LOCUS       NZ_CP041419             5892 bp    DNA     circular CON 23-JUN-2024
DEFINITION  Escherichia coli strain STEC711 plasmid pSTEC711_3, complete
            sequence.
ACCESSION   NZ_CP041419
VERSION     NZ_CP041419.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN12214770
            Assembly: GCF_009949145.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5892)
  AUTHORS   Yang,X., Bai,X., Zhang,J., Sun,H., Fu,S., Fan,R., He,X., Scheutz,F.,
            Matussek,A. and Xiong,Y.
  TITLE     Escherichia coli strains producing a novel Shiga toxin 2 subtype
            circulate in China
  JOURNAL   Int J Med Microbiol 310 (1), 151377 (2020)
   PUBMED   31757694
REFERENCE   2  (bases 1 to 5892)
  AUTHORS   Xi,Y., Bai,X., Zhang,J. and Xiong,Y.
  TITLE     Direct Submission
  JOURNAL   Submitted (03-JUL-2019) mEpiLab, Infectious Disease Research Centre,
            Hopkirk Research Institute, IVABS, Massey University, Private Bag
            11-222, Palmerston North 4442, New Zealand
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: HGAP v. 4
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 127x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_009949145.1-RS_2024_06_23
            Annotation Date                   :: 06/23/2024 05:09:52
            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)                     :: 5,099
            CDSs (total)                      :: 4,975
            Genes (coding)                    :: 4,804
            CDSs (with protein)               :: 4,804
            Genes (RNA)                       :: 124
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 91
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 171
            CDSs (without protein)            :: 171
            Pseudo Genes (ambiguous residues) :: 0 of 171
            Pseudo Genes (frameshifted)       :: 78 of 171
            Pseudo Genes (incomplete)         :: 104 of 171
            Pseudo Genes (internal stop)      :: 39 of 171
            Pseudo Genes (multiple problems)  :: 46 of 171
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP041419.1.
            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..5892
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="STEC711"
                     /isolation_source="goat"
                     /db_xref="taxon:562"
                     /plasmid="pSTEC711_3"
                     /geo_loc_name="China: Shandong"
                     /collection_date="2017-11-08"
                     /collected_by="State Key Laboratory of Infectious Disease
                     Prevention and Control, National Institute for Communicable
                     Disease Control and Prevention, Chinese Center for Disease
                     Control and Prevention"
     gene            complement(434..625)
                     /locus_tag="FNE87_RS24315"
                     /old_locus_tag="FNE87_24740"
     CDS             complement(434..625)
                     /locus_tag="FNE87_RS24315"
                     /old_locus_tag="FNE87_24740"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165985.1"
                     /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_000165993.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHEHA
                     DELYRSCLSRFGDDGENL"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            690..1013
