LOCUS       NZ_CP030330             6395 bp    DNA     circular CON 16-JUN-2024
DEFINITION  Escherichia coli strain AR_452 plasmid unnamed3, complete sequence.
ACCESSION   NZ_CP030330
VERSION     NZ_CP030330.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN07291545
            Assembly: GCF_003288415.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 6395)
  AUTHORS   Benahmed,F.H., Lutgring,J.D., Yoo,B., Machado,M., Brown,A.,
            Mcallister,G., Perry,A., Halpin,A.L., Vavikolanu,K., Ott,S.,
            Zhao,X., Tallon,L.J., Sadzewicz,L., Aluvathingal,J., Nadendla,S.,
            Voskania-Kordi,A., Simonyan,V., Patel,J. and Shawar,R.M.
  TITLE     FDA/CDC Antimicrobial Resistant Isolate Bank Genome Sequencing
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 6395)
  AUTHORS   Benahmed,F.H., Lutgring,J.D., Yoo,B., Machado,M., Brown,A.,
            Mcallister,G., Perry,A., Halpin,A.L., Vavikolanu,K., Ott,S.,
            Zhao,X., Tallon,L.J., Sadzewicz,L., Aluvathingal,J., Nadendla,S.,
            Voskania-Kordi,A., Simonyan,V., Patel,J. and Shawar,R.M.
  TITLE     Direct Submission
  JOURNAL   Submitted (26-JUN-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                   :: canu v. 1.4; SPAdes v. 3.6.0
            Genome Coverage                   :: 19.79x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_003288415.1-RS_2024_06_16
            Annotation Date                   :: 06/16/2024 01:54:29
            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)                     :: 4,824
            CDSs (total)                      :: 4,706
            Genes (coding)                    :: 4,535
            CDSs (with protein)               :: 4,535
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 171
            CDSs (without protein)            :: 171
            Pseudo Genes (ambiguous residues) :: 0 of 171
            Pseudo Genes (frameshifted)       :: 74 of 171
            Pseudo Genes (incomplete)         :: 102 of 171
            Pseudo Genes (internal stop)      :: 46 of 171
            Pseudo Genes (multiple problems)  :: 44 of 171
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP030330.1.
            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..6395
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="AR_452"
                     /db_xref="taxon:562"
                     /plasmid="unnamed3"
     gene            complement(232..1911)
                     /locus_tag="CSC39_RS00875"
                     /old_locus_tag="CSC39_0001"
     CDS             complement(232..1911)
                     /locus_tag="CSC39_RS00875"
                     /old_locus_tag="CSC39_0001"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000598747.1"
                     /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="AAA family ATPase"
                     /protein_id="WP_001774712.1"
                     /translation="MIKVQLPTREHRLHELNLNYGDVVFFIGQNGSGKSSLLNNLFQKI
                     GSQSSVYVLAHRKNTFSSDIIDFSNSEYKNAQGWIFNEIKGSQCRYRVNYDSQMVAIPI
