LOCUS       NC_022662               5631 bp    DNA     circular CON 01-JUN-2024
DEFINITION  Escherichia coli JJ1886 plasmid pJJ1886_3, complete sequence.
ACCESSION   NC_022662
VERSION     NC_022662.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN02603887
            Assembly: GCF_000493755.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli JJ1886
  ORGANISM  Escherichia coli JJ1886
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5631)
  AUTHORS   Andersen,P.S., Stegger,M., Aziz,M., Contente-Cuomo,T., Gibbons,H.S.,
            Keim,P., Sokurenko,E.V., Johnson,J.R. and Price,L.B.
  TITLE     Complete Genome Sequence of the Epidemic and Highly Virulent
            CTX-M-15-Producing H30-Rx Subclone of Escherichia coli ST131
  JOURNAL   Genome Announc 1 (6), e00988-13 (2013)
   PUBMED   24309736
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 5631)
  AUTHORS   Andersen,P.S., Price,L.B., Sokurenko,E.V., Stegger,M., Azziz,M.,
            Contente-Cuomo,T., Gibbons,H.S., Keim,P. and Johnson,J.R.
  TITLE     Direct Submission
  JOURNAL   Submitted (17-OCT-2013) Microbiology and Infection Control, Statens
            Serum Institut, 5 Artillerivej, Copenhagen S DK-2300, Denmark
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: MIRA v. 3.9.9; ABySS v. 1.3.4; PBJelly v.
            12.9.14; CLC-bio v. 6.0.4; PAGIT v. 1; Celera v. 7.0
            Genome Coverage                   :: 50x
            Sequencing Technology             :: 454; Illumina; PacBio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_000493755.1-RS_2024_06_01
            Annotation Date                   :: 06/01/2024 02:00:14
            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)                     :: 5,283
            CDSs (total)                      :: 5,168
            Genes (coding)                    :: 4,961
            CDSs (with protein)               :: 4,961
            Genes (RNA)                       :: 115
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 207
            CDSs (without protein)            :: 207
            Pseudo Genes (ambiguous residues) :: 0 of 207
            Pseudo Genes (frameshifted)       :: 76 of 207
            Pseudo Genes (incomplete)         :: 144 of 207
            Pseudo Genes (internal stop)      :: 43 of 207
            Pseudo Genes (multiple problems)  :: 48 of 207
            Pseudo Genes (short protein)      :: 1 of 207
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP006787.1.
            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..5631
                     /organism="Escherichia coli JJ1886"
                     /mol_type="genomic DNA"
                     /strain="JJ1886"
                     /db_xref="taxon:1355100"
                     /plasmid="pJJ1886_3"
     gene            complement(732..1598)
                     /locus_tag="P423_RS25890"
                     /old_locus_tag="P423_25170"
     CDS             complement(732..1598)
                     /locus_tag="P423_RS25890"
                     /old_locus_tag="P423_25170"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001335763.1"
                     /GO_function="GO:0005215 - transporter activity [Evidence
                     IEA]"
                     /GO_process="GO:0055085 - transmembrane transport [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DMT family transporter"
                     /protein_id="WP_001335763.1"
                     /translation="MIKGMLFAFLAAFSWGAAIVMSKKGVEELDAGGVFFWQICSAVIL
                     SWIVLFIKRKKLPLNSKAILAYATGVFEPFLAYTFTLYGLYFISAGSASIIFSLESVFI
                     LVLSVLICSVKINSPQYFILFLIGAIVGSILVALPDISNGSNNIVGYCLVVAGVLSAAF
