LOCUS       NZ_CP033851             4082 bp    DNA     circular CON 18-JUN-2024
DEFINITION  Escherichia coli strain FDAARGOS_497 plasmid unnamed4, complete
            sequence.
ACCESSION   NZ_CP033851
VERSION     NZ_CP033851.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN10163173
            Assembly: GCF_003812945.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4082)
  AUTHORS   Minogue,T., Wolcott,M., Wasieloski,L., Aguilar,W., Moore,D.,
            Jaissle,J., Tallon,L.J., Sadzewicz,L., Zhao,X., 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  JOURNAL   Unpublished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 4082)
  AUTHORS   Minogue,T., Wolcott,M., Wasieloski,L., Aguilar,W., Moore,D.,
            Jaissle,J., Tallon,L.J., Sadzewicz,L., Zhao,X., Vavikolanu,K.,
            Mehta,A., Aluvathingal,J., Nadendla,S., Yan,Y. and Sichtig,H.
  TITLE     Direct Submission
  JOURNAL   Submitted (13-NOV-2018) Center for Devices and Radiological Health,
            US Food and Drug Administration, 10903 New Hampshire Avenue, Silver
            Spring, MD 20993-0002, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: SMRT v. 2.3.0, HGAP v. 3.0, SPAdes v. 3.6.0
            Genome Coverage                   :: 2600.73023781818x
            Sequencing Technology             :: PacBio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_003812945.1-RS_2024_06_18
            Annotation Date                   :: 06/18/2024 02:29:19
            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)                     :: 5,401
            CDSs (total)                      :: 5,282
            Genes (coding)                    :: 5,065
            CDSs (with protein)               :: 5,065
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 92
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 217
            CDSs (without protein)            :: 217
            Pseudo Genes (ambiguous residues) :: 0 of 217
            Pseudo Genes (frameshifted)       :: 83 of 217
            Pseudo Genes (incomplete)         :: 151 of 217
            Pseudo Genes (internal stop)      :: 41 of 217
            Pseudo Genes (multiple problems)  :: 51 of 217
            Pseudo Genes (short protein)      :: 1 of 217
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP033851.1.
            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..4082
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_497"
                     /isolation_source="UCC isolate"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_497"
                     /db_xref="taxon:562"
                     /plasmid="unnamed4"
                     /collected_by="USAMRIID"
     gene            join(3966..4082,1..2043)
                     /gene="mobQ"
                     /locus_tag="EGY17_RS27355"
                     /old_locus_tag="EGY17_27390"
     CDS             join(3966..4082,1..2043)
                     /gene="mobQ"
                     /locus_tag="EGY17_RS27355"
                     /old_locus_tag="EGY17_27390"
                     /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="WP_001029343.1"
                     /translation="MAIYHLSMKIISRNSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPRELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPARRVADLLNIVLPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQTAFEKQWQQWGASGLAALRVQL
                     LKREEELRRKEQEDTERSRAERRAEQLRKNDNAVMDSGVLSAVVTGYGEAPMPGNGEMT
                     CYLLLHNRNGEYTLWGNELEKYRTRIFERVDLMRDRSGYICDRSEIGQHPPLQRVYSSA
                     TFEQLLTQVCQTWPQYTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLLPTL
                     MPVMSSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKG
