LOCUS       NZ_CP041958             4072 bp    DNA     circular CON 23-JUN-2024
DEFINITION  Escherichia coli strain EC2 plasmid pEC2_3, complete sequence.
ACCESSION   NZ_CP041958
VERSION     NZ_CP041958.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN12307470
            Assembly: GCF_009720465.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4072)
  AUTHORS   Khan,A., Shropshire,W.C., Hanson,B., Dinh,A.Q., Wagner,A.,
            Ostrosky-Zeichner,L., Arias,C.A. and Miller,W.R.
  TITLE     Simultaneous Infection with Enterobacteriaceae and Pseudomonas
            aeruginosa harboring Multiple Carbapenemases in a Returning Traveler
            colonized with Candida auris
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4072)
  AUTHORS   Khan,A., Shropshire,W.C., Hanson,B., Dinh,A.Q., Wagner,A.,
            Ostrosky-Zeichner,L., Arias,C.A. and Miller,W.R.
  TITLE     Direct Submission
  JOURNAL   Submitted (18-JUL-2019) Epidemiology, Human Genetics and
            Environmental Sciences, The University of Texas Health Science
            Center at Houston, 1200 Pressler Street, Houston, TX 77030, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Celera Assembler v. 1.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 715x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_009720465.1-RS_2024_06_23
            Annotation Date                   :: 06/23/2024 04:35:56
            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)                      :: 4,976
            Genes (coding)                    :: 4,696
            CDSs (with protein)               :: 4,696
            Genes (RNA)                       :: 123
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 90
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 280
            CDSs (without protein)            :: 280
            Pseudo Genes (ambiguous residues) :: 0 of 280
            Pseudo Genes (frameshifted)       :: 106 of 280
            Pseudo Genes (incomplete)         :: 184 of 280
            Pseudo Genes (internal stop)      :: 58 of 280
            Pseudo Genes (multiple problems)  :: 63 of 280
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP041958.1.
            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="EC2"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pEC2_3"
                     /geo_loc_name="USA:Houston"
                     /lat_lon="29.712470 N 95.397690 W"
                     /collection_date="2017-09-29"
                     /collected_by="William R. Miller"
                     /genotype="ST167"
     gene            join(3874..4072,1..503)
                     /locus_tag="FOZ67_RS24085"
                     /old_locus_tag="FOZ67_24530"
     CDS             join(3874..4072,1..503)
                     /locus_tag="FOZ67_RS24085"
                     /old_locus_tag="FOZ67_24530"
                     /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_001281397.1"
                     /translation="MSDLIAYKSNALVEASYKLTLQEQRFLLLCIGRLKSGADAESPKL
                     QKTMTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKDDEKREEFRWIQYRAQY
                     AKGEARAQITFSDAVMPYLTQLQGQFTRVVIKNISRLSRSYSIRIYELLQQFRSTGERI
                     IALDDFRSMLDIEHKYQTYKSLNQQLLRPCIDELNKKSDLAVTVETIKKGRTVVALHFR
                     FKEDKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(749..2908)
                     /gene="mobQ"
                     /locus_tag="FOZ67_RS24090"
                     /old_locus_tag="FOZ67_24535"
     CDS             complement(749..2908)
