LOCUS       CP134903                4153 bp    DNA     circular BCT 27-SEP-2023
DEFINITION  Escherichia coli strain 3797 plasmid pMB3565_5, complete sequence.
ACCESSION   CP134903
VERSION     CP134903.1
DBLINK      BioProject: PRJNA924946
            BioSample: SAMN32977739
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4153)
  AUTHORS   Shropshire,W.C., Strope,B., Selvaraj Anand,S., Bremer,J.,
            McDaneld,P., Bhatti,M., Flores,A.R., Kalia,A. and Shelburne,S.A.
  TITLE     Temporal Dynamics of Genetically Heterogeneous Extended-Spectrum
            Cephalosporin Resistant Escherichia coli Bloodstream Infections
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4153)
  AUTHORS   Shropshire,W.C., Strope,B., Selvaraj Anand,S., Bremer,J.,
            McDaneld,P., Bhatti,M., Flores,A.R., Kalia,A. and Shelburne,S.A.
  TITLE     Direct Submission
  JOURNAL   Submitted (14-JUN-2023) Infectious Diseases and Infection Control,
            University of Texas MD Anderson Cancer Center, South Campus Research
            Building 4, Houston, TEXAS 77054, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Flye v. 2.9.2
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 201x
            Sequencing Technology             :: Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 09/21/2023 12:06:34
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,133
            CDSs (total)                      :: 5,021
            Genes (coding)                    :: 4,795
            CDSs (with protein)               :: 4,795
            Genes (RNA)                       :: 112
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 226
            CDSs (without protein)            :: 226
            Pseudo Genes (ambiguous residues) :: 0 of 226
            Pseudo Genes (frameshifted)       :: 85 of 226
            Pseudo Genes (incomplete)         :: 165 of 226
            Pseudo Genes (internal stop)      :: 37 of 226
            Pseudo Genes (multiple problems)  :: 53 of 226
            Pseudo Genes (short protein)      :: 3 of 226
            ##Genome-Annotation-Data-END##
            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/
FEATURES             Location/Qualifiers
     source          1..4153
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="3797"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pMB3565_5"
                     /geo_loc_name="USA: Houston"
                     /lat_lon="29.7068 N 95.3971 W"
                     /collection_date="2017-04-18"
                     /collected_by="MDACC"
                     /note="genotype: ST131"
     gene            1..927
                     /locus_tag="RNP36_25635"
     CDS             1..927
                     /locus_tag="RNP36_25635"
                     /EC_number="3.1.21.-"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000362418.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="HindIII family type II restriction endonuclease"
                     /protein_id="WNL75451.1"
                     /translation="MELGDFKFINKDAVIRRRYWIDEIVKLSGHFVNDSSRVENEIIDE
                     VKKSGNQALLDHLRLCTAIPESYDHDSSEEKLYSKYTDALISECFKYLGLNSIVLTERA
                     DAADVEVVCDNYSFVADAKVFRLSRTAKNQKDFKVQAMDGWRNTKDFAMVVCPIYQLPT
                     KSSQIYQQAILRNVCIFTYTHLAVLIRYSSIATTEDSKKLLSDIFKSVSLLNPSKDSVQ
                     YWVNINRTMLNYDDRIAALWADEKLATTEGIAVSKKMAIEFLSSERTRMLMMTKDEAVN
                     ALIKMHKIDSRIDQINKVTDNNILSLK"
                     /name="HindIII family type II restriction endonuclease"
     gene            complement(928..1845)
                     /locus_tag="RNP36_25640"
     CDS             complement(928..1845)
                     /locus_tag="RNP36_25640"
                     /EC_number="2.1.1.-"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016243916.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology. GO_function:
                     GO:0003677 - DNA binding [Evidence IEA]; GO_function:
