LOCUS       NZ_CP069492             5251 bp    DNA     circular CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1264 plasmid unnamed4, complete
            sequence.
ACCESSION   NZ_CP069492
VERSION     NZ_CP069492.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357406
            Assembly: GCF_016889265.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5251)
  AUTHORS   Sokurenko,E., Tallon,L., Sadzewicz,L., Zhao,X., Boylan,J., Ott,S.,
            Bowen,H., Vavikolanu,K., Mehta,A., Aluvathingal,J., Nadendla,S.,
            Yan,Y. and Sichtig,H.
  TITLE     FDA dAtabase for Regulatory Grade micrObial Sequences (FDA-ARGOS):
            Supporting development and validation of Infectious Disease Dx tests
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5251)
  AUTHORS   Sokurenko,E., Tallon,L., Sadzewicz,L., Zhao,X., Boylan,J., Ott,S.,
            Bowen,H., Vavikolanu,K., Mehta,A., Aluvathingal,J., Nadendla,S.,
            Yan,Y. and Sichtig,H.
  TITLE     Direct Submission
  JOURNAL   Submitted (05-FEB-2021) Institute for Genome Sciences, University of
            Maryland School of Medicine, BioPark II, 801 W. Baltimore St., Suite
            619, Baltimore, MD 21201, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: SMRT v. 8.0.0, HGAP v. 4, SPAdes v. 3.14.1
            Genome Coverage                   :: 990.89x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 04:51:45
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,921
            CDSs (total)                      :: 4,808
            Genes (coding)                    :: 4,621
            CDSs (with protein)               :: 4,621
            Genes (RNA)                       :: 113
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 187
            CDSs (without protein)            :: 187
            Pseudo Genes (ambiguous residues) :: 0 of 187
            Pseudo Genes (frameshifted)       :: 73 of 187
            Pseudo Genes (incomplete)         :: 130 of 187
            Pseudo Genes (internal stop)      :: 34 of 187
            Pseudo Genes (multiple problems)  :: 45 of 187
            Pseudo Genes (short protein)      :: 3 of 187
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP069492.1.
            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..5251
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1264"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1264"
                     /db_xref="taxon:562"
                     /plasmid="unnamed4"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            complement(join(4018..5251,1..122))
                     /locus_tag="I6J94_RS24280"
                     /old_locus_tag="I6J94_24285"
     CDS             complement(join(4018..5251,1..122))
                     /locus_tag="I6J94_RS24280"
                     /old_locus_tag="I6J94_24285"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000498067.1"
                     /GO_function="GO:0005524 - ATP binding [Evidence IEA];
                     GO:0016887 - ATP hydrolysis activity [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="ATP-binding protein"
                     /protein_id="WP_014386473.1"
                     /translation="MFVYLTIENFRSVKEKSTLNLSASGSSNHLTTHIYKNDGMNVGTL
                     MSAGIYGANASGKSNVLMAFEAIKFIATESGDLKEGKRIPCYEPYALSSATNEAPVKFE
                     AEFYSVEGNRFSYEVAFIKNRILFESLDYYPSRVKANLFTRDESDTWETIKFGGHYKGG
                     IKKIPFFPNNSYLAKAGNNAASPDIIKEAYNFFRKGIRHIGLNEKIRISSFGEREDVVN
                     ETAKVLCMVDTGVSGISVREVEAEIPIKMDEEIPQEIKEIIEEDYKYRYMFSHPTDEGG
                     SVSFPMGRESEGTQKLFEIIPLIRSAFNDSMVVIVDELDNSLHPHIADLIVKLFNDPDV