                     /gene="mobQ"
                     /locus_tag="FOZ67_RS24090"
                     /old_locus_tag="FOZ67_24535"
                     /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_063610029.1"
                     /translation="MAIYHLSMKIISRNSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCMNRAELWNAVEKAERRKNSQLAREIELAIPRELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPARRVADLLNIVLPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQTAFEKQWQQWGASGLAALRVQL
                     LKREEELRRKEQEDTERSRAERRAEQLRKNDNAVMDSGVLSAVVTGYGEAPMPGNGEMT
                     CYLLLHNRNGEYTLWGNELEKYRTRIFERVDLMRDRSGYICDRSEIGQHPPLQRVYSSA
                     TFEQLLTQVCQTWPQYTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLLPTL
                     MPVMSSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKG
                     LRYAGYGVAVNHDADSHISPAPELMEFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRT
                     WDEWRREEDARTHATERRHDRGWSQ"
                     /name="mobQ"
     gene            3087..3341
                     /gene="mobC"
                     /locus_tag="FOZ67_RS24095"
                     /old_locus_tag="FOZ67_24540"
     CDS             3087..3341
                     /gene="mobC"
                     /locus_tag="FOZ67_RS24095"
                     /old_locus_tag="FOZ67_24540"
                     /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(2551..2909)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.722"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          2910..3086
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.438"
                     /coverage="100.0"
                     /evalue="2.610000000000001e-86"
     Typing          2..503
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(753..2995)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.733"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atgccgaggt tcagttacag gaagcaattg atcgtttgtg ggacaggtca atcattctca
       61 aggatgacga gaaacgtgag gagttccgct ggatccagta tcgggcacag tacgctaaag
      121 gcgaggccag agcacaaata acattttctg acgcagtaat gccttatttg acacaactac
      181 aagggcaatt tactagagtt gtaatcaaga atatatctag attatcaaga agttacagta
      241 taaggatata cgaactcctc cagcagttcc gcagtactgg cgaacgtatt atcgctctcg
      301 atgattttcg ctcaatgctt gatatagagc ataaatatca aacatataaa tcacttaacc
      361 agcaattatt aagaccctgc attgacgaac tgaacaaaaa aagcgacctg gctgtaacgg
      421 ttgagacgat caaaaagggg cgcacggttg tagccctgca ttttcgcttc aaggaagaca
      481 aacaaatcaa gatgacgatc taaaatcgat tttaaggcac ctaaaacgct ccctgctgcg
      541 ttttttttgt gttagtagtg cgaaggtact attgaagtga aaaattgcgt caaaagcgct
      601 ctaatgcagc gaaaaaagaa cccccatttt ttgggggcgg aaaaacaaaa ctatgcttgc
      661 attatgtgtg tgcttcttgc attcatccct gtcgatgaac atcgaagaac ataacacgat
      721 gttaaacaaa acaaaatatt gttcacattc actgtgacca accgcgatca tgtctcctct
      781 cggtggcgtg tgttcgtgca tcttcctcgc gccgccattc gtcccaggta cgattaaaac
      841 ccagcgagcg gaacagatga tccggctgtt tttctggtgt gttgacggca gcaaaaagcg
      901 gtgcctcacg ggttttcaga tgaaactcca taagttccgg cgcaggtgat atgtggctgt
      961 ctgcatcgtg atttacggca acaccatacc ctgcataccg taacccctta tcggtcagtg
     1021 cactgatgac cagctggctg ttatcggctg agggaacggc aaacgcggga tacagcgtac
     1081 cattaagccg gacaacaccg cccagagagt catccacgcc catgaccagc aaaagctgaa
     1141 gctggcgggt ttcccggtcg acagaactca ttaccggcat cagcgtcggt agcagacgtc
     1201 cctgcgtaaa atccaccttc cttgctgcca gtgatggcat ggctggctgg cggtcttctc