                     VKLKNKVIARALSFVDSFKSNNNQPAELIKSEVDVLNMVFADAKLSIEFFLDDEANVMA
                     RNIKGENPDVYPISMLSDGEKSALIIASEIICADENTTIFLDEPERHMHRSIVSPLLSS
                     LMKYRRDCVFFVATHELSLPAFFDNVKVVNVKNCYFSEQREPIYWDFNVVEDYDELFNG
                     VDEQTKIDILGARDKVLFVEGVTSSLDRDLYSAIFPMVSVVSKQKCDLVELAVKGLRLN
                     DEIHRVSAFGIIDNDNKVQAKVDNLKKDFIFSLDVHSIESIYYHPRMIKFVIDFVKEAN
                     GIDNVDALFMEIHDFAIDAINEKRDHLCCRAVEKTIRADLMSAIPKQQDIKNRIKFNKE
                     IDIECYVNKEIAAFDAMIAERNLDALVSRYPIRETNLLAHVAKKCGFADRSRYELNVIR
                     TIKSNADARAFVLSLLGGLDEAILGCSDTENSPADTHTVFAM"
                     /name="AAA family ATPase"
     gene            complement(1908..>2492)
                     /locus_tag="CSC39_RS00880"
                     /pseudo=""
     CDS             complement(1908..>2492)
                     /locus_tag="CSC39_RS00880"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001697689.1"
                     /note="internal stop; incomplete; partial in the middle of
                     a contig; missing N-terminus; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /name="replication initiation protein"
     gene            3062..3193
                     /locus_tag="CSC39_RS26630"
     CDS             3062..3193
                     /locus_tag="CSC39_RS26630"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001422066.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_071525238.1"
                     /translation="MHDPPVQSDRCALSGNYHLESNPERHDLSPLAAAIGKGCTRDY"
                     /name="replication initiation protein"
     gene            3763..4278
                     /locus_tag="CSC39_RS00900"
     CDS             3763..4278
                     /locus_tag="CSC39_RS00900"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000675351.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type III toxin-antitoxin system ToxN/AbiQ family
                     toxin"
                     /protein_id="WP_000675351.1"
                     /translation="MKFYTISSRYIEYLKGFEDKVPNSEDPNYQNPKAFIGIVLEIQGH
                     KYLAPLTSPKPWHSTIKESSPSFFKLHENGVPENQLGLINLKFMIPIIEAEVSLLDLNG
                     MPNTAYKRMLYKQLQFIRVNSDKIAEKSELLRKLVLQGKMQGTCNFSLLEEKYRDFGKE
                     ANDTEEGE"
                     /name="type III toxin-antitoxin system ToxN/AbiQ family
                     toxin"
     gene            4692..5402
                     /locus_tag="CSC39_RS00905"
                     /old_locus_tag="CSC39_0003"
     CDS             4692..5402
                     /locus_tag="CSC39_RS00905"
                     /old_locus_tag="CSC39_0003"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000967646.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000967645.1"
                     /translation="MLYWKKMPSLWIGNRIAEFSDLDTAKAIAALKIYLTFCLFCKESD
                     SGHRTVELTFSNLCEIASLSRSLVNEGLKILYAKELIKNISPTARKKIYTVDVLENHND
                     GWCKLPFKGVVDEDKKISAFQSMHNRYPFELLALQTYMYLLYARDNNSDYTLARKKTIC
                     KKLKCKLPELNKAITYLIHIGLLDRVVKKSIENIPLEMFHDSYYFYIKTGSKSALTYRR
                     KSEPPVIPEADLPF"
