LOCUS       NZ_CP058884             4073 bp    DNA     circular CON 30-APR-2024
DEFINITION  Escherichia coli strain STLEFF_29 plasmid unnamed5, complete
            sequence.
ACCESSION   NZ_CP058884
VERSION     NZ_CP058884.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN13925558
            Assembly: GCF_022494075.1
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), 16 (2022)
   PUBMED   35078531
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 4073)
  AUTHORS   Che,Y.
  TITLE     Direct Submission
  JOURNAL   Submitted (06-JUL-2020) Civil Engineering, The University of Hong
            Kong, Pokfulam Road, Hong Kong 000000, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: SPAdes v. Unicycler 0.4.8
            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_022494075.1-RS_2024_04_30
            Annotation Date                   :: 04/30/2024 04:36:33
            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)                     :: 5,127
            CDSs (total)                      :: 5,009
            Genes (coding)                    :: 4,863
            CDSs (with protein)               :: 4,863
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 7
            Pseudo Genes (total)              :: 146
            CDSs (without protein)            :: 146
            Pseudo Genes (ambiguous residues) :: 0 of 146
            Pseudo Genes (frameshifted)       :: 49 of 146
            Pseudo Genes (incomplete)         :: 101 of 146
            Pseudo Genes (internal stop)      :: 22 of 146
            Pseudo Genes (multiple problems)  :: 25 of 146
            Pseudo Genes (short protein)      :: 4 of 146
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP058884.1.
            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="STLEFF_29"
                     /isolation_source="Stanley WWTPs_29 WWTPs effluent"
                     /db_xref="taxon:562"
                     /plasmid="unnamed5"
                     /geo_loc_name="Hong Kong"
                     /lat_lon="22.2 N 114.2 E"
                     /collection_date="2018-12"
     gene            complement(join(2866..4073,1..940))
                     /gene="mobQ"
                     /locus_tag="HZT24_RS25505"
                     /old_locus_tag="HZT24_25390"
     CDS             complement(join(2866..4073,1..940))
                     /gene="mobQ"
                     /locus_tag="HZT24_RS25505"
                     /old_locus_tag="HZT24_25390"
                     /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            1119..1373
                     /gene="mobC"
                     /locus_tag="HZT24_RS25510"
                     /old_locus_tag="HZT24_25395"
     CDS             1119..1373
                     /gene="mobC"
                     /locus_tag="HZT24_RS25510"
                     /old_locus_tag="HZT24_25395"
                     /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            1907..2608
                     /locus_tag="HZT24_RS25515"
                     /old_locus_tag="HZT24_25400"
     CDS             1907..2608
                     /locus_tag="HZT24_RS25515"
                     /old_locus_tag="HZT24_25400"
                     /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(583..941)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          942..1118
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          1908..2608
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(3..1027)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.368"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(2870..4071)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="94.815"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 cttcctttcg ttcggtgttc agctcttccc agcgtctgcg cgtcgcctgc atatctgcca
       61 tcatcgacat ggcattactg gtgagtttcc atgccgagtt actgtccttc ggcaacgctt
      121 cgataatgtc acgtagtgtg tacgaagttg cgttgtcagg aagcccgata ttcagaaggt
      181 cagccacacg gcgggcaggc tctgtcagcc ctccgttcct gagttcggtg cgggaaatct
      241 gtatttccag gttaagcctg ttaatcagac gattctgttc gccgcgttct gtttcgatac
      301 cgcgtgtttc catcgcacag gcagactttc cgaggtgaat accaggcgtt ttctcaagcc
      361 cctgtcgctc gtatgaacga tggtctatct cttcctgata accggcgttc gccagtgccc
      421 tgtttgcatg gtcagcccat gatgcccgcc acgtctcggc atgtgtccgg tcgttccagt
      481 ccctgacctt tccgctgaac ccagcaggtc cgatagccct cgtggtcagc atgatgtgcg
