LOCUS       NZ_CP055021             4062 bp    DNA     circular CON 01-MAY-2024
DEFINITION  Escherichia coli strain SWHEFF_69 plasmid unnamed2, complete
            sequence.
ACCESSION   NZ_CP055021
VERSION     NZ_CP055021.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN13925592
            Assembly: GCF_022353905.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4062)
  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), 16 (2022)
   PUBMED   35078531
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 4062)
  AUTHORS   Che,Y.
  TITLE     Direct Submission
  JOURNAL   Submitted (10-JUN-2020) Civil Engineering, The University of Hong
            Kong, Pokfulam Road, Hong Kong 000000, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: "Other" v. Unicycler
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 200x
            Sequencing Technology :: Illumina; Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_022353905.1-RS_2024_05_01
            Annotation Date                   :: 05/01/2024 05:27:49
            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)                     :: 4,911
            CDSs (total)                      :: 4,796
            Genes (coding)                    :: 4,649
            CDSs (with protein)               :: 4,649
            Genes (RNA)                       :: 115
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 7
            Pseudo Genes (total)              :: 147
            CDSs (without protein)            :: 147
            Pseudo Genes (ambiguous residues) :: 0 of 147
            Pseudo Genes (frameshifted)       :: 57 of 147
            Pseudo Genes (incomplete)         :: 95 of 147
            Pseudo Genes (internal stop)      :: 29 of 147
            Pseudo Genes (multiple problems)  :: 30 of 147
            Pseudo Genes (short protein)      :: 4 of 147
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP055021.1.
            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..4062
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="SWHEFF_69"
                     /isolation_source="Shek Wu Hui WWTPs_69 WWTPs effluent"
                     /db_xref="taxon:562"
                     /plasmid="unnamed2"
                     /geo_loc_name="Hong Kong"
                     /lat_lon="22.5 N 114.1 E"
                     /collection_date="2018-12"
     gene            complement(join(2849..4062,1..934))
                     /gene="mobQ"
                     /locus_tag="HUZ77_RS24455"
                     /old_locus_tag="HUZ77_24265"
     CDS             complement(join(2849..4062,1..934))
                     /gene="mobQ"
                     /locus_tag="HUZ77_RS24455"
                     /old_locus_tag="HUZ77_24265"
                     /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_070749924.1"
                     /translation="MAIYHLSMKIISRSNGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPHELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQKEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NHLINRLNLEIQISHTELRNSGLTEPARRVADLLNIGLPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKLEKQDIPASQTAFEKQWQQWGESGLAALRSQL
                     LKREEELRRKELEDTERSRAEQLRKNDNAVMDSGVLRAVVTGYGEAPMPGNGEMTCYLL
                     LHNRNGEYTLWGNELEKYRTRIFESVDLMRDRSGYICDRSEIGQYPPLQRVYSSATFEQ
                     LLTQVCQTWPQHTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLPPTLMPVM
                     SSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKGLRYA
                     GYGVAVNHDADSHISPAPELMEFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRTWDEW
