LOCUS       NZ_LR898878             6640 bp    DNA     circular CON 25-JUN-2023
DEFINITION  Escherichia coli strain MSB1_4I isolate MSB1_4I plasmid 5, complete
            sequence.
ACCESSION   NZ_LR898878
VERSION     NZ_LR898878.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMEA3357480
            Assembly: GCF_905071835.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1
  AUTHORS   Hawkey,J.
  TITLE     Direct Submission
  JOURNAL   Submitted (03-NOV-2020) THE UNIVERSITY OF MELBOURNE, 30 Flemington
            Rd, Australia
COMMENT     ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/25/2023 10:20:19
            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)                     :: 5,563
            CDSs (total)                      :: 5,440
            Genes (coding)                    :: 5,157
            CDSs (with protein)               :: 5,157
            Genes (RNA)                       :: 123
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 95
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 283
            CDSs (without protein)            :: 283
            Pseudo Genes (ambiguous residues) :: 0 of 283
            Pseudo Genes (frameshifted)       :: 84 of 283
            Pseudo Genes (incomplete)         :: 203 of 283
            Pseudo Genes (internal stop)      :: 41 of 283
            Pseudo Genes (multiple problems)  :: 37 of 283
            Pseudo Genes (short protein)      :: 3 of 283
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            LR898878.1.
            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..6640
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="MSB1_4I"
                     /isolate="MSB1_4I"
                     /isolation_source="rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="5"
                     /geo_loc_name="Australia"
                     /collection_date="2014-03"
     gene            1..927
                     /locus_tag="JMX41_RS27310"
     CDS             1..927
                     /locus_tag="JMX41_RS27310"
                     /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_021546191.1"
                     /translation="MSAALQYFEENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWLVMEWREEAYTLDELADYLDLSASE
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLEAVIQRVEMYNASLPVPLSL
                     AECRAIGKSIAKYTHRNFTPETFAQYVADTHTPEIQAARGRKGGKIGGAKSKRGAVATS
                     ARTLKPWETLGISRAWYYQLKKRGLVE"
                     /name="replication initiation protein"
     gene            complement(1122..1520)
                     /locus_tag="JMX41_RS27315"
     CDS             complement(1122..1520)
                     /locus_tag="JMX41_RS27315"
                     /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_021546190.1"
                     /translation="MRISNIEWLKKRIGFIRKLGEQTARQRQIIDLLDNEDGLTEQERK
                     LLHVLATAEKNDLQAQENERKQTIQKRIEGKKQRRERNHRLFLAAGLLIEAGLVDTKTG
                     ELYYKKDMILQKLKSIKYDLDTYPNPDA"
                     /name="hypothetical protein"
     gene            1697..2623
                     /locus_tag="JMX41_RS27320"
