LOCUS       CP134915                4073 bp    DNA     circular BCT 27-SEP-2023
DEFINITION  Escherichia coli strain 3263 plasmid pMB2666_3, complete sequence.
ACCESSION   CP134915
VERSION     CP134915.1
DBLINK      BioProject: PRJNA924946
            BioSample: SAMN32977707
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4073)
  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  JOURNAL   Unpublished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 4073)
  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                   :: 81x
            Sequencing Technology             :: Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 09/21/2023 12:29:30
            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)                     :: 5,124
            CDSs (total)                      :: 5,010
            Genes (coding)                    :: 4,841
            CDSs (with protein)               :: 4,841
            Genes (RNA)                       :: 114
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 7
            Pseudo Genes (total)              :: 169
            CDSs (without protein)            :: 169
            Pseudo Genes (ambiguous residues) :: 0 of 169
            Pseudo Genes (frameshifted)       :: 63 of 169
            Pseudo Genes (incomplete)         :: 116 of 169
            Pseudo Genes (internal stop)      :: 30 of 169
            Pseudo Genes (multiple problems)  :: 37 of 169
            Pseudo Genes (short protein)      :: 4 of 169
            ##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..4073
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="3263"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pMB2666_3"
                     /geo_loc_name="USA: Houston"
                     /lat_lon="29.7068 N 95.3971 W"
                     /collection_date="2016-09-20"
                     /collected_by="MDACC"
                     /note="genotype: ST457"
     gene            complement(join(3651..4073,1..279))
                     /locus_tag="RNP77_25580"
     CDS             complement(join(3651..4073,1..279))
                     /locus_tag="RNP77_25580"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001281399.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology. GO_function:
                     GO:0003887 - DNA-directed DNA polymerase activity [Evidence
                     IEA]; GO_process: GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WNL89279.1"
                     /translation="MSDLIAYKSNALIEASYKLTLQEQRFLLVCISRLKSGEDSPSPDE
                     QKTMTITAAEFHDAFPDMGRQHAEARLKEAIDRLWDRSVIIKNEEKREEFRWVQYRAQY
                     FKGEAKVDITFSDAIMPYLTQLKGQFTRVVVKNVSSLSSTYSIRIYELLQQFRSTGDRT
                     IAIDDFRTMLAVEDKYQQFKDLNKMIIKPAIAELNEKSDLVVTVETIKKGRTVVALHFR
                     FKEDKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(813..1067)
                     /gene="mobC"
                     /locus_tag="RNP77_25585"
     CDS             complement(813..1067)
                     /gene="mobC"
                     /locus_tag="RNP77_25585"
                     /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="WNL89280.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVVVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPEQ"
                     /name="mobC"
     gene            1246..3393
                     /gene="mobQ"
                     /locus_tag="RNP77_25590"