                     /name="hypothetical protein"
     gene            6196..6390
                     /locus_tag="CSC39_RS00910"
                     /old_locus_tag="CSC39_0004"
     CDS             6196..6390
                     /locus_tag="CSC39_RS00910"
                     /old_locus_tag="CSC39_0004"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041627.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_001041636.1"
                     /translation="MNKQQQTALNMARFIKSQSLTLLEKLDALDADVQAAMCERLHELA
                     EELQNSIQVHFEAENETGT"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(5681..5936)
                     /name="MOBF"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="94.186"
                     /coverage="89.0"
                     /evalue="1.23e-106"
     Typing          complement(6061..6160)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.02"
                     /coverage="100.0"
                     /evalue="1.35e-41"
     Typing          2658..3230
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="86.828"
                     /coverage="90.0"
                     /evalue="5.34e-173"
ORIGIN
        1 ctgacgaagg cggtcacggc ttgcccgtga gcattttcgt cagcagacaa gcccgtcagg
       61 gcgcgtcagc gggttttaac gggtgtcggg gcgcagccct gacccagtca cgtagcgata
      121 gcggagtgta tactgactta atacagcaac tatcgtacat cgcggtcaag tcacgcacaa
      181 acaaaaagcc ccgcaaaagc agggctgtta tctgatatag gttgtttagt ctcacatagc
      241 aaaaactgta tgggtatcag ctgggctatt ttccgtatct gaacatccca aaatagcttc
      301 atctaaccct ccgaggaggg ataaaacaaa tgctctagcg tcagcattac tcttgatcgt
      361 acgaatcacg tttaactcat atctagagcg atcggcaaaa ccacattttt tagctacatg
      421 tgccaacaaa tttgtttctc ggatagggta gcgtgagact aacgcatcca aatttcgttc
      481 cgcgatcatt gcatcaaatg cagcaatttc tttattaaca taacattcaa tatcaatttc
      541 tttattaaac ttaatgcggt tcttaatatc ttgctgtttt ggtatggccg acattaagtc
      601 tgcccttatt gttttttcaa ctgcacggca gcataagtga tcgcgctttt catttatggc
      661 atcaatagcg aagtcatgaa tttccataaa taaggcatca acattatcta tcccattagc
      721 ctcttttaca aagtcaatga caaacttaat cattctagga tgataataaa tcgactcaat
      781 agaatgaacg tcgagactaa aaatgaagtc tttctttaag ttatcgacct tcgcctgcac
      841 cttgttatca ttatcaatga taccaaacgc cgatactcga tgaatttcgt catttagtct
      901 caagcctttt accgccaatt caaccaaatc acatttttgt ttagatacaa ctgaaaccat
      961 aggaaatatg gccgaatata aatcacggtc aaggctagac gtaacacctt caacaaatag
     1021 aaccttatcc ctagcgccaa gtatatctat tttagtttgc tcatcaacac cattgaataa
     1081 ttcgtcataa tcctcaacaa cattgaaatc ccagtatatc ggttctcttt gttcggaaaa
     1141 atagcagttt ttaacgttaa ccactttcac gttatcaaaa aacgcaggca agcttaactc
     1201 gtgggtggca acaaaaaaaa cacaatctct acgatatttc attaaagatg aaagcagcgg
     1261 agacacaatg cttctgtgca tatgtcgctc aggctcatct aagaaaatag ttgtgttttc
     1321 atcagcgcaa ataatctcac tggcaataat tagtgcactt ttttcaccgt cagaaagcat
     1381 tgatatagga taaacatcag gattttcacc tttaatattc cttgccataa cgttggcttc
     1441 atcatctaga aagaactcaa tagataattt ggcatcagca aaaaccatgt ttagcacatc
