LOCUS       NZ_CP069555             5251 bp    DNA     circular CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1253 plasmid unnamed6, complete
            sequence.
ACCESSION   NZ_CP069555
VERSION     NZ_CP069555.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357395
            Assembly: GCF_016889865.1
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  JOURNAL   Unpublished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                   :: 1090.86x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:01:47
            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)                     :: 4,554
            CDSs (total)                      :: 4,441
            Genes (coding)                    :: 4,315
            CDSs (with protein)               :: 4,315
            Genes (RNA)                       :: 113
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 126
            CDSs (without protein)            :: 126
            Pseudo Genes (ambiguous residues) :: 0 of 126
            Pseudo Genes (frameshifted)       :: 49 of 126
            Pseudo Genes (incomplete)         :: 81 of 126
            Pseudo Genes (internal stop)      :: 27 of 126
            Pseudo Genes (multiple problems)  :: 27 of 126
            Pseudo Genes (short protein)      :: 3 of 126
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP069555.1.
            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_1253"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1253"
                     /db_xref="taxon:562"
                     /plasmid="unnamed6"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            complement(join(4021..5251,1..125))
                     /locus_tag="I6J83_RS22515"
                     /old_locus_tag="I6J83_22515"
     CDS             complement(join(4021..5251,1..125))
                     /locus_tag="I6J83_RS22515"
                     /old_locus_tag="I6J83_22515"
                     /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(758..970)
                     /locus_tag="I6J83_RS22520"
                     /old_locus_tag="I6J83_22520"
     CDS             complement(758..970)
                     /locus_tag="I6J83_RS22520"
                     /old_locus_tag="I6J83_22520"
                     /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(974..1459)
                     /locus_tag="I6J83_RS22525"
                     /old_locus_tag="I6J83_22525"
     CDS             complement(974..1459)
                     /locus_tag="I6J83_RS22525"
                     /old_locus_tag="I6J83_22525"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001749519.1"
                     /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_013631087.1"
                     /translation="MSSLLALAKDLEQQSKAQQQSTGEMLKAAFSEHEQSVKAELSASA
                     KRISDAISAHEQGMTAAMQSNRLSVLRMVGRTWLTITLVSVLLIATSGSILWWQGQQIT
                     GNYQTIRAQERTQAMLSEKNHGVQLSLCGEKKLSCVKVNPKAGAYGEEGNWMVLERK"
                     /name="MbeB family mobilization protein"
     gene            complement(<1497..1928)
                     /locus_tag="I6J83_RS22845"
                     /pseudo=""
     CDS             complement(<1497..1928)
                     /locus_tag="I6J83_RS22845"
                     /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(2137..2457)
                     /locus_tag="I6J83_RS22535"
                     /old_locus_tag="I6J83_22535"
     CDS             complement(2137..2457)
                     /locus_tag="I6J83_RS22535"
                     /old_locus_tag="I6J83_22535"
                     /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            3094..3255
                     /locus_tag="I6J83_RS22540"
                     /old_locus_tag="I6J83_22540"
