LOCUS       NZ_CP048613             4073 bp    DNA     circular CON 08-JUN-2024
DEFINITION  Escherichia coli strain STEFF_1 plasmid unnamed4, complete sequence.
ACCESSION   NZ_CP048613
VERSION     NZ_CP048613.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN13925525
            Assembly: GCF_023205415.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4073)
  AUTHORS   Che,Y., Xu,X., Yang,Y., Brinda,K., Hanage,W., Yang,C. and Zhang,T.
  TITLE     High-resolution genomic surveillance elucidates a multilayered
            hierarchical transfer of resistance between WWTP- and
            human/animal-associated bacteria
  JOURNAL   Microbiome 10 (1) (2022)
REFERENCE   2  (bases 1 to 4073)
  AUTHORS   Che,Y.
  TITLE     Direct Submission
  JOURNAL   Submitted (03-FEB-2020) Civil Engineering, The University of Hong
            Kong, Pokfulam Road, Hong Kong 000000, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.6
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 200X
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_023205415.1-RS_2024_06_08
            Annotation Date                   :: 06/08/2024 04:31:14
            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)                     :: 5,169
            CDSs (total)                      :: 5,052
            Genes (coding)                    :: 4,919
            CDSs (with protein)               :: 4,919
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 7
            Pseudo Genes (total)              :: 133
            CDSs (without protein)            :: 133
            Pseudo Genes (ambiguous residues) :: 0 of 133
            Pseudo Genes (frameshifted)       :: 48 of 133
            Pseudo Genes (incomplete)         :: 92 of 133
            Pseudo Genes (internal stop)      :: 26 of 133
            Pseudo Genes (multiple problems)  :: 27 of 133
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP048613.1.
            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..4073
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="STEFF_1"
                     /isolation_source="WWTPs effluent Shatin WWTPs_1"
                     /db_xref="taxon:562"
                     /plasmid="unnamed4"
                     /geo_loc_name="Hong Kong"
                     /lat_lon="22.4 N 114.2 E"
                     /collection_date="2018-12"
     gene            complement(join(2981..4073,1..1055))
                     /gene="mobQ"
                     /locus_tag="G3M66_RS25760"
                     /old_locus_tag="G3M66_25525"
     CDS             complement(join(2981..4073,1..1055))
                     /gene="mobQ"
                     /locus_tag="G3M66_RS25760"
                     /old_locus_tag="G3M66_25525"
                     /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_032495499.1"
                     /translation="MAIYHLSMKIISRSSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPHELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAIGPAGFSGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNGGLTEPARRVADLLNIGLPDNATSYTLRDIIEALPKDSN
                     SAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQMAFEKQWQQWGKSGLAALRAQL
                     LKREEELRRKEQEDTERSRAEQLRKNDNAVMDSGVLRAVVTGYGEAPMPGNGEMTCYLL
                     LHNRNGEYTLWGNELEKYRTRIFESVDLMRDRSGYICDRSEIGQRPPLQRVYSSATFEQ
