LOCUS       NZ_CP049084             3173 bp    DNA     circular CON 25-JUN-2024
DEFINITION  Escherichia coli strain p10A plasmid p10A_p4, complete sequence.
ACCESSION   NZ_CP049084
VERSION     NZ_CP049084.1
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 3173)
  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  JOURNAL   Unpublished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 3173)
  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
            CP049084.1.
            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..3173
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="p10A"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p10A_p4"
                     /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..324
                     /gene="mobA"
                     /locus_tag="G6P90_RS23915"
                     /old_locus_tag="G6P90_23900"
     CDS             1..324
                     /gene="mobA"
                     /locus_tag="G6P90_RS23915"
                     /old_locus_tag="G6P90_23900"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052604.1"
                     /GO_process="GO:0006355 - regulation of DNA-templated
                     transcription [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization protein MobA"
                     /protein_id="WP_000166966.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="mobA"
     gene            complement(713..1141)
                     /locus_tag="G6P90_RS23920"
                     /old_locus_tag="G6P90_23905"
     CDS             complement(713..1141)
                     /locus_tag="G6P90_RS23920"
                     /old_locus_tag="G6P90_23905"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000222531.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_000222531.1"
                     /translation="MTYSVKNKWKAGGLSLGWTAVPTVLFFIQNEKKLTSVAFNTLLNL
                     IVHWWSLQEWPHPSMESLAIRMGVSVRTVQRAINDLEKANLLDKKPTSKSDRRYGGRNI
                     YDLTKLVDYLDTMGPSVAEQVKKPRHKKPVYTVRKTTA"
                     /name="helix-turn-helix domain-containing protein"
     gene            1299..1469
                     /locus_tag="G6P90_RS23925"
                     /old_locus_tag="G6P90_24040"
     CDS             1299..1469
                     /locus_tag="G6P90_RS23925"
                     /old_locus_tag="G6P90_24040"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001531327.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001531327.1"
                     /translation="MKTEQRHDLVKDIEVFGVSLSLLISRANEKSVTMPSGLSREQRRA
                     WAAEQARKIHN"
                     /name="hypothetical protein"
     gene            1433..1861
                     /locus_tag="G6P90_RS23930"
                     /old_locus_tag="G6P90_23910"
     CDS             1433..1861
                     /locus_tag="G6P90_RS23930"
                     /old_locus_tag="G6P90_23910"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000534558.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_004029842.1"
                     /translation="MGSGAGAQNPQLNIVSFSETFNLYYTSRYSAKTLDKIDDFIEHFE
                     KYNLFGDPLKGYPAWTGKVSPSWKVPDHYENKEAIEMYARANKLWHAHLGDPVFKDTFH
                     GKYKVSDWVIHFQRLTPNHIKLLELGYHDPMKLPQNFE"
                     /name="hypothetical protein"
     gene            complement(2696..2890)
                     /locus_tag="G6P90_RS23940"
                     /old_locus_tag="G6P90_23920"
     CDS             complement(2696..2890)
                     /locus_tag="G6P90_RS23940"
                     /old_locus_tag="G6P90_23920"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041624.1"
                     /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_001041619.1"
                     /translation="MNKQQQAVLNMAGFIKSQSLTLLEKLDALDADEQAAMCEKLHELA
                     EELQNSIQTRFEAENRTGI"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          2926..3165
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.585"
                     /coverage="100.0"
                     /evalue="3.54e-121"
     Typing          complement(2137..2661)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.34"
                     /coverage="95.0"