                     /locus_tag="FNE87_RS24320"
                     /old_locus_tag="FNE87_24745"
     CDS             690..1013
                     /locus_tag="FNE87_RS24320"
                     /old_locus_tag="FNE87_24745"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000956000.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_024242645.1"
                     /translation="MLTIRVTDDEHARLLERCDGKQLAVWMRRVCLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIERELRSLRQVVREQGAR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            1222..>1653
                     /locus_tag="FNE87_RS25810"
                     /old_locus_tag="FNE87_24750"
                     /pseudo=""
     CDS             1222..>1653
                     /locus_tag="FNE87_RS25810"
                     /old_locus_tag="FNE87_24750"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            1691..2209
                     /locus_tag="FNE87_RS24330"
                     /old_locus_tag="FNE87_24755"
     CDS             1691..2209
                     /locus_tag="FNE87_RS24330"
                     /old_locus_tag="FNE87_24755"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001447511.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_136769167.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTEKMLNDEFRKLSESVSEAVTSNE
                     TKIRDAIALFTVSTEKSLEKHREGVKEAMMQHRKDVLKLAGNTGMMLLGIVFLLFTASG
                     GTLWYLGGRIQTNLEEIRKQEETLQKLNAKTWGVEFVQDGNRKFLVLPYGKSAEMIPFQ
                     GKEWVHLKE"
                     /name="MbeB family mobilization protein"
     gene            2216..2449
                     /locus_tag="FNE87_RS24335"
                     /old_locus_tag="FNE87_24760"
     CDS             2216..2449
                     /locus_tag="FNE87_RS24335"
                     /old_locus_tag="FNE87_24760"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137438.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_000137445.1"
                     /translation="MTELETHLLNALEQLQQDYMQRLSEWESAFVELQKMFSLTQRDNA
                     MLNERVMQLSQQVQHLSEQTERLSQLYSENWR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(2784..3668)
                     /locus_tag="FNE87_RS24340"
                     /old_locus_tag="FNE87_24770"
     CDS             complement(2784..3668)
                     /locus_tag="FNE87_RS24340"
                     /old_locus_tag="FNE87_24770"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001439342.1"
                     /GO_function="GO:0005525 - GTP binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="GTPase"
                     /protein_id="WP_021551692.1"
                     /translation="MENNTQGIKLIKEAVDVLPKEIRKSVYNKIRNVINYEPVIGIMGK
                     TGAGKSSLCNSIFKGNVCAVSDVEACTRKVQELIISFGDRTIKIIDIPGVGENEAKDIE
                     YEELYKNLLPELDLVLWVVKGDDRAFSADEHFYKNVLKPVGGDEKVLFVLNQVDKIEPF
                     REWDEEKHQPSPSQQINIRKKEEYLIERFGFTKHPVISVSANEGYNISRLVEAIVRSLP
                     KEAQSGVVHQVKDEIKTKEIVETAKDGFADTVDRAIDDIIDTVLPKPIASVAKVAKKAI
                     VSVAKSVWGLLFG"
                     /name="GTPase"
     gene            complement(3704..4138)
                     /locus_tag="FNE87_RS24345"
                     /old_locus_tag="FNE87_24775"
     CDS             complement(3704..4138)