                     GO:0008170 - N-methyltransferase activity [Evidence IEA];
                     GO_process: GO:0009307 - DNA restriction-modification
                     system [Evidence IEA]"
                     /codon_start=1
                     /transl_table=11
                     /product="site-specific DNA-methyltransferase"
                     /protein_id="WNL75452.1"
                     /translation="MLKEIPLFDEIEHNSITNGDSIELIKKVQTQSAHLILSDIPYGIG
                     ADDWDVLHKNSNNAYLGSSPAQKSAGAIFKKRGKPINGWSDADRKIPLEYQQWCEEWAS
                     EWYRTLKPGASAIIFAGRRFSHRCICAMENAGFNLRDIIAWMRTKAPHRAQRLSCVYER
                     RGDKYNTEKWEGWRVGNLQPTFEPILWFSKPYKIGGTIADNVLLHGVGAYNQDAFVARN
                     GKPENVIHAGFASKESGLHPTQKPISLMKTLIELTTQEGQLVIDPFSGSGSTLVAAKEL
                     GRSYIGFELNPAYVEISKKRLKDK"
                     /name="site-specific DNA-methyltransferase"
     gene            complement(2067..2225)
                     /locus_tag="RNP36_25645"
     CDS             complement(2067..2225)
                     /locus_tag="RNP36_25645"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001326446.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WNL75453.1"
                     /translation="MHEPPVQSDCCACSGNYRLESNPERHDKTPLAAAIGIWFTEQRGV
                     YKHTQSS"
                     /name="replication initiation protein"
     gene            2795..2944
                     /locus_tag="RNP36_25650"
     CDS             2795..2944
                     /locus_tag="RNP36_25650"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017880354.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WNL75449.1"
                     /translation="MPSEYDEQLDSTDTQLPGEYDLFDLMAQVTEENLHAPVDFGPPVG
                     REAL"
                     /name="hypothetical protein"
     gene            3326..3694
                     /locus_tag="RNP36_25655"
     CDS             3326..3694
                     /locus_tag="RNP36_25655"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017880027.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WNL75450.1"
                     /translation="MANFNPGPRTAIAAVRDSKNDIETWKKNGIRREEIVTVLNERYGL
                     NISLVAFDKALYRLRKSTDEPSLADVDSVSAAETNFSEASGPDNGFFLSGNDFMRAEEE
                     SQRVVESFRDSLSSKKGF"
                     /name="hypothetical protein"
     Typing          2588..2802
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="85.52"
                     /coverage="100.0"
                     /evalue="3.460000000000001e-56"
     Typing          complement(2118..2621)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.851"
                     /coverage="96.0"
                     /evalue="0.0"
ORIGIN
        1 atggaattag gtgatttcaa attcattaat aaagatgcag taataagaag acgctactgg
       61 attgatgaaa tagtaaaact aagcggtcat tttgttaacg attcaagtag agttgaaaat
      121 gaaataatcg atgaggttaa gaagtccgga aatcaagcat tgctagatca cctgagatta
      181 tgcacagcaa tacctgagtc atatgatcat gattcaagtg aagagaagct gtactcaaag
      241 tatacagatg cactaatatc agagtgcttt aaatacttag ggttaaatag cattgtttta
      301 accgaaaggg cagatgcagc tgatgttgag gttgtttgtg ataactattc atttgtagcc
      361 gatgcaaagg tatttcgttt aagtagaaca gccaaaaatc aaaaggattt taaagttcaa
      421 gctatggatg gttggagaaa taccaaagac tttgcaatgg tggtctgccc aatatatcag
      481 ctaccaacta aatcaagtca aatatatcag caagcaatat tgcgcaatgt ttgtattttt
      541 acatatacac acctggctgt actgataaga tattcaagta ttgcaacaac tgaagatagc
      601 aaaaaacttc ttagtgatat atttaaatct gtatctttac ttaaccctag caaagatagt
      661 gttcaatatt gggttaatat aaatagaaca atgctaaact atgatgacag gatagctgcc
      721 ctttgggctg atgaaaagct agccacaact gagggcattg ctgtttcaaa aaaaatggct
      781 atcgaattct tatcttctga acgtacaaga atgttaatga tgaccaaaga tgaagctgtc
      841 aacgcgctga taaaaatgca taaaatagat agcaggatag accaaataaa taaagtgaca
      901 gataataaca tactgtcact taaataatta tttatctttt aatctttttt tgcttatttc
      961 tacatatgct gggttaagtt caaagcctat atagcttcta cccagctctt ttgcggcaac
