LOCUS       NZ_CP049080             3372 bp    DNA     circular CON 25-JUN-2024
DEFINITION  Escherichia coli strain p10A plasmid p10A_p3, complete sequence.
ACCESSION   NZ_CP049080
VERSION     NZ_CP049080.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN13948681
            Assembly: GCF_011331065.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3372)
  AUTHORS   Shropshire,W.C.
  TITLE     Concurrence of Porin Loss and Modular Amplification of
            Beta-Lactamase Encoding Genes Drives Carbapenem Resistance in
            Recurrent Enterobacterales Bacteremia Isolates
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3372)
  AUTHORS   Shropshire,W.C.
  TITLE     Direct Submission
  JOURNAL   Submitted (19-FEB-2020) Epidemiology, Human Genetics and
            Environmental Sciences, The University of Texas Health Science
            Center at Houston, 1200 Pressler Street, Houston, Texas 77030,
            United States of America
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Flye v. 2.6
            Assembly Name                     :: 10A
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 373x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_011331065.1-RS_2024_06_25
            Annotation Date                   :: 06/25/2024 03:39:36
            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)                     :: 4,856
            CDSs (total)                      :: 4,733
            Genes (coding)                    :: 4,487
            CDSs (with protein)               :: 4,487
            Genes (RNA)                       :: 123
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 246
            CDSs (without protein)            :: 246
            Pseudo Genes (ambiguous residues) :: 0 of 246
            Pseudo Genes (frameshifted)       :: 76 of 246
            Pseudo Genes (incomplete)         :: 182 of 246
            Pseudo Genes (internal stop)      :: 35 of 246
            Pseudo Genes (multiple problems)  :: 44 of 246
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP049080.1.
            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..3372
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="p10A"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p10A_p3"
                     /geo_loc_name="USA:Houston"
                     /lat_lon="29.7068 N 95.3971 W"
                     /collection_date="2015-01/2016-07"
                     /collected_by="MDACC"
                     /genotype="ST10"
     gene            1..192
                     /locus_tag="G6P90_RS00005"
                     /old_locus_tag="G6P90_00005"
     CDS             1..192
                     /locus_tag="G6P90_RS00005"
                     /old_locus_tag="G6P90_00005"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165979.1"
                     /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_000165979.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNDLDADEQADICESLHDHA
                     DELYRSCLARFGDDGESN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(1508..1741)
                     /locus_tag="G6P90_RS00010"
                     /old_locus_tag="G6P90_00010"
     CDS             complement(1508..1741)
                     /locus_tag="G6P90_RS00010"
                     /old_locus_tag="G6P90_00010"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137389.1"
                     /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_000137389.1"
                     /translation="MTELEGHLLNALEHLQQDYMRRLNEWESAFAELQKMHEVTQRNNA
                     ILNERVVILSQQVQRLAGQVDRLSRLFIANNS"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(1748..2308)
                     /locus_tag="G6P90_RS00015"
                     /old_locus_tag="G6P90_00015"
     CDS             complement(1748..2308)
                     /locus_tag="G6P90_RS00015"
                     /old_locus_tag="G6P90_00015"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000067488.1"
                     /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_000067487.1"
                     /translation="MSNLLQMGTDFEKKLKERAASTENMLNSEFRKLEESVDKALSLNR
                     QKIRDAISEHTTSVKKQLDTLSTTVSMQFSTTEAELSRQQKKLLWRVIKGRILFPALTA
                     LSVTGGIFLGCWGLMEWQESKIAKNILTIREQENTLAKLEAKTWGVTFVNGENGKFLVL
                     PDGVKGENTWTVGDKNAVRLVRE"
                     /name="MbeB family mobilization protein"
     gene            complement(<2340..2996)
                     /locus_tag="G6P90_RS24185"
                     /old_locus_tag="G6P90_00020"
                     /pseudo=""
     CDS             complement(<2340..2996)
                     /locus_tag="G6P90_RS24185"
                     /old_locus_tag="G6P90_00020"
                     /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(2986..3309)
                     /locus_tag="G6P90_RS00025"
                     /old_locus_tag="G6P90_00025"
     CDS             complement(2986..3309)
