LOCUS       NZ_LR898879             5631 bp    DNA     circular CON 25-JUN-2023
DEFINITION  Escherichia coli strain MSB1_4I isolate MSB1_4I plasmid 6, complete
            sequence.
ACCESSION   NZ_LR898879
VERSION     NZ_LR898879.1
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
            LR898879.1.
            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..5631
                     /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="6"
                     /geo_loc_name="Australia"
                     /collection_date="2014-03"
     gene            complement(join(4905..5631,1..326))
                     /locus_tag="JMX41_RS27345"
     CDS             complement(join(4905..5631,1..326))
                     /locus_tag="JMX41_RS27345"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001557502.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001053268.1"
                     /translation="MNLQQRINKLPQLSSSFSFGKDIDNIHSFIFNETSKDKIEDLLRK
                     WVSGNQPCVFGKLASKKIKGLDFHLSIVNSPQLYNDDGHLFDFLRNERVRFKERARRGE
                     VSAHLIYFIHPQLAFARPSEELVDIQKYICSLHMPECYPIKEDVIYTESVPFQDKDGLK
                     IYKAGVNVFYSSAHRTRNHDRRIPGGILISVNAPGHFMRLAIEKGFYKDQEQALADIRN
                     MTIQSVGKGGYSHPEGISTTWHSESNLDRFGCPVHTGNSSYYSGFYHTDVLIPGELTKD
                     ERLLHEIENSDPMIFNWNVLFYVSLEEFPIDDPYYGEFIGIPVDDASMFFNSFQPRKFE
                     NKPLYEKEDD"
                     /name="hypothetical protein"
     gene            complement(807..1040)
                     /locus_tag="JMX41_RS27350"
     CDS             complement(807..1040)
                     /locus_tag="JMX41_RS27350"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137438.1"
                     /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_000137437.1"
                     /translation="MTELERHLLNALEQLQQDYMQRLNEWENAFVELQKMFSLTQRDNA
                     MLNGRVMQLSQQVQHLSERTERLSQLYSENRR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(1047..1577)
                     /locus_tag="JMX41_RS27355"
     CDS             complement(1047..1577)
                     /locus_tag="JMX41_RS27355"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001673158.1"
                     /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_001673158.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTEKMLNDEFRKLEESVNRELTSNE
                     SLIRNAINDHTTALKELLERYQKTTVDTMDAHWKTVLKMSVKRWLWLIIVSVLMFATTG
                     SLLWYQGMKINANMNILREQKESLEKLNAKTWGVRYHEDSNGRFLVLPKGMKAETNWTK
                     DNGKLNAVRLVQE"
                     /name="MbeB family mobilization protein"
     gene            complement(<1615..2046)
                     /locus_tag="JMX41_RS27955"
                     /pseudo=""
     CDS             complement(<1615..2046)
                     /locus_tag="JMX41_RS27955"
                     /inference="COORDINATES: protein motif:HMM:NF015397.2"
                     /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(2255..2578)
                     /locus_tag="JMX41_RS27365"
     CDS             complement(2255..2578)
                     /locus_tag="JMX41_RS27365"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000956000.1"