      541 catggggatt tgttttatcc atgtgatgga acgccacatc agcaatcatg ccctgactga
      601 caaagttttc tctgacaaag gcgagaacgg tttcccgtgc ggcatcctgc ggcagttcgt
      661 gggggatggc gagttcaatt tcccgcgcaa gttgtgagtt cttccggcgt tcggccttct
      721 caacggcatt ccagagttcg gcacggttcg tacaccaggc aggggcggtg gcgggggtca
      781 gaatcacagc ctcagccaca ccgcttttgc gggtgtagtc gtgagtcagt ccggtacgct
      841 catcaagcat cagtgaaccg gaacgatagg cagcggaagc tacggcgctg tagccgctgc
      901 ttctggagat aattttcatg ctgagatgat aaatcgccat ttctgccgta atgccttttt
      961 gtagttttct ttcagccccg cagggcgcac acaatcgaaa cggagtggag attgtataag
     1021 tgcgcacttc gtgatttgcc gtgcattatg ccagctcagt ttttaaacta ccagtgacgc
     1081 gctaaaatgc gatttttcat cgcgcacgga gttacatcat gagcagaacg ctcgaacaga
     1141 agattgctga tgctgaggcg agattacagc gcctgaaggc gaagagccgg agcctggaca
     1201 cagcgcagaa ggttgttgtg ggtgctgcat tgctggcaaa ggtcagaaag ccggaggagg
     1261 tgcagttgcg tgcctggtta ctccagttcc tgaaggcaga ggtgacacga caggctgatg
     1321 tgacgcgcat actgccgctg attaacgagc tggaggcgct gccagaacag tgattgtatc
     1381 gtccgatcgc cgcagcccca gcgaccgagc gttagcgagc gagtgggcga ggaagcggaa
     1441 gtgaatcagt cgccaggttg agcacatacg cacggttttt cggcaggtga tatgcgctga
     1501 acccgcatga atactgggtt tccacagggt tggagggggt gtattcgaaa cttgcaattc
     1561 tgctttattg caacgcattg tttttattgg ttttttgttt tcagcacccc aagttatcca
     1621 caggctcgcc gttaagtttt taagatctta tttttagatc ttttttttta aaaccttttt
     1681 aggtcttgta acaccatgat tttaaagatg ttctggcaag ataagtggag cttttggggg
     1741 tgaaaggtgg agcttttggg ggtgaaaggt ggagcttttg ggggtgaaag gtggagcttt
     1801 tgggggtgta atccacagaa aaagggggtt gcaaaaaaaa aacttccacc catatgataa
     1861 gtggcgtaca gtaaaaaaac gccaccaata gcaacgagca agcgaaatgt cagatctgat
     1921 agcttacaaa tcaaacgccc ttatcgaggc aagctacaag ctcactttgc aggaacagcg
     1981 cttcctgctg gtctgtatca gccgcctaaa atccggagaa gattcccctt cgccggatga
     2041 acaaaaaacc atgaccatca cggctgcaga gtttcatgat gcctttcctg acatgggacg
     2101 gcagcacgct gaagctaggc tcaaggaagc gatagatcgc ctctgggaca ggtcagtaat
     2161 catcaagaac gaggaaaaac gagaagagtt ccgctgggtg cagtaccggg cgcagtattt
     2221 caaaggtgag gcgaaagtag atatcacctt ctccgatgcc atcatgccgt atctgacaca
     2281 gctcaagggg cagtttacgc gggtagtcgt gaagaacgtc tccagccttt ccagcaccta
     2341 cagcatccgc atttacgagc tgctccagca gttccgcagc accggtgaca gaacgatagc
     2401 tatcgatgat ttccgaacca tgcttgccgt tgaagataaa tatcaacaat tcaaagactt
     2461 gaataagatg ataatcaagc cagccatcgc cgaactgaac gaaaaaagcg atctggttgt
     2521 aactgttgag acgatcaaaa aggggcgcac ggttgtagcc ctgcattttc gcttcaagga
     2581 agacaaacag atcaagatga cgatctaaaa tcgattttaa ggcacctaaa acgctccctg
     2641 ctgcgttttt tttgtgttag tagtgcgaag gtactattga agtgaaaaat tgcgtcaaaa
     2701 acgctctgat gcagcgaaaa aagacccccc aatttttggg ggcggaaaaa caaaactatg
     2761 cttgcgttat gtgagtgtgc ttcttgcatt catccctgtc gatgaacatc gaagaacatc
     2821 gaagaacata acacgatgtt aaacaaaaca aaatattgtt cacattcact gtgaccaacc
     2881 gcgatcatgt ctcctctcgg tggtgtgtgt tcgtgcatct tcctcgcgct gccattcctc
     2941 ccaggtacga ttaaaaccca gcgagcggaa cagatgatcc ggctgttttt ctggtgtgtt
     3001 gacggcagca aaaagcggtg cctcacgggt tttcagatga aactgcatca gttctggtgc
     3061 aggtgatatg tggctgtctg catcgtgatt tacggcaaca ccataccctg cataccgtaa
     3121 ccccttatcg gtcagcgcac tgatgaccag atgcctgtta tcggctgagg gaacggcaaa
     3181 cgcgggatac agcgtaccat taagccggat aacaccgccc agagagtcat ccacgcccat
     3241 gaccagcaaa agctgaagct ggcgggtttc ccggtcgaca gaactcatga ccggcatcag
     3301 cgtcggtggc agacgtccct gcataaaatc caccttcctt gccgctggtg atggcatggc
     3361 tggctggcgg tcttctccaa gacagaaaga ctccggccat gtcttcggct ggcggagatt
     3421 gcgggtatgt tgcggccatg tctggcaaac ctgcgtcagc agttgctcaa aggttgcaga
     3481 ggaataaaca cgttgcagtg gcggacgttg gccgatttcg cttcggtcac agatataacc
     3541 actcctgtca cgcattaaat caacactctc aaagattctg gtgcggtatt tctccagctc
     3601 gttcccccag agcgtatatt ctccgttccg gttgtgaagc agaaggtaac aggtcatttc
     3661 cccgttacca ggcatgggag cctcgccata ccccgtaacg actgctctca gcacccctga
     3721 atccataacg gcattgtcat ttttcctgag ctgctccgcg cgactacgtt cagtatcttc
     3781 ctgttccttc cggcgcaatt cctcttcacg tttaagcaac tgggctctga gagctgcaag
     3841 gccggatttc ccccactgct gccactgttt ttcaaatgcc atctgactcg cgggaatgtc
     3901 ctgtttctcc accttccggt aatgctgtcg taatttttcc atttgctggc tcagagactg
     3961 gatttttccc tgctcactac ggtattccgg tgccgcccat tgcatcaggg gaatacggga
     4021 aaaaccggac gaaaacggcg atgatttttt caggctggca gcatggctca tcg
//