                     YVVISSRLIKSFEPITLLSGQLTFSLILSSLFIFISKSSIYLPLESVIIVFSSGILQYF
                     LAFCFYLNSLRWLPVHLAGIMLYFIPLVALFLSWLFLDEQFTFLQGVGFIVTVLSVYFL
                     NRKYSEE"
                     /name="DMT family transporter"
     gene            complement(1600..2652)
                     /locus_tag="P423_RS25895"
                     /old_locus_tag="P423_25175"
     CDS             complement(1600..2652)
                     /locus_tag="P423_RS25895"
                     /old_locus_tag="P423_25175"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001557502.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001053268.1"
                     /translation="MNLQQRINKLPQLSSSFSFGKDIDNIHSFIFNETSKDKIEDLLRK
                     WVSGNQPCVFGKLASKKIKGLDFHLSIVNSPQLYNDDGHLFDFLRNERVRFKERARRGE
                     VSAHLIYFIHPQLAFARPSEELVDIQKYICSLHMPECYPIKEDVIYTESVPFQDKDGLK
                     IYKAGVNVFYSSAHRTRNHDRRIPGGILISVNAPGHFMRLAIEKGFYKDQEQALADIRN
                     MTIQSVGKGGYSHPEGISTTWHSESNLDRFGCPVHTGNSSYYSGFYHTDVLIPGELTKD
                     ERLLHEIENSDPMIFNWNVLFYVSLEEFPIDDPYYGEFIGIPVDDASMFFNSFQPRKFE
                     NKPLYEKEDD"
                     /name="hypothetical protein"
     gene            complement(3133..3366)
                     /locus_tag="P423_RS29650"
     CDS             complement(3133..3366)
                     /locus_tag="P423_RS29650"
                     /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_000137437.1"
                     /translation="MTELERHLLNALEQLQQDYMQRLNEWENAFVELQKMFSLTQRDNA
                     MLNGRVMQLSQQVQHLSERTERLSQLYSENRR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(3373..3903)
                     /locus_tag="P423_RS29655"
     CDS             complement(3373..3903)
                     /locus_tag="P423_RS29655"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001673158.1"
                     /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_001673158.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTEKMLNDEFRKLEESVNRELTSNE
                     SLIRNAINDHTTALKELLERYQKTTVDTMDAHWKTVLKMSVKRWLWLIIVSVLMFATTG
                     SLLWYQGMKINANMNILREQKESLEKLNAKTWGVRYHEDSNGRFLVLPKGMKAETNWTK
                     DNGKLNAVRLVQE"
                     /name="MbeB family mobilization protein"
     gene            complement(<3941..4639)
                     /locus_tag="P423_RS31245"
                     /pseudo=""
     CDS             complement(<3941..4639)
                     /locus_tag="P423_RS31245"
                     /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            complement(4581..4904)
                     /locus_tag="P423_RS25910"
                     /old_locus_tag="P423_25190"
     CDS             complement(4581..4904)
                     /locus_tag="P423_RS25910"
                     /old_locus_tag="P423_25190"
                     /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_000955999.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIGDELRRLRLAVREQGAR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            4969..5160
                     /locus_tag="P423_RS25915"
                     /old_locus_tag="P423_25195"
     CDS             4969..5160
                     /locus_tag="P423_RS25915"
                     /old_locus_tag="P423_25195"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165975.1"
                     /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_000165975.1"
                     /translation="MTKQEKTALNMARFIRGQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENR"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(5255..5336)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.3400000000000002e-35"
