LOCUS       NZ_OP242260             4664 bp    DNA     circular CON 23-MAR-2024
DEFINITION  Escherichia coli strain LA124 plasmid pLAO30, complete sequence.
ACCESSION   NZ_OP242260
VERSION     NZ_OP242260.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN29363350
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4664)
  AUTHORS   Snaith,A.E., Dunn,S.J., Moran,R.A. and McNally,A.
  TITLE     Plasmids from ESBL+ E. coli from PDR Laos
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4664)
  AUTHORS   Snaith,A.E., Dunn,S.J., Moran,R.A. and McNally,A.
  TITLE     Direct Submission
  JOURNAL   Submitted (06-AUG-2022) Institute of Microbiology and Infection,
            University of Birmingham, University of Birmingham, Birmingham B15
            2TT, United Kingdom
COMMENT     ##Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.7
            Sequencing Technology             :: Oxford Nanopore
            ##Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_028600445.1-RS_2024_03_23
            Annotation Date                   :: 03/23/2024 03:18:18
            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)                     :: 6
            CDSs (total)                      :: 6
            Genes (coding)                    :: 3
            CDSs (with protein)               :: 3
            Genes (RNA)                       :: 0
            tRNAs                             :: 0
            ncRNAs                            :: 0
            Pseudo Genes (total)              :: 3
            CDSs (without protein)            :: 3
            Pseudo Genes (ambiguous residues) :: 0 of 3
            Pseudo Genes (frameshifted)       :: 0 of 3
            Pseudo Genes (incomplete)         :: 3 of 3
            Pseudo Genes (internal stop)      :: 0 of 3
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            OP242260.1.
            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..4664
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="LA124"
                     /isolation_source="Stool"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pLAO30"
     gene            181..1323
                     /gene="wzz(fepE)"
                     /locus_tag="PUP03_RS00005"
                     /old_locus_tag="DAFAKPKC_00001"
     CDS             181..1323
                     /gene="wzz(fepE)"
                     /locus_tag="PUP03_RS00005"
                     /old_locus_tag="DAFAKPKC_00001"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010435173.1"
                     /GO_component="GO:0016020 - membrane [Evidence IEA]"
                     /GO_process="GO:0009103 - lipopolysaccharide biosynthetic
                     process [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="LPS O-antigen length regulator Wzz(fepE)"
                     /protein_id="WP_021544858.1"
                     /translation="MSAMDFKKNTDLDFPRYATPAVSTKEIDLLGLLDVLLAAKKRIVT
                     IVLAFAVVGLAIAFLIPQKWTSKAVITPAEQTQWNTLRQMMVTLQVLDVDAKVSRGDVF
                     NLFIKKFQSQSLLEEYMKTSPYVMSQLEGTEVDPLELHRAVVNIAEKMKATDNTQVKDA
                     DKAPYTSWTLSFTAPTAGDAQTVLEGYINYISRIVEQETMENIRNQITLKTKVVQQQLE