                     /locus_tag="FNE87_RS24345"
                     /old_locus_tag="FNE87_24775"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_021551691.1"
                     /translation="MGFWDSIKNAAIKAKCGVGIHGGNYKLIDGETCKYSKLCPDCNRT
                     IQKEQHKYGEESYKYDFKCTTVKKCIDCGAEQEGERHERFVEIAVDDYCNVKERCVRCF
                     TERVHGKRHNWYLSGSSDTYRHYKCSVCGEEKEERKTSFR"
                     /name="hypothetical protein"
     gene            complement(4365..5177)
                     /locus_tag="FNE87_RS24350"
                     /old_locus_tag="FNE87_24780"
     CDS             complement(4365..5177)
                     /locus_tag="FNE87_RS24350"
                     /old_locus_tag="FNE87_24780"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000549943.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="EcsC family protein"
                     /protein_id="WP_000549944.1"
                     /translation="MHLEEGDLRALERAVELLEQDTITETLTQLVGTPIDYLMSKLPKG
                     AEEQIYSLVEKSLHKAADAALWSLDNEPNRIASTKTNKFFAAVSGAIGGAFGFSALAIE
                     LPVSTTIMLRSIADIARSEGFELDNIDTKLACLEVFSLGGPSDDDDAANTAYYATRSLT
                     AEIVQDLSKEISNIAVKNASSVQTGKWLASLIEKVATRFGIVITEKMAAQVVPVIGALT
                     GATLNTMFTDYYQDMARGHFIVKRLEKKYGNELIKAEYIKISSKLTNS"
                     /name="EcsC family protein"
     gene            complement(5496..5654)
                     /locus_tag="FNE87_RS26040"
     CDS             complement(5496..5654)
                     /locus_tag="FNE87_RS26040"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /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_071529495.1"
                     /translation="MHEPPVQPDRCALSGNYRLESNPVRHDKAPLAAATGNWTRWIEIL
                     RVLEVVA"
                     /name="replication initiation protein"
     Typing          261..345
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.674"
                     /coverage="99.0"
                     /evalue="2.36e-33"
     Typing          complement(2..235)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="90.678"
                     /coverage="99.0"
                     /evalue="1.98e-82"
     Typing          complement(5546..5892)
                     /name="rep_cluster_2370"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.264"
                     /coverage="81.0"
                     /evalue="2.28e-160"
     Typing          1004..2553
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="93.511"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 cggagcctat ggaaaaacgc cagcggcgcg gcctttcgtt gccctttgcc tttttgctca
       61 catgttcttt ccggccttat cccctgattc tgtggataac cgtaattacc gcctttgagt
      121 gagccggcac cgctcgccgc agccgaacga ccgagcgtag cgagtcagtg agcgaggaag
      181 cggaagagcg cctgatgcgg tattttctcc ttacgcatct gtgcggtatt tcacatcgta
      241 tatggcgctg ttttcttaca atccgcacta aatgccgcat agttaagcca gtatacactc
      301 cgctatcgct acgtgactgg gtcatggctg cgccccgaca cccgcaaaaa cccgctgacg
      361 cgccctgacg ggcttgtctg ctcccggcat ccgctcaccg gcaagctgtg accgtctccg
      421 ggagctacat gtgttacagg ttttcaccgt catccccgaa gcgtgagagg cagctgcggt
      481 aaagctcatc ggcgtgctcg tgaagagatt cacagatgtc tgcctgttca tccgcgtcca
      541 gttcgttgag cttctccagt agcgttaatg tctggcttct gataaagcgg gccatgttaa