                     LLTQVCQTWPQHTRNLRQPKTWPESFCLGEDRQPAMPSPAARKVDFMQGRLPPTLMPVM
                     SSVDRETRQLQLLLVMGVDDSLGGVIRLNGTLYPAFAVPSADNRHLVISALTDKGLRYA
                     GYGVAVNHDADSHISPAPELMQFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRTWEEW
                     QREEDARTHTTERRHDRGWSQ"
                     /name="mobQ"
     gene            1234..1488
                     /gene="mobC"
                     /locus_tag="G3M66_RS25765"
                     /old_locus_tag="G3M66_25530"
     CDS             1234..1488
                     /gene="mobC"
                     /locus_tag="G3M66_RS25765"
                     /old_locus_tag="G3M66_25530"
                     /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"
     gene            2022..2723
                     /locus_tag="G3M66_RS25770"
                     /old_locus_tag="G3M66_25535"
     CDS             2022..2723
                     /locus_tag="G3M66_RS25770"
                     /old_locus_tag="G3M66_25535"
                     /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"
     Typing          complement(698..1056)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          1057..1233
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          2023..2723
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(4..1142)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.632"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(2985..4072)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="94.278"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 tggatttttc cctgctcact acggtattcc ggtgccgccc attgcatcag gggaatacgg
       61 gaaaaaccgg acgaaaacgg cgatgatttt ttcaggctgg cagcatggct catcgcttcc
      121 tttcgttcgg tgttcagctc ttcccagcgt ctgcgcgtcg cctgcatatc tgccatcatc
      181 gacatggcat tactggtgag tttccatgcc gagttactgt ccttcggcaa cgcttcgata
      241 atgtcacgta gtgtgtacga agttgcgttg tcaggaagcc cgatattcag aaggtcagcc
      301 acacggcggg caggctctgt cagccctccg ttcctgagtt cggtgcggga aatctgtatt
      361 tccaggttaa gcctgttaat cagacgattc tgttcgccgc gttctgtttc gataccgcgt
      421 gtttccatcg cacaggcaga ctttccgagg tgaataccag gcgttttctc aagcccctgt
      481 cgctcgtatg aacgatggtc tatctcttcc tgataaccgg cgttcgccag tgccctgttt
      541 gcatggtcag cccatgatgc ccgccacgtc tcggcatgtg tccggtcgtt ccagtccctg
      601 acctttccgc tgaacccagc aggtccgata gccctcgtgg tcagcatgat gtgcgcatgg
      661 ggatttgttt tatccatgtg atggaacgcc acatcagcaa tcatgccctg actgacaaag
      721 ttttctctga caaaggcgag aacggtttcc cgtgcggcat cctgcggcag ttcgtggggg
      781 atggcgagtt caatttcccg cgcaagttgt gagttcttcc ggcgttcggc cttctcaacg
      841 gcattccaga gttcggcacg gttcgtacac caggcagggg cggtggcggg ggtcagaatc
      901 acagcctcag ccacaccgct tttgcgggtg tagtcgtgag tcagtccggt acgctcatca
      961 agcatcagtg aaccggaacg ataggcagcg gaagctacgg cgctgtagcc gctgcttctg
     1021 gagataattt tcatgctgag atgataaatc gccatttctg ccgtaatgcc tttttgtagt
     1081 tttctttcag ccccgcaggg cgcacacaat cgaaacggag tggagattgt ataagtgcgc
     1141 acttcgtgat ttgccgtgca ttatgccagc tcagttttta aactaccagt gacgcgctaa
     1201 aatgcgattt ttcatcgcgc acggagttac atcatgagca gaacgctcga acagaagatt
     1261 gctgatgctg aggcgagatt acagcgcctg aaggcgaaga gccggagcct ggacacagcg
     1321 cagaaggttg ttgtgggtgc tgcattgctg gcaaaggtca gaaagccgga ggaggtgcag
     1381 ttgcgtgcct ggttactcca gttcctgaag gcagaggtga cacgacaggc tgatgtgacg
