LOCUS       NZ_CP060973             4693 bp    DNA     circular CON 24-MAY-2024
DEFINITION  Escherichia coli strain EC5 plasmid pEC5-5, complete sequence.
ACCESSION   NZ_CP060973
VERSION     NZ_CP060973.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15904650
            Assembly: GCF_022559285.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4693)
  AUTHORS   Ruan,Z.
  TITLE     Complete genome sequence of carbapenem resistant Escherichia coli
            isolates
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4693)
  AUTHORS   Ruan,Z.
  TITLE     Direct Submission
  JOURNAL   Submitted (30-AUG-2020) Department of Clinical laboratory, Sir Run
            Run Shaw Hospital, School of Medicine, Zhejiang University, 3
            Qingchun East Road, Hangzhou, Zhejiang 310016, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x
            Sequencing Technology             :: Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_022559285.1-RS_2024_05_24
            Annotation Date                   :: 05/24/2024 04:22:39
            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)                     :: 5,043
            CDSs (total)                      :: 4,926
            Genes (coding)                    :: 4,655
            CDSs (with protein)               :: 4,655
            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)              :: 271
            CDSs (without protein)            :: 271
            Pseudo Genes (ambiguous residues) :: 0 of 271
            Pseudo Genes (frameshifted)       :: 84 of 271
            Pseudo Genes (incomplete)         :: 176 of 271
            Pseudo Genes (internal stop)      :: 51 of 271
            Pseudo Genes (multiple problems)  :: 36 of 271
            CRISPR Arrays                     :: 3
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP060973.1.
            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..4693
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="EC5"
                     /isolation_source="wound"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pEC5-5"
                     /geo_loc_name="China: Hangzhou"
                     /collection_date="2016-03-18"
                     /collected_by="Long Sun"
     gene            complement(208..609)
                     /locus_tag="H9193_RS25080"
                     /old_locus_tag="H9193_24840"
     CDS             complement(208..609)
                     /locus_tag="H9193_RS25080"
                     /old_locus_tag="H9193_24840"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_009310048.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_024623230.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQLKGEHHSGQVSEQRDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(609..800)
                     /locus_tag="H9193_RS25085"
                     /old_locus_tag="H9193_24845"
     CDS             complement(609..800)
                     /locus_tag="H9193_RS25085"
                     /old_locus_tag="H9193_24845"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000166328.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_064765249.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDAEADLCEKLHDDA
                     EHLFRTLTSRLDALQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            1206..1319
                     /locus_tag="H9193_RS25340"
                     /pseudo=""
     CDS             1206..1319
                     /locus_tag="H9193_RS25340"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /note="internal stop; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /name="replication initiation protein"
     gene            1663..2778
                     /locus_tag="H9193_RS25090"
                     /old_locus_tag="H9193_24850"
     CDS             1663..2778
                     /locus_tag="H9193_RS25090"
                     /old_locus_tag="H9193_24850"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_019405083.1"
                     /GO_function="GO:0005524 - ATP binding [Evidence IEA];
                     GO:0016887 - ATP hydrolysis activity [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="ATP-binding protein"