     1501 aacctctgac tttattaact ctgccggctg attgttattt gatttaaatg aatctacgaa
     1561 acttaaagcc ctggctatca ctttgttttt taattttact ataggtatgg caaccatctg
     1621 tgagtcataa ttaactctgt atctacattg actgccttta atttcattaa aaatccatcc
     1681 ctgcgcattt ttatactcac tattactgaa atcaataatg tcgctgctga atgtattttt
     1741 tctatgcgct aaaacatata ctgatgattg agatcctatt ttttgaaaaa gattatttaa
     1801 taggctggat ttaccactac cattctgacc aataaaaaaa acgacatcgc cataattaag
     1861 attaagctca tgaagacgat gttctctagt aggtaactga acttttatca ttttcctttc
     1921 tctttagctt ttaatctaaa atacgttgaa cgactaattc ctaaattaat ccatggagag
     1981 tttaatgaag gcctacctcc tcctttactt tttttcccac atagagattg gatgtctgcc
     2041 gaatgggtct tttttataaa atcatcaaat gatgactctg taaaattttt attagtccac
     2101 ttagctacac ttttggcaat acccatgact tcgttctcgt ctaaaggtgc ggagaactgc
     2161 aggttgtagg ctttagcgcg ttcaaagcaa gcttgtagcc attggtcata ctgcggccag
     2221 ccttggtgga tagcgcggta atcccacttg cgggttttat cgaagagggt gcagttacgg
     2281 cctaaaccgt agtccggtag gatttcgcgg tcattagctg cgccaaggtc gaggtagtcg
     2341 gctaatcagt cgagggtgta gagctcaggc tgccaaacgg tgatctgcca gtgcaggtgg
     2401 ttcggattct cgcaaattag ccctgaatac cccgcatcgg cgcccaattt tttacgcagc
     2461 gcattctcaa tgacggctgc atatttgagg ggggcggcga gccccctgaa ccagtcacag
     2521 aaggcacctc gcagagggga cgctgtgagt actgacttaa ctatgcggta tcagtgcgga
     2581 ttgtatgaaa agtgcgctat tgacggtgtg aaatgccgca cagatgcgta aggagaaaat
     2641 gcaaatgcct acgctcttcc gcttcctcgc tcactaactc gctgcgctcg gtcgttcggc
     2701 tgcggcgagc ggtatcagct cactcagaga cggtaatacg gttatccaca gaatcagggg
     2761 ataaggccgg aaagaacatg tgagcaaaaa ggcaaagcca gggcaaaagg ccgcgccgct
     2821 ggcgtttttc cataggctcc gcccccctga caagcatcac agaatctgac gctcaaatca
     2881 gtggtggcga aacccgacag gacttaaaga taccaggcgt ttccccctgg tggctccctc
     2941 gtgcgctctc ctgttcctgc ctttcggttt accggtgtca ttccgctgtt atggccgcgt
     3001 ttatctcatt ccacgcctga cactcggttc cgggtaggca gttcgctcca agctggactg
     3061 tatgcacgac ccccccgttc agtccgaccg ctgcgccttg tccggtaact atcatcttga
     3121 gtccaacccg gaaagacacg acttatcgcc actggctgcg gccattggta aggggtgtac
     3181 aagagattac tgatgcagag ttcttgaagt tagaaccaaa ctacggctaa actggaagga
     3241 cgaatttggt ggcagcggtc ttgtacaccc tgttaccacg gttcagaagt tccccaactt
     3301 actgaaccat cgaaaaacca cctccccagg tggttttttc gttttcagag caagagatta
     3361 cgcgtagaaa aaaaggatct caagcagatc ctttttgatt catgtcataa cccaacttac
     3421 ccccccccac actgaactga tgaaaaaaac agtcaactct ggaatcagta ctttaaaaaa
     3481 gcctcaaatg acattttgag gggatacagc ggcaagggct acaactacac agctgcaagt
     3541 tacctagttg taagcctagg cgaagatcag gtatactcga atcaaggtga tttgctacct
     3601 ttaagtgcag ctagaaattc aggtgatttg ctacctttaa gtgcagctag aaattcaggt
     3661 gatttgctac cttaagtgca gctagaaatt taggtcattt actaccttaa agtaatacag
     3721 taaaagaggc gactacacag tcgccttttt tacgagaaaa aaatgaaatt ttacactata
     3781 tcaagcagat acattgaata cctaaaggga ttcgaagaca aagttcccaa tagcgaagat
     3841 cctaactatc agaatccgaa agctttcatt ggcattgtgt tagagattca agggcataag
     3901 tatctagccc ctttaacatc cccaaagcca tggcatagca ctattaaaga atcatcgcct