     Typing          complement(162..349)
                     /name="rep_cluster_2401"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="4.63e-94"
     Typing          complement(3030..4591)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gtgcatctgt gggagccttg cggctcaacc atgaaatccg ccagcggtgg cgaaacccga
       61 cgtggcttaa agatcatcac cgtttccggt gaatcgctcc ctcctgcgcc cccacgttcc
      121 cgccatatcg attaccggat accttttccg cctttctccc ttacgggaca cgtggcgctt
      181 tctcatagct cacgtcttct ggtatctcgg ggcgacttag gcagttcgct ccgggctggg
      241 ctgtatgcag gaaccccccg ttcagcccga ctgctgcgcc ttctccggta actgttctct
      301 tgggtccaac ccggaaaaga caccacaaag cgccactggc agcagccatt ggtaaaagtc
      361 atgtgcgaga tatttagaga gtacttgaag tggctgccgg agtgcggcta cactagaaga
      421 acaattttgg tgactcgtct cgcataagac agttacctgg ttaagcagtc tgcaagctga
      481 cttaaccttc gatcaaaccg ccctgcaagg cggttttttc gtttacaggc agcagattac
      541 gcgcagaaaa aaaggatctc aagaggatcc tttgatcttt ttgttacaaa cgtctctatt
      601 tgactcccct gagagcgttt tagcgcgcct ctgaccccct tggttacatt ccgacaccag
      661 aaacgctccc gttttttacg tgcatttggc acggtatcga tggaggccgg ggggcaatcc
      721 tgaacagaat gttactcctc tgagtatttt ctgttaagaa aatatacact tagcacagtt
      781 acaataaatc ctaccccctg taagaatgtg aattgttcat ccaaaaacaa ccatgacaaa
      841 aataatgcaa ctagcggaat aaagtacaac attatccctg ccaaatgaac tgggagccaa
      901 cgcaaggagt tcaagtaaaa acaaaaagct aaaaaatatt gtaatattcc agatgaaaaa
      961 acaataatca cggattccaa cggaagataa attgatgatt tagatataaa aataaagagc
     1021 gatgacagta taagggagaa tgtcaactgt ccgctcaata atgtgatagg ctcaaacgat
     1081 ttaataaggc gagacgatat aacaacataa aatgctgccg ataacacacc ggcaacaaca
     1141 agacaatatc caacaatatt attcgatcca ttactgatgt ctggcaaggc taccaaaata
     1201 ctgccaacaa ttgcacctat aaggaacaat ataaaatatt gcggggaatt aattttaact
     1261 gagcaaataa gaacagacaa caccaatata aacactgatt caagtgaaaa aataattgat
     1321 gcgcttcctg ctgaaataaa ataaagtccg tagagtgtaa aagtatacgc taagaatggt
     1381 tcaaaaacgc ctgtcgcata agcaagtatc gcttttgagt ttaatgggag tttttttctt
     1441 tttataaaaa gaactatcca agatagtatt actgcactac aaatctgcca gaaaaacacc
     1501 cctccggcat ctagttcttc aactcctttt ttgctcatta cgatagctgc cccccatgag
     1561 aacgctgcta aaaaagcaaa aagcattcct ttaatcatat taatcatcct ctttctcata
     1621 aaggggtttg ttttcaaatt tccttggttg aaaggagtta aaaaacatag atgcatcatc
     1681 tacaggaata ccaataaact ctccataata aggatcatct ataggaaact cttctaatga
     1741 aacataaaac aatacattcc agttgaagat cattggatca ctattttcta tttcatggag
     1801 caatctttca tccttagtta attctcctgg aattaataca tcagtatgat aaaaaccgct
     1861 gtaataagaa ctattaccgg tgtgcactgg gcatccaaaa cgatccaaat tagattctga
     1921 atgccatgtt gtagaaatcc cttccggatg tgaataccca cccttaccaa cagactgaat
     1981 agtcatgtta cgaatatccg ctaacgcttg ttcttgatct ttatagaaac ctttttctat
     2041 cgccagcctc ataaaatgcc ccggggcatt tacagaaata agtattcccc ctggtattct
     2101 tctatcatga tttcttgttc tatgagcaga agagtaaaaa acattaacac cagccttata
     2161 tatttttagc ccatctttat cctgaaatgg tacgctttca gtataaataa catcctcttt
     2221 tattggatag cactctggca tatgcagcga acaaatatat ttttgtatgt ccactaactc
     2281 ttctgatgga cgagcaaagg caagttgtgg atgaataaaa taaatgagat gcgcactgac
     2341 ctctcctctt cttgcgcgtt ctttaaaacg aactctttca ttacgcaaaa aatcaaacaa
     2401 atgaccatca tcattatata gttgggggct atttacaata gataaatgga aatcaagccc
     2461 tttaattttc ttgcttgcca atttaccaaa tacacagggc tgattgcctg acacccattt
     2521 tcttagtaaa tcttcaattt tatctttaga agtttcgtta aagataaatg aatgaatatt
     2581 atcaatatct tttccaaatg aaaaactgga tgataattgt ggtagtttat ttatacgttg
     2641 ttgaagattc atgaaagctc ccacaagaca cctcatatat ttttttatat actgaaacta
