LOCUS       NZ_LR890413             4072 bp    DNA     circular CON 25-JUN-2023
DEFINITION  Escherichia coli strain MSB2_1A isolate MSB2_1A plasmid 4, complete
            sequence.
ACCESSION   NZ_LR890413
VERSION     NZ_LR890413.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMEA3357497
            Assembly: GCF_904864635.1
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 10:09:52
            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)                     :: 4,870
            CDSs (total)                      :: 4,753
            Genes (coding)                    :: 4,551
            CDSs (with protein)               :: 4,551
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 202
            CDSs (without protein)            :: 202
            Pseudo Genes (ambiguous residues) :: 0 of 202
            Pseudo Genes (frameshifted)       :: 74 of 202
            Pseudo Genes (incomplete)         :: 136 of 202
            Pseudo Genes (internal stop)      :: 38 of 202
            Pseudo Genes (multiple problems)  :: 41 of 202
            Pseudo Genes (short protein)      :: 4 of 202
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            LR890413.1.
            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..4072
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="MSB2_1A"
                     /isolate="MSB2_1A"
                     /isolation_source="rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="4"
                     /geo_loc_name="Australia"
                     /collection_date="2014-04"
     gene            join(2739..4072,1..814)
                     /gene="mobQ"
                     /locus_tag="JMW04_RS24015"
     CDS             join(2739..4072,1..814)
                     /gene="mobQ"
                     /locus_tag="JMW04_RS24015"
                     /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_001029354.1"
                     /translation="MAIYHLSMKIISRSSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPHELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAIGPAGFSGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNGGLTEPARRVADLLNIGLPDNATSYTLRDIIEALPKDSN
                     SAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQMAFEKQWQQWGESGLAALRAQL
                     LKREEELRRKEQEDTERSRAEQLRKNDNAVMDSGVLRAVVTGYGEAPMPGNGEMTCYLL
                     LHNRNGEYTLWGNELEKYRTRIFESVDLMRDRSGYICDRSEIGQRPPLQRVYSSATFEQ
                     LLTQVCQTWPQHTRNLRQPKTWPESFCLGEDRQPAMPSPAARKVDFMQGRLPPTLMPVM
                     SSVDRETRQLQLLLVMGVDDSLGGVIRLNGTLYPAFAVPSADNRHLVISALTDKGLRYA
                     GYGVAVNHDADSHISPAPELMQFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRTWEEW
                     QREEDARTHTTERRHDRGWSQ"
                     /name="mobQ"
     gene            complement(1072..1773)
                     /locus_tag="JMW04_RS24020"
     CDS             complement(1072..1773)
                     /locus_tag="JMW04_RS24020"
                     /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_001281395.1"
                     /translation="MSDLIAYKSNALIEASYKLTLQEQRFLLVCISRLKSGEDSPSPDE
                     QKTMTITAAEFHDAFPDMGRQHAEARLKEAIDRLWDRSVIIKNEEKREEFRWVQYRAQY