                     /protein_id="WP_064765252.1"
                     /translation="MIKEISLKNFKCFNELHLKQLKTLNIIAGKNNYGKTSILDAIFCF
                     YDVKNPAVLLNIQAFRKEMAEINKNKPFWVSYFHDMDTSQKMSIVIRDERSEVTQTYET
                     ETNQRLESSLSLNVDTVLSNQNIPRQTIGSQATVNSLKINVTETPNAKSRVSNKLFSMQ
                     LKEDGVEIKSEIKNERDGVNYKFKTATIITTSRKINKEATITNVSNLLTQKRKKDILEN
                     LRKIDDRIVDIAISAIGNNKEIYLDIGFSELNEISMLGEGISRALSFISSVLVQENSII
                     LIDEIENGIHYSVIKDIIKSLISSAKQNNNQIFATTHSQDVIRAINEIDSKNEDIAYIR
                     LGREKNSLKPTAVQFNMNDFSYSVENDWEVR"
                     /name="ATP-binding protein"
     gene            2778..3410
                     /locus_tag="H9193_RS25095"
                     /old_locus_tag="H9193_24855"
     CDS             2778..3410
                     /locus_tag="H9193_RS25095"
                     /old_locus_tag="H9193_24855"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012579086.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF3226 domain-containing protein"
                     /protein_id="WP_064765251.1"
                     /translation="MKNINNSKKIIFVEGDDDFHFLCNLLEIQGITDVFVEKINGKSKL
                     KQALRAFKNIESFDEKESIFIILDADTSFTDTERSIIATLRELQISTPSAHNEIAMNGN
                     TKISFFIMPGKDKPGAIEDLIIEHASTRALYEYIIEFFEKIKNNKDNISASDEEYTYPT
                     NEKKAKVQVYLSCNRESDSRIGISMKNGIINTADNCFDEIKSFISKI"
                     /name="DUF3226 domain-containing protein"
     gene            3851..4060
                     /locus_tag="H9193_RS25100"
                     /old_locus_tag="H9193_24860"
     CDS             3851..4060
                     /locus_tag="H9193_RS25100"
                     /old_locus_tag="H9193_24860"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005227293.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="YdgH/BhsA/McbA-like domain containing protein"
                     /protein_id="WP_064765250.1"
                     /translation="MKTIKTFVAVATLSMMSFGAFAQSVSATASTLDRAEAKIAAQAAE
                     QGASYKITSAQFNNRVHMTAELTK"
                     /name="YdgH/BhsA/McbA-like domain containing protein"
     Typing          849..1319
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="90.103"
                     /coverage="92.0"
                     /evalue="1.6299999999999998e-172"
ORIGIN
        1 acgacttgga ttcaccttac agaaagtaat actgcgtaat ttaataacca acaactaact
       61 gatattaatg ggttatcttc aaaattttaa ttttgcgtgg ggtgtgggta tttttagtgg
      121 tgaggagcgt tcagagatct gacgattttt gggaaggttc aggaactccc cggaatggcc
      181 ggagaggaaa actaaagcat gacggggtca ggattttttc cagaatttcc accatggcgc
      241 cggggattca gttaattttg cctggtgatt ttcaagaagg agcatggcct gtttcaggct
      301 gtcaatgtgc gaatccttgg acaaaagtaa ggtgttcagg tgttcaatct cctgtttcag
      361 atgacgaatc acctgttcac tctggtcagc agaggctgta tcacgctgtt cagagacctg
      421 tccagaatgg tgttcaccct tcagttgttc aaagggacca aagacacgta aaagctctga
      481 agtatctacc atttttgcat tacgttcacc gctacaggtg gacaggtcac ctgctttaat
      541 taacctgtgc agtgttgttc tactcttacc cgtcagtcgg gcagcctcac taatagacac
      601 tctggccatc agttaccatc ctgtaatgca tccagtctcg aggtcagtgt acggaaaaga
      661 tgctccgcat catcgtggag tttctcacaa aggtcggcct cagcatcaag atcaagctcg
      721 ttaagcttct ccagcaggag cagagactga ttctggatga atttagccat gttcagcgct
      781 gttttctgtt gtttcgtcat aagaggcctc ggagcgtcag tgctcagtgt aaaaccagtc
      841 tcttttccgc ttcctcgccc actcagtcgc tacgctcctg ccgttcggct gcggcgagcg
      901 gtcgcaacgc gcacataacg acatagagca gacagcacgg agagggagaa ggcagcacag
      961 cggccgtttt tccataggct ccgcccccct gacaagcatc acagaatctg acgctcaaat
     1021 cagtggtggc gaaacccgac aggactataa agataccagg cgtttccccc tgatggctcc
     1081 ctcgtgcgct ctcctgttcc tgccattcgg tttaccggtg tcattccgct gtttatggcc
     1141 gcgtttgtct cattccacgc ctgacactca gttccgggaa ggcagttcgc tccaagctgg
     1201 actgtatgca cgaacccccc gttcagtcct actgctgcgc ctaatccggt aactatcgtc
     1261 ttgagtccaa cccggaaaga cacgacaaag cgccactggc agcagccact ggtaactgat
     1321 ttagggagtt agtcttgaag ttatacgcca gttaaggcta aactaaacga acagttttgg
     1381 tgactgcgct ccctttaagc cagttacctc ggttcataga gcgccaactc tactgaacct