     2701 cattatattt attaccggcg taaaacgaaa taatttatta tcgttaccga tattttaaaa
     2761 aaatcattat ttgcacagtg ttcgagttgt tagtatcact ccttcctgaa aatccgctcc
     2821 atttaccata acgtcgcatt gtacgcaccg ccaaaacgcg ttcggtgcga tcacggcagc
     2881 agacaggtaa aaatggcaac aaaccacccg aaaaactgcc gcgatcgcac ctgataaatt
     2941 ttaaccgcat gaatacctat gcaaccagat gctacaggcc acattagccc gccttaatcc
     3001 actgaacacg tcatttttca tggtttcacc atcccagcga agggccatcc agtgtccgct
     3061 cctggatttc cggctgacgc tcccgctcca gagataactc atgttcgcgt tcctgcatca
     3121 gccgttcatc ccttatctcc tgttctcgct gtataactgg ctcaagcgtt ctgtccgctc
     3181 gctcaagtgc tgcacctgct gactcaactg catgactcgc ccgttcagca tcgcgttgtc
     3241 ccgttgcgta agcgaaaaca ttttctgcaa ttccacgaag gcgttctccc attcgttcag
     3301 ccgctgcata tagtcctgtt gcagttgctc taatgcgttc agcaaatgtc tttccagctc
     3361 cgtcatgctc tgtcactcct gcaccagtct cactgcgttc agtttgccgt tgtccttcgt
     3421 ccagttcgtt tcggctttca tccccttcgg caacaccaga aaacgtccgt tgctgtcctc
     3481 gtgataacgc acgccccatg tcttcgcgtt cagcttctcc agactctctt tctgctcgcg
     3541 gagaatattc atattcgcgt ttatcttcat gccctggtac cacagcagac tcccggtcgt
     3601 ggcaaacatc agtactgaga cgataatcag ccacagccag cgtttcacgc tcattttcag
     3661 tacggttttc cagtgcgcgt ccatcgtatc gacggtcgtt ttctgatacc tctccagcag
     3721 ttctttcagg gctgttgtat ggtcgttgat agcgttcctg attaaagatt cgtttgaggt
     3781 cagttccctg tttacagatt cttcgagctt cctgaactcg tcgttcagca ttttctctgt
     3841 agattcggct ctctctttca gctttttctc gaactccgcg cccgtctgta aaagattgct
     3901 cataaaacgc tcctttcagt ctgatattcc tcccgccgtt cgggtctgca atgctgatac
     3961 tgcttcgcgt caccctgacc acttcaagcc ccgcctctgt gagcgcctga atcacatcct
     4021 gacggccttt tatctctccg gcatggtaaa gcgcgtctat cccgcgtgtg acgccctcag
     4081 caagcgcctg tttcgtttcc ggcaggttat caggaagggt cagcgtccgg cggttctccg
     4141 gggcgttggg gtcatgcaga ccgtaatggt gattcaccag cgtctgccag gcatcaattc
     4201 tcggcctgtc tgcccggtcg tagtacggct ggaggcgttt tccggtctgt agctccatgt
     4261 tcggaatgac aaaattcagc tcaagccgtc ccttgtcctg gtgctccacc cacaggatgc
     4321 tgtactgatt tttctcgaga ccgggcatca gtacacgctc aaagctcgcc atcacttttt
     4381 cacgccctcc aggcggcagc tccttctccg cgaacgacag aacacctgac gtgtatttct
     4441 tcgcaaatgg cgtggcatcg atgagttccc ggacctcttc cggattcccc tgaagcaccg
     4501 ttgccccttc ccggttacgc tcccttccca gcaggtaatc aaccggacca ctgccaccac
     4561 cttttcccct ggcatgaaac ttaactatca tcccgcgccc cctgttccct gaccgccaga
     4621 cgcagccggc gcagctcatc cccgatggcc atcagtgcgg ccaccacctg aacccggtca
     4681 ccggaagacc actgcccgct gttcaccttc ctcgctgtct ggttaaggtt attcccgatg
     4741 gcggccagct gacgcagtaa cggcggtgcc agtgtcggca gcttcccgga acgggcaacc
     4801 ggctcaccca ggcagacccg ccgcatccat accgccagtt gtttaccctc acagcgttcc
     4861 agtaaccggg catgttcatc atcagtaacc cgtatcgtga gcatcctctc gcgtttcatc
     4921 ggtatcatta cccccatgaa cagaaccccc ccttacacgg aggcatcagt gaccaaacag
     4981 gaaaaaaccg cccttaacat ggcccgcttc atcagaggcc agacattaac gctgctggag
     5041 aagctcaacg aactggacgc ggatgaacag gcagacatct gtgaatcgct tcacgaccac
     5101 gccgatgagc tttaccgcag ttgcctcgca cgcttcgggg atgacggtga aaaccgctga
     5161 cacatgcagc tcccggagac ggtcacagct tgtctgtgag cggatgccgg gagcagacaa
     5221 gcccgccagg gcgcgtcagg ccgttgacct ttggggtgtc ggggcgaagc cctgacccag
     5281 tcacgtagcg atagcggagt gtatactggc ttaaccattc ggcatcagtg cggattgtat
     5341 gaaaagtgcg ccatgtccgg tgtgaaatgc cgcacagatg cgtaaggaga aaatgccagt
     5401 tcaggcgctc ttccgcttcc tcgctcactg actcgctacg ctcggtcgtt cggctgcggc
     5461 gagcggactc tcctttctca aaaacgctaa ccctgttatc cacagaaccc ggggataaac
     5521 caggaaagaa catgtgcgca aaaaacgaaa ccccgggaaa ggccgcgccg gaggcgcttt
     5581 ttccataggc tccgcccccc tgacggactt cacaaaacag acactttttc g
//