      601 gggcggtttt ttcctgttta gtcactgatg cctccgtgta agggggattt ctgttttatg
      661 gggtaatgat accgatgaaa cgcgagagga tgctcaccat acgggttact gatgatgaac
      721 atgcccggtt actggaacgc tgtgatggta aacaactggc ggtatggatg cggcgggtat
      781 gcctgggtga gccggttgcc cgttccggga agctgccgac actggcaccg ccgttactgc
      841 gtcagctggc tgccatcggg aataacctga atcagacggc gaggaaggtg aacagcgggc
      901 agtggtcttc cggtgaccgg gttcaggtgg tggccgcact gatggccatc gagagagagt
      961 tgcgcagctt acggcaggtc gtcagggaac agggagcgcg ggatgatagt taaatttcat
     1021 gccaggggaa aaggcggtgg cagtggtccg gttgattacc tgctgggaag ggagcgtaac
     1081 cgggaagggg caacggtgct tcagggtaat ccggaagaag tccgggaact catcgatgcc
     1141 acgccatttg cgaagaaata cacgtcaggt gttctgtcgt tcgcggagaa ggagctgccg
     1201 ccgggaggac gtgaaaaagt gatggcgagc tttgagcgtg tactgatgcc cggtctcgaa
     1261 aaaaatcagt acagcatcct gtgggttgag caccaggaca agggacggct tgagctgaat
     1321 tttgtcattc cgaacatgga gctacagagc ggaaaacgcc tccagccgta ctatgaccgc
     1381 gcagacaggc cgagaattga tgcctggcag acgctggtga atcaccatta cgggctgcat
     1441 gacccgaatg ccccggagaa ccgcaggacg ctgacactcc ctgataacct gccggaaacg
     1501 aaacaggcga ttgctgagag cgttacacgg gggcttgatg tgctttaccg tgccggagag
     1561 ataaaagacc gtcaggatgt gattcaggca ctcacagatg tgggagttga ggttgtcagg
     1621 gtgacgcgaa gcagtatcag cattgcagac ccgaacggcg gaaggaatat caggctgaaa
     1681 ggagcatttt atgagcaatc ttttacagac gggcgcggag ttcgagaaaa agctgaaaga
     1741 gagagccgaa tctacagaga aaatgctgaa cgacgagttc aggaagctca gcgagtctgt
     1801 cagcgaggct gtgacatcaa acgagacgaa aatcagagac gctatagccc tgttcacagt
     1861 ctcgacagag aaatcgctgg aaaaacaccg ggaaggggtg aaagaggcga tgatgcagca
     1921 caggaaggac gtgttaaagc tggcagggaa tacgggcatg atgttactgg ggatagtctt
     1981 tcttctgttt accgcgagtg gcgggacgct ctggtatctt ggcggacgga tacagacgaa
     2041 cctggaagaa atcaggaagc aggaagagac attgcagaaa ctgaacgcga agacatgggg
     2101 cgtggagttt gtgcaggacg ggaacaggaa atttctggtc cttccgtacg ggaaatcagc
     2161 agagatgatt ccctttcagg ggaaagagtg ggtacatctg aaggagtgac acagagtgac
     2221 agagctggaa acacatttgc tgaacgcctt agagcagctg caacaggact atatgcagcg
     2281 gctgagcgaa tgggagagcg ccttcgtgga attgcagaag atgttttcgc ttacgcaacg
     2341 ggacaacgcg atgctgaacg agcgggtcat gcagttgagt cagcaggtgc agcacttgag
     2401 cgagcagaca gaacgcttga gccagttata cagcgagaac tggagataag agaggaacgg
     2461 ttgatgcagg agcgcgaaca tgcgttatcc ctggaacggg agcgtcagct ggaaatacag
     2521 gtacgcacac tggatggccc ttcgctggga tggtgaaacc atgaaaaatg gcaggttcat
     2581 tggattaagg cggactaatg tgctctgtgc catctggttg cataggtatt catacggtta
     2641 aaatttatca ggcgcgatcg tggcagtttt tcgggtggtt tgttgctatt tttacctgtc
     2701 tgctgccgtg atcgcgctga acgcgtttta gcggtacgta caaactgttg ttatgttaaa
     2761 tactgatggg ctttcctgct tgattatccg aagagcaatc cccaaacact tttagctaca
     2821 gaaacaatgg ctttcttggc gactttagcc actgacgcta ttggtttagg tagtacggtg
     2881 tctattatat catcaatagc tctatctacg gtgtctgcga acccgtcctt tgccgtttct
     2941 acaatttctt ttgtttttat ttcgtctttt acttgatgca ccactccgct ctgtgcttcc
     3001 tttgggagcg atcttactat tgcctccact aaccttgaaa tgttataacc ttcattcgca
     3061 gatacagata taacgggatg tttggtaaaa ccgaatcgtt ctattaagta ttcttccttt
     3121 tttctaatat ttatttgttg tgagggtgat ggttggtgtt tttcttcatc ccattcgcgg
     3181 aatggctcaa tcttgtcgac ttggtttaaa acaaacaaca ctttttcatc accaccaact
