LOCUS       NZ_LR890305             4074 bp    DNA     circular CON 25-JUN-2023
DEFINITION  Escherichia coli strain MSB1_3B isolate MSB1_3B plasmid 7, complete
            sequence.
ACCESSION   NZ_LR890305
VERSION     NZ_LR890305.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMEA3357475
            Assembly: GCF_904863305.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1
  AUTHORS   Hawkey,J.
  TITLE     Direct Submission
  JOURNAL   Submitted (16-OCT-2020) THE UNIVERSITY OF MELBOURNE, 30 Flemington
            Rd, Australia
COMMENT     ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/25/2023 10:17:57
            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)                     :: 5,381
            CDSs (total)                      :: 5,256
            Genes (coding)                    :: 5,045
            CDSs (with protein)               :: 5,045
            Genes (RNA)                       :: 125
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 92
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 211
            CDSs (without protein)            :: 211
            Pseudo Genes (ambiguous residues) :: 0 of 211
            Pseudo Genes (frameshifted)       :: 82 of 211
            Pseudo Genes (incomplete)         :: 157 of 211
            Pseudo Genes (internal stop)      :: 39 of 211
            Pseudo Genes (multiple problems)  :: 58 of 211
            Pseudo Genes (short protein)      :: 3 of 211
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            LR890305.1.
            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..4074
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="MSB1_3B"
                     /isolate="MSB1_3B"
                     /isolation_source="rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="7"
                     /geo_loc_name="Australia"
                     /collection_date="2014-01"
     gene            join(3546..4074,1..1631)
                     /gene="mobQ"
                     /locus_tag="JM188_RS26590"
     CDS             join(3546..4074,1..1631)
                     /gene="mobQ"
                     /locus_tag="JM188_RS26590"
                     /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_016245161.1"
                     /translation="MAIYHLSMKIISRSSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPRELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPARRVADLLNIVLPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQTAFEKQWQQWGASGLAALRVQL
                     LKREEELRRKEQEDTERSRAERRAEQLRKNDNAVMDSGVLSAVVTGYGEAPMPGNGEMT
                     CYLLLHNRNGEYTLWGNELEKYRTRIFERVDLMRDRSGYICDRSEIGQHPPLQRVYSSA
                     TFEQLLTQVCQTWPQYTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLPPTL
                     MPVMSSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKG
                     LRYAGYGVAVNHDADSHISPAPELMEFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRT
                     WDEWRREEDARTHTTERRHDRGWSQ"
                     /name="mobQ"
     gene            complement(1889..2581)
                     /locus_tag="JM188_RS26595"
     CDS             complement(1889..2581)
                     /locus_tag="JM188_RS26595"
                     /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_001281403.1"
                     /translation="MSDLIAYKSNALVEASYKLTLQEQRFLLLCISRLKSGADAELQKT