     1441 cgcatactgc cgctgattaa cgagctggag gcgctgccag aacagtgatt gtatcgtccg
     1501 atcgccgcag ccccagcgac cgagcgttag cgagcgagtg ggcgaggaag cggaagtgaa
     1561 tcagtcgcca ggttgagcac atacgcacgg tttttcggca ggtgatatgc gctgaacccg
     1621 catgaatact gggtttccac agggttggag ggggtgtatt cgaaacttgc aattctgctt
     1681 tattgcaacg cattgttttt attggttttt tgttttcagc accccaagtt atccacaggc
     1741 tcgccgttaa gtttttaaga tcttattttt agatcttttt ttttaaaacc tttttaggtc
     1801 ttgtaacacc atgattttaa agatgttctg gcaagataag tggagctttt gggggtgaaa
     1861 ggtggagctt ttgggggtga aaggtggagc ttttgggggt gaaaggtgga gcttttgggg
     1921 gtgtaatcca cagaaaaagg gggttgcaaa aaaaaaactt ccacccatat gataagtggc
     1981 gtacagtaaa aaaacgccac caatagcaac gagcaagcga aatgtcagat ctgatagctt
     2041 acaaatcaaa cgcccttatc gaggcaagct acaagctcac tttgcaggaa cagcgcttcc
     2101 tgctggtctg tatcagccgc ctaaaatccg gagaagattc cccttcgccg gatgaacaaa
     2161 aaaccatgac catcacggct gcagagtttc atgatgcctt tcctgacatg ggacggcagc
     2221 acgctgaagc taggctcaag gaagcgatag atcgcctctg ggacaggtca gtaatcatca
     2281 agaacgagga aaaacgagaa gagttccgct gggtgcagta ccgggcgcag tatttcaaag
     2341 gtgaggcgaa agtagatatc accttctccg atgccatcat gccgtatctg acacagctca
     2401 aggggcagtt tacgcgggta gtcgtgaaga acgtctccag cctttccagc acctacagca
     2461 tccgcattta cgagctgctc cagcagttcc gcagcaccgg tgacagaacg atagctatcg
     2521 atgatttccg aaccatgctt gccgttgaag ataaatatca acaattcaaa gacttgaata
     2581 agatgataat caagccagcc atcgccgaac tgaacgaaaa aagcgatctg gttgtaactg
     2641 ttgagacgat caaaaagggg cgcacggttg tagccctgca ttttcgcttc aaggaagaca
     2701 aacagatcaa gatgacgatc taaaatcgat tttaaggcac ctaaaacgct ccctgctgcg
     2761 ttttttttgt gttagtagtg cgaaggtact attgaagtga aaaattgcgt caaaaacgct
     2821 ctgatgcagc gaaaaaagac cccccaattt ttgggggcgg aaaaacaaaa ctatgcttgc
     2881 gttatgtgag tgtgcttctt gcattcatcc ctgtcgatga acatcgaaga acatcgaaga
     2941 acataacacg atgttaaaca aaacaaaata ttgttcacat tcactgtgac caaccgcgat
     3001 catgtctcct ctcggtggtg tgtgttcgtg catcttcctc gcgctgccat tcctcccagg
     3061 tacgattaaa acccagcgag cggaacagat gatccggctg tttttctggt gtgttgacgg
     3121 cagcaaaaag cggtgcctca cgggttttca gatgaaactg catcagttct ggtgcaggtg
     3181 atatgtggct gtctgcatcg tgatttacgg caacaccata ccctgcatac cgtaacccct
     3241 tatcggtcag cgcactgatg accagatgcc tgttatcggc tgagggaacg gcaaacgcgg
     3301 gatacagcgt accattaagc cggataacac cgcccagaga gtcatccacg cccatgacca
     3361 gcaaaagctg aagctggcgg gtttcccggt cgacagaact catgaccggc atcagcgtcg
     3421 gtggcagacg tccctgcata aaatccacct tccttgccgc tggtgatggc atggctggct
     3481 ggcggtcttc tccaagacag aaagactccg gccatgtctt cggctggcgg agattgcggg
     3541 tatgttgcgg ccatgtctgg caaacctgcg tcagcagttg ctcaaaggtt gcagaggaat
     3601 aaacacgttg cagtggcgga cgttggccga tttcgcttcg gtcacagata taaccactcc
     3661 tgtcacgcat taaatcaaca ctctcaaaga ttctggtgcg gtatttctcc agctcgttcc
     3721 cccagagcgt atattctccg ttccggttgt gaagcagaag gtaacaggtc atttccccgt
     3781 taccaggcat gggagcctcg ccataccccg taacgactgc tctcagcacc cctgaatcca
     3841 taacggcatt gtcatttttc ctgagctgct ccgcgcgact acgttcagta tcttcctgtt
     3901 ccttccggcg caattcctct tcacgtttaa gcaactgggc tctgagagct gcaaggccgg
     3961 atttccccca ctgctgccac tgtttttcaa atgccatctg actcgcggga atgtcctgtt
     4021 tctccacctt ccggtaatgc tgtcgtaatt tttccatttg ctggctcaga gac
//
