LOCUS       NZ_CP050383             4081 bp    DNA     circular CON 16-MAY-2024
DEFINITION  Escherichia coli strain 52148 plasmid p52148, complete sequence.
ACCESSION   NZ_CP050383
VERSION     NZ_CP050383.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN14421542
            Assembly: GCF_011769865.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4081)
  AUTHORS   Chudejova,K., Kraftova,L., Mattioni Marchetti,V., Hrabak,J.,
            Papagiannitsis,C.C. and Bitar,I.
  TITLE     Genetic Plurality of OXA/NDM-Encoding Features Characterized From
            Enterobacterales Recovered From Czech Hospitals
  JOURNAL   Front Microbiol 12, 641415 (2021)
   PUBMED   33633720
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 4081)
  AUTHORS   Bitar,i.
  TITLE     Direct Submission
  JOURNAL   Submitted (22-MAR-2020) Microbiology, Charles University in Prague,
            Alej Svobody 1655/76, Plzen 1 32300, Czech Republic
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: Microbial Assembly v. SMRT Link v.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 641.0x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_011769865.1-RS_2024_05_16
            Annotation Date                   :: 05/16/2024 02:49:00
            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)                     :: 4,867
            CDSs (total)                      :: 4,747
            Genes (coding)                    :: 4,491
            CDSs (with protein)               :: 4,491
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 256
            CDSs (without protein)            :: 256
            Pseudo Genes (ambiguous residues) :: 0 of 256
            Pseudo Genes (frameshifted)       :: 85 of 256
            Pseudo Genes (incomplete)         :: 171 of 256
            Pseudo Genes (internal stop)      :: 54 of 256
            Pseudo Genes (multiple problems)  :: 49 of 256
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP050383.1.
            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..4081
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="52148"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p52148"
                     /geo_loc_name="Czech Republic: Ostrava"
                     /lat_lon="49.82 N 18.16 E"
                     /collection_date="2019-08"
                     /collected_by="Charles University in Prague"
     gene            join(3865..4081,1..485)
                     /locus_tag="HB638_RS23305"
                     /old_locus_tag="HB638_23295"
     CDS             join(3865..4081,1..485)
                     /locus_tag="HB638_RS23305"
                     /old_locus_tag="HB638_23295"
                     /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_023908708.1"
                     /translation="MSDLIAYKSNALVEASYKLTLQEQRFLLLCIGRLKSGADAESPKL
                     QKTMTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKDDEKREEFRWIQYRAQY
                     AKGEARAQITFSDAVMPYLTQLQGQFTRVVIKNISRLSRSYSIRIYELLQQFRSTGERI
                     ITLDDFRSMLDIEHKYQTYKSLNQQLLRPCIDELNKKSDLAVTVETIKKGRTVVALHFR
                     FKEDKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(740..2899)
                     /gene="mobQ"
                     /locus_tag="HB638_RS23310"
                     /old_locus_tag="HB638_23300"
     CDS             complement(740..2899)
                     /gene="mobQ"
                     /locus_tag="HB638_RS23310"
                     /old_locus_tag="HB638_23300"
                     /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_023908709.1"
                     /translation="MAIYHLSMKIISRNSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPRELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPARRVADLLNIVLPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQTAFEKQWQQWGASGLAALRVQL
                     LKREEELRRKEQEDRERSRAERRAEQLRKNDNAVMDSGVLSAVVTGYGEAPMPGNGEMT
                     CYLLLHNRNGEYTLWGNELEKYRTRIFERVDLMRDRSGYICDRSEIGQHPPLQRVYSSA
                     TFEQLLTQVCQTWPQYTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLLPTL
                     MPVMSSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKG
                     LRYAGYGVAVNHDADSHISPAPELMEFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRT
                     WDEWRREEDARTHATERRHDRGWSQ"
                     /name="mobQ"
     gene            3078..3332
                     /gene="mobC"
                     /locus_tag="HB638_RS23315"
                     /old_locus_tag="HB638_23305"
     CDS             3078..3332
                     /gene="mobC"
                     /locus_tag="HB638_RS23315"
                     /old_locus_tag="HB638_23305"
                     /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_000091745.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVIVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPGQ"
                     /name="mobC"
     Typing          complement(2542..2900)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          2901..3077
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          142..485
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="83.573"
                     /coverage="100.0"
                     /evalue="1.99e-85"
     Typing          3866..4081
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.28e-109"
     Typing          complement(744..2986)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.733"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 aggaagcaat tgatcgtttg tgggacaggt caatcattct caaggatgac gagaaacgtg
       61 aggagttccg ctggatccag tatcgggcac agtacgctaa aggcgaggcc agagcacaaa
      121 taacattttc tgacgcagta atgccttatt tgacacaact acaagggcaa tttactagag
      181 ttgtaatcaa gaatatatct agattatcaa gaagttacag tataaggata tacgaactcc
      241 tccagcagtt ccgcagtact ggcgaacgta ttatcactct cgatgatttt cgctcaatgc
      301 ttgatataga gcataaatat caaacatata aatcacttaa ccagcaatta ttaagaccct
      361 gcattgacga actgaacaaa aaaagcgacc tggctgtaac ggttgagacg atcaaaaagg
      421 ggcgcacggt tgtagccctg cattttcgct tcaaggaaga caaacaaatc aagatgacga
      481 tctaaaatcg attttaaggc acctaaaacg ctccctgccg cgtttttttt gtgttagtag
      541 tgcgaaggta ctattgaagt gaaaaattgc gtcaaaagcg ctctaatgca gcgaaaaaag
      601 aacccccatt tttgggggcg gaaaaacaaa actatgcttg cattatgtgt gtgcttcttg
      661 cattcatccc tgtcgatgaa catcgaagaa catcgacgaa cataacacga tgttaaacaa
      721 aacaaaatat tgttcacatt cactgtgacc aaccgcgatc atgtctcctc tcggtggcgt
      781 gtgttcgtgc atcttcctcg cgccgccatt cgtcccaggt acgattaaaa cccagcgagc
      841 ggaacagatg atccggctgt ttttctggtg tgttgacggc agcaaaaagc ggtgcctcac
      901 gggttttcag atgaaactcc ataagttccg gcgcaggtga tatgtggctg tctgcatcgt
      961 gatttacggc aacaccatac cctgcatacc gtaacccctt atcggtcagt gcactgatga
     1021 ccagctggct gttatcggct gagggaacgg caaacgcggg atacagcgta ccattcagcc
     1081 ggacaacacc gcccagagag tcatccacgc ccatgaccag caaaagctga agctggcggg
     1141 tttcccggtc gacagaactc attaccggca tcagcgtcgg tagcagacgt ccctgcgtaa
     1201 aatccacctt ccttgctgcc agtgatggca tggctggctg gcggtcttct ccaagacaga
