LOCUS       NZ_CP080063             4073 bp    DNA     circular CON 14-JUN-2024
DEFINITION  Escherichia coli strain 18SZHZ655Rt plasmid p655Rt_8, complete
            sequence.
ACCESSION   NZ_CP080063
VERSION     NZ_CP080063.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN20339660
            Assembly: GCF_023516035.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4073)
  AUTHORS   Liu,B., Liu,W. and Fu,Y.
  TITLE     Genetic environment and risk factors analysis of mobile tigecycline
            resistance genes tet(X) variants in healthy human carriages: a
            cross-sectional and case-control study
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4073)
  AUTHORS   Liu,B., Liu,W. and Fu,Y.
  TITLE     Direct Submission
  JOURNAL   Submitted (21-JUL-2021) Key Laboratory of Genetics & Molecular
            Medicine of Shenzhen, Shenzhen Center for Disease Control and
            Prevention, Longyuan Road 8, Shenzhen 518055, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100.0x
            Sequencing Technology             :: Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_023516035.1-RS_2024_06_14
            Annotation Date                   :: 06/14/2024 05:58:29
            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)                     :: 4,979
            CDSs (total)                      :: 4,858
            Genes (coding)                    :: 4,716
            CDSs (with protein)               :: 4,716
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 142
            CDSs (without protein)            :: 142
            Pseudo Genes (ambiguous residues) :: 0 of 142
            Pseudo Genes (frameshifted)       :: 66 of 142
            Pseudo Genes (incomplete)         :: 91 of 142
            Pseudo Genes (internal stop)      :: 26 of 142
            Pseudo Genes (multiple problems)  :: 35 of 142
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP080063.1.
            Bacteria and source DNA available from Shenzhen Center for Disease
            Control and Prevention.
            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..4073
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="18SZHZ655Rt"
                     /isolation_source="Human feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p655Rt_8"
                     /geo_loc_name="China:Shenzhen"
                     /altitude="120 m"
                     /collection_date="2018-12-08"
                     /collected_by="Bang Liu"
     gene            join(2573..4073,1..647)
                     /gene="mobQ"
                     /locus_tag="KZO13_RS24765"
                     /old_locus_tag="KZO13_24740"
     CDS             join(2573..4073,1..647)
                     /gene="mobQ"
                     /locus_tag="KZO13_RS24765"
                     /old_locus_tag="KZO13_24740"
                     /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(905..1606)
                     /locus_tag="KZO13_RS24770"
                     /old_locus_tag="KZO13_24745"
     CDS             complement(905..1606)
                     /locus_tag="KZO13_RS24770"
                     /old_locus_tag="KZO13_24745"
                     /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(2140..2394)
                     /gene="mobC"
                     /locus_tag="KZO13_RS24775"
                     /old_locus_tag="KZO13_24750"
     CDS             complement(2140..2394)
                     /gene="mobC"
                     /locus_tag="KZO13_RS24775"
                     /old_locus_tag="KZO13_24750"
                     /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(2396..2572)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          2573..2931
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(906..1606)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.858"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          4..644
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="94.393"
                     /coverage="99.0"
                     /evalue="2.09e-131"
     Typing          2487..4072
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.623"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 gccaacgtcc gccactgcaa cgtgtttatt cctctgcaac ctttgagcaa ctgctgacgc
       61 aggtttgcca gacatggccg caacataccc gcaatctccg ccagccgaag acatggccgg
      121 agtctttctg tcttggagaa gaccgccagc cagccatgcc atcaccagcg gcaaggaagg
      181 tggattttat gcagggacgt ctgccaccga cgctgatgcc ggtcatgagt tctgtcgacc
      241 gggaaacccg ccagcttcag cttttgctgg tcatgggcgt ggatgactct ctgggcggtg
      301 ttatccggct taatggtacg ctgtatcccg cgtttgccgt tccctcagcc gataacaggc