                     LRYAGYGVAVNHDADSHISPAPELMEFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRT
                     WDEWRREEDARTHATERRHDRGWSQ"
                     /name="mobQ"
     gene            complement(2299..3000)
                     /locus_tag="EGY17_RS27360"
                     /old_locus_tag="EGY17_27395"
     CDS             complement(2299..3000)
                     /locus_tag="EGY17_RS27360"
                     /old_locus_tag="EGY17_27395"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001281399.1"
                     /GO_function="GO:0003887 - DNA-directed DNA polymerase
                     activity [Evidence IEA]"
                     /GO_process="GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_001281397.1"
                     /translation="MSDLIAYKSNALVEASYKLTLQEQRFLLLCIGRLKSGADAESPKL
                     QKTMTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKDDEKREEFRWIQYRAQY
                     AKGEARAQITFSDAVMPYLTQLQGQFTRVVIKNISRLSRSYSIRIYELLQQFRSTGERI
                     IALDDFRSMLDIEHKYQTYKSLNQQLLRPCIDELNKKSDLAVTVETIKKGRTVVALHFR
                     FKEDKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(3533..3787)
                     /gene="mobC"
                     /locus_tag="EGY17_RS27370"
                     /old_locus_tag="EGY17_27405"
     CDS             complement(3533..3787)
                     /gene="mobC"
                     /locus_tag="EGY17_RS27370"
                     /old_locus_tag="EGY17_27405"
                     /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="WP_000091745.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVIVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPGQ"
                     /name="mobC"
     Typing          2..242
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.29e-123"
     Typing          complement(3789..3965)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          3966..4082
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.81e-54"
     Typing          complement(2300..3000)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          2..2040
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 cacgactaca cccgcaaaag cggtgtggct gaagctgtga ttctgactcc cgcgacagcc
       61 cctgcctggt gtacgaaccg tgccgaactc tggaatgccg ttgagaaggc cgaacgccgg
      121 aagaactcac aacttgcgcg ggaaattgaa ctcgccatcc cccgcgaact accgcaggat
      181 gccgcacggg aaaccgttct cgcctttgtc agagaaaact ttgtcagtca gggcatgatt
      241 gctgatgtgg cgttccatca catggataaa acaaatcccc atgcgcacat catgctgacc
      301 acgagagctg tcggacctgc tggattcggt ggaaaggtca gggactggaa cgaccggaca
      361 catgccgaga cgtggcgtgc atcatgggct gaccatgcga acagggcact ggcgaacgcc
      421 ggttatcagg aagagataga ccatcgttca tacgagcgac aggggcttga gaaaacgcct
      481 ggtattcacc tcggaaagtc tgcctgtgcg atggaaacac gcggtatcga aacagaacgc
      541 ggcgaacaga atcgtctgat taacagactt aacctggaaa tacagatttc ccgtaccgaa
      601 ctcagaaaca gcgggctgac agagcctgcc cgccgtgtgg ctgaccttct gaatatcgtg
      661 cttcctgaca acgcaacttc gtacacacta cgtgacatca tcgaagcgtt gccgaaggac
      721 agtaatgcgg catggaaact caccagtaat gccatgtcga tgatggcaga tatgcaggcg
      781 acgcgcagac gctgggaaga gctgaacacc gaacgaaagg aagcgatgag ccatgctgcc
      841 agcctgaaaa aatcatcgcc gttttcgtcc ggtttttccc gtattcccct gatgcaatgg
      901 gcggcaccgg aataccgtag cgaacaggga aaaatccagt cgctgagcca gcaaatggaa
      961 aaattgcgac agcattaccg gaaggtggag aaacaggaca ttcccgcgag tcagacggca
     1021 tttgaaaaac agtggcagca gtggggggca tccggccttg cagctctcag agtccagttg
     1081 cttaaacgtg aagaggaatt gcgccggaag gagcaggagg atacagaacg tagtcgcgcg
     1141 gagcgacgag cggaacagct caggaaaaat gacaatgccg ttatggattc aggggtactg