     1441 ttcgaaaaaa ccgcccgtca aggcggtttt ttcgttcaca gccggaagct tacggctgct
     1501 gccagataat ctcaagaaga aagtaaaaaa aatcgattaa aacacaagca atcaaagtta
     1561 atctttgaca taaagtctag ctaatcacaa tgaaagctgt acattttatt aaggcactaa
     1621 caaatcgtat ggcatataac aaaaacacga acagaggcta tcatgataaa ggaaataagt
     1681 ttaaagaatt tcaaatgctt caatgagcta catctaaagc aattaaagac tttaaatatc
     1741 atagctggga aaaacaacta cgggaaaacc tctatactgg atgctatatt ttgtttttat
     1801 gatgtaaaaa acccagccgt cttgttaaac attcaagcat tcagaaaaga aatggcagaa
     1861 ataaacaaaa acaagccatt ttgggttagt tactttcacg acatggacac atcacaaaag
     1921 atgtccatag tcattcgaga tgaacgctct gaagtaacac aaacatatga aacagaaaca
     1981 aatcagagac tagaatcaag tttatctcta aacgttgaca ccgtactatc taaccaaaac
     2041 atacctcgtc aaactatcgg ttctcaggcc acagtaaact cgttaaaaat aaacgtgacc
     2101 gagacaccca atgcaaaaag cagagtttcc aataagcttt tctctatgca attgaaagaa
     2161 gatggcgtag aaataaaatc agaaataaaa aacgaaagag atggggttaa ttataaattt
     2221 aagacagcaa cgataataac aacatccaga aagataaaca aagaggcaac aattacaaat
     2281 gtatcaaatc tactaacaca aaaaagaaaa aaagatatat tagaaaactt aagaaaaata
     2341 gatgacagaa ttgtagatat agcaatatct gcaataggta acaacaagga aatatattta
     2401 gacattggct ttagcgagct aaatgaaata tcaatgcttg gcgagggtat cagtcgagca
     2461 ttatctttca ttagctcagt attggtacag gaaaactcaa ttattcttat tgatgaaatc
     2521 gagaacggaa tacattactc agtaattaaa gacataataa aatcattaat ttcatctgca
     2581 aaacaaaaca acaatcaaat atttgcaaca actcatagtc aagatgtgat acgagcaata
     2641 aacgaaatag atagcaaaaa tgaagacatc gcttacatta gactaggaag agaaaagaac
     2701 tccctaaaac caacagccgt acaattcaat atgaatgatt tttcctactc ggtagagaac
     2761 gactgggagg tcagataatg aaaaacataa acaatagcaa gaagatcatt tttgttgagg
     2821 gtgatgatga ttttcatttt ctatgcaacc tacttgaaat acaaggcatt accgatgttt
     2881 ttgtcgagaa gataaatgga aaatcaaaat taaaacaagc acttagagca ttcaaaaaca
     2941 ttgagtcttt cgatgaaaaa gaaagcattt ttattatatt agatgctgat acatcattta
     3001 ctgacacaga aagatcaata attgccacat tgcgagaact acaaatctcc acccccagcg
     3061 cgcataacga aatagctatg aatggcaata caaaaatttc tttctttata atgccaggaa
     3121 aagacaagcc aggtgccatt gaagatctga taattgaaca cgcaagcact cgagcgttat
     3181 atgaatacat aatagaattc ttcgaaaaaa tcaaaaataa taaagacaac atctcagcga
     3241 gtgacgaaga gtacacttat ccaaccaacg aaaaaaaagc taaggtacaa gtctatctta
     3301 gctgcaatag agaatccgac tcaaggatag gaatatccat gaaaaatgga ataataaaca
     3361 cagcagacaa ttgttttgat gaaataaaaa gttttatttc aaaaatataa atcaaaatta
     3421 agccagccct tcacaggctg gcttatccca gagcgttatt aaacgccgga taacgtatag
     3481 aaagcatcat atactttagt tatcagtaat ctcaaacgtc ctcaagacat caccagatgc
     3541 caaaacaatg attgtgcaaa tctaatgtaa aagacccagc acaaggcgct cccttaagtt
     3601 atattctctc tattcactta aaaaaatttt acataagacc ataattttac gacccctcga
     3661 ggctattcat cctgcccacc cctaaatcag agtctcacac ctggttttga tgtgctcatt
     3721 tttttgttct atttttttga atgatatccg caaattgttt cgattttaat cagctcatgg
     3781 tcgccctatc atttatcaca tcagggcaac aacgccccat acagaacaaa attacttaag
     3841 gaatacgacc atgaaaacca tcaaaacttt cgttgcagtt gccactctat ccatgatgtc
     3901 tttcggtgcg tttgctcaga gcgtcagcgc taccgcctcc accctggatc gtgctgaagc
     3961 aaaaattgcc gcacaggccg ctgaacaagg tgcgtcatac aaaatcacca gcgctcagtt
     4021 caataaccgt gtccacatga cggctgaact gaccaaataa gatggtcgca gagggagctg
     4081 ccgaacaggt cgccggaagg cggcccgttt cgccccttag caggaaaacc ttcaggcccc
     4141 ttcggggctt ttttgcatct atcatttaac ataaagccat gattgtacgc accgctaaaa
     4201 cggcctcagg gcgtttctga cgggaaaccg gcaaaacagg caacaaacca cccgaaaccc
     4261 cgccagaaac gcgcaggctc tgtttttacg gcatgcatga gtatgcacgc aagtgcatag
     4321 cgcgaaaatt cacgccattt agccagggtt agtcctgttt ccaccgttct tcccatccga
     4381 aaacggtgaa cggggacgca atttattgcg tggccgtgaa gcgttgccgg cgcagccgga
     4441 aaaccggttt tcatcacgtt caggaatcgg gttcgtcgac ggccggcaat cacgttaggc
     4501 aagtcgccgg acgactcacc acacgattca ccggcgattc gactcgtgac ttgactctag
     4561 agtcgccaag gtcaaaaaaa caccaaaatg acgattcgac tctagagtca agtcgtcata
     4621 agttactgat agtcttaagt gagtcgtcga tgactctatg acaagtcgtc ggcgattcgt
     4681 ctacgacttg ccg
//