                     RREEDARTHATERRHDRGWSQ"
                     /name="mobQ"
     gene            1113..1367
                     /gene="mobC"
                     /locus_tag="HUZ77_RS24460"
                     /old_locus_tag="HUZ77_24270"
     CDS             1113..1367
                     /gene="mobC"
                     /locus_tag="HUZ77_RS24460"
                     /old_locus_tag="HUZ77_24270"
                     /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_000091744.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVIVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPEQ"
                     /name="mobC"
     gene            1900..2601
                     /locus_tag="HUZ77_RS24465"
                     /old_locus_tag="HUZ77_24275"
     CDS             1900..2601
                     /locus_tag="HUZ77_RS24465"
                     /old_locus_tag="HUZ77_24275"
                     /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_001281396.1"
                     /translation="MSDLIAYKSNALIEASYKLTLQEQRFLLVCISRLKSGEDSPSPDE
                     QKTMTITAAEFHDAFPDMGRQHAEARLKEAIDRLWDRSVIIKNEEKREEFRWVQYRAQY
                     FKGEAKVEITFSDAIMPYLTQLKGQFTRVVVKNVSSLSSTYSIRIYELLQQFRSTGDRT
                     IAIDDFRTMLAVEDKYQQFKDLNKMIIKPAIAELNEKSDLVVTVETIKKGRTVVALHFR
                     FKEDKQIKMTI"
                     /name="replication initiation protein"
     Typing          complement(577..935)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.5"
                     /coverage="100.0"
                     /evalue="8.52e-174"
     Typing          936..1112
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          1901..2600
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.429"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(3..1021)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.353"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(2853..4060)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.806"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 ttcgttcggt gttcagctct tcccagcgtc tgcgcgtcgc ctgcatatct gccatcatcg
       61 acatggcgtt actggtgagt ttccatgccg cgttactgtc cttcggcaac gcttcgatga
      121 tgtcacgtag tgtgtacgaa gttgcgttgt caggaagccc gatattcaga aggtcagcca
      181 cacggcgggc aggctctgtc agcccgctgt tcctgagttc ggtgtgggaa atctgtattt
      241 ccaggttaag cctgttaatc agatgattct gttcgccgcg ttctgtttcg ataccgcgtg
      301 tttccatcgc acaggcagac tttccgaggt gaatacccgg cgttttctca agcccctgtc
      361 gctcgtatga acgatggtct atctctttct gataaccggc gttcgccagt gccctgtttg
      421 catggtcagc ccatgatgca cgccacgtct cggcatgtgt ccggtcgttc cagtccctga
      481 cctttccgcc gaacccagca ggcccgacag ccctcgtggt cagcatgatg tgcgcatggg
      541 gatttgtttt atccatgtga tggaacgcca catcagcaat catgccctga ctgacaaagt
      601 tttctctgac aaaggcgaga acggtttccc gtgcggcatc ctgcggcagt tcgtggggga
      661 tggcgagttc aatttcccgc gcaagttgtg agttcttccg gcgttcggcc ttctcaacgg
      721 cattccagag ttcggcacgg ttcgtacacc aggcaggggc tgtcgcgggg gtcagaatca
      781 cagcctcagc cacaccgctt ttgcgggtgt agtcgtgagt cagtccggta cgctcatcaa
      841 gcattagtga accagaacga taggcagcag aagcaacggc gctgtagccg ttgcttctgg
      901 agatgatttt catactgaga tgataaatcg ccatttctgc cgtaatgcct ttttgcagtt
      961 ttctttcagc cccgcagggc gcacacaatc gaaacggagt ggagattgta taagtgcgca
     1021 cttcgtgatt tgccgtgcat tatgccagct cagtttttaa actaccagtg acgcgctaaa
     1081 atgcgatttt tcatcgcgca tggagttaca tcatgagcag aacgctcgaa cagaagattg
     1141 ctgatgctga ggcgagatta cagcgcctga aggcgaagag ccggagcctg gacacagcgc
