LOCUS       NZ_CP044112             3223 bp    DNA     circular CON 26-JAN-2024
DEFINITION  Klebsiella michiganensis strain FDAARGOS_647 plasmid unnamed3,
            complete sequence.
ACCESSION   NZ_CP044112
VERSION     NZ_CP044112.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN11056362
            Assembly: GCF_008693565.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella michiganensis
  ORGANISM  Klebsiella michiganensis
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 3223)
  AUTHORS   Campos,J., Goldberg,B., Tallon,L., Sadzewicz,L., Vavikolanu,K.,
            Mehta,A., Aluvathingal,J., Nadendla,S., Nandy,P., Geyer,C., 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  JOURNAL   Unpublished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 3223)
  AUTHORS   Campos,J., Goldberg,B., Tallon,L., Sadzewicz,L., Vavikolanu,K.,
            Mehta,A., Aluvathingal,J., Nadendla,S., Nandy,P., Geyer,C., Yan,Y.
            and Sichtig,H.
  TITLE     Direct Submission
  JOURNAL   Submitted (17-SEP-2019) 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                   :: 775.9x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/24/2024 14:06:37
            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)                     :: 6,424
            CDSs (total)                      :: 6,308
            Genes (coding)                    :: 6,154
            CDSs (with protein)               :: 6,154
            Genes (RNA)                       :: 116
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 154
            CDSs (without protein)            :: 154
            Pseudo Genes (ambiguous residues) :: 0 of 154
            Pseudo Genes (frameshifted)       :: 49 of 154
            Pseudo Genes (incomplete)         :: 117 of 154
            Pseudo Genes (internal stop)      :: 23 of 154
            Pseudo Genes (multiple problems)  :: 29 of 154
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP044112.1.
            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..3223
                     /organism="Klebsiella michiganensis"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_647"
                     /isolation_source="clinical isolate"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_647"
                     /db_xref="taxon:1134687"
                     /plasmid="unnamed3"
                     /geo_loc_name="USA: DC"
                     /collected_by="Children's National Hospital"
     gene            526..849
                     /locus_tag="FOB55_RS32595"
                     /old_locus_tag="FOB55_32595"
     CDS             526..849
                     /locus_tag="FOB55_RS32595"
                     /old_locus_tag="FOB55_32595"
                     /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_004193914.1"
                     /translation="MLTMWVTEDEHRRLLERCEGKQLAAWMRQTCLDEKPARAGKLPSI
                     SPALLRQLAGMGNNLNQIARQVNAGGGSGHDRVQIVAALMAIDAGLERLRHAVLEKGAD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            1058..>1492
                     /locus_tag="FOB55_RS33420"
                     /pseudo=""
     CDS             1058..>1492
                     /locus_tag="FOB55_RS33420"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /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            1527..2012
                     /locus_tag="FOB55_RS32605"
                     /old_locus_tag="FOB55_32605"
     CDS             1527..2012
                     /locus_tag="FOB55_RS32605"
                     /old_locus_tag="FOB55_32605"
                     /inference="COORDINATES: protein motif:HMM:NF016710.4"