     1201 agcgcagtcg ttacggggta tggcgaggcc cccatgcctg gtaacgggga aatgacctgt
     1261 taccttctgc ttcacaaccg gaacggagaa tacacgctct gggggaacga gctggagaaa
     1321 taccgcacca gaatctttga gcgtgttgat ttaatgcgtg acaggagtgg ttatatctgt
     1381 gaccgaagcg aaatcggtca acatccacca ctgcaacgtg tttattcctc tgcgaccttt
     1441 gagcaacttc tgacgcaggt ttgccagaca tggccgcaat atacccgcaa tctccgccag
     1501 ccgaagacat ggccggagtc tttctgtctt ggagaagacc gccagccagc catgccatca
     1561 ctggcagcaa ggaaggtgga ttttacgcag ggacgtctgc taccgacgct gatgccggta
     1621 atgagttctg tcgaccggga aacccgccag cttcagcttt tgctggtcat gggcgtggat
     1681 gactctctgg gcggtgttgt ccggcttaat ggtacgctgt atcccgcgtt tgccgttccc
     1741 tcagccgata acagccagct ggtcatcagt gcactgaccg ataaggggtt acggtatgca
     1801 gggtatggtg ttgccgtaaa tcacgatgca gacagccaca tatcacctgc gccggaactt
     1861 atggagtttc atctgaaaac ccgtgaggca ccgctttttg ctgccgtcaa cacaccagaa
     1921 aaacagccgg atcatctgtt ccgctcgctg ggttttaatc gtacctggga cgaatggcgg
     1981 cgcgaggaag atgcacgaac acacgccacc gagaggagac atgatcgcgg ttggtcacag
     2041 tgaatgtgaa caatattttg ttttgtttaa catcgtgtta tgttcgtcga tgttcttcga
     2101 tgttcatcga cagggatgaa tgcaagaagc acacacataa tgcaagcata gttttgtttt
     2161 tccgccccca aaaaatgggg gttctttttt cgctgcatta gagcgctttt gacgcaattt
     2221 ttcacttcaa tagtaccttc gcactactaa cacaaaaaaa acgcagcagg gagcgtttta
     2281 ggtgccttaa aatcgatttt agatcgtcat cttgatttgt ttgtcttcct tgaagcgaaa
     2341 atgcagggct acaaccgtgc gccccttttt gatcgtctca accgttacag ccaggtcgct
     2401 ttttttgttc agttcgtcaa tgcagggtct taataattgc tggttaagtg atttatatgt
     2461 ttgatattta tgctctatat caagcattga gcgaaaatca tcgagagcga taatacgttc
     2521 gccagtactg cggaactgct ggaggagttc gtatatcctt atactgtaac ttcttgataa
     2581 tctagatata ttcttgatta caactctagt aaattgccct tgtagttgtg tcaaataagg
     2641 cattactgcg tcagaaaatg ttatttgtgc tctggcctcg cctttagcgt actgtgcccg
     2701 atactggatc cagcggaact cctcacgttt ctcgtcatcc ttgagaatga ttgacctgtc
     2761 ccacaaacga tcaattgctt cctgtaactg aacctcggca tttttccgcc ccatgtcagg
     2821 gaatgaatcg aaatattccg cagctgtaat ggtcattgtc ttttgcaatt ttggagattc
     2881 tgcatcagcc ccagacttca atcgaccgat gcaaagtaac aaaaatcgct gttcctgtag
     2941 ggtcaattta taactggctt caaccagcgc attggattta taggcaatta gatccgacat
     3001 agagcatccc tccccaaaag gtaatgaata aaagataaac ataccctcaa cgaaaggcaa
     3061 tgccttttta ttttaatatc cctttttctg tgaatattac cttaaatcat attgccttta
     3121 ccttaaattc ccccacctaa acaccttaaa tcatattacc tttaccttaa atcacattac
     3181 ctatagcatt gtaacatttt gttttctata aggaattttg gcgctaaaac aagtattaaa
     3241 aacaagatct taaaaacaag atctaaaaac ttaacgacga gcctgtggat aacttggagt
     3301 actgaaaaca aaaaaccaat aaaaacaatg cgttgcaaaa aagcagaatt gcaagttccg
     3361 aatacacccc ctccaaccct gtggaaatcc agtattcatg cgggttcagc gcatatcacc
     3421 tcccgaaaaa ccgtgcgtat gtgctcaatc aggcgacgga ttcacttccg cttcctcgcc
     3481 cactcgctcg ctaacgctcg gtcgctggga ctgcggcgag cggacgatac aatcactgtc
     3541 ctggcagcgc ttccagctcg ttaatcagcg gcagtatgcg cgtcacatca gcctgtcgtg
     3601 tcacctctgc cttcaggaac tggagtaacc aggcacgcaa ctgcacctcc tccggctttc
     3661 tgacctttgc cagcaatgct gcacccacaa tgaccttctg cgctgtgtcc agactcctgc
     3721 tcttcgcctt caggcgctgt aatctggcct cagcatcagc aatcttctgt tcgagtgttc
     3781 tgctcatgat gtaactccgt gcgcgatgaa aaatcgcatt ttagcgcgtc actggtagtt
     3841 taaaaactga gctggcataa tgcacggaaa atcacgaagt gcgcacttat acaatctcca
     3901 ctccgtttcg attgtgtgcg ccctgcgggg ctgaaagaaa accacaaaaa ggcattacgg
     3961 cagaaatggc gatttatcat ctcagcatga aaatcatctc cagaaacagc ggctacagcg
     4021 ccgttgcttc tgctgcctat cgttccggtt cactgatgct tgatgagcgt accggactga
     4081 ct
//