     1261 aagactccgg ccatgtcttc ggctggcgga gattgcgggt atattgcggc catgtctggc
     1321 aaacctgcgt cagaagttgc tcaaaggtcg cagaggaata aacacgttgc agtggtggat
     1381 gttgaccgat ttcgcttcgg tcacagatat aaccactcct gtcacgcatt aaatcaacac
     1441 gctcaaagat tctggtgcgg tatttctcca gctcgttccc ccagagcgtg tattctccgt
     1501 tccggttgtg aagcagaagg taacaggtca tttccccgtt accaggcatg ggggcctcgc
     1561 cataccccgt aacgactgcg ctcagtaccc ctgaatccat aacggcattg tcatttttcc
     1621 tgagctgttc cgctcgtcgc tccgcgcgac tacgttctct atcctcctgc tccttccggc
     1681 gcaattcctc ttcacgttta agcaactgga ctctgagagc tgcaaggccg gatgcccccc
     1741 actgctgcca ctgtttttca aatgccgtct gactcgcggg aatgtcctgt ttctccacct
     1801 tccggtaatg ttgtcgcaat ttttccattt gctggctcag cgactggatt tttccctgtt
     1861 cgctacggta ttccggtgcc gcccattgca tcaggggaat acgggaaaaa ccggacgaaa
     1921 acggcgatga ttttttcagg ctggcagcat ggctcatcgc ttcctttcgt tcggtgttca
     1981 gctcttccca gcgtctgcgc gtcgcctgca tatctgccat catcgacatg gcattactgg
     2041 tgagtttcca tgccgcatta ctgtccttcg gcaacgcttc gatgatgtca cgtagtgtgt
     2101 acgaagttgc gttgtcagga agcacgatat tcagaaggtc agccacacgg cgggcaggct
     2161 ctgtcagccc gctgtttctg agttcggtac gggaaatctg tatttccagg ttaagtctgt
     2221 taatcagacg attctgttcg ccgcgttctg tttcgatacc gcgtgtttcc atcgcacagg
     2281 cagactttcc gaggtgaata ccaggcgttt tctcaagccc ctgtcgctcg tatgaacgat
     2341 ggtctatctc ttcctgataa ccggcgttcg ccagtgccct gttcgcatgg tcagcccatg
     2401 atgcacgcca cgtctcggca tgtgtccggt cgttccagtc cctgaccttt ccaccgaatc
     2461 cagcaggtcc gacagctctc gtggtcagca tgatgtgcgc atggggattt gttttatcca
     2521 tgtgatggaa cgccacatca gcaatcatgc cctgactgac aaagttttct ctgacaaagg
     2581 cgagaacggt ttcccgtgcg gcatcctgcg gtagttcgcg ggggatggcg agttcaattt
     2641 cccgcgcaag ttgtgagttc ttccggcgtt cggccttctc aacggcattc cagagttcgg
     2701 cacggttcgt acaccaggca ggggctgtcg cgggagtcag aatcacagct tcagccacac
     2761 cgcttttgcg ggtgtagtcg tgagtcagtc cggtacgctc atcaagcatc agtgaaccgg
     2821 aacgataggc agcagaagca acggcgctgt agccgctgtt tctggagatg attttcatgc
     2881 tgagatgata aatcgccatt tctgccgtaa tgcctttttg tggttttctt tcagccccgc
     2941 agggcgcaca caatcgaaac ggagtggaga ttgtataagt gcgcacttcg tgattttccg
     3001 tgcattatgc cagctcagtt tttaaactac cagtgacgcg ctaaaatgcg atttttcatc
     3061 gcgcacggag ttacatcatg agcagaacac tcgaacagaa gattgctgat gctgaggcca
     3121 gattacagcg cctgaaggcg aagagcagga gtctggacac agcgcagaag gtcattgtgg
     3181 gtgcagcatt gctggcaaag gtcagaaagc cggaggaggt gcagttgcgt gcctggttac
     3241 tccagttcct gaaggcagag gtgacacgac aggctgatgt gacgcgcata ctgccgctga
     3301 ttaacgagct ggaagcgctg ccaggacagt gattgtatcg tccgctcgcc gcagtcccag
     3361 cgaccgagcg ttagcgagcg agtgggcgag gaagcggaag tgaatccgtc gcctgattga
     3421 gcacatacgc acggtttttc gggaggtgat atgcgctgaa cccgcatgaa tactggattt
     3481 ccacagggtt ggagggggtg tattcggaac ttgcaattct gcttttttgc aacgcattgt
     3541 ttttattggt tttttgtttt cagcactcca agttatccac aggctcgtcg ttaagttttt
     3601 agatcttgtt tttaagatct tgtttttaat acttgtttta gcgccaaaat tccttataga
     3661 aaacaaaatg ttacaacgct ataggtaata tgatttaagg taaaggtaat atgatttaag
     3721 gtgcttgggt aatatgattt aaggtaaagg caatatgatt taaggtaata ttcacagaaa
     3781 aagggatatt aaaataaaaa ggcattgcct ttcgttgagg gtatgtttat cttttattca
     3841 ttaccttttg gggagggatg ctctatgtcg gatctaattg cctataaatc caatgcgctg
     3901 gttgaagcca gttataaatt gaccctacag gaacagcgat ttttgttact ttgcatcggt
     3961 cgattgaagt ctggggctga tgcagaatct ccaaaattgc aaaagacaat gaccattaca
     4021 gctgcggaat atttcgattc attccctgac atggggcgga aaaatgccga ggttcagtta
     4081 c
//