                     LDRVRLTNIHNTNLQRLNYSLEVANAAGIKKPVYSNGQAVKDDPDYSVALGADGIAQKL
                     QIEKNLKDVAELNADFQNREYYLTQLQKLSVEDVKLEPFRYQLSPSLPVKKDGPGKALI
                     VLLAGILGGLFACGSVLLREAMLSRNPLPEPITAVTPATE"
                     /name="wzz(fepE)"
     gene            complement(1361..>1603)
                     /locus_tag="PUP03_RS00010"
                     /old_locus_tag="DAFAKPKC_00002"
                     /pseudo=""
     CDS             complement(1361..>1603)
                     /locus_tag="PUP03_RS00010"
                     /old_locus_tag="DAFAKPKC_00002"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_003862821.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="cupin domain-containing protein"
                     /name="cupin domain-containing protein"
     gene            <1600..1782
                     /locus_tag="PUP03_RS00015"
                     /pseudo=""
     CDS             <1600..1782
                     /locus_tag="PUP03_RS00015"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007798797.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="NINE protein"
                     /name="NINE protein"
     gene            2968..3081
                     /locus_tag="PUP03_RS00030"
     CDS             2968..3081
                     /locus_tag="PUP03_RS00030"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /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_071778980.1"
                     /translation="MHEPPVQSDRCVFSGNYRLESKPERHDKAPLAAATGN"
                     /name="replication initiation protein"
     gene            3389..>3520
                     /locus_tag="PUP03_RS00020"
                     /pseudo=""
     CDS             3389..>3520
                     /locus_tag="PUP03_RS00020"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_013578013.1"
                     /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="zinc-ribbon domain-containing protein"
                     /name="zinc-ribbon domain-containing protein"
     gene            complement(3669..4650)
                     /locus_tag="PUP03_RS00025"
                     /old_locus_tag="DAFAKPKC_00003"
     CDS             complement(join(3669..3857,3859..4650))
                     /locus_tag="PUP03_RS00025"
                     /old_locus_tag="DAFAKPKC_00003"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_048909999.1"
                     /ribosomal_slippage=""
                     /GO_function="GO:0004803 - transposase activity [Evidence
                     IEA]"
                     /GO_process="GO:0006313 - DNA transposition [Evidence IEA]"
                     /note="programmed frameshift; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="IS5-like element IS5 family transposase"
                     /protein_id="WP_225899375.1"
                     /translation="MSHQLTFADSEFSSKRRQTRKEIFLSRMEQILPWQNMVEVIEPFY
                     PKAGNGRRPYPLETMLRIHCMQHWYNLSDGAIEDALYEIASMRLFARLSLDSALPDRTT
                     IMNFRHLLEQHQLARQLFKTINRWLAEAGVMMTQGTLVDATIIEAPSSTKNKEQQRDPE
                     MHQTKKGNQWHFGMKAHIGVDAKSGLTHSLVTTAANEHDLNQLGNLLHGEEQFVSADAG