                     NKKGSQLVFSTHNMQLMAPEKMRRDQIWFCEKNKGASSLYSLDDFDKKKIKTTTPYAAW
                     YDEGRFGGVPDINYLKVASFISGDISLVMPDIDVKELSDGFFEEFDGDLSDE"
                     /name="ATP-binding protein"
     gene            complement(755..967)
                     /locus_tag="I6J94_RS24285"
                     /old_locus_tag="I6J94_24290"
     CDS             complement(755..967)
                     /locus_tag="I6J94_RS24285"
                     /old_locus_tag="I6J94_24290"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137423.1"
                     /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_000137423.1"
                     /translation="MTELEKQLLTALEQLHQDYSQRLDEWESAFAEWQKMSGLMQRENA
                     ALNERVTRLSQQVANLSRQLQRLSQ"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(971..1456)
                     /locus_tag="I6J94_RS24290"
                     /old_locus_tag="I6J94_24295"
     CDS             complement(971..1456)
                     /locus_tag="I6J94_RS24290"
                     /old_locus_tag="I6J94_24295"
                     /inference="COORDINATES: protein motif:HMM:NF016710.2"
                     /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_013631087.1"
                     /translation="MSSLLALAKDLEQQSKAQQQSTGEMLKAAFSEHEQSVKAELSASA
                     KRISDAISAHEQGMTAAMQSNRLSVLRMVGRTWLTITLVSVLLIATSGSILWWQGQQIT
                     GNYQTIRAQERTQAMLSEKNHGVQLSLCGEKKLSCVKVNPKAGAYGEEGNWMVLERK"
                     /name="MbeB family mobilization protein"
     gene            complement(<1494..1925)
                     /locus_tag="I6J94_RS24695"
                     /pseudo=""
     CDS             complement(<1494..1925)
                     /locus_tag="I6J94_RS24695"
                     /inference="COORDINATES: protein motif:HMM:NF015397.2"
                     /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(2134..2454)
                     /locus_tag="I6J94_RS24300"
                     /old_locus_tag="I6J94_24305"
     CDS             complement(2134..2454)
                     /locus_tag="I6J94_RS24300"
                     /old_locus_tag="I6J94_24305"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /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_014386475.1"
                     /translation="MLTMWVTEDEHRRLLERCDGKQLAAWMRQTCLDEKPARAGRLPSI
                     SPALLRQLAGMGNNLNQIARKVNAGGAGHDRVQIVAALMAIDAGLERLRHAVLEKGGDD
                     DR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            3091..3252
                     /locus_tag="I6J94_RS24305"
                     /old_locus_tag="I6J94_24310"
     CDS             3091..3252
                     /locus_tag="I6J94_RS24305"
                     /old_locus_tag="I6J94_24310"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001318243.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_023144844.1"
                     /translation="MHEPPVQSDRCAFSGNYHLESNPERHGSSPLAAAIGNGLEEVSLE
                     VLRQLRLN"
                     /name="hypothetical protein"
     gene            complement(3405..4025)
                     /locus_tag="I6J94_RS24310"
                     /old_locus_tag="I6J94_24315"
     CDS             complement(3405..4025)
                     /locus_tag="I6J94_RS24310"
                     /old_locus_tag="I6J94_24315"
                     /inference="COORDINATES: protein motif:HMM:NF025084.2"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="RloB family protein"
                     /protein_id="WP_023312615.1"
                     /translation="MSKKHGNNKKVPQVMYIYCEGEKTEPLYLEAYISDRSKRTLSVFK
                     IPKTRKNTPEQLVDEAIKKKNSSSSAEGDVFWVVYDQEHLTPSSISCHQKAWNKANRHG