                     /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_000955999.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIGDELRRLRLAVREQGAR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            2643..2834
                     /locus_tag="JMX41_RS27370"
     CDS             2643..2834
                     /locus_tag="JMX41_RS27370"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165975.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_000165975.1"
                     /translation="MTKQEKTALNMARFIRGQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENR"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(2857..3177)
                     /locus_tag="JMX41_RS27375"
     CDS             complement(2857..3177)
                     /locus_tag="JMX41_RS27375"
                     /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_187655770.1"
                     /translation="MDNRVSVFEKGESARRSRTTERSESVSEEAEERLNWHFLLTHLCG
                     ISHRTWRTFHTIRTDAEWLSQYTLRYRYVTGSGLRPDTPKVNGLTRPGGLVCSRHPLTD
                     KL"
                     /name="hypothetical protein"
     gene            complement(4037..4903)
                     /locus_tag="JMX41_RS27380"
     CDS             complement(4037..4903)
                     /locus_tag="JMX41_RS27380"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001335763.1"
                     /GO_function="GO:0005215 - transporter activity [Evidence
                     IEA]"
                     /GO_process="GO:0055085 - transmembrane transport [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DMT family transporter"
                     /protein_id="WP_001335763.1"
                     /translation="MIKGMLFAFLAAFSWGAAIVMSKKGVEELDAGGVFFWQICSAVIL
                     SWIVLFIKRKKLPLNSKAILAYATGVFEPFLAYTFTLYGLYFISAGSASIIFSLESVFI
                     LVLSVLICSVKINSPQYFILFLIGAIVGSILVALPDISNGSNNIVGYCLVVAGVLSAAF
                     YVVISSRLIKSFEPITLLSGQLTFSLILSSLFIFISKSSIYLPLESVIIVFSSGILQYF
                     LAFCFYLNSLRWLPVHLAGIMLYFIPLVALFLSWLFLDEQFTFLQGVGFIVTVLSVYFL
                     NRKYSEE"
                     /name="DMT family transporter"
     Typing          complement(2929..3009)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="99.0"
                     /evalue="4.820000000000001e-35"
     Typing          complement(3467..3654)
                     /name="rep_cluster_2401"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="4.63e-94"
     Typing          complement(704..2265)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 agatgcgcac tgacctctcc tcttcttgcg cgttctttaa aacgaactct ttcattacgc
       61 aaaaaatcaa acaaatgacc atcatcatta tatagttggg ggctatttac aatagataaa
      121 tggaaatcaa gccctttaat tttcttgctt gccaatttac caaatacaca gggctgattg
      181 cctgacaccc attttcttag taaatcttca attttatctt tagaagtttc gttaaagata
      241 aatgaatgaa tattatcaat atcttttcca aatgaaaaac tggatgataa ttgtggtagt
      301 ttatttatac gttgttgaag attcatgaaa gctcccacaa gacacctcat atattttttt
      361 atatactgaa actacattat atttattacc ggcgtaaaac gaaataattt attatcgtta
      421 ccgatatttt aaaaaaatca ttatttgcac agtgttcgag ttgttagtat cactccttcc
      481 tgaaaatccg ctccatttac cataacgtcg cattgtacgc accgccaaaa cgcgttcggt