                     MTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKNDEKREEFRWIQYRAQYAKG
                     EAKARITFSDAVMPYLTQLKGQFTRVVIKNISGLSSSYSIRIYEFLQQFRSTGERIIAL
                     NDFRSMLGIENKYKQFRDLNKILIKPCVDELNKKSDLAVTVETIKKGRTVVALHFRFKE
                     DKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(3113..3367)
                     /gene="mobC"
                     /locus_tag="JM188_RS26600"
     CDS             complement(3113..3367)
                     /gene="mobC"
                     /locus_tag="JM188_RS26600"
                     /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_000091747.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVVVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPGQ"
                     /name="mobC"
     Typing          complement(3369..3545)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          3546..3904
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.056"
                     /coverage="100.0"
                     /evalue="3.94e-177"
     Typing          complement(1890..2581)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.965"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          4..1628
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.631"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          3460..4073
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.537"
                     /coverage="99.0"
                     /evalue="4.28e-129"
ORIGIN
        1 cgaacgccgg ttatcaggaa gagatagacc atcgttcata cgagcgacag gggcttgaga
       61 aaacgcctgg tattcacctc ggaaagtctg cctgtgcgat ggaaacacgc ggtatcgaaa
      121 cagaacgcgg cgaacagaat cgtctgatta acaggcttaa cctggaaata cagatttccc
      181 gcactgaact caggaacagc gggctgacag agcctgcccg ccgtgtggct gaccttctga
      241 atatcgtgct tcctgacaac gcaacttcgt acacactacg tgacatcatc gaagcgttgc
      301 cgaaggacag taatgcggca tggaaactca ccagtaatgc catgtcgatg atggcagata
      361 tgcaggcgac gcgcagacgc tgggaagagc tgaacaccga acgaaaggaa gcgatgagcc
      421 atgctgccag cctgaaaaaa tcatcgccgt tttcgtccgg tttttcccgt attcccctga
      481 tgcaatgggc ggcaccggaa taccgtagcg aacagggaaa aatccagtcg ctgagccagc
      541 aaatggaaaa attgcgacag cattaccgga aggtggagaa acaggacatt cccgcgagtc
      601 agacggcatt tgaaaaacag tggcagcagt ggggggcatc cggccttgca gctctcagag
      661 tccagttgct taaacgtgaa gaggaattgc gccggaagga gcaggaggat acagaacgta
      721 gtcgcgcgga gcgacgagcg gaacagctca ggaaaaatga caatgccgtt atggattcag
      781 gggtactgag cgcagtcgtt acggggtatg gcgaggcccc catgcctggt aacggggaaa
      841 tgacctgtta ccttctgctt cacaaccgga acggagaata cacgctctgg gggaacgagc
      901 tggagaaata ccgcaccaga atctttgagc gtgttgattt aatgcgtgac aggagtggtt
      961 atatctgtga ccgaagcgaa atcggtcaac atccaccact gcaacgtgtt tattcctctg
     1021 cgacctttga gcaacttctg acgcaggttt gccagacatg gccgcaatat acccgcaatc
     1081 tccgccagcc gaagacatgg ccggagtctt tctgtcttgg agaagaccgc cagccagcca
     1141 tgccatcact ggcagcaagg aaggtggatt ttacgcaggg acgtctgcca ccgacgctga
     1201 tgccggtaat gagttctgtc gaccgggaaa cccgccagct tcagcttttg ctggtcatgg
     1261 gcgtggatga ctctctgggc ggtgttgtcc ggcttaatgg tacgctgtat cccgcgtttg
     1321 ccgttccctc agccgataac agccagctgg tcatcagtgc actgaccgat aaggggttac
     1381 ggtatgcagg gtatggtgtt gccgtaaatc acgatgcaga cagccacata tcacctgcgc