     CDS             1697..2623
                     /locus_tag="JMX41_RS27320"
                     /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_201555665.1"
                     /translation="MATYHLSVKFGGKGQAANHADYIERKEKYRDRQDLEYSAHGNMPE
                     WARDNPSHFWQAADQFERANGSTYRELEIALPRELTAEQRLELVQDFVRQEAGERHAWS
                     FAIHNPKASIDGGEQPHAHIMMSQRVNDGIDRTPEQYFRRYNARYPERGGAKKDSGSLT
                     PTQQKEQLRELRKRWEVKHNEHMRKHGFERGFIDCRTLKEQGIERRPEVHLGFEAAGRL
                     DDAQRHDIMQKRSEPDYYRHLEQARMVGHDIREWLDTPVKQHELVRRLQHDVAREHGFD
                     MRDGVSRENRTEPERVKSPSRGFSMGF"
                     /name="MobA/MobL family protein"
     gene            2626..3156
                     /locus_tag="JMX41_RS27325"
     CDS             2626..3156
                     /locus_tag="JMX41_RS27325"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001419700.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_115762151.1"
                     /translation="MASTEEKLLTLLLSVEHLQHTAMEQQKAVADSLAVARETLRGYRD
                     ISDGVAKQVRDEVRNEVQKLDVAGLIGERISQDFQRLEESVANMKANADALNRDIATIH
                     SNIVQEYNTLKGYSWKWLGGVSVAFLVMFCVLGWGMKTILDRNYNATAAVYQKVVTLEN
                     KQIMDMKSRKRDK"
                     /name="hypothetical protein"
     gene            complement(3158..3814)
                     /locus_tag="JMX41_RS27330"
     CDS             complement(3158..3814)
                     /locus_tag="JMX41_RS27330"
                     /inference="COORDINATES: protein motif:HMM:NF015377.2"
                     /GO_component="GO:0016020 - membrane [Evidence IEA]"
                     /GO_function="GO:0005524 - ATP binding [Evidence IEA];
                     GO:0008233 - peptidase activity [Evidence IEA]"
                     /GO_process="GO:0006508 - proteolysis [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="cysteine peptidase family C39 domain-containing
                     protein"
                     /protein_id="WP_016235897.1"
                     /translation="MLHKIFTLSTKIKTTIITICALSYNLTAQASPSDRPRDRVNKTMI
                     ELQTNGVERQLLDNSCGISSLSYILNKYFKKNTSEKNIFLLIGLKPDYSLLDLASTSRT
                     LGISTIGLKLSINDLKKVSSPTILKTKTNGGHFVVYSGYRNGWFQVIDPAKGKLNYYEH
                     ELSKIFIQPNKDYGMALIFLSKNKNRFVDETLYNNNTNRLFLERHQIISPVNISF"
                     /name="cysteine peptidase family C39 domain-containing
                     protein"
     gene            complement(4616..5227)
                     /locus_tag="JMX41_RS27335"
     CDS             complement(4616..5227)
                     /locus_tag="JMX41_RS27335"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016235898.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_201555666.1"
                     /translation="MKIPVLCTLIITAMLTNTTQAKTSLSYKIDDLEYQPHQIMTDDEM
                     ASTTGKAIPVVLAPLLWGAAQGMTIGLSAYAATLAVSGKEFKTRDAVIAAAGGAFSGGV
                     TGATTVTKFMLLEAGGMFFAGLAEENLLGQRKHKAGPAIDAVPTQQDLNKVLNDKNWAD
                     KHFNSIPGYSNGRYKQVFEKAIENPASWKKEMTNKCTQCH"
                     /name="hypothetical protein"
     gene            complement(5229..6104)
