LOCUS       NZ_CP023833             4072 bp    DNA     circular CON 18-JUN-2024
DEFINITION  Escherichia coli strain 4/4 plasmid p4_4.7, complete sequence.
ACCESSION   NZ_CP023833
VERSION     NZ_CP023833.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN07760938
            Assembly: GCF_003856655.1
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  JOURNAL   Unpublished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                   :: 24x
            Sequencing Technology             :: Pacific bio + Miseq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_003856655.1-RS_2024_06_18
            Annotation Date                   :: 06/18/2024 02:24:22
            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)                     :: 5,390
            CDSs (total)                      :: 5,270
            Genes (coding)                    :: 5,051
            CDSs (with protein)               :: 5,051
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 93
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 219
            CDSs (without protein)            :: 219
            Pseudo Genes (ambiguous residues) :: 0 of 219
            Pseudo Genes (frameshifted)       :: 81 of 219
            Pseudo Genes (incomplete)         :: 165 of 219
            Pseudo Genes (internal stop)      :: 39 of 219
            Pseudo Genes (multiple problems)  :: 56 of 219
            Pseudo Genes (short protein)      :: 1 of 219
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP023833.1.
            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="4/4"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p4_4.7"
                     /geo_loc_name="Sweden"
                     /collection_date="2009"
     gene            join(1941..4072,1..16)
                     /gene="mobQ"
                     /locus_tag="CRT43_RS27470"
                     /old_locus_tag="CRT43_28620"
     CDS             join(1941..4072,1..16)
                     /gene="mobQ"
                     /locus_tag="CRT43_RS27470"
                     /old_locus_tag="CRT43_28620"
                     /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_032495499.1"
                     /translation="MAIYHLSMKIISRSSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPHELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAIGPAGFSGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNGGLTEPARRVADLLNIGLPDNATSYTLRDIIEALPKDSN
                     SAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQMAFEKQWQQWGKSGLAALRAQL
                     LKREEELRRKEQEDTERSRAEQLRKNDNAVMDSGVLRAVVTGYGEAPMPGNGEMTCYLL
                     LHNRNGEYTLWGNELEKYRTRIFESVDLMRDRSGYICDRSEIGQRPPLQRVYSSATFEQ
                     LLTQVCQTWPQHTRNLRQPKTWPESFCLGEDRQPAMPSPAARKVDFMQGRLPPTLMPVM
                     SSVDRETRQLQLLLVMGVDDSLGGVIRLNGTLYPAFAVPSADNRHLVISALTDKGLRYA
                     GYGVAVNHDADSHISPAPELMQFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRTWEEW
                     QREEDARTHTTERRHDRGWSQ"
                     /name="mobQ"
     gene            complement(274..975)
                     /locus_tag="CRT43_RS27475"
                     /old_locus_tag="CRT43_28605"
     CDS             complement(274..975)
                     /locus_tag="CRT43_RS27475"