                     YQGAPQREELAEVDVDWLIAERPGKVRTLKQHPRKNKTAHQHEYMKASIRAKVEHPFRI
                     IKRQFGFVKARYKGLLKNDNQLAMLFTLANLFRADQMIRQWERSH"
                     /name="IS5-like element IS5 family transposase"
     Typing          2697..3085
                     /name="rep_cluster_2373"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.153"
                     /coverage="91.0"
                     /evalue="1.04e-173"
ORIGIN
        1 catggctcca gatgacaaac atgatctcat atcagggact tgttcgcacc ttccctaaat
       61 ctgatagtcg gtctacatat agatcaatct ggcgttcaga ttattcttac tttcttgtat
      121 catccgacca ctgcaaccaa tcaggcagaa atttactgcg ctccaaaaag aagaacggtt
      181 atgtcagcga tggatttcaa gaaaaacacg gacctcgatt ttccccgtta tgccactccg
      241 gcggtaagca ccaaagagat agatctcctg gggttgttag acgtacttct ggcagccaaa
      301 aaacgtattg tgacgatcgt cctggcgttc gccgtagtag ggttggccat tgcgttttta
      361 atcccgcaaa aatggaccag taaagccgtg atcacgccgg ccgagcagac gcagtggaac
      421 acgctgcgcc agatgatggt gacgctgcag gtgctggacg tcgacgcgaa ggtgagccgt
      481 ggagacgtgt ttaacctgtt catcaaaaag tttcagtcgc agtcgctgct cgaagagtac
      541 atgaaaacct ccccgtacgt gatgtctcag ctggaaggca ccgaggtaga cccgctggag
      601 ctgcatcgcg cggtggtgaa tattgctgag aaaatgaaag cgacagataa cacgcaggtt
      661 aaagacgcag acaaagcgcc gtatacctca tggacgctga gctttaccgc cccgacggcg
      721 ggagacgcgc agacggttct ggaaggttac atcaactata tctcccgcat tgttgagcag
      781 gagacgatgg aaaatatccg taaccagatc acgctgaaaa cgaaagtcgt tcagcagcag
      841 ctggagctgg atcgcgtgcg tctgaccaat atccacaaca ccaacctgca gcgcctcaac
      901 tattcgctgg aagtggcgaa cgcggcaggc attaagaagc cggtttacag caacggacag
      961 gcggtaaaag acgatcctga ctactccgtg gcgctgggtg ctgacggtat tgcgcaaaag
     1021 ctgcagattg aaaagaatct gaaggacgtg gccgagctga atgcggattt ccagaaccgt
     1081 gaatactatc tgactcagtt gcaaaaactg tccgtggaag acgtgaagct tgaacccttc
     1141 aggtatcagc tttcaccgtc actgccggtg aaaaaagacg gtccgggcaa agccctgatt
     1201 gtgctgctgg cagggattct gggcggcctg tttgcctgcg gcagcgtgct gctgcgtgag
     1261 gcaatgctct cgcgtaatcc gttgccagag ccgataacgg ccgtaacgcc agcaacagag
     1321 taacgacgat attaaaaagg cgctgattca gcgccttttt ttatttcagg aaatcgtcgc
     1381 gcaccggcgt aaaggtatcc agaagggtgc cgggcttcag gcaaatgcag ccgtgcatca
     1441 cgtgcggcgc tttatagagc gtatcgcccg ccgtcacgat ctgcttttct tcacctatcg
     1501 taaactcgaa ctccccggag agcacatagg taagctgttc atgcgggtga ttgtgcatcg
     1561 ggccaatcgc accctgctca aaattgacct ccaccgccat catctttctt agcattcttc
     1621 cttggtggat ttggcgtaca taaattttac ttaggtaaaa taggacaggg attcctgtat
     1681 ctaatttttt gctggacatt catacccgcg atcatcgcgt ttattgagtt tattatttat
     1741 ctatgcgatt ccgatgaaaa attcgcaaga aaatatggct aactcatagc aaaaaagccc
     1801 tgcggggctt tttttgtacc agtctgtgag gcagatttac cataacatcc gttgcgtgca
     1861 ccgcctgaga ggctctcagg gcgtttctgg gtcttcctgc ctgtttccga cacttccctg
     1921 tgcctatatc gtgaaaaaac gcgcctgatg attctggcgc gtctgcatgg ctatgcacac
     1981 acatgcatgg ccgggatttt agcggctaaa atccggctgg acgcccaaaa gcaccactga
     2041 acctcacgaa taacgcctca cgggtgtgca gtttactgtg cggccgtgag gcgttggcca
     2101 ggccgtcagg catggctgga tttattgcta agggggtcgg atttaacgtg gatgaatcag