     1441 cggaacttat ggagtttcat ctgaaaaccc gtgaggcacc gctttttgct gccgtcaaca
     1501 caccagaaaa acagccggat catctgttcc gctcgctggg tttcaatcgt acctgggacg
     1561 aatggcggcg cgaggaagat gcaagaacac acaccaccga gaggagacat gatcgcggtt
     1621 ggtcacagtg aatgtgaaca atattttgtt ttgtttaaca tcgtgttatg ttcgtcgatg
     1681 ttcttcgatg ttcatcgaca gggatgaatg caagaagcac actcacataa tgcaagcata
     1741 gttttgtttt tccgccccca aaaattgggg gttctttttt cgctgcatca gagcgttttt
     1801 gacgcaattt ttcacttcaa tagtaccttc gcactactaa cacaaaaaaa acgcagcagg
     1861 gagcgtttta ggtgccttaa aatcgatttt agatcgtcat cttgatctgt ttgtcttcct
     1921 tgaagcgaaa atgcagggct acaaccgtgc gccccttttt gatcgtctca accgttacag
     1981 ccaggtcgct ttttttgttc agttcgtcaa cacagggttt tattagtatt ttatttaagt
     2041 ctctgaattg tttgtattta ttttcaatcc ctaacattga acgaaagtca ttaagagcaa
     2101 taattctctc tcccgtactg cggaattgct ggaggaactc gtatattctt atactgtaac
     2161 tacttgataa acctgatatg ttttttataa caacgcgcgt gaattgcccc ttcagttgcg
     2221 tcagataagg cattaccgcg tcagaaaagg ttattcgagc cttggcctca cctttagcgt
     2281 actgtgcccg atactggatc cagcggaact cctcacgctt ctcgtcattc ttgagaatga
     2341 tcgacctgtc ccataaacga tcgatcgctt cctgtaactg aacctcggca tttttccgcc
     2401 ccatgtcagg gaatgaatca aaatattccg cagcggtaat ggtcattgtc ttttgcaatt
     2461 cagcatcagc accagatttc aatcgactga tacacagcaa cagaaaacgt tgttcctgta
     2521 gggtcaactt gtagctggcc tcaaccaaag cattcgactt gtaggcaatc aagtccgaca
     2581 tacaaagatc ccgttcaaat gtggtgatgc tttaatgtgc cccacaaata agaaatgtgg
     2641 aatgtttttt tttatatcct cacatttctg tgaataacac cttaaattcc tccaccttta
     2701 ccttaaattc ctccacctaa acaccttaaa ttcctccacc tttaccttaa attcctccac
     2761 atataccact ataacatatt gattttatta atgaatttca cccctaaaac aagtattaaa
     2821 aacaagatct taaaaacaag atctaaaaac ttaacggcga gcctgtggat aacttggggt
     2881 gctgaaaaca aaaaaccaat aaaaacaatg tgttgcaaga aagcagaatt gcaagttccg
     2941 aatactcccc ttccaaccct gtggaaatcc agtattcatg cgagttcagc gcatatcacc
     3001 tgccgaaaaa ccgtgcgtat gtgctcaacc tggcgacgga ttcacttccg cttcctcgcc
     3061 cactcgctcg ctaacgctcg gtcgctgggg ctgcggcgag cggacgatac aatcactgtc
     3121 ctggcagcgc ctccagctcg ttaatcagcg gcagtatgcg cgtcacatca gcctgtcgtg
     3181 tcacctctgc cttcaggaac tggagtaacc aggcacgcaa ctgcacctcc tccggctttc
     3241 tgacctttgc cagcaatgct gcacccacaa caaccttctg cgctgtgtcc aggctccggc
     3301 tcttcgcctt caggcgctgt aatctcgcct cagcatcagc aatcttctgt tcgagcgttc
     3361 tgctcatgat gtaactccgt gcgcgatgaa aaatcgcatt ttagcgcgtc actggtagtt
     3421 taaaaactga gctggcataa tgcacggcaa atcacgaagt gcgcacttat acaatctcca
     3481 ctccgtttcg attgtgtgcg ccctgcgggg ctgaaagaaa actacaaaaa ggcattacgg
     3541 cagaaatggc gatttatcat ctcagcatga aaattatctc cagaagcagc ggctacagcg
     3601 ccgtagcttc cgctgcctat cgttccggtt cactaatgct tgatgagcgt accggactga
     3661 ctcacgacta cacccgcaaa agcggtgtgg ctgaagctgt gattctgacc cccgcgacag
     3721 cccctgcctg gtgtacgaac cgtgccgaac tctggaatgc cgttgagaag gccgaacgcc
     3781 ggaagaactc acaacttgcg cgggaaattg aactcgctat cccccgtgaa ctgccgcagg
     3841 atgccgcacg ggaaaccgtt ctcgcctttg tcagagaaaa ctttgtcagt cagggcatga
     3901 ttgctgatgt ggcgttccat cacatggata aaacaaatcc ccatgcgcac atcatgctga
     3961 ccacgagggc tgtcggacct gctgggttcg gcggaaaggt cagggactgg aacgaccgga
     4021 cacatgccga gacgtggcgt gcatcatggg ctgaccatgc aaacagagca ctgg
//