      541 gcgatcacgg cagcagacag gtaaaaatgg caacaaacca cccgaaaaac tgccgcgatc
      601 gcacctgata aattttaacc gcatgaatac ctatgcaacc agatgctaca ggccacatta
      661 gcccgcctta atccactgaa cacgtcattt ttcatggttt caccatccca gcgaagggcc
      721 atccagtgtc cgctcctgga tttccggctg acgctcccgc tccagagata actcatgttc
      781 gcgttcctgc atcagccgtt catcccttat ctcctgttct cgctgtataa ctggctcaag
      841 cgttctgtcc gctcgctcaa gtgctgcacc tgctgactca actgcatgac tcgcccgttc
      901 agcatcgcgt tgtcccgttg cgtaagcgaa aacattttct gcaattccac gaaggcgttc
      961 tcccattcgt tcagccgctg catatagtcc tgttgcagtt gctctaatgc gttcagcaaa
     1021 tgtctttcca gctccgtcat gctctgtcac tcctgcacca gtctcactgc gttcagtttg
     1081 ccgttgtcct tcgtccagtt cgtttcggct ttcatcccct tcggcaacac cagaaaacgt
     1141 ccgttgctgt cctcgtgata acgcacgccc catgtcttcg cgttcagctt ctccagactc
     1201 tctttctgct cgcggagaat attcatattc gcgtttatct tcatgccctg gtaccacagc
     1261 agactcccgg tcgtggcaaa catcagtact gagacgataa tcagccacag ccagcgtttc
     1321 acgctcattt tcagtacggt tttccagtgc gcgtccatcg tatcgacggt cgttttctga
     1381 tacctctcca gcagttcttt cagggctgtt gtatggtcgt tgatagcgtt cctgattaaa
     1441 gattcgtttg aggtcagttc cctgtttaca gattcttcga gcttcctgaa ctcgtcgttc
     1501 agcattttct ctgtagattc ggctctctct ttcagctttt tctcgaactc cgcgcccgtc
     1561 tgtaaaagat tgctcataaa acgctccttt cagtctgata ttcctcccgc cgttcgggtc
     1621 tgcaatgctg atactgcttc gcgtcaccct gaccacttca agccccgcct ctgtgagcgc
     1681 ctgaatcaca tcctgacggc cttttatctc tccggcatgg taaagcgcgt ctatcccgcg
     1741 tgtgacgccc tcagcaagcg cctgtttcgt ttccggcagg ttatcaggaa gggtcagcgt
     1801 ccggcggttc tccggggcgt tggggtcatg cagaccgtaa tggtgattca ccagcgtctg
     1861 ccaggcatca attctcggcc tgtctgcccg gtcgtagtac ggctggaggc gttttccggt
     1921 ctgtagctcc atgttcggaa tgacaaaatt cagctcaagc cgtcccttgt cctggtgctc
     1981 cacccacagg atgctgtact gatttttctc gagaccgggc atcagtacac gctcaaagct
     2041 cgccatcact ttttcacgcc ctccaggcgg cagctccttc tccgcgaacg acagaacacc
     2101 tgacgtgtat ttcttcgcaa atggcgtggc atcgatgagt tcccggacct cttccggatt
     2161 cccctgaagc accgttgccc cttcccggtt acgctccctt cccagcaggt aatcaaccgg
     2221 accactgcca ccaccttttc ccctggcatg aaacttaact atcatcccgc gccccctgtt
     2281 ccctgaccgc cagacgcagc cggcgcagct catccccgat ggccatcagt gcggccacca
     2341 cctgaacccg gtcaccggaa gaccactgcc cgctgttcac cttcctcgct gtctggttaa
     2401 ggttattccc gatggcggcc agctgacgca gtaacggcgg tgccagtgtc ggcagcttcc
     2461 cggaacgggc aaccggctca cccaggcaga cccgccgcat ccataccgcc agttgtttac
     2521 cctcacagcg ttccagtaac cgggcatgtt catcatcagt aacccgtatc gtgagcatcc
     2581 tctcgcgttt catcggtatc attaccccca tgaacagaac ccccccttac acggaggcat
     2641 cagtgaccaa acaggaaaaa accgccctta acatggcccg cttcatcaga ggccagacat
     2701 taacgctgct ggagaagctc aacgaactgg acgcggatga acaggcagac atctgtgaat
     2761 cgcttcacga ccacgccgat gagctttacc gcagctgcct cgcacgcttc ggggatgacg
     2821 gtgaaaaccg ctgacacatg cagctcccgg agacggtcac agcttgtctg tgagcggatg
     2881 ccgggagcag acaagcccgc cagggcgcgt caggccgttg acctttgggg tgtcggggcg
     2941 aagccctgac ccagtcacgt agcgatagcg gagtgtatac tggcttaacc attcggcatc
     3001 agtgcggatg gtatgaaaag tgcgccatgt ccggtgtgaa atgccgcaca gatgcgtaag