     2161 cacgcagtga tgaacgggat tcggaagggg cacccttgcg gcgcggcgat gtatacatcg
     2221 ctaacgtgcc ttggtcattt attgcaagaa gggagaggta gcattttgat agcaaaaaag
     2281 tagcaaaagg atagcaaccg aaagaccaga agactctgga gatagcaaaa aagtagcaaa
     2341 atggtagcaa aaagatagca aacatgcggg agctaaccag gagtctttag cgggccggcg
     2401 gtactccaaa aacacatctt gtcccgctgt tttgtgaata agccagcata gctgtgggca
     2461 caaaacattt cctgtccgct gctttaacct ttgtaatcca ggaacgtcag gtgacgtcac
     2521 tttgcggcgt tagccctatc ctgcatcgta ttaaaaaatg cagcactggc gcgtacggtg
     2581 ccgaagataa gtccggggat attccgcttc ctcgctcact gactcgctac gctcggtcgt
     2641 tcggctgcgg cgagcggagg gaacggagac attaaggcac aggcaatgag agaggatcga
     2701 gaggcaaaag aaaaggccgc ggcgttgccg gttttccata ggctccgccc ccctgacaag
     2761 catcacagaa tctgacgctc aaatcagtgg tggcgaaacc cgacaggact taaagatacc
     2821 aggcgtttcc ccctggtggc tccctcgtgc gctctcctgt tcctgccttt cggtttaccg
     2881 gtgtcattcc gctgttatgg ccgcgtttat ctcattccac gcctgacact cagttccggg
     2941 taggcagttc gctccaagct ggactgtatg cacgaacccc ccgttcagtc cgaccgctgc
     3001 gtcttctccg gtaactatcg acttgagtcc aagccggaaa gacacgacaa agcgccactg
     3061 gcagcagcca ctggtaactg atttagagga gttagtcttg aagttatgcg cctgttaagg
     3121 ctaaactgaa agaacagatt tggttactgc gctcctcata agccagttac cacggttcaa
     3181 agagttgcag ctctgagaac cttcgaaaaa ccgccttgct gggcggtttt ttcgtttact
     3241 gagcaagaga ttacgacgct acagaaagga tctcaagaag atccttcacc ataatggaaa
     3301 tctatcccac ccgagcatat aggatgcata tcgttataaa acatcggata ttatgcatcc
     3361 caactaaaaa taagctcgag gataaaaaat gagttcaatg gtttactgcc gaggatgcgg
     3421 caaggaaata cacgaaacag caaagtcatg cccacactgc ggagccacaa acgcctcttc
     3481 aggttcaggt gaaaaaagta gaatcgcagc cgcgctatta gggaaggtgc gaataagcgg
     3541 ggaaattctt ctcggttgac tcagtcattt catttcttca tgtttgagcc gatttttttc
     3601 tcccgtaaat gccttgaatc agcctattta gaccgtttct tcgccattta aggcgttatt
     3661 cccagttttt agtgagatct ctcccactga cgtatcattt ggtccgcccg aaacaggttg
     3721 gccagcgtga ataacatcgc cagttggtta tcgtttttca gcaacccctt gtatctggct
     3781 ttcacgaagc cgaactgtcg cttgatgatg cgaaatgggt gctccacctt ggcccggatg
     3841 ctggctttca tgtattcgat gttgatgggc cgttttgttc ttgcgtggat gctgtttcaa
     3901 ggttcttacc ttgccggggc gctcggcgat cagccagtcc acatccacct cggccagctc
     3961 ctcgcgctgt ggcgcccctt ggtagccggc atcggctgag acaaattgct cctctccatg
     4021 cagcagatta cccagctgat tgaggtcatg ctcgttggcc gcggtggtga ctaggctgtg
     4081 ggtcaggcca ctcttggcat cgacaccaat gtgggccttc atgccaaagt gccactgatt
     4141 gcctttctta gtctgatgca tctccggatc gcgttgctgc tctttgttct tggtcgagct
     4201 gggtgcctca atgatggtgg catcgaccaa ggtgccttga gtcatcatga cgcctgcttc
     4261 ggccagccag cgattgatgg tcttgaacaa ttggcgggcc agttgatgct gctccagcag
     4321 gtggcggaaa ttcatgatgg tggtgcggtc cggcaaggcg ctatccaggg ataaccgggc
     4381 aaacagacgc atggaggcga tttcgtacag agcatcttcg atcgcgccat cgctcaggtt
     4441 gtaccaatgc tgcatgcagt gaatgcgtag catggtttcc agcggataag gtcgccggcc
     4501 attaccagcc ttggggtaaa acggctcgat gacttccacc atgttttgcc atggcagaat
     4561 ctgctccatg cgggacaaga aaatctcttt tctggtctga cggcgcttac tgctgaattc
     4621 actgtcggcg aaggtaagtt gatgactcat gatgaaccct gttc
//