                     /old_locus_tag="CRT43_28605"
                     /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_001281395.1"
                     /translation="MSDLIAYKSNALIEASYKLTLQEQRFLLVCISRLKSGEDSPSPDE
                     QKTMTITAAEFHDAFPDMGRQHAEARLKEAIDRLWDRSVIIKNEEKREEFRWVQYRAQY
                     FKGEAKVDITFSDAIMPYLTQLKGQFTRVVVKNVSSLSSTYSIRIYELLQQFRSTGDRT
                     IAIDDFRTMLAVEDKYQQFKDLNKMIIKPAIAELNEKSDLVVTVETIKKGRTVVALHFR
                     FKEDKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(1508..1762)
                     /gene="mobC"
                     /locus_tag="CRT43_RS27485"
                     /old_locus_tag="CRT43_28615"
     CDS             complement(1508..1762)
                     /gene="mobC"
                     /locus_tag="CRT43_RS27485"
                     /old_locus_tag="CRT43_28615"
                     /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_000091746.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVVVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPEQ"
                     /name="mobC"
     Typing          complement(1764..1940)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          1941..2299
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(275..975)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          1855..4070
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.962"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 cggttggtca cagtgaatgt gaacaatatt ttgttttgtt taacatcgtg ttatgttcgt
       61 cgatgttctt cgatgttcat cgacagggat gaatgcaaga agcacactca cataacgcaa
      121 gcatagtttt gtttttccgc ccccaaaaat tggggggtct tttttcgctg catcagagcg
      181 tttttgacgc aatttttcac ttcaatagta ccttcgcact actaacacaa aaaaaacgca
      241 gcagggagcg ttttaggtgc cttaaaatcg attttagatc gtcatcttga tctgtttgtc
      301 ttccttgaag cgaaaatgca gggctacaac cgtgcgcccc tttttgatcg tctcaacagt
      361 tacaaccaga tcgctttttt cgttcagttc ggcgatggct ggcttgatta tcatcttatt
      421 caagtctttg aattgttgat atttatcttc aacggcaagc atggttcgga aatcatcgat
      481 agctatcgtt ctgtcaccgg tgctgcggaa ctgctggagc agctcgtaaa tgcggatgct
      541 gtaggtgctg gaaaggctgg agacgttctt cacgactacc cgcgtaaact gccccttgag
      601 ctgtgtcaga tacggcatga tggcatcgga gaaggtgata tctactttcg cctcaccttt
      661 gaaatactgc gcccggtact gcacccagcg gaactcttct cgtttttcct cgttcttgat
      721 gattactgac ctgtcccaga ggcgatctat cgcttccttg agcctagctt cagcgtgctg
      781 ccgtcccatg tcaggaaagg catcatgaaa ctctgcagcc gtgatggtca tggttttttg
      841 ttcatccggc gaaggggaat cttctccgga ttttaggcgg ctgatacaga ccagcaggaa
      901 gcgctgttcc tgcaaagtga gcttgtagct tgcctcgata agggcgtttg atttgtaagc
      961 tatcagatct gacatttcgc ttgctcgttg ctattggtgg cgttttttta ctgtacgcca
     1021 cttatcatat gggtggaagt tttttttttg caaccccctt tttctgtgga ttacaccccc
     1081 aaaagctcca cctttcaccc ccaaaagctc cacctttcac ccccaaaagc tccacctttc
     1141 acccccaaaa gctccactta tcttgccaga acatctttaa aatcatggtg ttacaagacc
     1201 taaaaaggtt ttaaaaaaaa gatctaaaaa taagatctta aaaacttaac ggcgagcctg
     1261 tggataactt ggggtgctga aaacaaaaaa ccaataaaaa caatgcgttg caataaagca
     1321 gaattgcaag tttcgaatac accccctcca accctgtgga aacccagtat tcatgcgggt
     1381 tcagcgcata tcacctgccg aaaaaccgtg cgtatgtgct caacctggcg actgattcac
     1441 ttccgcttcc tcgcccactc gctcgctaac gctcggtcgc tggggctgcg gcgagcggac