                     /locus_tag="G6P90_RS00025"
                     /old_locus_tag="G6P90_00025"
                     /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_024132211.1"
                     /translation="MLTIRVTDEEHARLLERCEGKRLAEWMRRVCLGEPVARTGKLPTL
                     SPPLLRHLAAIGNNLNQTARKVNSGQWSSIDRVHVVAALMAIEGELRQLRQAVREQGVR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     Typing          complement(274..354)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="87.805"
                     /coverage="93.0"
                     /evalue="8.68e-18"
     Typing          complement(1426..2996)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="93.006"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atgaccaaac aggaaaaaac agcccttaac atggctcgct ttatcagaag ccagacgcta
       61 accctgctgg aaaaactcaa cgatctggac gcggacgaac aggcagacat ctgcgaatca
      121 cttcacgacc acgccgacga actctaccgc agttgcctcg cacgcttcgg cgatgacggt
      181 gaaagcaact gaaacatgca gctcccggag acgttcacag cttgcctgtg agcggatgcc
      241 gggagcagac aagcccgcca gggcgcgtca gtgcgggtgt cggggcgcag ccctgaccca
      301 gttcacagag cgatagcgat gtgtatactg gcttatctca ttttgcatcg gtgcagacat
      361 ggatgggaag tgcaccatgt caggagtaaa aagccgcaca gatgtaaaaa cagcgcaccc
      421 gataaacagc acacacgcgg acactggcac aggcgcgtaa gtgcacaatg cttgcatctg
      481 tgactcttcc gcttcctcgc ccactcgctc actacgttcg gtcgctgggg ctgcggcgag
      541 cggtgggatc actctcgttg tgatgcagat ccgttttttt ttttgcactg gagttatcag
      601 gagttgcggt gcacatggga tcgtgcgata tgccggatgg tgaaaggttg gagggaacgg
      661 caacaactca cccctcccag tgaagggacg ggtagtttgc cgctctcgat atgccggacg
      721 gagccaaggc catcgatcac ggggcgcgtc agtggaagaa cccgcgcctg cgtgacgtat
      781 gcgtcttcgc cgcaccatct cacccgtcac gccaccacat accgggaact gccgccaagg
      841 tctaactcaa ccaatctagc cgcgctacat acggtttttg tggcaactca tcaggtgtcc
      901 gctgtcgatg aaactctctg cgccggtagc ggaactctca cgcgtgcggt cgccgtcgtc
      961 acagctcccc caaccgcaaa cgattctcgc aaatacgcaa gtatctgcaa aaacaggttt
     1021 ttttcggggt tcctgggaga ctgtgctgtt gaaaaattct tgaagaatac agaaggctca
     1081 tgcaaactga atgaactggt ttctgttgtg gatctcaaca gtttccacag gaacattgag
     1141 gaggtcagag acctcaatga acccgaaaca gctcgccttc ctggcgagct gttttcgttc
     1201 tacgcccgcc gacgaaagat cgcaagtgca ataacgagat ttttcacgtc tttacgctca
     1261 aaaagtaaaa aaaccatgtt ttcccctggc tgaatcccca aaaacgcgtg aaatgcgttt
     1321 tcaggatgtt gcatagctat gcacaaatac ggcacacgat ttgtttcgct cgccccagcc
     1381 gtcgaactgg tcaaaatggc aagatttcgt cacttccccg gtcacatctc cattgatggc
     1441 ccactccgaa cccgtgccgc gcgttcctgt acctcatgtc tgtaccgggc acgctcctgt
     1501 tcatccctta gctgttgttc gcgataaata accgactcaa gcgatccact tgcccggcta
     1561 atctctgcac ctgctgactc aatatcacga cgcgctcgtt cagtatcgcg ttgttccgtt
     1621 gcgtaacctc gtgcatcttc tgcaattccg cgaaggcgct ctcccactcg ttcagccgcc
     1681 gcatatagtc ctgttgcaaa tgctctaagg cgttcagcaa atgcccttcc agttccgtca
     1741 tactcgttta ctccctgacc agcctcacgg cgttcttgtc gcccaccgtc caggtgtttt
     1801 cccctttcac cccgtccggc aacaccagaa atttcccgtt ctcgccattg acgaacgtca
     1861 ccccccaggt ttttgcctcg agtttcgcca gcgtgttttc ctgctctctg atagtcagga
     1921 tatttttcgc aatcttgctt tcctgccact ccatcagccc ccagcacccc aggaaaatgc
     1981 cgcccgtgac gctgagcgcg gtcagcgccg gaaacagtat ccgccctttg atcacccgcc
     2041 agagcagttt tttctgctgc cgggacagtt cggcctctgt ggtgctgaac tgcatgctca
     2101 cggtggtgct cagcgtatcc agttgctttt tcacggatgt tgtatgttcg ctgatagcgt
     2161 ctctgatttt ctgcctgttt aagctcagtg ccttgtctac agactcttcg agcttcctga
     2221 actcgctgtt cagcatgttc tcggtagaag cggctcgctc tttcagtttc ttctcgaagt
     2281 ctgttcccat ttgtaaaaga ttgctcatac agcgccccct ttagcctgag attccgcccc
     2341 ccctccgggt cggcaatact gatgctgctt ttggttgtcc tcaccacctc aaaacctgcc
     2401 gctgtaagcg cctctgtgac atcctgacgc gtttttattg ctccggcatg gtaaagagcc
     2461 tcaagacccc gtgtaatcgc ttctgcggcc tcctgtttcg cttttggcag attatttggc
     2521 gtgacaagcg tccgtctgtt ctccggtgcg ttcgggtcac gcagcccgta atgatgatta
     2581 accagcgtct gccaggcatt tatcctcggc ctgtccgcgc ggtcgtagta cggctggagg
     2641 cgcttaccgc tctgtagctc catgttcggg atgacaaaat tcagttcgag ccgcccctta
     2701 tcctggtgtt ccacccagag aatgctgtac tggtcttttt cgagaccggg cataagaaca
     2761 cgctcaaagc tcgtcatcac tctttcgcgt tcacccggcg gtaactcctt ctccgcgaac
     2821 gacagaacgc ctgaagtgta tttcttcgag aatggcgtgg aatcaatgag ttcccgcact
     2881 tcttccgggt taccccggag caccgttgcg ccttcgcggt tacgctcccg ccccagcagg
     2941 taatcgaccg ggccacttcc accgcctttc cccctggcat gaaatttaac tatcatcccg
     3001 taccccctgt tccctgacag cctgccgcaa ctggcgcaat tcaccctcga tggccatcag
     3061 tgcggccacc acatgaaccc ggtcaatcga agaccactgg ccgctgttca ccttccgggc
     3121 tgtctggttc aggttgttcc cgatggcagc cagatgccgc agcaatggcg gcgatagtgt
     3181 cggcagtttt cctgtgcgtg caaccggctc ccccagacag acccgccgca tccattccgc
     3241 cagtcgttta ccctcgcagc gttccagtaa ccgggcgtgc tcctcatcgg taacccgtat
     3301 cgtgagcatc ttctcgcgtt tcatcggtat cattccccct aacaaatccc ccatacaagg
     3361 agccttaaga cc
//
