LOCUS       NZ_CP049105             6063 bp    DNA     circular CON 12-JUN-2023
DEFINITION  Escherichia coli strain EC28 plasmid p5, complete sequence.
ACCESSION   NZ_CP049105
VERSION     NZ_CP049105.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN14149865
            Assembly: GCF_011044355.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 6063)
  AUTHORS   He,F.
  TITLE     Genomic and phylogenetic analysis ESBL-producing Escherichia coli
            ST429 strain isolated from a urinary tract infection
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 6063)
  AUTHORS   He,F.
  TITLE     Direct Submission
  JOURNAL   Submitted (21-FEB-2020) Department of Clinical Laboratory, Zhejiang
            Provincial People's Hospital, 158 Shangtang Road, Hangzhou, Zhejiang
            310014, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v. 0.4.7
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 250.0x
            Sequencing Technology :: Oxford Nanopore GridION; Illumina NextSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/12/2023 02:51:02
            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)                     :: 5,169
            CDSs (total)                      :: 5,056
            Genes (coding)                    :: 4,878
            CDSs (with protein)               :: 4,878
            Genes (RNA)                       :: 113
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 178
            CDSs (without protein)            :: 178
            Pseudo Genes (ambiguous residues) :: 0 of 178
            Pseudo Genes (frameshifted)       :: 65 of 178
            Pseudo Genes (incomplete)         :: 121 of 178
            Pseudo Genes (internal stop)      :: 32 of 178
            Pseudo Genes (multiple problems)  :: 36 of 178
            Pseudo Genes (short protein)      :: 4 of 178
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP049105.1.
            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..6063
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="EC28"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p5"
                     /geo_loc_name="China:Hangzhou"
                     /collection_date="2018-06-03"
                     /collected_by="Fang He"
     gene            1..720
                     /locus_tag="G5V60_RS25635"
                     /old_locus_tag="G5V60_25600"
     CDS             1..720
                     /locus_tag="G5V60_RS25635"
                     /old_locus_tag="G5V60_25600"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012561120.1"
                     /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_001749982.1"
                     /translation="MDKLLNKKIKVKQSNELTEAAYYLSLKAKRVLWLCLMQTYFTASV
                     SEDDDEMAVLGDSTFKVKVADYEQIFQVSRNQAIKDVKEGVFELSRSAVIFYPKEGSFD
                     CVARPWLTEAGSRSARGIWEIEFNHKLLRYIYGLTNQFTTYSLRDCGSLRNPRTIRLYE
                     SLAQFKSSGLWVTTHAWLNDRFLLPESQQKNLAELKRSFLDPALKQINEKTPLLAKYSI
                     DDSGKFLFSIIDKQNPV"
                     /name="replication initiation protein"
     gene            complement(1450..2019)
                     /locus_tag="G5V60_RS25640"
                     /old_locus_tag="G5V60_25605"
     CDS             complement(1450..2019)
                     /locus_tag="G5V60_RS25640"
                     /old_locus_tag="G5V60_25605"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001749988.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA];
                     GO:0000150 - DNA strand exchange activity [Evidence IEA]"
                     /GO_process="GO:0006310 - DNA recombination [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="recombinase family protein"
                     /protein_id="WP_001749988.1"
                     /translation="MKIGYARKSTHLQDVAHQVDELTKAGCEQIYQDQTSRSGPKRDKK
