LOCUS       NZ_CP044113             4096 bp    DNA     circular CON 26-JAN-2024
DEFINITION  Klebsiella michiganensis strain FDAARGOS_647 plasmid unnamed4,
            complete sequence.
ACCESSION   NZ_CP044113
VERSION     NZ_CP044113.1
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 4096)
  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  JOURNAL   Unpublished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 4096)
  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
            CP044113.1.
            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..4096
                     /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="unnamed4"
                     /geo_loc_name="USA: DC"
                     /collected_by="Children's National Hospital"
     gene            complement(join(3930..4096,1..67))
                     /locus_tag="FOB55_RS32630"
                     /old_locus_tag="FOB55_32630"
     CDS             complement(join(3930..4096,1..67))
                     /locus_tag="FOB55_RS32630"
                     /old_locus_tag="FOB55_32630"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001036746.1"
                     /GO_component="GO:0005886 - plasma membrane [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="YgdI/YgdR family lipoprotein"
                     /protein_id="WP_001036746.1"
                     /translation="MNKKTLLAAMMVALVTFAAAGCSSNQEIKTTDDRTIVTDGKPKVD
                     SDTGLVSYKDAHTGRTEQINRDKITNMSELDN"
                     /name="YgdI/YgdR family lipoprotein"
     gene            149..418
                     /locus_tag="FOB55_RS32635"
                     /old_locus_tag="FOB55_32635"
     CDS             149..418
                     /locus_tag="FOB55_RS32635"
                     /old_locus_tag="FOB55_32635"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_079839079.1"
                     /translation="MNGQEFRLLLTEHGEKEAVLLFGKKSFVAVPDTQNLYGGCYYLYL
                     EDAHKNELLIELNESDLYPGGAIELQHNGGRKIHCEILKVRWSR"
                     /name="hypothetical protein"
     gene            complement(655..813)
                     /locus_tag="FOB55_RS33425"
                     /old_locus_tag="FOB55_32640"
     CDS             complement(655..813)
                     /locus_tag="FOB55_RS33425"
                     /old_locus_tag="FOB55_32640"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_032670878.1"
                     /translation="MHEPPVQSDCCALSGNYRLESNPERHEKSLLAAAISNWRYTRDKL
                     RGLEVWA"
                     /name="hypothetical protein"
     gene            1452..1775
                     /locus_tag="FOB55_RS32650"
                     /old_locus_tag="FOB55_32650"
     CDS             1452..1775
                     /locus_tag="FOB55_RS32650"
                     /old_locus_tag="FOB55_32650"
                     /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_001555769.1"
                     /translation="MLTMWVTEDEHRRLLERCDGKQLAAWMRQTCLDEKPARAGKLPSI
                     SPALLRQLAGMGNNLNQIARQVNAGGSSGLDRVQVVAALMAIDAGLERLRHAVLEKGAD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            1984..>2418
                     /locus_tag="FOB55_RS33430"
                     /pseudo=""
     CDS             1984..>2418
                     /locus_tag="FOB55_RS33430"
                     /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            2453..2938
                     /locus_tag="FOB55_RS32660"
                     /old_locus_tag="FOB55_32660"