                     /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_025367738.1"
                     /translation="MNSLLTLAKDLEQKSKAQQQTTGEMLKAAFSEHEKSVRAELSESE
                     KRISAAILDHDRKLSSAMSQRTKGMLRMVSQTWLTIVLVSALLIASSAGILWWQGQQIL
                     ENYTTIREQKSTQAMLSERNSGVQLSTCGEQRRRCVRVNPEAGQFGEDSSWMILAGK"
                     /name="MbeB family mobilization protein"
     gene            2016..2231
                     /locus_tag="FOB55_RS32610"
                     /old_locus_tag="FOB55_32610"
     CDS             2016..2231
                     /locus_tag="FOB55_RS32610"
                     /old_locus_tag="FOB55_32610"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137421.1"
                     /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_024195375.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWENAFAEWRTMSGLIQRENA
                     ALNERVTVLSRQVQSLSEQLRRLSKG"
                     /name="MbeD family mobilization/exclusion protein"
     gene            2399..2731
                     /locus_tag="FOB55_RS32615"
                     /old_locus_tag="FOB55_32615"
     CDS             2399..2731
                     /locus_tag="FOB55_RS32615"
                     /old_locus_tag="FOB55_32615"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_008784643.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="EmrE family multidrug efflux SMR transporter"
                     /protein_id="WP_001099531.1"
                     /translation="MNTYIFLGGAIVAEVIGTTFMKYSEGFTRLWPSVGTAISYCAAFY
                     LLSQTLENIPTGIAYAIWSGAGIVLISLAGWLVSGQKLDWPAIAGMFLICVGVLVINIF
                     SKSSAH"
                     /name="EmrE family multidrug efflux SMR transporter"
     gene            complement(2940..3110)
                     /locus_tag="FOB55_RS32625"
                     /old_locus_tag="FOB55_32625"
     CDS             complement(2940..3110)
                     /locus_tag="FOB55_RS32625"
                     /old_locus_tag="FOB55_32625"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_004193911.1"
                     /translation="MHEPPVQSDYHARSGNYQLESNPERHDKSPVAVAIGNWVHGAEIV
                     ENAYRVLEVKA"
                     /name="hypothetical protein"
     ARG             2400..2731
                     /name="qacG"
                     /gene="qacG"
                     /gene_name="small multidrug resistance (SMR) antibiotic
                     efflux pump"
                     /tool="rgi"
                     /drug_class="disinfecting agents and antiseptics"
                     /identity="41.35"
                     /coverage="102.8"
     Typing          239..430
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="92.308"
                     /coverage="89.0"
                     /evalue="3.38e-71"
     Typing          complement(5..256)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="82.625"
                     /coverage="91.0"
                     /evalue="1.4999999999999999e-53"
     Typing          complement(2766..3217)
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="81.957"
                     /coverage="85.0"
                     /evalue="8.55e-101"
     Typing          840..2329
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.784"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ggagcacgag ggagccacca gggggaaacg cctggtatct ttaagccgca tcgggtttcg
       61 ccaccgctga tttgagcgtc attttcgtga tactcgtcag gggggcggag cctatggaaa
      121 aacggcaact ccgcatcctt ttcttggcct ttcctgcttc gagcggcatt tgcttatccc
      181 gtaatctgtg agctggtaac gcccgccgca gtctcacggc aggagcgtag cgaccgagtg
      241 agcgaggagg cgtcatttca tcaccacctg cattttgcac ttacgcccgg cagccgcatt