                     /locus_tag="JMX41_RS27340"
     CDS             complement(5229..6104)
                     /locus_tag="JMX41_RS27340"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016235899.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_130091598.1"
                     /translation="MKQIILPLAILSTLITANYSYARNTQNLIIGSGGNIYKVEDFLPE
                     KNKWTFSSGLSIYENNKSSTFPQYTLNLTSIGSFFLDNSVSVVSTRTKQLNGYASFKYG
                     VTDNLSIRGTWFSKYTRKDTTDSQLNLKSETTGNADNYNIGVSYRLDNFYPLTVLSAGT
                     GFKAGNINSYTISSSFSWVLDPVVLTLYPSYIDGISGKKDDIKYRYFSAAGILSIALNN
                     DVDVKFGASKDIYTTKKRNPHTPSWDTSGSLITGVTFNNWKNFVVDFTVDHELGGMDAN
                     TFSLDFSWRA"
                     /name="hypothetical protein"
     Typing          2..927
                     /name="rep_cluster_2131"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.038"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          1698..2620
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.753"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atgagcgccg cgcttcaata cttcgaagaa aatttacccc accgtcccta tcacacggat
       61 gatctcgctt tcggccttcg tatctccggc aaagggcgcg cgcttcttgc acggtatatc
      121 cagcagaacc agcctcatgc acagttctgg ctggtttttg acgttgaccg cgagggggct
      181 gcgattgact ggagcgaccg gaacgctccc gcgccgaaca tcaccgttaa aaatcctgtg
      241 aacggacacg ctcacctgct ctacgcactc aacatcgccg tgagaaccgc gcctgatgcc
      301 tcggttaagg cgctgaaata tgccgcagcg gttgaacgtt cgctgtgtga gaaactttgt
      361 gcggatgtga actacagcgg cctgatttgc aaaaatccgt tccacctgga atggctggtg
      421 atggagtggc gcgaggaagc ctataccctc gatgaactgg ctgattatct cgatttgagc
      481 gcctcagagc gtcgtagcat cgataaacat tacgggatgg ggcgaaactg ccacctgttc
      541 gaaatgacgc gcaaatgggc ttacagggcg attcgtcagg gctggccagc gttctcacag
      601 tggcttgaag cggtgatcca gcgtgtcgaa atgtacaatg catcgcttcc cgttccgctt
      661 tcactggctg aatgtcgggc tattggcaag agcattgcga aatacacgca caggaacttc
      721 acgccggaaa ctttcgcaca gtatgtggct gatacgcaca cgccagaaat tcaggctgca
      781 cgtggtcgca agggcgggaa aattggaggt gctaagtcta agcgtggtgc tgttgccaca
      841 tctgcgcgaa cgttgaaacc gtgggagact cttggaatta gccgcgcctg gtattaccaa
      901 ctgaaaaaac gaggtcttgt agagtagacc aaataaaacc tatatcagat aacagcgcct
      961 tttttgcgtc cttttgagtc gtaggttttt cgtcgtttat cccagcaatg gcgtttcttt
     1021 ccgcatgatt gcgctggtag tgctcgccgc agtctcatga ccgagcgtag cgagcgaatg
     1081 agcgaggaag caccagggaa ccagaatgtg aacgggaata cttacgcgtc tgggtttggg
     1141 tatgtgtcca gatcgtattt tatcgattta agtttctgta atatcatgtc ttttttatag
     1201 tatagttcgc ctgtttttgt gtctaccagt cctgcttcga tcagtagccc agccgcgaga
     1261 aagagtcggt gattgcgttc ccgtcgttgt ttttttccct cgattcgttt ctggatcgtc
     1321 tgttttcgct cgttctcctg tgcctgtaag tcgttttttt ccgctgttgc cagcacgtgg
     1381 agaagtttgc gttcctgttc tgtgagtccg tcttcgttgt cgagcaggtc aataatctgt
     1441 ctctgtcgcg cggtctgttc tccgagcttc ctgatgaatc cgatccgttt cttcagccat
     1501 tcgatgttgc tgatgcgcat gttcgtggta ctccctggtg tttttttgcg atgttttgtt
     1561 gtcgtgcagt atatcgcttg cggtcggtgg gtgcaggggg tatcttccgt gctaattcta
     1621 aaaattagaa ggaagcgcac ttatatgttt ctctccttcg tcgagaaaca gtgcgctcct