     CDS             3094..3255
                     /locus_tag="I6J83_RS22540"
                     /old_locus_tag="I6J83_22540"
                     /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(3408..4028)
                     /locus_tag="I6J83_RS22545"
                     /old_locus_tag="I6J83_22545"
     CDS             complement(3408..4028)
                     /locus_tag="I6J83_RS22545"
                     /old_locus_tag="I6J83_22545"
                     /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(2572..2744)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="84.659"
                     /coverage="100.0"
                     /evalue="9.74e-41"
     Typing          2691..3204
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.617"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(643..2147)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.215"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 acattcattc catcattttt atagatatga gttgttaaat ggttactaga accggatgcg
       61 ctcaagttta atgtcgattt ttccttaacc gacctaaaat tttcaatagt caaataaaca
      121 aacatgcata cctcctaacg gggatttttc gccaaaaaag cgaaaaatca atcataggaa
      181 agatatccta tatgttttaa ttttggaaca acatcttcct taaaaaacgt tgtgctattt
      241 ataattacac gctatttacc ataacatctg ttgcccgcac cgctccggac aggttcgcca
      301 caaacggggc ggcagtcagg taaaaccggc aacaaaccac ccgatacacc gccccgttcg
      361 tgacagataa attttacccg gctgcatggt catgcagcca gatgcatacg gtctgatttc
      421 aggccagaat ccggatgaac gccttaaaaa caggaaaatg cttctccagc cagtcccaga
      481 tctccagcgc catgtacagg caattcagca ccgtctcaat cacgttaaac agtctcataa
      541 tccctccgtt gtatacgctg tgatggaaac atcacgaccg tatttagcgg gaaatttatg
      601 agcccttctt cttggggttt gtcactggat gcgcgcagtc agcccagcgt cggaccgtca
      661 tagctccgct gccgggaacg ggtttccgcc agctcttttt catgctgttt ctgctcgtat
      721 gcccgttcgg cggccaccgc catttcatgc cgctgcacta ctggctcaaa cgctgtaact
      781 gcctgctcaa gttcgccacc tgctgactca agcgcgtgac gcgctcgttc agcgccgcgt
      841 tctcccgttg cataagacca gacatcttct gccattccgc gaaggcgctc tcccactcgt
      901 ccagcctttg cgagtagtcc tgatgtagct gctctaatgc ggtcagcaac tgtttttcca
      961 gttccgtcat gggctatttc ctctccagta ccatccagtt cccttcctcc ccgtaagctc
     1021 ccgctttcgg gttcactttg acgcaggaca gtttcttctc cccgcagagc gacagctgca
     1081 cgccgtggtt cttctccgac agcatggcct gcgtccgctc ctgcgcccgg atagtctggt
     1141 aattcccggt gatctgctgc ccctgccacc acagaatgct cccgctcgtg gcgatcagca
     1201 gtaccgagac cagggtgatg gtcagccacg tccggccgac catacgcagc acgctcagcc
     1261 ggttcgactg catcgccgcg gtcataccct gctcgtgggc gctgatggcg tcgctgattc
     1321 tcttcgcgct tgcgctcagt tccgctttta cagactgctc gtgctcgctg aatgcggctt
     1381 tcagcatctc gccggtactc tgctgctgcg ctttcgattg ctgctccaag tccttcgcca
     1441 gcgctaaaag actgctcata aatggctccc ttcagtcgga tgtttcgccc cccgtccggg
     1501 tcggcaatgc tgatactgtt ttttgtggtg cggaccacct caaaacctgc cgctgtgagc
     1561 gcccctgtga cgtcctcgcg cgttttgagc tccccggatg aggctaaggc cagcaaccca
     1621 cgtgtaatcg cctgagcggc ttccagcttc gtttccggca gtgcggacgg cgtgaccagt
     1681 aaccgtcggt tctccggggc gtttggatca tgcagcccca gcctgccgtt caccacggtc
     1741 tgccaggcat cgatgcgcgg ccggtcggcg cgatcgtagt acggctgcag gcgtttcccg
     1801 gtcagcagtt cagtgttggg gatcaggaaa ttcagctcca gccgcccctt gtcggtgtgc
     1861 tccacccaca gaatgctgta ctggtcttta tcgagcccgg gcatcagaac ccgctcaaag
     1921 ctggccataa tctgctcccg ctgcccgggc ggcagttcag cctccgcgaa cgacagcacg
     1981 ccggaggtgt actttttcgc atacggcgag gcatcgataa gctcccggac ttcctccggt
     2041 tttccctgca gcacggtcgc cccctcgcgc tgccggtctt ttcccagcag gtaatccacc
     2101 ggaccggcac caccaccgcg cccccggggg tgaaatttaa cgatcatcat cccccccttt
     2161 ttccagcacc gcatgccgca gccgctccag tcccgcgtcg attgccatca gtgcggccac
     2221 aatctgcacc cggtcatgac cggcaccacc ggcattcact ttccgggcga tctggttcag