     3061 gagaaaatgc cagttcaggc gctcttccgc ttcctcgctc actgactcgc tacgctcggt
     3121 cgttcggctg cggcgagcgg actctccttt ctcaaaaacg ctaaccctgt tatccacaga
     3181 acccggggat aaaccaggaa agaacatgtg cgcaaaaaac gaaaccccgg gaaaggccgc
     3241 gccggaggcg ctttttccat aggctccgcc cccctgacgg acttcacaaa acagacactt
     3301 tttcggtgca tctgtgggag ccttgcggct caaccatgaa atccgccagc ggtggcgaaa
     3361 cccgacgtgg cttaaagatc atcaccgttt ccggtgaatc gctccctcct gcgcccccac
     3421 gttcccgcca tatcgattac cggatacctt ttccgccttt ctcccttacg ggacacgtgg
     3481 cgctttctca tagctcacgt cttctggtat ctcggggcga cttaggcagt tcgctccggg
     3541 ctgggctgta tgcaggaacc ccccgttcag cccgactgct gcgccttctc cggtaactgt
     3601 tctcttgggt ccaacccgga aaagacacca caaagcgcca ctggcagcag ccattggtaa
     3661 aagtcatgtg cgagatattt agagagtact tgaagtggct gccggagtgc ggctacacta
     3721 gaagaacaat tttggtgact cgtctcgcat aagacagtta cctggttaag cagtctgcaa
     3781 gctgacttaa ccttcgatca aaccgccctg caaggcggtt ttttcgttta caggcagcag
     3841 attacgcgca gaaaaaaagg atctcaagag gatcctttga tctttttgtt acaaacgtct
     3901 ctatttgact cccctgagag cgttttagcg cgcctctgac ccccttggtt acattccgac
     3961 accagaaacg ctcccgtttt ttacgtgcat ttggcacggt atcgatggag gccggggggc
     4021 aatcctgaac agaatgttac tcctctgagt attttctgtt aagaaaatat acacttagca
     4081 cagttacaat aaatcctacc ccctgtaaga atgtgaattg ttcatccaaa aacaaccatg
     4141 acaaaaataa tgcaactagc ggaataaagt acaacattat ccctgccaaa tgaactggga
     4201 gccaacgcaa ggagttcaag taaaaacaaa aagctaaaaa atattgtaat attccagatg
     4261 aaaaaacaat aatcacggat tccaacggaa gataaattga tgatttagat ataaaaataa
     4321 agagcgatga cagtataagg gagaatgtca actgtccgct caataatgtg ataggctcaa
     4381 acgatttaat aaggcgagac gatataacaa cataaaatgc tgccgataac acaccggcaa
     4441 caacaagaca atatccaaca atattattcg atccattact gatgtctggc aaggctacca
     4501 aaatactgcc aacaattgca cctataagga acaatataaa atattgcggg gaattaattt
     4561 taactgagca aataagaaca gacaacacca atataaacac tgattcaagt gaaaaaataa
     4621 ttgatgcgct tcctgctgaa ataaaataaa gtccgtagag tgtaaaagta tacgctaaga
     4681 atggttcaaa aacgcctgtc gcataagcaa gtatcgcttt tgagtttaat gggagttttt
     4741 ttctttttat aaaaagaact atccaagata gtattactgc actacaaatc tgccagaaaa
     4801 acacccctcc ggcatctagt tcttcaactc cttttttgct cattacgata gctgcccccc
     4861 atgagaacgc tgctaaaaaa gcaaaaagca ttcctttaat catattaatc atcctctttc
     4921 tcataaaggg gtttgttttc aaatttcctt ggttgaaagg agttaaaaaa catagatgca
     4981 tcatctacag gaataccaat aaactctcca taataaggat catctatagg aaactcttct
     5041 aatgaaacat aaaacaatac attccagttg aagatcattg gatcactatt ttctatttca
     5101 tggagcaatc tttcatcctt agttaattct cctggaatta atacatcagt atgataaaaa
     5161 ccgctgtaat aagaactatt accggtgtgc actgggcatc caaaacgatc caaattagat
     5221 tctgaatgcc atgttgtaga aatcccttcc ggatgtgaat acccaccctt accaacagac
     5281 tgaatagtca tgttacgaat atccgctaac gcttgttctt gatctttata gaaacctttt
     5341 tctatcgcca gcctcataaa atgccccggg gcatttacag aaataagtat tccccctggt
     5401 attcttctat catgatttct tgttctatga gcagaagagt aaaaaacatt aacaccagcc
     5461 ttatatattt ttagcccatc tttatcctga aatggtacgc tttcagtata aataacatcc
     5521 tcttttattg gatagcactc tggcatatgc agcgaacaaa tatatttttg tatgtccact
     5581 aactcttctg atggacgagc aaaggcaagt tgtggatgaa taaaataaat g
//