                     GAPELENCLKALREGDTLVVWALDRLGGSLGQVITLLDDLKKRGITFIAIKDRIDTNAP
                     VIGEIYTHLMAIFSSFERNRNIERTRSGLAAARARGRVGGRKPSLSEEDVKQIRILLAD
                     PEMTVGAVAKRFNVSRMTIYRYTTKS"
                     /name="recombinase family protein"
     gene            2348..3052
                     /locus_tag="G5V60_RS25645"
                     /old_locus_tag="G5V60_25610"
     CDS             2348..3052
                     /locus_tag="G5V60_RS25645"
                     /old_locus_tag="G5V60_25610"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221000.1"
                     /GO_function="GO:0004803 - transposase activity [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="IS6-like element IS26 family transposase"
                     /protein_id="WP_001067855.1"
                     /translation="MNPFKGRHFQRDIILWAVRWYCKYGISYRELQEMLAERGVNVDHS
                     TIYRWVQRYAPEMEKRLRWYWRNPSDLCPWHMDETYVKVNGRWAYLYRAVDSRGRTVDF
                     YLSSRRNSKAAYRFLGKILNNVKKWQIPRFINTDKAPAYGRALALLKREGRCPSDVEHR
                     QIKYRNNVIECDHGKLKRIIGATLGFKSMKTAYATIKGIEVMRALRKGQASAFYYGDPL
                     GEMRLVSRVFEM"
                     /name="IS6-like element IS26 family transposase"
     gene            <3106..4206
                     /gene="mucB"
                     /locus_tag="G5V60_RS25650"
                     /old_locus_tag="G5V60_25615"
                     /pseudo=""
     CDS             <3106..4206
                     /gene="mucB"
                     /locus_tag="G5V60_RS25650"
                     /old_locus_tag="G5V60_25615"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_032488541.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="translesion error-prone DNA polymerase V subunit
                     MucB"
                     /name="mucB"
     gene            4357..5148
                     /locus_tag="G5V60_RS25655"
                     /old_locus_tag="G5V60_25620"
     CDS             4357..5148
                     /locus_tag="G5V60_RS25655"
                     /old_locus_tag="G5V60_25620"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012561121.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="SprT-like domain-containing protein"
                     /protein_id="WP_001452808.1"
                     /translation="MNLPTPETYDELQRAYDFFNEKLFSNELPPCLITLQREKRTYGYC
                     SFKRFVGRESGYTVDEIAMNPVYFSIRTIKATLSTLVHEMVHQWQFHFGEPGRRGYHNK
                     QWAARMERVGLMPSDTGEPGGRKVGQSMTHYIIAGGPFDMACDELLTGHFRLSWMDRFP
                     PYQPKPGAVLSPTGKGYIDDEEDDSEHEQEVEEGRDPVELDDEIIEAMRFVTPPPEAPV
                     NKTNREKYSCPVCHINLWGKPGIVVYCGGEHCNKAALVVLK"
                     /name="SprT-like domain-containing protein"
     gene            complement(5163..5504)
                     /gene="ardK"
                     /locus_tag="G5V60_RS25660"
                     /old_locus_tag="G5V60_25625"
     CDS             complement(5163..5504)
                     /gene="ardK"
                     /locus_tag="G5V60_RS25660"
                     /old_locus_tag="G5V60_25625"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000057569.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="antirestriction protein ArdAB regulator ArdK"
                     /protein_id="WP_000057569.1"
                     /translation="MAQKNRISETEWKQLLPQMASFAHITTDIGYSVLVKGEKSSDVAT
                     RVGRSKQNISSTVKRIWDLYQNTTLKAENGEPLKLVQVWIPASLAETVLKEAAKYSINN
                     ITTSEMEKK"
                     /name="ardK"
     Typing          2..720
                     /name="IncN"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.583"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atggataagt tgctgaacaa aaagataaaa gttaagcagt ctaacgagct taccgaagct