                     FKGEAKVDITFSDAIMPYLTQLKGQFTRVVVKNVSSLSSTYSIRIYELLQQFRSTGDRT
                     IAIDDFRTMLAVEDKYQQFKDLNKMIIKPAIAELNEKSDLVVTVETIKKGRTVVALHFR
                     FKEDKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(2306..2560)
                     /gene="mobC"
                     /locus_tag="JMW04_RS24025"
     CDS             complement(2306..2560)
                     /gene="mobC"
                     /locus_tag="JMW04_RS24025"
                     /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_000091746.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVVVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPEQ"
                     /name="mobC"
     Typing          complement(2562..2738)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          2739..3097
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(1073..1773)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.858"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          3..811
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.185"
                     /coverage="99.0"
                     /evalue="7.02e-177"
     Typing          2653..4070
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.436"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 tcccatgcct ggtaacgggg aaatgacctg ttaccttctg cttcacaacc ggaacggaga
       61 atatacgctc tgggggaacg agctggagaa ataccgcacc agaatctttg agagtgttga
      121 tttaatgcgt gacaggagtg gttatatctg tgaccgaagc gaaatcggcc aacgtccgcc
      181 actgcaacgt gtttattcct ctgcaacctt tgagcaactg ctgacgcagg tttgccagac
      241 atggccgcaa catacccgca atctccgcca gccgaagaca tggccggagt ctttctgtct
      301 tggagaagac cgccagccag ccatgccatc accagcggca aggaaggtgg attttatgca
      361 gggacgtctg ccaccgacgc tgatgccggt catgagttct gtcgaccggg aaacccgcca
      421 gcttcagctt ttgctggtca tgggcgtgga tgactctctg ggcggtgtta tccggcttaa
      481 tggtacgctg tatcccgcgt ttgccgttcc ctcagccgat aacaggcatc tggtcatcag
      541 tgcgctgacc gataaggggt tacggtatgc agggtatggt gttgccgtaa atcacgatgc
      601 agacagccac atatcacctg caccagaact gatgcagttt catctgaaaa cccgtgaggc
      661 accgcttttt gctgccgtca acacaccaga aaaacagccg gatcatctgt tccgctcgct
      721 gggttttaat cgtacctggg aggaatggca gcgcgaggaa gatgcacgaa cacacaccac
      781 cgagaggaga catgatcgcg gttggtcaca gtgaatgtga acaatatttt gttttgttta
      841 acatcgtgtt atgttcgtcg atgttcttcg atgttcatcg acagggatga atgcaagaag
      901 cacactcaca taacgcaagc atagttttgt ttttccgccc ccaaaaattg gggggtcttt
      961 tttcgctgca tcagagcgtt tttgacgcaa tttttcactt caatagtacc ttcgcactac
     1021 taacacaaaa aaaacgcagc agggagcgtt ttaggtgcct taaaatcgat tttagatcgt
     1081 catcttgatc tgtttgtctt ccttgaagcg aaaatgcagg gctacaaccg tgcgcccctt
     1141 tttgatcgtc tcaacagtta caaccagatc gcttttttcg ttcagttcgg cgatggctgg
     1201 cttgattatc atcttattca agtctttgaa ttgttgatat ttatcttcaa cggcaagcat
     1261 ggttcggaaa tcatcgatag ctatcgttct gtcaccggtg ctgcggaact gctggagcag
     1321 ctcgtaaatg cggatgctgt aggtgctgga aaggctggag acgttcttca cgactacccg
     1381 cgtaaactgc cccttgagct gtgtcagata cggcatgatg gcatcggaga aggtgatatc
     1441 tactttcgcc tcacctttga aatactgcgc ccggtactgc acccagcgga actcttctcg
     1501 tttttcctcg ttcttgatga ttactgacct gtcccagagg cgatctatcg cttccttgag
