccggt
      541 tatcaggaag agatagacca tcgttcatac gagcgacagg ggcttgagaa aacgcctggt
      601 attcacctcg gaaagtctgc ctgtgcgatg gaaacacgcg gtatcgaaac agaacgcggc
      661 gaacagaatc gtctgattaa cagacttaac ctggaaatac agatttcccg taccgaactc
      721 agaaacagcg ggctgacaga gcctgcccgc cgtgtggctg accttctgaa tatcgtgctt
      781 cctgacaacg caacttcgta cacactacgt gacatcatcg aagcgttgcc gaaggacagt
      841 aatgcggcat ggaaactcac cagtaatgcc atgtcgatga tggcagatat gcaggcgacg
      901 cgcagacgct gggaagagct gaacaccgaa cgaaaggaag cgatgagcca tgctgccagc
      961 ctgaaaaaat catcgccgtt ttcgtccggt ttttcccgta ttcccctgat gcaatgggcg
     1021 gcaccggaat accgtagcga acagggaaaa atccagtcgc tgagccagca aatggaaaaa
     1081 ttgcgacagc attaccggaa ggtggagaaa caggacattc ccgcgagtca gacggcattt
     1141 gaaaaacagt ggcagcagtg gggggcatcc ggccttgcag ctctcagagt ccagttgctt
     1201 aaacgtgaag aggaattgcg ccggaaggag caggaggata cagaacgtag tcgcgcggag
     1261 cgacgagcgg aacagctcag gaaaaatgac aatgccgtta tggattcagg ggtactgagc
     1321 gcagtcgtta cggggtatgg cgaggccccc atgcctggta acggggaaat gacctgttac
     1381 cttctgcttc acaaccggaa cggagaatac acgctctggg ggaacgagct ggagaaatac
     1441 cgcaccagaa tctttgagcg tgttgattta atgcgtgaca ggagtggtta tatctgtgac
     1501 cgaagcgaaa tcggtcaaca tccaccactg caacgtgttt attcctctgc gacctttgag
     1561 caacttctga cgcaggtttg ccagacatgg ccgcaatata cccgcaatct ccgccagccg
     1621 aagacatggc cggagtcttt ctgtcttgga gaagaccgcc agccagccat gccatcactg
     1681 gcagcaagga aggtggattt tacgcaggga cgtctgctac cgacgctgat gccggtaatg
     1741 agttctgtcg accgggaaac ccgccagctt cagcttttgc tggtcatggg cgtggatgac
     1801 tctctgggcg gtgttgtccg gcttaatggt acgctgtatc ccgcgtttgc cgttccctca
     1861 gccgataaca gccagctggt catcagtgca ctgaccgata aggggttacg gtatgcaggg
     1921 tatggtgttg ccgtaaatca cgatgcagac agccacatat cacctgcgcc ggaacttatg
     1981 gagtttcatc tgaaaacccg tgaggcaccg ctttttgctg ccgtcaacac accagaaaaa
     2041 cagccggatc atctgttccg ctcgctgggt tttaatcgta cctgggacga atggcggcgc
     2101 gaggaagatg cacgaacaca cgccaccgag aggagacatg atcgcggttg gtcacagtga
     2161 atgtgaacaa tattttgttt tgtttaacat cgtgttatgt tcgtcgatgt tcttcgatgt
     2221 tcatcgacag ggatgaatgc aagaagcaca cacataatgc aagcatagtt ttgtttttcc
     2281 gcccccaaaa aatgggggtt cttttttgtc gctgcattag agcgcttttg acgcaatttt
     2341 tcacttcaat agtaccttcg cactactaac acaaaaaaaa cgcagcaggg agcgttttag
     2401 gtgccttaaa atcgatttta gatcgtcatc ttgatttgtt tgtcttcctt gaagcgaaaa
     2461 tgcagggcta caaccgtgcg cccctttttg atcgtctcaa ccgttacagc caggtcgctt
     2521 tttttgttca gttcgtcaat gcagggtctt aataattgct ggttaagtga tttatatgtt
     2581 tgatatttat gctctatatc aagcattgag cgaaaatcat cgagagcgat aatacgttcg
     2641 ccagtactgc ggaactgctg gaggagttcg tatatcctta tactgtaact tcttgataat
     2701 ctagatatat tcttgattac aactctagta aattgccctt gtagttgtgt caaataaggc
     2761 attactgcgt cagaaaatgt tatttgtgct ctggcctcgc ctttagcgta ctgtgcccga
     2821 tactggatcc agcggaactc ctcacgtttc tcgtcatcct tgagaatgat tgacctgtcc
     2881 cacaaacgat caattgcttc ctgtaactga acctcggcat ttttccgccc catgtcaggg
     2941 aatgaatcga aatattccgc agctgtaatg gtcattgtct tttgcaattt tggagattct
     3001 gcatcagccc cagacttcaa tcgaccgatg caaagtaaca aaaatcgctg ttcctgtagg
     3061 gtcaatttat aactggcttc aaccagcgca ttggatttat aggcaattag atccgacata
     3121 gagcatccct ccccaaaagg taatgaataa aagataaaca taccctcaac gaaaggcaat
     3181 gcctttttat tttaatatcc ctttttctgt gaatattacc ttaaatcata ttgcctttac
     3241 cttaaattcc cccacctaaa caccttaaat catattacct ttaccttaaa tcacattacc
     3301 tatagcattg taacattttg ttttctataa ggaattttgg cgctaaaaca agtattaaaa
     3361 acaagatctt aaaaacaaga tctaaaaact taacgacgag cctgtggata acttggagtg
     3421 ctgaaaacaa aaaaccaata aaaacaatgc gttgcaaaaa agcagaattg caagttccga
     3481 atacaccccc tccaaccctg tggaaatcca gtattcatgc gggttcagcg catatcacct
     3541 cccgaaaaac cgtgcgtatg tgctcaatca ggcgacggat tcacttccgc ttcctcgccc
     3601 actcgctcgc taacgctcgg tcgctgggac tgcggcgagc ggacgataca atcactgtcc
     3661 tggcagcgct tccagctcgt taatcagcgg cagtatgcgc gtcacatcag cctgtcgtgt
     3721 cacctctgcc ttcaggaact ggagtaacca ggcacgcaac tgcacctcct ccggctttct
     3781 gacctttgcc agcaatgctg cacccacaat gaccttctgc gctgtgtcca gactcctgct
     3841 cttcgccttc aggcgctgta atctggcctc agcatcagca atcttctgtt cgagtgttct
     3901 gctcatgatg taactccgtg cgcgatgaaa aatcgcattt tagcgcgtca ctggtagttt
     3961 aaaaactgag ctggcataat gcacggaaaa tcacgaagtg cgcacttata caatctccac
     4021 tccgtttcga ttgtgttcgc cctgcggggc tgaaagaaaa ccacaaaaag gcattacggc
     4081 agaa
//