     CDS             1246..3393
                     /gene="mobQ"
                     /locus_tag="RNP77_25590"
                     /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="WNL89281.1"
                     /translation="MAIYHLSMKIISRSSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPHELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAIGPAGFSGKVRDWNDRTHAET
                     WRASWADHANRALENAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNGGLTEPARRVADLLNIGLPDNATSYTLRDIIEALPKDSN
                     SAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQMAFEKQWQQWGKSGLAALRAQL
                     LKREEELRRKEQEDTERSRAEQLRKNDNAVMDSGVLRAVVTGYGEAPMPGNGEMTCYLL
                     LHNRNGEYTLWGNELEKYRTRIFESVDLMRDRSGYICDRSEIGQRPPLQRVYSSATFEQ
                     LLTQVCQTWPQHTRNLRQPKTWPESFCLGEDRQPAMPSPAARKVDFMQGRLPPTLMPVM
                     SSVDRETRQLQLLLVMGVDDSLGGVIRLNGTLYPAFAVPSADNRHLVISALTDKGLRYA
                     GYGVAVNHDADSHISPAPELMQFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRTWEEW
                     QREEDARTHTTERRHDRGWSQ"
                     /name="mobQ"
     Typing          complement(1069..1245)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          1246..1604
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(2..279)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.81e-143"
     Typing          complement(3661..4073)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="86.091"
                     /coverage="99.0"
                     /evalue="8.650000000000001e-122"
     Typing          1160..3390
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.856"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ttctcgtttt tcctcgttct tgatgattac tgacctgtcc cagaggcgat ctatcgcttc
       61 cttgagccta gcttcagcgt gctgccgtcc catgtcagga aaggcatcat gaaactctgc
      121 agccgtgatg gtcatggttt tttgttcatc cggcgaaggg gaatcttctc cggattttag
      181 gcggctgata cagaccagca ggaagcgctg ttcctgcaaa gtgagcttgt agcttgcctc
      241 gataagggcg tttgatttgt aagctatcag atctgacatt tcgcttgctc gttgctattg
      301 gtggcgtttt tttactgtac gccacttatc atatgagtgg aagttttttt tttgcaaccc
      361 cctttttctg tggattacac ccccaaaagc tccacctttc acccccaaaa gctccacctt
      421 tcacccccaa aagctccacc tttcaccccc aaaagctcca cttatcttgc cagaacatct
      481 ttaaaatcat ggtgttacaa gacctaaaaa ggttttaaaa aaaaagatct aaaaataaga
      541 tcttaaaaac ttaacggcga gcctgtggat aacttggggt gctgaaaaca aaaaaccaat
      601 aaaaacaatg cgttgcaata aagcagaatt gcaagtttcg aatacacccc ctccaaccct
      661 gtggaaaccc agtattcatg cgggttcagc gcatatcacc tgccgaaaaa ccgtgcgtat
      721 gtgctcaacc tggcgactga ttcacttccg cttcctcgcc cactcgctcg ctaacgctcg
      781 gtcgctgggg ctgcggcgat cggacgatac aatcactgtt ctggcagcgc ctccagctcg
      841 ttaatcagcg gcagtatgcg cgtcacatca gcctgtcgtg tcacctctgc cttcaggaac
      901 tggagtaacc aggcacgcaa ctgcacctcc tccggctttc tgacctttgc cagcaatgca
      961 gcacccacaa caaccttctg cgctgtgtcc aggctccggc tcttcgcctt caggcgctgt
     1021 aatctcgcct cagcatcagc aatcttctgt tcgagcgttc tgctcatgat gtaactccgt
     1081 gcgcgatgaa aaatcgcatt ttagcgcgtc actggtagtt taaaaactga gctggcataa
     1141 tgcacggcaa atcacgaagt gcgcacttat acaatctcca ctccgtttcg attgtgtgcg
     1201 ccctgcgggg ctgaaagaaa actacaaaaa ggcattacgg cagaaatggc gatttatcat
     1261 ctcagcatga aaattatctc cagaagcagc ggctacagcg ccgtagcttc cgctgcctat
     1321 cgttccggtt cactgatgct tgatgagcgt accggactga ctcacgacta cacccgcaaa
