LOCUS       NZ_CP023824             4072 bp    DNA     circular CON 18-JUN-2024
DEFINITION  Escherichia coli strain 7/2 plasmid p7_2.4, complete sequence.
ACCESSION   NZ_CP023824
VERSION     NZ_CP023824.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN07760941
            Assembly: GCF_003856675.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4072)
  AUTHORS   Sandegren,L.
  TITLE     Dynamics of resistance plasmids in extended spectrum
            beta-lactamase-producing Enterobacteriaceae in the gut microflora of
            patients during 1 year post UTI
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4072)
  AUTHORS   Sandegren,L.
  TITLE     Direct Submission
  JOURNAL   Submitted (11-OCT-2017) Medical Biochemistry and Microbiology,
            Uppsala University, Husargatan 3, Uppsala SE-75123, Sweden
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: CLC Genomics workbench v. 10
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 20x
            Sequencing Technology             :: Pacific bio + Miseq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_003856675.1-RS_2024_06_18
            Annotation Date                   :: 06/18/2024 02:46:09
            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)                     :: 5,203
            CDSs (total)                      :: 5,081
            Genes (coding)                    :: 4,903
            CDSs (with protein)               :: 4,903
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 178
            CDSs (without protein)            :: 178
            Pseudo Genes (ambiguous residues) :: 0 of 178
            Pseudo Genes (frameshifted)       :: 65 of 178
            Pseudo Genes (incomplete)         :: 125 of 178
            Pseudo Genes (internal stop)      :: 37 of 178
            Pseudo Genes (multiple problems)  :: 42 of 178
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP023824.1.
            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..4072
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="7/2"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p7_2.4"
                     /geo_loc_name="Sweden"
                     /collection_date="2009"
     gene            join(1929..4072,1..16)
                     /gene="mobQ"
                     /locus_tag="CRT46_RS26470"
                     /old_locus_tag="CRT46_27700"
     CDS             join(1929..4072,1..16)
                     /gene="mobQ"
                     /locus_tag="CRT46_RS26470"
                     /old_locus_tag="CRT46_27700"
                     /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_001029353.1"
                     /translation="MAIYHLSMKIISRSSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAECRKNSQLAREIELAIPRELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPARRVADLLNIVLPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQTAFEKQWQQWGASGLAALRVQL
                     LKREEELRRKEQEDTERSRAERRAEQLRKNDNAVMDSGVLSAVVTGYGEAPMPGNGEMT
                     CYLLLHNRNGEYTLWGNELEKYRTRIFERVDLMRDRSGYICDRSEIGQHPPLQRVYSSA
                     TFEQLLTQVCQTWPQYTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLLPTL
                     MPVMSSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKG
                     LRYAGYGVAVNHDADSHISPAPELMEFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRT
                     WDEWRREEDARTHTTERRHDRGWSQ"
                     /name="mobQ"
     gene            complement(272..964)