                     INIAISCVCFELWLLLHFGFTTKDFSSYDNLMSSSPLKKLITNYDKGSKLTYLAIRERI
                     GTAKDNARKLDIYAKTNYKNTHEPYLFPCYTSFHELLKAIDDF"
                     /name="RloB family protein"
     Typing          complement(2569..2741)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="84.091"
                     /coverage="100.0"
                     /evalue="3.4999999999999998e-40"
     Typing          2688..3201
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.617"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(640..2144)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.215"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ttcattccat catttttata gatatgagtt gttaaatggt tactagaacc ggatgcgctc
       61 aagtttaatg tcgatttttc cttaaccgac ctaaaatttt caatagtcaa ataaacaaac
      121 atgcatacct cctaacgggg atttttcgcc aaaaaagcga aaaatcaatc ataggaaaga
      181 tatcctatat gttttaattt tggaacaaca tcttccttaa aaaacgttgt gctatttata
      241 attacacgct atttaccata acatctgttg cccgcaccgc tccggacagg ttcgccacaa
      301 acggggcggc agtcaggtaa aaccggcaac aaaccacccg atacaccgcc ccgttcgtga
      361 cagataaatt ttacccggct gcatggtcat gcagccagat gcatacggtc tgatttcagg
      421 ccagaatccg gatgaacgcc ttaaaaacag gaaaatgctt ctccagccag tcccagatct
      481 ccagcgccat gtacaggcaa ttcagcaccg tctcaatcac gttaaacagt ctcataatcc
      541 ctccgttgta tacgctgtga tggaaacatc acgaccgtat ttagcgggaa atttatgagc
      601 ccttcttctt ggggtttgtc actggatgcg cgcagtcagc ccagcgtcgg accgtcatag
      661 ctccgctgcc gggaacgggt ttccgccagc tctttttcat gctgtttctg ctcgtatgcc
      721 cgttcggcgg ccaccgccat ttcatgccgc tgcactactg gctcaaacgc tgtaactgcc
      781 tgctcaagtt cgccacctgc tgactcaagc gcgtgacgcg ctcgttcagc gccgcgttct
      841 cccgttgcat aagaccagac atcttctgcc attccgcgaa ggcgctctcc cactcgtcca
      901 gcctttgcga gtagtcctga tgtagctgct ctaatgcggt cagcaactgt ttttccagtt
      961 ccgtcatggg ctatttcctc tccagtacca tccagttccc ttcctccccg taagctcccg
     1021 ctttcgggtt cactttgacg caggacagtt tcttctcccc gcagagcgac agctgcacgc
     1081 cgtggttctt ctccgacagc atggcctgcg tccgctcctg cgcccggata gtctggtaat
     1141 tcccggtgat ctgctgcccc tgccaccaca gaatgctccc gctcgtggcg atcagcagta
     1201 ccgagaccag ggtgatggtc agccacgtcc ggccgaccat acgcagcacg ctcagccggt
     1261 tcgactgcat cgccgcggtc ataccctgct cgtgggcgct gatggcgtcg ctgattctct
     1321 tcgcgcttgc gctcagttcc gcttttacag actgctcgtg ctcgctgaat gcggctttca
     1381 gcatctcgcc ggtactctgc tgctgcgctt tcgattgctg ctccaagtcc ttcgccagcg
     1441 ctaaaagact gctcataaat ggctcccttc agtcggatgt ttcgcccccc gtccgggtcg
     1501 gcaatgctga tactgttttt tgtggtgcgg accacctcaa aacctgccgc tgtgagcgcc
     1561 cctgtgacgt cctcgcgcgt tttgagctcc ccggatgagg ctaaggccag caacccacgt
     1621 gtaatcgcct gagcggcttc cagcttcgtt tccggcagtg cggacggcgt gaccagtaac
     1681 cgtcggttct ccggggcgtt tggatcatgc agccccagcc tgccgttcac cacggtctgc
     1741 caggcatcga tgcgcggccg gtcggcgcga tcgtagtacg gctgcaggcg tttcccggtc
     1801 agcagttcag tgttggggat caggaaattc agctccagcc gccccttgtc ggtgtgctcc
     1861 acccacagaa tgctgtactg gtctttatcg agcccgggca tcagaacccg ctcaaagctg
     1921 gccatgatct gctcccgctg cccgggcggc agttcagcct ccgcgaacga cagcacgccg
     1981 gaggtgtact ttttcgcata cggcgaggca tcgataagct cccggacttc ctccggtttt
     2041 ccctgcagca cggtcgcccc ctcgcgctgc cggtcttttc ccagcaggta atccaccgga
     2101 ccggcaccac caccgcgccc ccgggggtga aatttaacga tcatcatccc cccctttttc
     2161 cagcaccgca tgccgcagcc gctccagtcc cgcgtcgatt gccatcagtg cggccacaat
     2221 ctgcacccgg tcatgaccgg caccaccggc attcactttc cgggcgatct ggttcaggtt
     2281 gttccccata ccggcaagct ggcgcagcag cgccggcgat atcgacggca gtctgccggc