                     /evalue="0.0"
     Typing          2..321
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.065"
                     /coverage="100.0"
                     /evalue="1.97e-62"
ORIGIN
        1 atgacaaaac gaagtggaag taatacgcgc aggcgggcta tcagtcgccc tgttcgtctg
       61 acggcagaag aagaccagga aatcagaaaa agggctgctg aatgcggcaa gaccgtttcc
      121 ggttttttac gggcggcagc tctcggtaag aaagttaact cactgactga tgatcgggta
      181 ctgaaagaag ttatgagact gggggcgtta cagaaaaaac tctttatcga cggcaagcgt
      241 gtcggggaca gggaatatgc ggaggtgctg atcgctatta cggagtatca ccgtgccctg
      301 ttatccaggc ttatggcaga ttagcttccc ggagagaaaa ctgtcgaaaa cagacggtat
      361 gaacaccgta agctcccaaa gtgatcacca ttcgctttca tgcatagcta tgcagcgagc
      421 tgaaaacgat cctgacgcat ccttcctgtt ttcccggggt aaaacatctc tttttgcggt
      481 gtctgcgtca gaatcgcgtt cagcgcgttt cagtggtgcg tacaattaag ggattatggt
      541 aaatatatga gctatgcgat aactttaact gtgaagcgat gaacccatta caggcaaagc
      601 caattactcc tgacagtggt ttagccagaa gcagggctac caagaccaat gcaataagta
      661 atatatcgtt ttgctatcgt gcatcgctcg cgctcagttc cattgtgctt ttttaagctg
      721 tcgtttttct tacggtatat accggttttt tatggcgtgg tttcttaact tgttcagcta
      781 ctgatggacc cattgtatct aggtagtcaa ctagctttgt tagatcataa atattgcgac
      841 caccatatcg gcgatcactc ttcgatgttg gtttcttgtc caagagatta gctttttcaa
      901 gatcattgat agctctctga acagtccgta cagaaacccc catacgtatg gctagacttt
      961 ccattgacgg atgcggccac tcttgcaaac tccaccagtg aacgatcagg ttaagtagtg
     1021 tgttaaaggc cactgaagtt agctttttct cgttttgtat aaaaaacaat acggtaggca
     1081 ctgccgtcca gccaagagac aaaccgccag ctttccattt attcttaacg gagtaagtca
     1141 ttgattttcc taagccccaa aatatttaaa gtatatatta tatggtatat tcatatgaat
     1201 agggtgacac tggcgccatt attgtgcaac caaaaaagac tactctgaaa acgaggaaaa
     1261 gattttttcc tgcctgaatt agatacggag ttagcgatat gaaaaccgaa caacgtcatg
     1321 atcttgttaa agatattgag gtttttggcg tatccttgtc tctgttgatt tccagagcga
     1381 atgagaagtc tgttacaatg ccatctggtc taagtcggga gcagagaaga gcatgggcag
     1441 cggagcaggc gcgcaaaatc cacaattgaa tattgtctca ttctctgaga ccttcaacct
     1501 ttattacaca tccagatatt ctgcaaaaac actcgataaa atcgatgatt tcattgagca
     1561 ttttgaaaaa tacaatctct ttggcgatcc tttaaaagga tatccagctt ggactggcaa
     1621 agtatcgcca tcgtggaaag tgcctgatca ttacgaaaac aaagaagcta ttgagatgta
     1681 tgctagagct aacaaattat ggcatgctca tttaggcgat ccggttttta aagatacgtt
     1741 tcatgggaaa tacaaggttt ctgactgggt tattcatttc cagcggctga caccgaacca
     1801 tataaagctt ttagagcttg gataccatga cccaatgaag ctacctcaaa actttgaatg
     1861 atcgagcggc aggctaaatg aaatcttgag attcattcag tctcgtcgta atctcactat
     1921 tgtaaaaacg aaaaaaccac cctggcaggt ggtttttcga aggttagtta atcctggcag
     1981 attctctaac cgtggtaaca gtcttgtgcg agacatgtca ccaaatactg tcctttcagt
     2041 gtagcctcag ttaggccgcc acttcaagaa ctctcgttac atctctcgca catcctgctt
     2101 accagtggcc gttgccagtg gcgttaagtc gtgtcttacc gggttggatt caagacgata
     2161 gttaccggat aaggcgcagc ggtcgggctg aacggggggt tcgtgcacac agcccagctt
     2221 ggagcgaacg acctacaccg ggccgagata ccaacagcgt gagctatgag aaagcgccac
     2281 gcttcccgaa gggagaaagg cggacaggta tccggtaagc ggcagggtcg gaacaggaga
     2341 gcgcacgagg gagcttccag ggggaaacgc ctggtatctt tatagtcctg tcgggtttcg
     2401 ccacctctgg cttgagcgtc gatttttgtg atgctcgtca ggggggcgga gcctatggaa
     2461 aaacgcctgc ggcgctggct tcttccggtg ctttgctttt tgctcacatg ttctttccgg
     2521 ctttatcccc tgattctgtg gataaccgta ttaccgcttt tgagtgagct tacaccgctc
     2581 gccgcagtcg aacgaccgag cgtagcgagt cagtgagcga ggaagcggaa gagcgcctta
     2641 tgtgacattt tctccttacg ctcctctatg ccgttctgca tcctgtccgg atgcgttata
     2701 tcccggtgcg attttccgct tcaaagcgtg tctgtatgct gttctgaagt tcttccgcga
     2761 gttcgtgcag cttctcacac atggcggcct gttcgtcagc atcgagtgcg tccagttttt
     2821 cgagcagcgt caggctctgg ctttttatga atcctgccat gttgagtacg gcttgctgct
     2881 gcttgttcat cttttcgttt tctccgttct gtctgtcatc tgcgttgtgt gattatatcg
     2941 cgtaccactt ttcgactgtt ttaccgccgg tattctgccg tctgacgctt tgacgggtat
     3001 ttctgcctga caatactgtc actgccaaaa aactgccgtg tctttgtcgg taattcgaac
     3061 ttgctgacag gacaggatgt gtaattgtta taccgcgcat gcatgcacgc tattacaatt
     3121 accctggtca gggctttgcc ccgacaccca tgtcagatac ggagccatgt ttt
//