     3961 agcttcttta agctccatga aaatggtgtc cccgaaaatc agctcggatt gattaatctg
     4021 aagttcatga ttccaatcat cgaagccgaa gtatccttac ttgacttgaa cggtatgccg
     4081 aataccgcct acaagagaat gctctataag cagctccagt ttattcgtgt aaattcagac
     4141 aaaatagctg agaaatcaga gcttttaagg aagctcgtcc tgcaaggaaa aatgcaagga
     4201 acatgtaatt tttccctgtt agaagaaaaa taccgagatt tcggcaaaga agctaatgac
     4261 acggaagaag gcgagtaacg cttcattgcc atcctgaata gtgtccgaaa ccgagtgatc
     4321 ttggacacta ttcaggtcta atattcaaaa ctcaacggtt cgactcacat acatagttca
     4381 cggtgaacca tattatgatt aatacaaata ccaaaactca aataaaaaac ctttaaaaac
     4441 aacaagataa aaaattaaca tcacttttat ctttctagat agatttttgt gaaggcgtta
     4501 caacgccttc acaccctgag ataataaaaa caacaagaag cgattacgag gggtgaaaaa
     4561 tgtttgagaa aggcgtgtgt ctggttgaga ggcttgcgaa agtcgcagcg gtaataacta
     4621 accttgtgct ctcactttct atattgggat tggtctattt catctttcaa aacttggcct
     4681 tgaggtgatt catgctgtac tggaaaaaaa tgccttcact atggatagga aataggatcg
     4741 ctgaattcag cgatcttgat acagcaaaag ctatagcggc attaaaaatt tatttaacat
     4801 tctgcctgtt ttgcaaagag tcagactctg gccacagaac ggttgagtta acctttagca
     4861 acctttgcga gatagcgtca ttaagccgtt ccttggtgaa cgaaggcctt aaaattcttt
     4921 atgcaaaaga gctgataaaa aacatatcgc cgactgcacg aaaaaagatt tataccgtgg
     4981 atgtgctaga aaatcataat gatggatggt gcaagcttcc atttaaagga gttgtcgacg
     5041 aggacaaaaa aataagtgca tttcaatcca tgcacaacag atatcccttt gagttactag
     5101 ccttacaaac ttacatgtat cttctttacg ctcgtgataa taacagcgac tacacactgg
     5161 ctaggaaaaa gaccatatgc aaaaaattga aatgcaaatt acctgaacta aacaaagcaa
     5221 tcacctacct tatccatata ggtttgcttg atagagttgt gaaaaaatcc atagaaaaca
     5281 tacctctaga gatgtttcat gactcgtact atttctatat aaaaacaggc agtaagagcg
     5341 ctctaaccta cagaaggaaa tcagaaccgc cagttattcc agaagccgac ttaccatttt
     5401 gattgtttat tccacaccaa ttatcacacg gattgaacat aacatccgtt gcccgcacct
     5461 cagaaacgcg ctgaacgcga ttctgacgca aataccgcaa aaagagatgt tttccccaag
     5521 gtaaaccgaa aaaatgcgtc aggatcgttt tcagctcgct gcatagctat gcatgaaagt
     5581 gaatggcgaa cggtttgggc gcatacggtg tccatgagac acattttcgg acattttcag
     5641 ttcgtgaatc cctgactcat tgctacatat ctgaacagac acccctagca gcgcccccag
     5701 gggcatcctg taaaaaaaca caccgcgccg ctagcagcac ccctaatata aaatgatgtt
     5761 ttttatgaaa atagtcagtg ccacccctac aaagcggtgt cggcgcggtg ttgtagccgc
     5821 gccgacaccg cttttttaaa tatcacaaag agagcaagag aaactaattt gtcataactc
     5881 tctatttata aagaaaaatc agcaaaaaat tgtttttgcg tggggtgtgg gcatttcagg
     5941 catgagaaca gactcgcgtt tttccggagt atcagcggaa ttattgatta agaaacactc
     6001 gacgcagagc gaaattttat gcaacagcgg ctgcactgca cagggattat ttatcagttg
     6061 atatgctgtg ccatgatacg tcctaaaaaa aacaggacag gatgtgcaat tgtaataccg
     6121 tcgcccgcaa cgtcttacaa ttaccaccta gtcagggtcc acccgacacc cggtactgac
     6181 ggagaacaac ggaaggtgaa caaacagcaa caaactgcgc tgaatatggc gcgatttatc
     6241 aaaagccaga gcctgacact gcttgaaaaa ctggatgctc tggatgccga cgtacaggcg
     6301 gccatgtgtg aacgactgca cgaactcgca gaagaactcc agaacagcat ccaggttcac
     6361 tttgaggccg aaaatgaaac aggaacataa cgaag
//