     CDS             2453..2938
                     /locus_tag="FOB55_RS32660"
                     /old_locus_tag="FOB55_32660"
                     /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_012782630.1"
                     /translation="MNSLLTLAKDLEQKSKVQQQTTGEMLKAAFSEHEKSVRAELNESE
                     KRISAAIHDHDRMLSSAMSQRTKGMLRMVSQTWLTIVLVSVLLIASSAGILWWQGQQIL
                     DNYTTIREQKSTQAMLSERNSGVQLTTCGEERRRCVRVNPDAGRFGEDSSWMILAGK"
                     /name="MbeB family mobilization protein"
     gene            2942..3151
                     /locus_tag="FOB55_RS32665"
                     /old_locus_tag="FOB55_32665"
     CDS             2942..3151
                     /locus_tag="FOB55_RS32665"
                     /old_locus_tag="FOB55_32665"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_014538403.1"
                     /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_001632067.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWESAFAEWRTMCGLMQRENA
                     ALSERVTDLSTQVLSLSEQLRRLS"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(3681..3908)
                     /locus_tag="FOB55_RS32670"
                     /old_locus_tag="FOB55_32670"
     CDS             complement(3681..3908)
                     /locus_tag="FOB55_RS32670"
                     /old_locus_tag="FOB55_32670"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010615788.1"
                     /GO_component="GO:0005886 - plasma membrane [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="YgdI/YgdR family lipoprotein"
                     /protein_id="WP_000719360.1"
                     /translation="MKKIFVSVFAAAVALSALTGCTRTSYAIHTNDGRTIVSDGKPTES
                     DSGLLGYKDANGVKQQINKADVKEVSEIPH"
                     /name="YgdI/YgdR family lipoprotein"
     Typing          1266..1344
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.8899999999999995e-34"
     Typing          complement(702..1190)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="86.747"
                     /coverage="94.0"
                     /evalue="7.82e-151"
     Typing          1766..3261
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.998"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 aacatccagc agcggcaaag gtcaccaacg cgaccatcat ggccgccaac agcgtttttt
       61 tattcataat aggttccctg cttaaaggta aagtggatat ggtcactaac catctaagta
      121 taggtcgttt tttcatgcga aaagaggatt gaatggacaa gaatttcgat tattgctgac
      181 agagcatgga gaaaaagagg ctgttttact gttcggaaag aaatcttttg ttgccgtgcc
      241 agatacgcag aacctttatg gtgggtgtta ttacctttat ttagaggatg ctcacaagaa
      301 cgagctttta attgagttaa acgaaagtga tttatacccc ggtggcgcaa tagaacttca
      361 acacaacggc ggtcggaaga ttcattgcga gatactaaaa gtaaggtgga gtcgttaact
      421 caagtaatgt ttcctaagta tgttgatagg caaacatagt ggtagttagt ctctctgagt
      481 aaatgatctt cttgtgatcc tgtcgttaca gtcgtaatct cttgctctga aaacgaaaaa
      541 accacctggg gaggtggttt gatcgaaggt taagtcagtt ggggaactgc ttaaccaggt
      601 aactgggtat acgagaccgc agaaaccaaa actgttcttt cagtgtagcc tctctcaggc
      661 ccatacttca agacctctta atttgtctct cgtatacctc cagttactaa tggctgctgc
      721 cagtagcgat ttttcgtgtc tttccgggtt ggactcaaga cgatagttac cggataaggc
      781 gcagcagtcg gactgaacgg ggggttcgtg catacagtca atcctggagc gaactgcctt
      841 cgcggaactg agtgtcaggc gtggaatgag aaaccgcggc cataacagcg gaatgacacc
      901 ggtaaaccga aaggcaggaa tgcgggggag cacgagggag ccatcagggg gaaacgcctg