     1201 agaaggtcat tgtgggtgca gcattgctgg caaaagtcag aaagccggag gaagtgcagt
     1261 tgcgagcttg gttactccag ttcctgaagg cagaggtgac acggcaggct gatgtgacgc
     1321 gaatactgcc gctgattaac gagctggagg cgctgccaga gcagtgattg tatcgtccgc
     1381 tcgccgcagc ccagcgaccg agcgttagcg agcgagtggg cgaggaagcg gaagtgaatc
     1441 agtcgccatg ttgagcacat acgcacggtt tttcgacagg tgatatgcgc tgaacccgca
     1501 tgaatactgg atttccacag ggttggaggg ggtgtattcg gaatcttcaa tcctgatttt
     1561 tttcaacaca ttgtttttat tggattttta ttttcagcac cccaagttat ccacaggctc
     1621 gccgttaagt ttttaagatc ttatttttag atcttttttt ttaaaacctt tttaggtctt
     1681 gtaaccacat gattttaaag gtgttctggc gagataggtg gagcttttgg gggtgatagg
     1741 tggagctttt gggggtgata ggtggagctt ttgggggtga taggtggagc ttttgggggt
     1801 gtaatccaca gaaaaaaggg gttgcaaaaa aaaaacttcc accaatatga tgggtggcgt
     1861 acagtaaaaa aacgccacca atagcaacga gcaagcgaaa tgtcagatct gatagcttac
     1921 aaatcaaacg cccttatcga ggcaagctac aagctcactt tgcaggaaca gcgcttcctg
     1981 ctggtctgta tcagccgcct gaaatccgga gaagattccc cttcgccgga tgaacaaaaa
     2041 accatgacca tcacggctgc agagtttcat gatgcctttc ctgacatggg acggcagcac
     2101 gctgaagcta ggctcaagga agcgatagat cgcctctggg acaggtcagt aatcatcaag
     2161 aacgaggaaa aacgagaaga gttccgctgg gtgcagtacc gggcgcagta tttcaaaggt
     2221 gaggcgaaag tagagatcac cttctccgat gccatcatgc cgtatctgac acagctcaag
     2281 gggcagttta cgcgggtagt cgtgaagaac gtctccagcc tctccagcac ctacagcatc
     2341 cgcatttacg agctgctcca gcagttccgc agcaccggtg acagaacgat agctatcgat
     2401 gatttccgaa ccatgcttgc cgttgaagat aaatatcaac aattcaaaga cttgaataag
     2461 atgataatca agccagccat cgccgaactg aacgaaaaaa gcgatctggt tgtaacggtt
     2521 gagacgatca aaaaggggcg cacggttgta gccctgcatt ttcgcttcaa ggaagacaaa
     2581 cagatcaaga tgacgatcta gaatcgattt taaggcacct aaaacactcc ctgttgcgtt
     2641 ttttttgtgt tagtagtgcg aaggtactat tgaagtgaaa aattgcgtca aaaacgctct
     2701 gatgcagcga aaaaagaacc cccaattttt gggggcggaa aaacaaaact atgcttgcgt
     2761 tatgtgagtg tgcttcttgc attcatccct gtcgatgaac atcgacgaac ataacacgat
     2821 gttaaacaaa acaaaatatt gttcacattc actgtgacca accgcgatca tgtctcctct
     2881 cggtggcgtg tgttcgtgca tcttcctcgc gccgccattc gtcccaggta cgattgaaac
     2941 ccagcgagcg gaacagatga tccggctgtt tttctggtgt gttgacggca gcaaaaagcg
     3001 gtgcctcacg ggttttcaga tgaaactcca taagttccgg cgcaggtgat atgtggctgt
     3061 ctgcatcatg atttacggca acaccatacc ctgcataccg taacccctta tcggtcagtg
     3121 cactgatgac cagctggctg ttatcggctg agggaacggc aaacgcggga tacagcgtac
     3181 cattaagccg gacaacaccg cccagagagt catccacgcc catgaccagc aaaagctgaa
     3241 gctggcgggt ttcccggtcg acagaactca tgaccggcat cagcgtcggt ggcagacgtc
     3301 cctgcgtaaa atccaccttc cttgctgcca gtgatggcat ggctggctgg cggtcttctc
     3361 caagacagaa agactccggc catgtcttcg gttggcggag attgcgggta tgttgcggcc
     3421 atgtctggca aacctgcgtc agaagttgct caaaggtcgc agaggaataa acacgttgca
     3481 gtggtggata ttgaccgatt tcgcttcggt cacagatata accactcctg tcacgcatta
     3541 aatcaacact ctcaaagatc ctggtgcggt atttctccag ctcgttcccc cagagcgtat
     3601 attctccgtt ccggttgtga agcagaaggt aacaggtcat ttccccgtta ccaggcatgg
     3661 gagcctcgcc ataccccgta acgactgctc tcagcacccc tgaatccata acggcattgt
     3721 catttttcct gagctgctcc gcgcgactac gttctgtatc ctccagctcc ttccggcgca
     3781 attcctcttc acgtttaagc aactgggatc tgagagctgc aaggccggat tccccccact
     3841 gctgccactg tttttcaaat gccgtctgac tcgcgggaat gtcctgtttc tccagcttcc
     3901 ggtaatgctg tcgcaatttt tccatttgct ggctcagaga ctggattttt ccctgctcac
     3961 tacggtattc cggtgcagcc cattgcatca ggggaatacg ggaaaaaccg gacgaaaacg
     4021 gcgatgattt tttcaggctg gcagcatggc tcatcgcttc ct
//