     1561 cctagcttca gcgtgctgcc gtcccatgtc aggaaaggca tcatgaaact ctgcagccgt
     1621 gatggtcatg gttttttgtt catccggcga aggggaatct tctccggatt tcaggcggct
     1681 gatacagacc agcaggaagc gctgttcctg caaagtgagc ttgtagcttg cctcgataag
     1741 ggcgtttgat ttgtaagcta tcagatctga catttcgctt gctcgttgct attggtggcg
     1801 tttttttact gtacgccact tatcatatgg gtggaagttt tttttttgca accccctttt
     1861 tctgtggatt acacccccaa aagctccacc tttcaccccc aaaagctcca cctttcaccc
     1921 ccaaaagctc cacctttcac ccccaaaagc tccacttatc ttgccagaac atctttaaaa
     1981 tcatggtgtt acaagaccta aaaaggtttt aaaaaaaaga tctaaaaata agatcttaaa
     2041 aacttaacgg cgagcctgtg gataacttgg ggtgctgaaa acaaaaaacc aataaaaaca
     2101 atgcgttgaa ataaagcaga attgcaagtt tcgaatacac cccctccaac cctgtggaaa
     2161 cccagtattc atgcgggttc agcgcatatc acctgccgaa aaaccgtgcg tatgtgctca
     2221 acctggcgac tgattcactt ccgcttcctc gcccactcgc tcgctaacgc tcggtcgctg
     2281 gggctgcggc gagcggacga tacaatcact gttctggcag cgcctccagc tcgttaatca
     2341 gcggcagtat gcgcgtcaca tcagcctgtc gtgtcacctc tgccttcagg aactggagta
     2401 accaggcacg caactgcacc tcctccggct ttctgacctt tgccagcaat gcagcaccca
     2461 caacaacctt ctgcgctgtg tccaggctcc ggctcttcgc cttcaggcgc tgtaatctcg
     2521 cctcagcatc agcaatcttc tgttcgagcg ttctgctcat gatgtaactc cgtgcgcgat
     2581 gaaaaatcgc attttagcgc gtcactggta gtttaaaaac tgagctggca taatgcacgg
     2641 caaatcacga agtgcgcact tatacaatct ccactccgtt tcgattgtgt gcgccctgcg
     2701 gggctgaaag aaaactacaa aaaggcatta cggcagaaat ggcgatttat catctcagca
     2761 tgaaaattat ctccagaagc agcggctaca gcgccgtagc ttccgctgcc tatcgttccg
     2821 gttcactgat gcttgatgag cgtaccggac tgactcacga ctacacccgc aaaagcggtg
     2881 tggctgaggc tgtgattctg acccccgcca ccgcccctgc ctggtgtacg aaccgtgccg
     2941 aactctggaa tgccgttgag aaggccgaac gccggaagaa ctcacaactt gcgcgggaaa
     3001 ttgaactcgc catcccccac gaactgccgc aggatgccgc acgggaaacc gttctcgcct
     3061 ttgtcagaga aaactttgtc agtcagggca tgattgctga tgtggcgttc catcacatgg
     3121 ataaaacaaa tccccatgcg cacatcatgc tgaccacgag ggctatcgga cctgctgggt
     3181 tcagcggaaa ggtcagggac tggaacgacc ggacacatgc cgagacgtgg cgggcatcat
     3241 gggctgacca tgcaaacagg gcactggcga acgccggtta tcaggaagag atagaccatc
     3301 gttcatacga gcgacagggg cttgagaaaa cgcctggtat tcacctcgga aagtctgcct
     3361 gtgcgatgga aacacgcggt atcgaaacag aacgcggcga acagaatcgt ctgattaaca
     3421 ggcttaacct ggaaatacag atttcccgca ccgaactcag gaacggaggg ctgacagagc
     3481 ctgcccgccg tgtggctgac cttctgaata tcgggcttcc tgacaacgca acttcgtaca
     3541 cactacgtga cattatcgaa gcgttgccga aggacagtaa ctcggcatgg aaactcacca
     3601 gtaatgccat gtcgatgatg gcagatatgc aggcgacgcg cagacgctgg gaagagctga
     3661 acaccgaacg aaaggaagcg atgagccatg ctgccagcct gaaaaaatca tcgccgtttt
     3721 cgtccggttt ttcccgtatt cccctgatgc aatgggcggc accggaatac cgtagtgagc
     3781 agggaaaaat ccagtctctg agccagcaaa tggaaaaatt acgacagcat taccggaagg
     3841 tggagaaaca ggacattccc gcgagtcaga tggcatttga aaaacagtgg cagcagtggg
     3901 gggaatccgg ccttgcagct ctcagagccc agttgcttaa acgtgaagag gaattgcgcc
     3961 ggaaggaaca ggaagatact gaacgtagtc gcgcggagca gctcaggaaa aatgacaatg
     4021 ccgttatgga ttcaggggtg ctgagagcag tcgttacggg gtatggcgag gc
//