     1501 gatacaatca ctgttctggc agcgcctcca gctcgttaat cagcggcagt atgcgcgtca
     1561 catcagcctg tcgtgtcacc tctgccttca ggaactggag taaccaggca cgcaactgca
     1621 cctcctccgg ctttctgacc tttgccagca atgcagcacc cacaacaacc ttctgcgctg
     1681 tgtccaggct ccggctcttc gccttcaggc gctgtaatct cgcctcagca tcagcaatct
     1741 tctgttcgag cgttctgctc atgatgtaac tccgtgcgcg atgaaaaatc gcattttagc
     1801 gcgtcactgg tagtttaaaa actgagctgg cataatgcac ggcaaatcac gaagtgcgca
     1861 cttatacaat ctccactccg tttcgattgt gtgcgccctg cggggctgaa agaaaactac
     1921 aaaaaggcat tacggcagaa atggcgattt atcatctcag catgaaaatt atctccagaa
     1981 gcagcggcta cagcgccgta gcttccgctg cctatcgttc cggttcactg atgcttgatg
     2041 agcgtaccgg actgactcac gactacaccc gcaaaagcgg tgtggctgag gctgtgattc
     2101 tgacccccgc caccgcccct gcctggtgta cgaaccgtgc cgaactctgg aatgccgttg
     2161 agaaggccga acgccggaag aactcacaac ttgcgcggga aattgaactc gccatccccc
     2221 acgaactgcc gcaggatgcc gcacgggaaa ccgttctcgc ctttgtcaga gaaaactttg
     2281 tcagtcaggg catgattgct gatgtggcgt tccatcacat ggataaaaca aatccccatg
     2341 cgcacatcat gctgaccacg agggctatcg gacctgctgg gttcagcgga aaggtcaggg
     2401 actggaacga ccggacacat gccgagacgt ggcgggcatc atgggctgac catgcaaaca
     2461 gggcactggc gaacgccggt tatcaggaag agatagacca tcgttcatac gagcgacagg
     2521 ggcttgagaa aacgcctggt attcacctcg gaaagtctgc ctgtgcgatg gaaacacgcg
     2581 gtatcgaaac agaacgcggc gaacagaatc gtctgattaa caggcttaac ctggaaatac
     2641 agatttcccg caccgaactc aggaacggag ggctgacaga gcctgcccgc cgtgtggctg
     2701 accttctgaa tatcgggctt cctgacaacg caacttcgta cacactacgt gacattatcg
     2761 aagcgttgcc gaaggacagt aactcggcat ggaaactcac cagtaatgcc atgtcgatga
     2821 tggcagatat gcaggcgacg cgcagacgct gggaagagct gaacaccgaa cgaaaggaag
     2881 cgatgagcca tgctgccagc ctgaaaaaat catcgccgtt ttcgtccggt ttttcccgta
     2941 ttcccctgat gcaatgggcg gcaccggaat accgtagtga gcagggaaaa atccagtctc
     3001 tgagccagca aatggaaaaa ttacgacagc attaccggaa ggtggagaaa caggacattc
     3061 ccgcgagtca gatggcattt gaaaaacagt ggcagcagtg ggggaaatcc ggccttgcag
     3121 ctctcagagc ccagttgctt aaacgtgaag aggaattgcg ccggaaggaa caggaagata
     3181 ctgaacgtag tcgcgcggag cagctcagga aaaatgacaa tgccgttatg gattcagggg
     3241 tgctgagagc agtcgttacg gggtatggcg aggctcccat gcctggtaac ggggaaatga
     3301 cctgttacct tctgcttcac aaccggaacg gagaatatac gctctggggg aacgagctgg
     3361 agaaataccg caccagaatc tttgagagtg ttgatttaat gcgtgacagg agtggttata
     3421 tctgtgaccg aagcgaaatc ggccaacgtc cgccactgca acgtgtttat tcctctgcaa
     3481 cctttgagca actgctgacg caggtttgcc agacatggcc gcaacatacc cgcaatctcc
     3541 gccagccgaa gacatggccg gagtctttct gtcttggaga agaccgccag ccagccatgc
     3601 catcaccagc ggcaaggaag gtggatttta tgcagggacg tctgccaccg acgctgatgc
     3661 cggtcatgag ttctgtcgac cgggaaaccc gccagcttca gcttttgctg gtcatgggcg
     3721 tggatgactc tctgggcggt gttatccggc ttaatggtac gctgtatccc gcgtttgccg
     3781 ttccctcagc cgataacagg catctggtca tcagtgcgct gaccgataag gggttacggt
     3841 atgcagggta tggtgttgcc gtaaatcacg atgcagacag ccacatatca cctgcaccag
     3901 aactgatgca gtttcatctg aaaacccgtg aggcaccgct ttttgctgcc gtcaacacac
     3961 cagaaaaaca gccggatcat ctgttccgct cgctgggttt taatcgtacc tgggaggaat
     4021 ggcagcgcga ggaagatgca cgaacacaca ccaccgagag gagacatgat cg
//