                     /locus_tag="CRT46_RS26475"
                     /old_locus_tag="CRT46_27685"
     CDS             complement(272..964)
                     /locus_tag="CRT46_RS26475"
                     /old_locus_tag="CRT46_27685"
                     /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_001281403.1"
                     /translation="MSDLIAYKSNALVEASYKLTLQEQRFLLLCISRLKSGADAELQKT
                     MTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKNDEKREEFRWIQYRAQYAKG
                     EAKARITFSDAVMPYLTQLKGQFTRVVIKNISGLSSSYSIRIYEFLQQFRSTGERIIAL
                     NDFRSMLGIENKYKQFRDLNKILIKPCVDELNKKSDLAVTVETIKKGRTVVALHFRFKE
                     DKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(1496..1750)
                     /gene="mobC"
                     /locus_tag="CRT46_RS26485"
                     /old_locus_tag="CRT46_27695"
     CDS             complement(1496..1750)
                     /gene="mobC"
                     /locus_tag="CRT46_RS26485"
                     /old_locus_tag="CRT46_27695"
                     /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_000091747.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVVVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPGQ"
                     /name="mobC"
     Typing          complement(1752..1928)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          1929..2287
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.056"
                     /coverage="100.0"
                     /evalue="3.94e-177"
     Typing          complement(273..964)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.965"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          1843..4070
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.327"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 cggttggtca cagtgaatgt gaacaatatt ttgttttgtt taacatcgtg ttatgttcgt
       61 cgatgttctt ctatgttcat cgacagggat gaatgcaaga agcacacaca taatgcaagc
      121 atagttttgt ttttccgccc ccaaaaattg ggggttcttt tttcgctgca ttagagcgct
      181 tttgacgcaa tttttcactt caatagtacc ttcgcactac taacacaaaa aaaacgcagc
      241 agggagcgtt ttaggtgcct taaaatcgat tttagatcgt catcttgatc tgtttgtctt
      301 ccttgaagcg aaaatgcagg gctacaaccg tgcgcccctt tttgatcgtc tcaaccgtta
      361 cagccaggtc gctttttttg ttcagttcgt caacacaggg ttttattagt attttattta
      421 agtctctgaa ttgtttgtat ttattttcaa tccctaacat tgaacgaaag tcattaagag
      481 caataattct ctctcccgta ctgcggaatt gctggaggaa ctcgtatatt cttatactgt
      541 aactacttga taaacctgat atgtttttta taacaacgcg cgtgaattgc cccttcagtt
      601 gcgtcagata aggcattacc gcgtcagaaa aggttattcg agccttggcc tcacctttag
      661 cgtactgtgc ccgatactgg atccagcgga actcctcacg cttctcgtca ttcttgagaa
      721 tgatcgacct gtcccataaa cgatcgatcg cttcctgtaa ctgaacctcg gcatttttcc
      781 gccccatgtc agggaatgaa tcaaaatatt ccgcagcggt aatggtcatt gtcttttgca
      841 attcagcatc agcaccagat ttcaatcgac tgatacacag caacagaaaa cgttgttcct
      901 gtagggtcaa cttgtagctg gcctcaacca aagcattcga cttgtaggca atcaagtccg
      961 acatacaaag atcccgttca aatgtggtga tgctttaatg tgccccacaa ataagaaatg
     1021 tggaatattt ttttttatat cctcacattt ctgtgaataa caccttaaat tcctccacct
     1081 ttaccttaaa ttcctccacc taaacacctt aaattcctcc acctttacct taaattcctc
     1141 cacatatacc tctataacat attgatttta ttaatgaatt ttgaccctaa aacaagtatt
     1201 aaaaacaaga tcttaaaaac aagatctaaa aacttaacga cgagcctgtg gataacttgg
     1261 ggcgctgaaa acaaaaaacc aataaaaaca atgtgttgca agaaagcaga attgcaagtt