     2341 acgcgccggc ttctcatcga ggcaggtctg acgcatccac gccgccagct gcttgccgtc
     2401 gcaccgctcg agcagccgcc ggtgttcgtc ttccgtcacc cacatcgtga gcatcttgtt
     2461 gcgtttgtct gccagagtag cctcctgata acaccgggac gggcgggaaa tgtttcccgg
     2521 tcggcacggt gttggacaag ccgcaggcgc gtcagtcgct tttagcgggt ttcggggcgc
     2581 agccctgaac cagtcacgta gcgctagcgg agtgtatact ggcttattat gttggcatga
     2641 gtgcggtnat caggaaagtg ctncatgtga cagaggaaaa tgcagctgcg ggcgtaaggc
     2701 agaaaatgga agttcagagg atatgacgcc tcctcgctca ctcagtcgct gccgctcctg
     2761 ccgttcggct gcggcgggcg ttacctgcac acggagaaga gcgaaggcat atggcatgac
     2821 aaacggggca gaaaaaggat gcgccgctgc cgtttttcca taggctccgc ccccctgaca
     2881 agcatcacga aatctgacgc tcaaatcagt ggtggcgaaa cccgacagga ctataaagat
     2941 accaggcgtt tccccctggt ggctccctcg tgcgctctcc tgttcctgcc tttcggttta
     3001 ccggtgtcat tccgctgtta tggccgcgtt tgtctcattc cacgcctgac actcagttcc
     3061 gggtaggcag ttcgctccaa gctggactgt atgcacgaac cccccgttca gtccgaccgc
     3121 tgcgccttct ccggtaacta tcatcttgag tccaacccgg aaagacacgg ttcatcgcca
     3181 ctggcagcag ccattggtaa cggattagag gaagtgagtc ttgaagttct gcgccagtta
     3241 aggctaaact gaaaggacaa tttttggtga ctgcgctccc tctaagccag ttacccggta
     3301 cataagttgg tagctcatgt accttccaaa aaccaccgtt ggtagcggtg gtttttattt
     3361 ttcatagatt acagcctgta ataagccatg gtcaatggat tacttcaaaa gtcgtcaatc
     3421 gccttaagta gctcatggaa tgatgtataa catggaaata gataaggttc gtgcgtgttt
     3481 ttataattag ttttagcgta aatatctagc tttcttgcgt tatctttcgc agtaccaatc
     3541 ctctctctta tagcaaggta agttagttta ctacctttat catagttagt tattaatttt
     3601 tttagcgggg agctagacat caaattatca tacgacgaaa aatctttggt tgtgaagccg
     3661 aaatgcaaca ataaccataa ttcaaaacaa acacaggata ttgctatatt tatcccatgc
     3721 ctattagctt tattccatgc cttttgatga catgaaatag acgaaggcgt cagatgctct
     3781 tgatcataaa caacccaaaa gacgtcacct tctgcggaag atgatgaatt ctttttcttt
     3841 atcgcctcat ccaccaactg ctcaggtgta ttttttcttg ttttaggtat tttaaataca
     3901 cttaaagttc ttttagatct gtctgaaata taagcctcaa ggtataatgg ttcggttttc
     3961 tcaccctcac agtatatata cattacttgt gggactttct tattatttcc atgtttttta
     4021 ctcatcagaa agatccccgt caaactcttc aaaaaaacca tcagacaatt ctttgacgtc
     4081 aatatccggc attaccaagg atatatcacc agatataaat gaggctacct ttaagtagtt
     4141 tatgtcggga accccaccaa acctaccctc atcataccaa gctgcgtaag gtgttgttgt
     4201 ttttatcttt ttcttatcaa aatcatctaa actataaaga gacgacgcac ctttattttt
     4261 ttcacaaaac catatctgat ctcttctcat tttctctgga gccattaact gcatattatg
     4321 ggttgagaat acaagttgtg agcctttttt attgacatca ggatcattaa ataacttaac
     4381 aatcaagtca gcaatatgcg ggtgcaagct attatctaac tcatcaacaa ttacaaccat
     4441 actatcatta aacgcagatc taattagagg tatgatttca aataattttt gggtgccttc
     4501 agactctctc cccataggga aagaaacact ccccccttca tcagtaggat gagagaacat
     4561 ataacgatat ttataatctt cttcaattat ctcctttatt tcttgaggga tttcctcatc
     4621 catttttatt ggtatttccg cctcaacctc ccgtacagat ataccggaaa caccagtgtc
     4681 aaccatgcat aaaaccttgg ccgtttcatt tacgacgtcc tccctctccc caaaagaaga
     4741 tattcttatc ttttcattta aacctatatg tctaattccc tttctaaaaa agttataagc
     4801 ttctttaatt atgtctggtg atgcggcatt attacctgct ttcgctaagt atgaattatt
     4861 agggaagaat ggtatttttt taatacctcc tttataatgc ccaccaaact tgattgtttc
     4921 ccaggtgtcg ctctcatctc tagtaaataa atttgcttta accctagatg gataatagtc
     4981 taatgattca aataaaatcc gatttttaat aaaagcaact tcataactga accgattccc
     5041 ctcaacagaa taaaattcag cctcaaactt tacaggagcc tcattcgtag ccgaagaaag
     5101 agcatatggc tcatagcagg gaatccgttt accttctttc aaatcaccgc tttctgttgc
     5161 gataaatttt atagcttcaa aagccatgag aacgttagat ttaccagacg cattagcacc
     5221 ataaatccca gcactcatga gcgttccaac a
//