     1381 agcggtgtgg ctgaggctgt gattctgacc cccgccaccg cccctgcctg gtgtacgaac
     1441 cgtgccgaac tctggaatgc cgttgagaag gccgaacgcc ggaagaactc acaacttgcg
     1501 cgggaaattg aactcgccat cccccacgaa ctgccgcagg atgccgcacg ggaaaccgtt
     1561 ctcgcctttg tcagagaaaa ctttgtcagt cagggcatga ttgctgatgt ggcgttccat
     1621 cacatggata aaacaaatcc ccatgcgcac atcatgctga ccacgagggc tatcggacct
     1681 gctgggttca gcggaaaggt cagggactgg aacgaccgga cacatgccga gacgtggcgg
     1741 gcatcatggg ctgaccatgc aaacagggca ctggagaacg ccggttatca ggaagagata
     1801 gaccatcgtt catacgagcg acaggggctt gagaaaacgc ctggtattca cctcggaaag
     1861 tctgcctgtg cgatggaaac acgcggtatc gaaacagaac gcggcgaaca gaatcgtctg
     1921 attaacaggc ttaacctgga aatacagatt tcccgcaccg aactcaggaa cggagggctg
     1981 acagagcctg cccgccgtgt ggctgacctt ctgaatatcg ggcttcctga caacgcaact
     2041 tcgtacacac tacgtgacat tatcgaagcg ttgccgaagg acagtaactc ggcatggaaa
     2101 ctcaccagta atgccatgtc gatgatggca gatatgcagg cgacgcgcag acgctgggaa
     2161 gagctgaaca ccgaacgaaa ggaagcgatg agccatgctg ccagcctgaa aaaatcatcg
     2221 ccgttttcgt ccggtttttc ccgtattccc ctgatgcaat gggcggcacc ggaataccgt
     2281 agtgagcagg gaaaaatcca gtctctgagc cagcaaatgg aaaaattacg acagcattac
     2341 cggaaggtgg agaaacagga cattcccgcg agtcagatgg catttgaaaa acagtggcag
     2401 cagtggggga aatccggcct tgcagctctc agagcccagt tgcttaaacg tgaagaggaa
     2461 ttgcgccgga aggaacagga agatactgaa cgtagtcgcg cggagcagct caggaaaaat
     2521 gacaatgccg ttatggattc aggggtgctg agagcagtcg ttacggggta tggcgaggct
     2581 cccatgcctg gtaacgggga aatgacctgt taccttctgc ttcacaaccg gaacggagaa
     2641 tatacgctct gggggaacga gctggagaaa taccgcacca gaatctttga gagtgttgat
     2701 ttaatgcgtg acaggagtgg ttatatctgt gaccgaagcg aaatcggcca acgtccgcca
     2761 ctgcaacgtg tttattcctc tgcaaccttt gagcaactgc tgacgcaggt ttgccagaca
     2821 tggccgcaac atacccgcaa tctccgccag ccgaagacat ggccggagtc tttctgtctt
     2881 ggagaagacc gccagccagc catgccatca ccagcggcaa ggaaggtgga ttttatgcag
     2941 ggacgtctgc caccgacgct gatgccggtc atgagttctg tcgaccggga aacccgccag
     3001 cttcagcttt tgctggtcat gggcgtggat gactctctgg gcggtgttat ccggcttaat
     3061 ggtacgctgt atcccgcgtt tgccgttccc tcagccgata acaggcatct ggtcatcagt
     3121 gcgctgaccg ataaggggtt acggtatgca gggtatggtg ttgccgtaaa tcacgatgca
     3181 gacagccaca tatcacctgc accagaactg atgcagtttc atctgaaaac ccgtgaggca
     3241 ccgctttttg ctgccgtcaa cacaccagaa aaacagccgg atcatctgtt ccgctcgctg
     3301 ggttttaatc gtacctggga ggaatggcag cgcgaggaag atgcacgaac acacaccacc
     3361 gagaggagac atgatcgcgg ttggtcacag tgaatgtgaa caatattttg ttttgtttaa
     3421 catcgtgtta tgttcttcga tgttcttcga tgttcatcga cagggatgaa tgcaagaagc
     3481 acactcacat aacgcaagca tagttttgtt tttccgcccc caaaaattgg ggggtctttt
     3541 ttcgctgcat cagagcgttt ttgacgcaat ttttcacttc aatagtacct tcgcactact
     3601 aacacaaaaa aaacgcagca gggagcgttt taggtgcctt aaaatcgatt ttagatcgtc
     3661 atcttgatct gtttgtcttc cttgaagcga aaatgcaggg ctacaaccgt gcgccccttt
     3721 ttgatcgtct caacagttac aaccagatcg cttttttcgt tcagttcggc gatggctggc
     3781 ttgattatca tcttattcaa gtctttgaat tgttgatatt tatcttcaac ggcaagcatg
     3841 gttcggaaat catcgatagc tatcgttctg tcaccggtgc tgcggaactg ctggagcagc
     3901 tcgtaaatgc ggatgctgta ggtgctggaa aggctggaga cgttcttcac gactacccgc
     3961 gtaaactgcc ccttgagctg tgtcagatac ggcatgatgg catcggagaa ggtgatatct
     4021 actttcgcct cacctttgaa atactgcgcc cggtactgca cccagcggaa ctc
//