       61 gcttactacc tctcgctaaa agcaaagcgc gttctctggt tatgtcttat gcagacgtat
      121 ttcacagctt cagtaagcga agatgatgat gagatggctg tactcggtga ctctactttc
      181 aaagtaaagg tggctgacta tgagcaaatt tttcaggtaa gccgtaacca ggctatcaag
      241 gatgttaaag aaggcgtgtt tgagttaagc cgttctgcgg taatctttta cccgaaagaa
      301 ggaagttttg actgcgtcgc gcgcccctgg ctaacagagg ctggcagccg atcagctcgt
      361 ggtatctggg aaatcgaatt taaccataaa ctcctgcggt acatttacgg cctgacgaac
      421 cagttcacca cctactcgct ccgcgattgt ggcagtcttc gaaatccacg gacgatccgc
      481 ctttatgaaa gtcttgctca attcaaatct tcaggcttat gggttactac tcatgcttgg
      541 ttaaatgacc gtttcctttt gccggaatcc caacagaaga acttggcaga gttgaaacga
      601 tctttccttg atcctgcact caagcagata aatgagaaaa cacctttact tgctaagtat
      661 agtattgatg attcaggaaa atttctgttc tcaataattg ataagcaaaa tcccgtctga
      721 cataaatcag cacacatgag cctgtcattt gacaaatttt tgtcatgaag atgggcgaat
      781 ttccacacag caccggcgcc cggcaaggtg ggcggattcc cacacggcac cggcgcccgg
      841 caaggtgggc ggattcccac acggcaccgg cgcccggcaa ggtgggcgga tttccacacg
      901 gcaccggcac ccggcaaggt gggcggattc ccacacggca ccggcgcccg gcaaggtggg
      961 cggatttcca cacagcaccg gcgcccggca aggtgggtgg attcccacac ggcaccggcg
     1021 cccggtaagg tgggcggatt tccacacgac agcggcgccc ggcaagatgg gcggattccc
     1081 atatcgacat gtatgtagct tgtgttatcc gtggattgtg cagctcagcg ggtcgctggt
     1141 cgtatggcgt agtgtccccc gtaaccggcc gcgtgcggcc gctaactcgc agtacggcgc
     1201 cgcgacccga aggcgggccg ccgttcccgc gcgcaggcgc gcggcgccca ctgcgcaccc
     1261 ccgtggggga catacggcag ctgtgtggcg gtgagcggga ttagggcttt gcagggaggg
     1321 ggctgggtcg ggcgatacgt tcagcattgc ggtttccggc gatttgcggc cggtgcccgt
     1381 ttaactccgg cgtggtcgcc ttccatgccc tgacggcata agaaaataaa accgccatgc
     1441 tgcggtcatt catgattttg tggtgtagcg ataaatagtc atgcgagaaa cgttgaagcg
     1501 cttagcaact gcaccaactg tcatttcagg atcagcaagt aagattctaa tttgtttaac
     1561 atcttcttca gaaagtgacg gttttctccc tcccacacgg ccccttgcgc gtgcagctgc
     1621 aaggcctgag cgcgttcttt caatattgcg gttgcgttca aagctagaga atatcgccat
     1681 cagatgagta tagatttccc ctataactgg cgcatttgtg tctattctgt ccttgatggc
     1741 tatgaaagtt attccgcgtt tcttcaggtc gtcgagtaaa gtaatgactt gacccaatga
     1801 accgccgagc cgatctagtg cccaaactac tagggtatct ccctcgcgca atgctttcag
     1861 gcagttctcc agttccggcg cacctttttt gtcgcgcttt gggccgctac gtgaggtctg
     1921 atcctgatag atttgctcac atccagcttt tgttagttcg tcaacctggt gcgccacatc
     1981 ctgaagatgc gtagatttac gtgcatagcc gattttcatt cttttctcgc taattagtta
     2041 tggggttatt gttatgttga tacagtaacg agttttgtta catgagggga gtcatttttc
     2101 gggagaagtc aggacttttc aagactgtca caaaaaccat cgtttttgat acattaattt
     2161 aaccaatagg ttgcagatca aatcgcctgt aacagccttt ctggctgttt gtcgttttca
     2221 gaagacggct gcactgaacg tcagaagccg actgcactat agcagcggag gggttggatc
     2281 catcggcact gttgcaaata gtcggtggtg ataaacttat catccccttt tgctgatgga
     2341 gctgcacatg aacccattca aaggccggca ttttcagcgt gacatcattc tgtgggccgt
     2401 acgctggtac tgcaaatacg gcatcagtta ccgtgagctg caggagatgc tggctgaacg
     2461 cggagtgaat gtcgatcact ccacgattta ccgctgggtt cagcgttatg cgcctgaaat
     2521 ggaaaaacgg ctgcgctggt actggcgtaa cccttccgat ctttgcccgt ggcacatgga
     2581 tgaaacctac gtgaaggtca atggccgctg ggcgtatctg taccgggccg tcgacagccg
     2641 gggccgcact gtcgattttt atctctcctc ccgtcgtaac agcaaagctg cataccggtt
     2701 tctgggtaaa atcctcaaca acgtgaagaa gtggcagatc ccgcgattca tcaacacgga
     2761 taaagcgccc gcctatggtc gcgcgcttgc tctgctcaaa cgcgaaggcc ggtgcccgtc
     2821 tgacgttgaa caccgacaga ttaagtaccg gaacaacgtg attgaatgcg atcatggcaa
     2881 actgaaacgg ataatcggcg ccacgctggg atttaaatcc atgaagacgg cttacgccac
     2941 catcaaaggt attgaggtga tgcgtgcact acgcaaaggc caggcctcag cattttatta
     3001 tggtgatccc ctgggcgaaa tgcgcctggt aagcagagtt tttgaaatgt aaggcctttg