     3241 ggttttaaaa catttttata aaagtgctca tcagctgaaa atgctcgatc atcaccttta
     3301 acaacccaaa gcaccagatc taattctggg agaagatttt tatacaactc ttcatattct
     3361 atatctttag cttcattttc acctacacct ggtatatcta ttattttaat tgttctatca
     3421 ccaaatgaaa ttattaattc ctgaaccttt ctcgtgcatg cttctacatc actcactgca
     3481 catacattac ctttaaagat agaattacat aggctggatt taccagcgcc ggttttaccc
     3541 ataatcccta ttactggttc gtaattaata acatttctaa ttttgttata gacagacttg
     3601 cgaatctctt taggtagaac atccacagct tctttgatta attttatacc ttgcgtattg
     3661 ttttccatag ttactatttt cctcattttg ttgttcatat gaattaacgg aagcttgttt
     3721 ttctttcttc tttttcttcc ccgcatacag aacatttgta atggcgatag gtatcagaac
     3781 tcccactaag ataccaattg tgtcttttac catgaactcg ctctgtaaaa catctcacgc
     3841 atctttcttt cacattgcaa taatcatcga ctgcaatttc aacaaatctt tcatgccttt
     3901 cgccttcttg ttcagcgcca cagtcgatac acttttttac agttgtgcac ttgaaatcgt
     3961 atttataact ttcctctccg tatttatgct gttctttttg tatagtgcga ttgcagtcag
     4021 ggcatagttt agaatattta caagtctcac catcaataag cttatagttt cctccgtgta
     4081 tacctacccc acacttagcc ttgattgctg cattttttat gctatcccaa aagcccatgg
     4141 aaaaatctcc ctacgattag ttgatataag ttgaacaatt catcgacacg attatacacg
     4201 tatagtgtgt ggatatataa aaatgagtat ggatttatgc tctgtataat gtttttgtta
     4261 tgttaaatat agcgctgaaa aagtggggca ctggataaac ttcgtgtttt tcccgcaaag
     4321 atagtattgg aaagtcattg tctaattcat ccaagataaa tattttacga atttgtgagt
     4381 ttgcttgaga tttttatata ttcagccttt attaactcat tgccatattt tttctcgagt
     4441 cttttaacaa tgaaatgacc tcgagccata tcttgataat agtcggtaaa cattgtgttt
     4501 aatgtggctc cagttagtgc tccaataacg ggaacgactt gagctgccat tttttccgta
     4561 ataactatac caaatcttgt tgcaactttt tctattaacg aagctaacca ttttcctgtt
     4621 tgtactgaag atgcgttttt gacagcaatg ttagaaattt ctttggataa atcttgtacg
     4681 atctcggcag tcaaacttct tgttgcatag tatgcagtat tagctgcatc atcgtcatca
     4741 gatggtcctc ccaaggaaaa cacctctaag caggccagtt tggtatcaat attatctagc
     4801 tcaaaacctt cacttcttgc tatgtcagca attgaacgaa gcataattgt cgttgaaacc
     4861 ggtaactcaa ttgctaatgc agaaaagcca aaagcgccac caatggctcc agatacggcc
     4921 gcaaagaatt tatttgtctt agttgatgct attcggttag gttcattgtc tagactccat
     4981 aaggccgcat cagcagcttt gtggagcgat ttttctacta gactataaat ttgctcttct
     5041 gcccctttgg gaagtttact cattaagtaa tctattgggg ttccaactaa ttgggttaat
     5101 gtttcagtaa ttgtatcttg ttctaataat tctacggccc tttctaaagc ccgcagatct
     5161 ccttcttcaa gatgcatata atgaatcctt tatgaatcaa tcgatagtct acttttgtaa
     5221 gtgattcgtc ttgggagctt accttgagcg agttcagtga ttcaataggc gagatgccga
     5281 catcattgtt gtctgtgaag caggagtgat gaaaagatca aaggatcctc ttgtgatcct
     5341 ttttttctgc gcgtaatctg ctgcctgtaa acaaaaaaac caccgctacc aacggtggtt
     5401 tgtttgccgg atcaagagct accaactctt tttccgaagg taactggctt ggtggagcac
     5461 agataccaaa tactgtcctt ctagtgtagc cgcagttagg ccaccacttc aagaactctt
     5521 aatatctcaa tccaccttgt ccagttacca gtggctgctg ccagtggcgc tttgtcgtgt
     5581 cttaccgggt tggactcaag acgatagtta ccggataagg cgcagcggtc gggctgaacg
     5641 gggggttcgt gcacacagcc cagcttggag cgaacgacct acaccgggcc gagataccaa
     5701 cagcgtgagc tatgagaaag cgctacgctt cccgaaggga gaaaggcgga caggtatccg
     5761 gtaaacggca gggtcggaac aggagagcgc acgagggagc caccaggggg aaacgcctgg
     5821 tatctttata gtcctgtcgg gtttcgccac ctctgacttg agcgtcgatt tttgtgatgc
     5881 tcgtcagggg gg
//