     1681 gcggagggct gaaaccgtgg caacctatca cctcagcgtt aaatttggtg gcaaggggca
     1741 ggctgcaaac cacgccgatt acatcgagcg caaagagaaa taccgcgacc gtcaggattt
     1801 ggaatattcc gcacacggaa acatgccgga atgggccagg gataatcctt cccatttctg
     1861 gcaggcggct gaccagtttg aacgtgcgaa cggttcgacc tatagggaac ttgaaattgc
     1921 attaccccgt gaactgacag cggaacagcg ccttgaactg gtgcaggatt ttgtacgtca
     1981 ggaagccggc gaacggcacg cctggagttt tgccattcac aatccgaaag cgagcattga
     2041 cggcggcgaa cagcctcatg cgcatatcat gatgagtcag cgtgtgaatg atggcattga
     2101 ccgtacaccg gaacagtatt tccggcgcta taacgccagg tatcccgagc ggggaggtgc
     2161 gaaaaaggat tccggaagcc tgactcccac tcagcaaaaa gagcagttgc gggaattgcg
     2221 aaaacgctgg gaggtgaagc acaacgaaca tatgagaaag catggctttg aaaggggctt
     2281 cattgactgc cggacgctga aagaacaggg cattgaacga cgtcccgaag tgcatctggg
     2341 ttttgaagct gccggacgac ttgatgatgc ccagcgtcat gacatcatgc aaaaacgctc
     2401 tgaaccggac tattaccgcc atcttgaaca ggcgcgaatg gtcgggcatg acatcaggga
     2461 atggctggat acaccggtta agcaacatga actggtcaga aggctgcaac atgatgttgc
     2521 gcgggagcat ggctttgaca tgagagacgg agtgagcaga gagaaccgaa ctgaacctga
     2581 acgggttaaa tcaccgtcac gtggattttc tatgggattc tgaacatggc cagcacagaa
     2641 gaaaaattac tcacgctcct gttatcggtg gagcatctgc aacataccgc aatggagcaa
     2701 cagaaagctg ttgctgattc tctggctgtg gcaagggaaa cacttcgcgg atatcgggat
     2761 atttctgacg gtgtggcaaa acaggtcagg gatgaagtca gaaatgaggt gcagaagctg
     2821 gacgtggcag gactgatagg tgagcgcatc agccaggatt ttcagcggct ggaagagtca
     2881 gtcgcaaaca tgaaggcaaa cgcggatgcc ctgaacaggg atattgcgac aattcacagc
     2941 aatatcgtgc aggaatacaa cacccttaaa gggtatagct ggaaatggct gggtggggtg
     3001 tcagtggctt ttctggttat gttctgtgtg ctcggatggg gaatgaaaac aatactcgac
     3061 aggaactaca acgccacagc ggcggtgtat cagaaagttg tgaccctgga gaacaaacag
     3121 atcatggaca tgaagagtag gaagcgtgac aaatgaatta gaatgatatg tttacagggc
     3181 tgatgatctg atgtctctct aggaaaagac ggtttgtatt gttattgtaa agtgtctcat
     3241 ctacaaatct gtttttattc ttagatagaa agataagcgc cattccatag tctttgtttg
     3301 gttgtatgaa tattttactg agttcatgtt cataatagtt gagtttcccc ttggcgggat
     3361 cgatgacctg aaaccatccg tttcggtagc cagaataaac aacaaagtgt ccgccattag
     3421 tcttggtttt tagtattgtt ggtgaactca cttttttcag gtcattaata gatagtttta
     3481 gtccaatagt tgatattcca agtgttcggg atgttgatgc cagatctagc agagaataat
     3541 ctggtttcag acctataagc agaaaaatat ttttctcact agtgttcttt ttaaaatact
     3601 tgttaagtat gtaagacaga gaggatatgc cacaagaatt atctaaaagt tgccgttcta
     3661 ctccgttagt ttgtagttct atcatagtct tattaactcg atcacgaggt ctgtctgacg
     3721 gggaagcttg cgctgtaaga ttatatgata atgcacatat tgtaatgatg gttgttttta
     3781 tctttgtgct taatgtgaaa attttatgaa gcatataatg ttccctattt ttattttgtt
     3841 tataatttat ttattggtta tatattaaat ctatcataag tctaatgatt aaaatggtta
     3901 gtggtgtcag tattagtgaa aataaaggat gtaatatgct attctttctc tgtaagtact
     3961 tgagaatact aaaccatagt gcaagaataa ttatgtacat gtagtgagaa ttggaaaaca
     4021 tagtttctcc ccgtgagtat gtgtttttat gtgggtatat gcacacccca tatagatgta
     4081 ttatgttata tttataatat acctcggcaa aataaaagga ttattataga aatagggaag