     3061 aataagacaa aaggctgcct catcgctaac tttgcaacag tgcccttcaa agtcagaccc
     3121 ataatcgagc gtcataacat cgctattttt agctctaatt acactctcta tgcctccatg
     3181 tcggcccggt tcgcggccgt agttgagtcc cttgcaagcc acgtcgaaca gtattcaatc
     3241 gacgagcttt ttgttgactg caaagggata acggccgcca tgagccttga cgctttcggg
     3301 cgccaactgc gcgaggaagt caggcgacac acaacgctgg tatgcggggt cggtattgcc
     3361 cgtactaaga cgctggcgaa gctgtgtaac cacgctgcaa aaacatggcc cgctactggc
     3421 ggggtggttg ctctggacga tggcgccaga ctgaagaaat taatgagcat cctgccggtt
     3481 gcggaagtct ggggcgtcgg ccatcgtaca gagaaagcac tcgccacaat ggggatcaaa
     3541 acggtgctgg atttagccag ggcagatacg cgcctaatcc gtaagacgtt tggtgttgtg
     3601 cttgaaagaa cggtacggga gctacgcggc gaggcttgct tcagcctgga agaaaaccct
     3661 ccggcgaagc agcagattgt tgtatcgcgc tcattcggcc aacgcgtagt agccctggcg
     3721 gatatgcagc aggcgatcac cggatttgca gcgcgcgcag ctgaaaaact gcgtaatgag
     3781 cggcaatact gccgcgtcat aagcgtcttt atccgcacca gtccttattc agtgcgtgat
     3841 acacagtatg ccaatcaggc aaccgaaaaa ctgacggtgg caacccagga cagccgcacg
     3901 ataattcagg cggcacaagc cgcgctggcg cggatctggc gggaagatat tgcgtatgca
     3961 aaagcaggga tcatgctggc cgatttcagc ggaaaggagg cccagctgga tttattcgac
     4021 tctgctacgc cttcagctgg cagcgaggcg ttaatggctg ttctcgatgg cataaaccgg
     4081 cgtggcaaga gccagctgtt ttttgcaggc cagggcatcg ataactcctt tgccatgcgc
     4141 cgtcagatgt tgtcacctga ttacacgaca gactggcgct cgataccaac agcaaccatc
     4201 aaataattac cggcgccgca cgcgggccgg tcaacccctc aaccggccga aacgagtttc
     4261 ggcgcggttt cgcggttttc ggtaaaaggc gtttcatctg tataaaagat cagctaaatt
     4321 atgtgtattg cacaatacat atatgtgagg ttaacagtga atttgcctac gcccgaaacc
     4381 tacgatgaac ttcagagagc ctacgatttt tttaatgaga agctattcag caacgagctg
     4441 ccgccatgcc tgataacgtt gcagcgtgag aagcgaacgt atggctattg ttcctttaag
     4501 cgtttcgtcg gccgtgagag tgggtacacg gtagacgaga tcgctatgaa tccggtgtat
     4561 ttctcgatca gaaccataaa ggccacgctt tcaacactgg tgcatgagat ggttcatcag
     4621 tggcaattcc attttggcga gcctggccgc cgtggctatc acaacaaaca gtgggcggcc
     4681 cggatggaac gggtaggact aatgccttct gataccggcg aaccgggagg caggaaagtg
     4741 ggccagagca tgacccatta tattattgcc ggtggccctt tcgatatggc ctgtgatgaa
     4801 ctgctgacag gccatttccg gctttcctgg atggacaggt ttccgcctta ccagcctaag
     4861 cctggcgctg tgctaagccc tacaggaaaa ggctatattg acgacgagga agatgatagc
     4921 gaacacgaac aggaggtgga ggaagggcgc gacccggttg aactcgacga cgagatcata
     4981 gaggccatgc gatttgtaac cccgccgcct gaagcgccgg tgaacaaaac aaaccgggaa
     5041 aagtacagct gcccggtgtg tcatatcaat ctctggggta aaccggggat agtggtttac
     5101 tgtggtggcg agcactgtaa taaagccgcg ttagtagtct taaaataaag tcctttcgga
     5161 ctttattttt tttccatttc cgaggtcgtg atgttattaa tgctgtactt cgcggcttct
     5221 tttaaaacag tttcagcaag gcttgctggt atccagacct gaactaattt taatggttcg
     5281 ccgttctcgg ctttaagagt ggtgttctgg tacaaatccc agattcgctt aacggtgctg
     5341 gaaatgtttt gcttggaacg gcctactcgc gtggctacgt ctgatgattt ctcacctttg
     5401 acaagcacgg aatagccaat atctgttgtg atgtgtgcaa aggaagccat ttgcggcagc
     5461 agctgtttcc attctgtttc tgaaattctg tttttctgag ccatctgtgg cgcctccgta
     5521 gttttggtta cagaaaggat atactcagaa taaactgggg tcaatacaag tacgattttt
     5581 ataaacttta ttttatttga gggtgaggcc cggtgcggca gcagcgcggg cctcgatggt
     5641 gccgcgaagg tgctggcgcc atgcttggat taaaacatga accgtgaaga actgcgaaac
     5701 ttgttttcgc ggttctgagg ggttgaccga gccgcgaagc ggcgctggta agcgatgata
     5761 tgcacatatc cacaggcata tttttaaaag gtattttata gattttttat ctttttaaag
     5821 tcttttagag ctatataact cattgattta aaatcataaa taagtgttat ctctgggaat
     5881 ccgcccacct tgttatggga attggcccac ctatctatgg gaaacacccc accttactat
     5941 gggaattagc ccaccttgtt atgggaattg gcccacctta gacgaaactg taaaaaatgt
     6001 atttacttgt ttgaactttg tggtagtgtg gagagtaatt tttaacccac aaaggcaagg
     6061 ctc
//