      301 tttcccctgt cacatgaagc actttcataa attgccactc cgtcataaca tgtttagcca
      361 gtatacactc cgctagcgct acgtgactgg ttcagggctg cgccccgaaa cccgctaaaa
      421 ccactgccgc gcctgcggct tgtccaacac cgtgccgacc gggaaaagat ttcccgtccg
      481 tcccggcgtt atcaggaggc cggattggca gacaaacgca gcaaaatgct caccatgtgg
      541 gtgactgagg acgagcaccg gcgtctgctg gagcgctgcg agggtaagca actcgcggcc
      601 tggatgcggc agacgtgcct ggacgagaag cccgcacgcg ccggcaaact tccgtcgatc
      661 tcgccggcgc tgcttcgtca gcttgccggc atggggaaca accttaacca gattgcccgc
      721 caggttaacg ccggtggtgg aagcggacac gaccgcgtgc agattgtcgc cgcgctgatg
      781 gccatcgatg ccggactcga gcggttgcgg catgccgtac tggaaaaggg tgctgatgat
      841 gatcgttaag tttcatcctc gggggcgcgg cggcggcggc gggccggtcg attatctgct
      901 gggtaaagat cgccagcgcg acggcgccag cgttctgcag gggaagccgg atgaagtccg
      961 ggagcttatc gacgcctcgc cctacgccaa aaagtacact tccggcgttc tgtcttttgc
     1021 cgaacaggat ttaccgcccg gccagcgcga aaagctgatg gcgagtttcg agcgggttct
     1081 gatgcccgga ctcgataaag accagtacag cgtgctgtgg gttgagcacc gggacaaggg
     1141 gcggctggag ctgaacttcc tgatcccgaa cacggagctt ctgaccggca agcggctaca
     1201 gccgtattac gaccgcgccg accgtccgcg catcgatgcc tggcagacca tagtgaacgg
     1261 caggctgggg ctgcatgacc cgaacgcgcc ggagaaccgg cgggtgctgg tctcgccttc
     1321 cgcgctgccg gaagcgaagc aggaagccgc ccaggcgatt acgagcggcc tgcttgccct
     1381 tgcctcatcc ggggagctga aaacgcgtca ggacgtcact gaggcgctgg aaagcgcagg
     1441 ttttgaggtg gtgcgcacca caaaaagcag catcagcatt gccgacccgg acggggggcg
     1501 aaacatccga ctgaagggag ccatctatga acagtctttt aacgctggcg aaggacttag
     1561 agcagaaatc gaaagcgcag cagcagacta ccggcgagat gctgaaagcc gcattcagcg
     1621 agcacgagaa gtctgtcaga gcggaactga gcgaaagcga gaagagaatc agcgccgcca
     1681 tcctcgacca cgaccggaag ctgtcctcag ccatgagcca gcgcacgaaa gggatgctgc
     1741 gcatggtcag ccagacgtgg ctgaccatcg ttctggtctc cgcgctgctg atagcgtcga
     1801 gcgcgggcat tctgtggtgg caggggcagc agatactcga gaactatacg accatccggg
     1861 agcagaagag cacgcaggcc atgctgtcag agaggaacag cggcgtacag ctctcgacct
     1921 gcggcgagca gagacgccgc tgcgtgaggg tgaacccgga agcgggacag ttcggagagg
     1981 actcgagctg gatgatactg gcggggaaat agcacatgac ggagctggaa aaacagttgc
     2041 tgagcgcatt agagcagcta cagcaggact actcgaaaag gctggacgag tgggagaacg
     2101 ccttcgcgga atggcggacg atgtctggtc ttattcaacg ggagaacgcg gcgctgaacg
     2161 agcgcgtcac ggtcttgagc aggcaggtgc agagtttgag cgagcagctg cgccggttgt
     2221 cgaaaggctg aacgcgatag aaactcaccg gcagcaggag cgggcggtgc agcaccagaa
     2281 agcgctggag ctggaacgat cgcagtggca gcatcatggt ccttcgctat gataagccgg
     2341 gttctattaa ttagttgtta tgtaaagata tttaaatttt tcaacatgag gtatttttat
     2401 gaatacatat attttcctgg gaggggctat tgtggctgaa gtcataggca ccacctttat
     2461 gaaatattca gaaggattta cacgcctgtg gccgtctgta ggaactgcaa taagttattg
     2521 cgctgccttt tatctgcttt cccaaacatt ggaaaatata cctaccggta ttgcttacgc
     2581 aatttggtct ggtgcgggaa ttgtactaat aagcctagct ggttggttgg ttagcggtca
     2641 aaaacttgat tggcccgcaa ttgcaggaat gttccttatt tgcgttggag ttttggttat
     2701 taatattttt tcaaaatctt ctgcgcatta actttttacc gaagcatatt ggccaaagca
     2761 aaaggatttc cttgagatcc tttctttctg cgcgtaatct ttttccctgt aaacaaaaaa
     2821 accaccgcta ccaacggtgg ttcgtttgcc ggaattcaga gctaccaact ctttgttccg
     2881 atggtaactg gctttcacgg agcgcagata cctaaactgt cctttcagtg tagccgcact
     2941 caggctttca cttcaagaac tctgtaggca ttctctacaa tctctgctcc gtgaacccag
     3001 ttaccaatgg ctaccgccac tggcgatttg tcgtgtcttt ccgggttgga ctcaagttga
     3061 tagttaccgg aacgggcgtg gtagtcggac tgaacggggg gttcgtgcat acagtccatc
     3121 ctggagcgaa ctgcctaccc ggaaccgagt ttcaggcgtg gaatgagaaa ccgcggccat
     3181 aacagcggaa tgacaccggt aaaccgaaag gcaggaatgc ggg
//