     1321 ccgaatactc cccttccaac cctgtggaaa tccagtattc atgcgggttc agcgcatatc
     1381 acctaccgaa aaaccgtgcg tatgtgctca acctggcgac ggattcactt ccgcttcctc
     1441 gcccactcgc tcgctaacgc tcggtcgctg gggctgcggc gagcggacga tacaatcact
     1501 gtcctggcag cgcctccagc tcgttaatca gcggcagtat gcgcgtcaca tcagcctgtc
     1561 gtgtcacctc tgccttcagg aactggagta accaggcacg caactgcacc tcctccggct
     1621 ttctgacctt tgccagcaat gctgcaccca caacaacctt ctgcgctgtg tccaggctcc
     1681 ggctcttcgc cttcaggcgc tgtaatctcg cctcagcatc agcaatcttc tgttcgagcg
     1741 ttctgctcat gatgtaactc cgtgcgcgat gaaaaatcgc attttagcgc gtcactggta
     1801 gtttaaaaac tgagctggca taatgcgcga caaatcacaa agtgcgcact tatacaatct
     1861 ccactccgtt tcgattgtgt gcgccctgcg gggctgaaag aaaactacaa aaaggcatta
     1921 cggcagaaat ggcgatttat catctcagca tgaaaattat ctccagaagc agcggctaca
     1981 gcgccgtagc ttccgctgcc tatcgttccg gttcactgat gcttgatgag cgtaccggac
     2041 tgactcacga ctacacccgc aaaagcggtg tggctgaagc tgtgattctg acccccgcga
     2101 cagcccctgc ctggtgtacg aaccgtgccg aactctggaa tgccgttgag aaggccgaat
     2161 gccggaagaa ctcacaactt gcgcgggaaa ttgaactcgc tatcccccgt gaactgccgc
     2221 aggatgccgc acgggaaacc gttctcgcct ttgtcagaga aaactttgtc agtcagggca
     2281 tgattgctga tgtggcgttc catcacatgg ataaaacaaa tccccatgcg cacatcatgc
     2341 tgaccacgag ggctgtcgga cctgctgggt tcggcggaaa ggtcagggac tggaacgacc
     2401 ggacacatgc cgagacgtgg cgtgcatcat gggctgacca tgcaaacaga gcactggcga
     2461 acgccggtta tcaggaagag atagaccatc gttcatacga gcgacagggg cttgagaaaa
     2521 cgcctggtat tcacctcgga aagtctgcct gtgcgatgga aacacgcggt atcgaaacag
     2581 aacgcggcga acagaatcgt ctgattaaca ggcttaacct ggaaatacag atttcccgca
     2641 ctgaactcag gaacagcggg ctgacagagc ctgcccgccg tgtggctgac cttctgaata
     2701 tcgtgcttcc tgacaacgca acttcgtaca cactacgtga catcatcgaa gcgttgccga
     2761 aggacagtaa tgcggcatgg aaactcacca gtaatgccat gtcgatgatg gcagatatgc
     2821 aggcgacgcg cagacgctgg gaagagctga acaccgaacg aaaggaagcg atgagccatg
     2881 ctgccagcct gaaaaaatca tcgccgtttt cgtccggttt ttcccgtatt cccctgatgc
     2941 aatgggcggc accggaatac cgtagcgaac agggaaaaat ccagtcgctg agccagcaaa
     3001 tggaaaaatt gcgacagcat taccggaagg tggagaaaca ggacattccc gcgagtcaga
     3061 cggcatttga aaaacagtgg cagcagtggg gggcatccgg ccttgcagct ctcagagtcc
     3121 agttgcttaa acgtgaagag gaattgcgcc ggaaggagca ggaggataca gaacgtagtc
     3181 gcgcggagcg acgagcggaa cagctcagga aaaatgacaa tgccgttatg gattcagggg
     3241 tactgagcgc agtcgttacg gggtatggcg aggcccccat gcctggtaac ggggaaatga
     3301 cctgttacct tctgcttcac aaccggaacg gagaatacac gctctggggg aacgagctgg
     3361 agaaataccg caccagaatc tttgagcgtg ttgatttaat gcgtgacagg agtggttata
     3421 tctgtgaccg aagcgaaatc ggtcaacatc caccactgca acgtgtttat tcctctgcga
     3481 cctttgagca acttctgacg caggtttgcc agacatggcc gcaatatacc cgcaatctcc
     3541 gccagccgaa gacatggccg gagtctttct gtcttggaga agaccgccag ccagccatgc
     3601 catcactggc agcaaggaag gtggatttta cgcagggacg tctgctaccg acgctgatgc
     3661 cggtaatgag ttctgtcgac cgggaaaccc gccagcttca gcttttgctg gtcatgggcg
     3721 tggatgactc tctgggcggt gttgtccggc ttaatggtac gctgtatccc gcgtttgccg
     3781 ttccctcagc cgataacagc cagctggtca tcagtgcact gaccgataag gggttacggt
     3841 atgcagggta tggtgttgcc gtaaatcacg atgcagacag ccacatatca cctgcgccgg
     3901 aacttatgga gtttcatctg aaaacccgtg aggcaccgct ttttgctgcc gtcaacacac
     3961 cagaaaaaca gccggatcat ctgttccgct ctctgggttt caatcgtacc tgggatgaat
     4021 ggcggcgcga ggaagatgca agaacacaca ccaccgagag gagacatgat cg
//