     1021 aagagttgaa ccgctaccac taaatggatc tattactagc tgaccttctt gagtggttag
     1081 ttctattagg gttttcatca gagaaatagg tttctgcgtt ggatgtaatc cgctttcctt
     1141 gctcgcaaaa cctgcatgta ttacattttc cggttttcca tttctcgcta cgaacgcgtc
     1201 ttggttatat gcacccacgc catgcaatag aacgttatca gcaatggtac ctcctatttt
     1261 ataaggtttt gaaaaccata gtataggctc aaatgttggt tgtaagttac ccactctcca
     1321 gccttcccat ttttctgtgt tatatttgtc gccacgcctt tcatatacgc agcttagcct
     1381 ttgtgcgcga tgaggagctt ttgttctcat ccaggcgatt atatctctga ggttaaatcc
     1441 agcattttcc attgcacaaa tacatctatg tgaaaatctt ctaccagcaa aaataatggc
     1501 actagctcct ggttttaaag ttcgatacca ctcactcgcc cactcttcac accattgctg
     1561 atactctaaa ggtatttttc tatctgcatc tgaccagcca tttataggtt ttcctctttt
     1621 tttgaaaatg gctccagccg atttttgtgc agggctcgaa cctaggtagg cattgtttga
     1681 gtttttatgt agtacatccc aatcatcagc acctattccg taggggatgt cactcagtat
     1741 caagtgtgcg gattgagttt gtactttttt tattagctcg attgagtcac catttgttat
     1801 ggagttgtgt tctatctcat caaacaatgg aatttctttt aacattcaac accttacctg
     1861 cgattatttc acttcattat aactgtcaaa gtatcttgac gcaggataac ctttcgtcgt
     1921 agccttttga aaagaaaaaa ccgcctgggg aggcggtttt ttcagggttc agttagttgg
     1981 ggaacttctg aaccgtggta actggcttaa acggagcgca gtgaccaaat ctgtccttcc
     2041 agtgtagccg tagtcaggtc aacacttcaa gaactctgtg tatgcttata cacgcctctc
     2101 tgctccgtaa accagatacc aatggctgct gccagtggcg ttttgtcgtg tctttccggg
     2161 ttggactcaa gtcgatagtt accggaacag gcgcagcagt cggactgaac ggggggttcg
     2221 tgcatacagt ccagcttgga gcgaactgcc ttcccggaac cgagtgtcag gcgtggaatg
     2281 agataaacgc ggccataaca gcggaatgac accggtaaac cgaaaggcag gaacaggaga
     2341 gcgcacgagg gagccaccag ggggaaacgc ctggtatctt tatagtcctg tcgggtttcg
     2401 ccaccactga tttgagcgtc agatttcgtg atgcttgtca ggggggcgga gcctatggaa
     2461 aaacggcttc gccgtggcct tattgcttcc ctgttaagtt ccctcctggc atctacccgg
     2521 aaatttccgc cccattcgta agccggtacc gctcgccgca gccgaacgac cgagcgtagc
     2581 gagtcagtga gcgaggaagc ggaatatctc ctgtattgca tcttctgctg acgcgccggt
     2641 gccagctttt tctcctgcca catgaagcac tttcataaag tgttactcca ccgtagcata
     2701 ttgagcccat atacactccg ctagtgctac gtgactggtt cagggctgcg ccccgaaacc
     2761 cgctaacaac ctctccgcta ctggatatca ccccatgcca tctgaatatg atgaacaact
     2821 ggattcgact gatacgcagc ttcccggcga atatgacctt tttgatttaa tggcgcaggt
     2881 tactgaagag aacctgcacg ccccggtgga ttttgggccg cctgtcggcc gggaagcgtt
     2941 atagcttttt cgcttacccg cgtacgtgta atacgccggt attacatctt atttctttat
     3001 tttcatgtga ttacaggtgg ttgtaatacg ttgcgtatta cataaataaa cgggaacttc
     3061 agtttttacc ttttaattca tgcaattgcg atgaaatcgc ggttgcgtat ggtgtatgac
     3121 catttaaggg ataatgtaac ctgactttta aagaatgaat ctatctttgg cagcgcatga
     3181 gatcgataaa aagcgttcca catcaggcgg ttcatggata catgaaccgg aaaggacaaa
     3241 aataagacaa ttgtaagaca ttttttgcgt tttactctta tttttggact attatgagac
     3301 aaatgtaaga cattatgggc ggtatatggc gaattttaac cctggtccaa gaacagccat
     3361 tgcagctgtc agggattcca agaacgatat agaaacctgg aagaaaaatg gtatccgtag
     3421 ggaagagatt gtgactgtgc tgaatgaacg ttacggcctg aatatctcac tggttgcgtt
     3481 tgataaggct ctttacagat tgagaaaaag tacagatgaa ccgtctcttg ctgatgtgga
     3541 ttctgtgtct gctgcagaaa cgaatttctc tgaagccagt gggcctgaca atggtttttt
     3601 tctgtccggg aatgacttca tgcgagcaga agaagaatct caaagagtgg ttgaatcatt
     3661 cagagatagc cttagcagta agaaaggatt ctgattttga attctaagta gtgaaatagt
     3721 ggatcctcta ctcgaaattg tcggatacct gcaattacct accgtgcctt acggcttggt
     3781 caatgcctca cggccacgca ataaattgcg tccccgttca ccgttttcgg ataagaagaa
     3841 catcggaaac aagacttacc ccggctgaat ggcgtgaatt tccgcgctat gcacttgcgc
     3901 gcatactcat gcatgccgta aaaacagagc ctgcgcgttt ctggcgggtt ttcgggtggt
     3961 ttgttgcctg ttttaccggt ttcccgtcag aaacgccctg agagcctctc aggcggtgca
     4021 cgcaacggat gttatggtaa atcaagtgaa tacctagcca cataactgat ggaggtatta
     4081 ttatccaggt aaaaaagttg ttatgatcga gaaattatat tgagttattg aacaataata
     4141 ttgggaatta aaa
//