     4141 gctataaaaa agcttatatt aaggtctgtt ttcttcttag aaaagtaact ctttattcta
     4201 attattatag atgtaatccc ccaaacaata aaaagaatgg agctgcttgt aactatttga
     4261 tatatcatga ttgttttcct ctattgttgt gtagatagat gttaatggca ctgggtgcat
     4321 ttattcgtaa tttctttttc catgctgggc cagcaggagc atttgaacag aaacttgatt
     4381 aatcatgaaa acacatcact tatcgaagaa aaaaatataa actaacagaa taactataga
     4441 tgcagggaaa gctaagaata agcttatagc tgggtctgtt tttttgttga atttccagtt
     4501 tgtgactctg attattatag ctatagtcat ccagactata attaaaatag aactgccatt
     4561 gataaaatca tatttcaaaa taaattctcc tgtattaaga ctaattctag tcaggttagt
     4621 ggcactgagt acatttattc gtcatttctt ttttccatga tgctggattt tcaattgcct
     4681 tttcaaatac ctgtttatat ctcccatttg aatatccggg tattgaattg aaatgtttat
     4741 cagcccagtt tttgtcattc agaaccttgt ttaaatcttg ttgcgtagga acagcatcga
     4801 tagctggccc tgctttatgc ttcctctgtc caagaagatt ttcttcagcc agtcctgcaa
     4861 agaacatccc cccagcttct agtagcataa attttgtaac tgtagttgct ccagtaactc
     4921 ctccactaaa agcacctcca gcggcagcaa tcacagcatc tctggtttta aattcttttc
     4981 ctgaaacagc cagtgtagca gcataagcgc ttaagccaat cgtcatgccc tgagctgccc
     5041 cccaaagtag tggagccaga acaacaggaa ttgcttttcc ggttgtactg gccatttcat
     5101 catccgtcat aatctgatgc ggttggtatt ccaggtcatc aatcttatag gataatgatg
     5161 tttttgcctg tgtggtgttc gtcagcatgg ctgttattat aagagtacat aaaactggta
     5221 tcttcatttc atgctctcca cgaaaaatcg agggaaaacg tattcgcatc cataccacca
     5281 agttcatgat caactgtaaa atccacaaca aaattcttcc agttgttaaa tgtcactccg
     5341 gtgattaacg aacctgaagt atcccatgat ggtgtgtggg ggtttctttt tttagtggta
     5401 tagatatctt tggatgctcc aaatttaaca tccacatcat tatttaatgc aatgctgagg
     5461 atacctgctg ctgagaaata acggtacttt atgtcgtctt tctttccgga tattccgtcg
     5521 atataggacg gatagagtgt gagaactaca ggatccagaa cccaactgaa tgaggatgat
     5581 atagtgtaac tgttgatgtt tcccgcttta aatcctgtcc ctgcacttaa tactgtcagt
     5641 ggatagaaat tatcaagacg atatgaaaca cctatattat agttatctgc attgcctgtg
     5701 gtttctgatt tcaggttaag ctgagaatca gttgtgtctt ttctggtgta cttactgaac
     5761 cacgtccccc tgatggatag attatcagtg acgccgtact tgaaagatgc ataaccgttc
     5821 agttgttttg ttctggtact aactactgat acggaattgt ccagaaagaa agacccaata
     5881 gatgtgagat ttagcgtata ttgtggaaat gtgctggatt tattattttc ataaattgac
     5941 aggccggaac tgaacgtcca tttatttttc tcaggtaaaa agtcttcaac tttatatatg
     6001 ttcccaccag agcctattat caggttttga gtgtttcttg cgtaagaata attagcagta
     6061 atgagcgtgg ataatatggc caaaggtaat atgatttgct tcatgatcta ttacaccgcc
     6121 aatgataatg ataattatta tctgtttttt gattctgcca tatgccaaat agttgtcaat
     6181 taaaaaacat gaataatgga tctccgtctc aataagtggt tacacgacag agacagggga
     6241 acaaaaatct ctgtatagaa cgctccatcc agggggagaa aacgtgtcat tttgccccgt
     6301 ccggtgttca gaacacacga aaccgatcgc gcatcgcttt cgtgcatagt tatgcaacgc
     6361 gctaaaaacg attctgacgc attttttatg tttaccctgg tgtttccttg tctttttgtg
     6421 ttttttgcgt cagaaagcga ctgagggcgt tttaaggggt acgtacaacg ggtgttatgg
     6481 taaatggatc gggttttcgg gaaggatcga caggatttgc cgttgggtgt agtgtaagcg
     6541 actgaaaaac aaacgcccct gaaattcgtg tctatccgcc aagactttca cgaaaataca
     6601 ggggcgatgt cggtcgataa cctggaagga atcgtaacac
//