      361 atctggtcat cagtgcgctg accgataagg ggttacggta tgcagggtat ggtgttgccg
      421 taaatcacga tgcagacagc cacatatcac ctgcaccaga actgatgcag tttcatctga
      481 aaacccgtga ggcaccgctt tttgctgccg tcaacacacc agaaaaacag ccggatcatc
      541 tgttccgctc gctgggtttt aatcgtacct gggaggaatg gcagcgcgag gaagatgcac
      601 gaacacacac caccgagagg agacatgatc gcggttggtc acagtgaatg tgaacaatat
      661 tttgttttgt ttaacatcgt gttatgttcg tcgatgttct tcgatgttca tcgacaggga
      721 tgaatgcaag aagcacactc acataacgca agcatagttt tgtttttccg cccccaaaaa
      781 ttggggggtc ttttttcgct gcatcagagc gtttttgacg caatttttca cttcaatagt
      841 accttcgcac tactaacaca aaaaaaacgc agcagggagc gttttaggtg ccttaaaatc
      901 gattttagat cgtcatcttg atctgtttgt cttccttgaa gcgaaaatgc agggctacaa
      961 ccgtgcgccc ctttttgatc gtctcaacag ttacaaccag atcgcttttt tcgttcagtt
     1021 cggcgatggc tggcttgatt atcatcttat tcaagtcttt gaattgttga tatttatctt
     1081 caacggcaag catggttcgg aaatcatcga tagctatcgt tctgtcaccg gtgctgcgga
     1141 actgctggag cagctcgtaa atgcggatgc tgtaggtgct ggaaaggctg gagacgttct
     1201 tcacgactac ccgcgtaaac tgccccttga gctgtgtcag atacggcatg atggcatcgg
     1261 agaaggtgat atctactttc gcctcacctt tgaaatactg cgcccggtac tgcacccagc
     1321 ggaactcttc tcgtttttcc tcgttcttga tgattactga cctgtcccag aggcgatcta
     1381 tcgcttcctt gagcctagct tcagcgtgct gccgtcccat gtcaggaaag gcatcatgaa
     1441 actctgcagc cgtgatggtc atggtttttt gttcatccgg cgaaggggaa tcttctccgg
     1501 atttcaggcg gctgatacag accagcagga agcgctgttc ctgcaaagtg agcttgtagc
     1561 ttgcctcgat aagggcgttt gatttgtaag ctatcagatc tgacatttcg cttgctcgtt
     1621 gctattggtg gcgttttttt actgtacgcc acttatcata tgggtggaag tttttttttt
     1681 gcaaccccct ttttctgtgg attacacccc caaaagctcc acctttcacc cccaaaagct
     1741 ccacctttca cccccaaaag ctccaccttt cacccccaaa agctccactt atcttgccag
     1801 aacatcttta aaatcatggt gttacaagac ctaaaaaggt tttaaaaaaa aagatctaaa
     1861 aataagatct taaaaactta acggcgagcc tgtggataac ttggggtgct gaaaacaaaa
     1921 aaccaataaa aacaatacgt tgcaataaag cagaattgca agtttcgaat acaccccctc
     1981 caaccctgtg gaaacccagt attcatgcgg gttcagcgca tatcacctgc cgaaaaaccg
     2041 tgcgtatgtg ctcaacctgg cgactgattc acttccgctt cctcgcccac tcgctcgcta
     2101 acgctcggtc gctggggctg cggcgagcgg acgatacaat cactgttctg gcagcgcctc
     2161 cagctcgtta atcagcggca gtatgcgcgt cacatcagcc tgtcgtgtca cctctgcctt
     2221 caggaactgg agtaaccagg cacgcaactg cacctcctcc ggctttctga cctttgccag
     2281 caatgcagca cccacaacaa ccttctgcgc tgtgtccagg ctccggctct tcgccttcag
     2341 gcgctgtaat ctcgcctcag catcagcaat cttctgttcg agcgttctgc tcatgatgta
     2401 actccgtgcg cgatgaaaaa tcgcatttta gcgcgtcact ggtagtttaa aaactgagct
     2461 ggcataatgc acggcaaatc acgaagtgcg cacttataca atctccactc cgtttcgatt
     2521 gtgtgcgccc tgcggggctg aaagaaaact acaaaaaggc attacggcag aaatggcgat
     2581 ttatcatctc agcatgaaaa ttatctccag aagcagcggc tacagcgccg tagcttccgc
     2641 tgcctatcgt tccggttcac tgatgcttga tgagcgtacc ggactgactc acgactacac
     2701 ccgcaaaagc ggtgtggctg aggctgtgat tctgaccccc gccaccgccc ctgcctggtg
     2761 tacgaaccgt gccgaactct ggaatgccgt tgagaaggcc gaacgccgga agaactcaca
     2821 acttgcgcgg gaaattgaac tcgccatccc ccacgaactg ccgcaggatg ccgcacggga
     2881 aaccgttctc gcctttgtca gagaaaactt tgtcagtcag ggcatgattg ctgatgtggc
     2941 gttccatcac atggataaaa caaatcccca tgcgcacatc atgctgacca cgagggctat
     3001 cggacctgct gggttcagcg gaaaggtcag ggactggaac gaccggacac atgccgagac
     3061 gtggcgggca tcatgggctg accatgcaaa cagggcactg gcgaacgccg gttatcagga
     3121 agagatagac catcgttcat acgagcgaca ggggcttgag aaaacgcctg gtattcacct
     3181 cggaaagtct gcctgtgcga tggaaacacg cggtatcgaa acagaacgcg gcgaacagaa
     3241 tcgtctgatt aacaggctta acctggaaat acagatttcc cgcaccgaac tcaggaacgg
     3301 agggctgaca gagcctgccc gccgtgtggc tgaccttctg aatatcgggc ttcctgacaa
     3361 cgcaacttcg tacacactac gtgacattat cgaagcgttg ccgaaggaca gtaactcggc
     3421 atggaaactc accagtaatg ccatgtcgat gatggcagat atgcaggcga cgcgcagacg
     3481 ctgggaagag ctgaacaccg aacgaaagga agcgatgagc catgctgcca gcctgaaaaa
     3541 atcatcgccg ttttcgtccg gtttttcccg tattcccctg atgcaatggg cggcaccgga
     3601 ataccgtagt gagcagggaa aaatccagtc tctgagccag caaatggaaa aattacgaca
     3661 gcattaccgg aaggtggaga aacaggacat tcccgcgagt cagatggcat ttgaaaaaca
     3721 gtggcagcag tggggggaat ccggccttgc agctctcaga gcccagttgc ttaaacgtga
     3781 agaggaattg cgccggaagg aacaggaaga tactgaacgt agtcgcgcgg agcagctcag
     3841 gaaaaatgac aatgccgtta tggattcagg ggtgctgaga gcagtcgtta cggggtatgg
     3901 cgaggctccc atgcctggta acggggaaat gacctgttac cttctgcttc acaaccggaa
     3961 cggagaatat acgctctggg ggaacgagct ggagaaatac cgcaccagaa tctttgagag
     4021 tgttgattta atgcgtgaca ggagtggtta tatctgtgac cgaagcgaaa tcg
//