     1261 caagacagaa agactccggc catgtcttcg gctggcggag attgcgggta tattgcggcc
     1321 atgtctggca aacctgcgtc agaagttgct caaaggtcgc agaggaataa acacgttgca
     1381 gtggtggatg ttgaccgatt tcgcttcggt cacagatata accactcctg tcacgcatta
     1441 aatcaacacg ctcaaagatt ctggtgcggt atttctccag ctcgttcccc cagagcgtgt
     1501 attctccgtt ccggttgtga agcagaaggt aacaggtcat ttccccgtta ccaggcatgg
     1561 gggcctcgcc ataccccgta acgactgcgc tcagtacccc tgaatccata acggcattgt
     1621 catttttcct gagctgttcc gctcgtcgct ccgcgcgact acgttctgta tcctcctgct
     1681 ccttccggcg caattcctct tcacgtttaa gcaactggac tctgagagct gcaaggccgg
     1741 atgcccccca ctgctgccac tgtttttcaa atgccgtctg actcgcggga atgtcctgtt
     1801 tctccacctt ccggtaatgc tgtcgcaatt tttccatttg ctggctcagc gactggattt
     1861 ttccctgttc gctacggtat tccggtgccg cccattgcat caggggaata cgggaaaaac
     1921 cggacgaaaa cggcgatgat tttttcaggc tggcagcatg gctcatcgct tcctttcgtt
     1981 cggtgttcag ctcttcccag cgtctgcgcg tcgcctgcat atctgccatc atcgacatgg
     2041 cattactggt gagtttccat gccgcattac tgtccttcgg caacgcttcg atgatgtcac
     2101 gtagtgtgta cgaagttgcg ttgtcaggaa gcacgatatt cagaaggtca gccacacggc
     2161 gggcaggctc tgtcagcccg ctgtttctga gttcggtacg ggaaatctgt atttccaggt
     2221 taagtctgtt aatcagacga ttctgttcgc cgcgttctgt ttcgataccg cgtgtttcca
     2281 tcgcacaggc agactttccg aggtgaatac caggcgtttt ctcaagcccc tgtcgctcgt
     2341 atgaacgatg gtctatctct tcctgataac cggcgttcgc cagtgccctg ttcgcatggt
     2401 cagcccatga tgcacgccac gtctcggcat gtgtccggtc gttccagtcc ctgacctttc
     2461 caccgaatcc agcaggtccg acagctctcg tggtcagcat gatgtgcgca tggggatttg
     2521 ttttatccat gtgatggaac gccacatcag caatcatgcc ctgactgaca aagttttctc
     2581 tgacaaaggc gagaacggtt tcccgtgcgg catcctgcgg tagttcgcgg gggatggcga
     2641 gttcaatttc ccgcgcaagt tgtgagttct tccggcgttc ggccttctca acggcattcc
     2701 agagttcggc acggttcata caccaggcag gggctgtcgc gggagtcaga atcacagctt
     2761 cagccacacc gcttttgcgg gtgtagtcgt gagtcagtcc ggtacgctca tcaagcatca
     2821 gtgaaccgga acgataggca gcagaagcaa cggcgctgta gccgctgttt ctggagatga
     2881 ttttcatgct gagatgataa atcgccattt ctgccgtaat gcctttttgt ggttttcttt
     2941 cagccccgca gggcgcacac aatcgaaacg gagtggagat tgtataagtg cgcacttcgt
     3001 gattttccat gcattatgcc agctcagttt ttaaactacc agtgacgcgc taaaatgcga
     3061 tttttcatcg cgcacggagt tacatcatga gcagaacact cgaacagaag attgctgatg
     3121 ctgaggccag attacagcgc ctgaaggcga agagcaggag tctggacaca gcgcagaagg
     3181 tcattgtggg tgcagcattg ctggcaaagg tcagaaagcc ggaggaggtg cagttgcgtg
     3241 cctggttact ccagttcctg aaggcagagg tgacacgaca ggctgatgtg acgcgcatac
     3301 tgccgctgat taacgagctg gaagcgctgc caggacagtg attgtatcgt ccgctcgccg
     3361 cagtcccagc gaccgagcgt tagcgagcga gtgggcgagg aagcggaagt gaatccgtcg
     3421 cctgattgag cacatacgca cggtttttcg ggaggtgata tgcgctgaac ccgcatgaat
     3481 actggatttc cacagggttg gagggggtgt attcggaact tgcaattctg cttttttgca
     3541 acgcattgtt tttattggtt ttttgttttc agcactccaa gttatccaca ggctcgtcgt
     3601 taagttttta gatcttgttt ttaagatctt gtttttaata cttgttttag cgccaaaatt
     3661 ccttatagaa aacaaaatgt tacaacgcta taggtaatat gatttaaggt aaaggtaata
     3721 tgatttaagg tgtttaggtg gaggaattta aggtaaaggc aatatgattt aaggtaatat
     3781 tcacagaaaa agggatatta aaataaaaag gcattgcctt tcgttgaggg tatgtttatc
     3841 ttttattcat taccttttgg ggagggatgc tctatgtcgg atctaattgc ctataaatcc
     3901 aatgcgctgg ttgaagccag ttataaattg accctacagg aacagcgatt tttgttactt
     3961 tgcatcggtc gattgaagtc tggggctgat gcagaatctc caaaattgca aaagacaatg
     4021 accattacag ctgcggaata tttcgattca ttccctgaca tggggcggaa aa
//