     2281 gttgttcccc ataccggcaa gctggcgcag cagcgccggc gatatcgacg gcagtctgcc
     2341 ggcacgcgcc ggcttctcat cgaggcaggt ctgacgcatc cacgccgcca gctgcttgcc
     2401 gtcgcaccgc tcgagcagcc gccggtgttc gtcttccgtc acccacatcg tgagcatctt
     2461 gttgcgtttg tctgccagag tagcctcctg ataacaccgg gacgggcggg aaatgtttcc
     2521 cggtcggcac ggtgttggac aagccgcagg cgcgtcagtc gcttttagcg ggtttcgggg
     2581 cgcagccctg aaccagtcac gtagcgctag cggagtgtat actggcttat tatgttggca
     2641 tgagtgcggt aatcaggaaa gtgcttcatg tgacagagga aaatgcagct gcgggcgtaa
     2701 ggcagaaaat ggaagttcag aggatatgac gcctcctcgc tcactcagtc gctgccgctc
     2761 ctgccgttcg gctgcggcgg gcgttacctg cacacggaga agagcgaagg catatggcat
     2821 gacaaacggg gcagaaaaag gatgcgccgc tgccgttttt ccataggctc cgcccccctg
     2881 acaagcatca cgaaatctga cgctcaaatc agtggtggcg aaacccgaca ggactataaa
     2941 gataccaggc gtttccccct ggtggctccc tcgtgcgctc tcctgttcct gcctttcggt
     3001 ttaccggtgt cattccgctg ttatggccgc gtttgtctca ttccacgcct gacactcagt
     3061 tccgggtagg cagttcgctc caagctggac tgtatgcacg aaccccccgt tcagtccgac
     3121 cgctgcgcct tctccggtaa ctatcatctt gagtccaacc cggaaagaca cggttcatcg
     3181 ccactggcag cagccattgg taacggatta gaggaagtga gtcttgaagt tctgcgccag
     3241 ttaaggctaa actgaaagga caatttttgg tgactgcgct ccctctaagc cagttacccg
     3301 gtacataagt tggtagctca tgtaccttcc aaaaaccacc gttggtagcg gtggttttta
     3361 tttttcatag attacagcct gtaataagcc atggtcaatg gattacttca aaagtcgtca
     3421 atcgccttaa gtagctcatg gaatgatgta taacatggaa atagataagg ttcgtgcgtg
     3481 tttttataat tagttttagc gtaaatatct agctttcttg cgttatcttt cgcagtacca
     3541 atcctctctc ttatagcaag gtaagttagt ttactacctt tatcatagtt agttattaat
     3601 ttttttagcg gggagctaga catcaaatta tcatacgacg aaaaatcttt ggttgtgaag
     3661 ccgaaatgca acaataacca taattcaaaa caaacacagg atattgctat atttatccca
     3721 tgcctattag ctttattcca tgccttttga tgacatgaaa tagacgaagg cgtcagatgc
     3781 tcttgatcat aaacaaccca aaagacgtca ccttctgcgg aagatgatga attctttttc
     3841 tttatcgcct catccaccaa ctgctcaggt gtattttttc ttgttttagg tattttaaat
     3901 acacttaaag ttcttttaga tctgtctgaa atataagcct caaggtataa tggttcggtt
     3961 ttctcaccct cacagtatat atacattact tgtgggactt tcttattatt tccatgtttt
     4021 ttactcatca gaaagatccc cgtcaaactc ttcaaaaaaa ccatcagaca attctttgac
     4081 gtcaatatcc ggcattacca aggatatatc accagatata aatgaggcta cctttaagta
     4141 gtttatgtcg ggaaccccac caaacctacc ctcatcatac caagctgcgt aaggtgttgt
     4201 tgtttttatc tttttcttat caaaatcatc taagctataa agagacgacg cacctttatt
     4261 tttttcacaa aaccatatct gatctcttct cattttctct ggagccatta actgcatatt
     4321 atgggttgag aatacaagtt gtgagccttt tttattgaca tcaggatcat taaataactt
     4381 aacaatcaag tcagcaatat gcgggtgcaa gctattatct aactcatcaa caattacaac
     4441 catactatca ttaaacgcag atctaattag aggtatgatt tcaaataatt tttgggtgcc
     4501 ttcagactct ctccccatag ggaaagaaac actcccccct tcatcagtag gatgagagaa
     4561 catataacga tatttataat cttcttcaat tatctccttt atttcttgag ggatttcctc
     4621 atccattttt attggtattt ccgcctcaac ctcccgtaca gatataccgg aaacaccagt
     4681 gtcaaccatg cataaaacct tggccgtttc atttacgacg tcctccctct ccccaaaaga
     4741 agatattctt atcttttcat ttaaacctat atgtctaatt ccctttctaa aaaagttata
     4801 agcttcttta attatgtctg gtgatgcggc attattacct gctttcgcta agtatgaatt
     4861 attagggaag aatggtattt ttttaatacc tcctttataa tgcccaccaa acttgattgt
     4921 ttcccaggtg tcgctctcat ctctagtaaa taaatttgct ttaaccctag atggataata
     4981 gtctaatgat tcaaataaaa tccgattttt aataaaagca acttcataac tgaaccgatt
     5041 cccctcaaca gaataaaatt cagcctcaaa ctttacagga gcctcattcg tagccgaaga
     5101 aagagcatat ggctcatagc agggaatccg tttaccttct ttcaaatcac cgctttctgt
     5161 tgcgataaat tttatagctt caaaagccat gagaacgtta gatttaccag acgcattagc
     5221 accataaatc ccagcactca tgagcgttcc a
//