      961 gtatctttaa gccgcatcgg gtttcgccac cactgatttg agcgtcagat tctgtgatgc
     1021 ttgtcagggg ggcggagcct atggaaaacc ggcagcggcg catcctttct tcccctcctg
     1081 cattcacgta tttccccgcc acgtctttat ccgtgagtcc gtaccgctcg ccgcagccga
     1141 acgaccgagc gtagcgagtc agtgagcgag gaagcggaat atccaccggg acaggcatca
     1201 gcctcttacg cacctgagcc tcatctcaca gttttcatga ctgactattt catcccgatt
     1261 cccgtcgtgc caccatagta agccagtata cactccgcta gcgctacgtg actggttcag
     1321 ggctgcgccc cgaaacccgc taaatgccac tgacgcgcct gcggcttgcc caacaccgcg
     1381 ccgaccggga aaagatttcc cgcccgtccc ggcgttatca ggaggccgga ttggcagaca
     1441 aacgcagcaa aatgctcacg atgtgggtaa cagaagatga gcaccgccgt ctgctggaac
     1501 gctgcgacgg taaacagctc gcggcctgga tgcggcagac gtgcctggac gagaagcccg
     1561 cccgggccgg caaacttccc tcgatctcgc cggcgctgct tcgtcagctt gccggcatgg
     1621 ggaacaacct caaccagatt gcccgccagg ttaacgccgg tggcagtagc ggtctcgacc
     1681 gcgtgcaggt cgtcgccgcg ctgatggcca tcgatgccgg actcgagcgg ctgcggcatg
     1741 ccgtactgga aaagggggct gacgatgatc gttaagtttc atccccgggg acgcggaggc
     1801 ggtgccggcc cggttgatta tctgctgggg aaagaccgcc agcgcgacgg tgccagcgtt
     1861 cttcagggga agccggagga agtccgggag cttatcgacg cctcgcccta cgccaaaaag
     1921 tacacctccg gggtgctgtc ctttgccgaa caggacttac cgcccgggca gcgtgaaacg
     1981 ctgatggcga gcttcgagcg ggttctgatg cccggactcg ataaagacca gtacagcgtg
     2041 ctgtgggttg agcaccggga caaggggcgg ctggagctga acttcctgat cccgaacacg
     2101 gagctgctga ccggcaaacg gctccagcca tactatgacc gcgccgaccg tcctcgcatt
     2161 gatgcctggc agaccatcgt gaacggcagt ctggggctgc acgacccgaa cgcgccggaa
     2221 aaccggcggg cactggtcac gccgtccgcg ctgccggaaa cgaagcagga agccgctcag
     2281 gcgattacgc ggggtttact ggccttagcc tcgtccgggg agctgaaaac gcgtcaggac
     2341 gtcactgagg cgctggaaag cgcaggtttt gaggtggttc gcaccacaaa aagcagcatc
     2401 agcattgccg acccggacgg ggggcgaaac atccgactga agggagccat ctatgaacag
     2461 tcttttaacg ctggcgaagg acttagagca gaaatcgaaa gtgcagcagc agactaccgg
     2521 cgagatgctg aaagccgcat tcagcgagca cgagaagtct gtcagagcgg aactgaacga
     2581 aagcgagaag agaatcagcg ccgccatcca cgaccacgac cggatgctgt cctcagccat
     2641 gagccagcgt acgaaaggga tgctgcgcat ggtcagccag acgtggctga ccatcgtcct
     2701 ggtctccgtg ctgctgatag cctcaagtgc gggcattcta tggtggcagg ggcagcagat
     2761 actcgacaat tacacgacca tccgggagca gaagagcacg caggccatgc tgtccgagag
     2821 gaacagcggc gtgcagctca cgacctgcgg agaggaacga cgccgctgcg tgagggtgaa
     2881 cccggacgcg ggacggttcg gagaggattc gagctggatg atactggcgg ggaaatagca
     2941 catgacggaa ctggaaaaac agttgctgag cgcattagag cagctacagc aggactactc
     3001 gaaaaggctg gacgagtggg agagcgcctt cgcggaatgg cggacgatgt gtggtcttat
     3061 gcaacgggag aacgcagcgc tgagcgagcg cgtcacggac ttgagcacgc aggtgctgag
     3121 tttaagcgag cagctgcgcc ggttgtcgta aggctgaacg acatcgaggc acaccgggag
     3181 caggagcgcg cagcgcagca ccagaaagcg ctggagctgg aacgatcgca gcgtcagcag
     3241 gagtatgacg gtccgtcgct gtgataaccg gataaaacgg ggctttcatt gaggatctgc
     3301 gccgaaaccc ggtgccattc acccggctgc atggctatgc agtcgggtga gatttatcag
     3361 gcgcagaatg cacggtttgc ggggtggttt actgtcggtt ttgcaggact gacgccgcat
     3421 tcgcgctgaa cccgtccgga gaggtgcggg caagggatgt tatggtaaaa gcatgatgcc
     3481 tggcgggtac ggaaaaattg tggcgaccga gcctgcagac gcaaaaatcc ggcccatact
     3541 tattcgtctc cttcatcagg aatgcagtac tatccagcca ctgcaggtat ttggccccca
     3601 gcgggggctt tttttgcctg ttgttggggc agataaagaa aagggccgca ttagcggccc
     3661 ttttcggaga gagcgatgcc tcaatgcgga atttcagaga cttctttaac gtcggcttta
     3721 ttgatctgct gtttgacacc atttgcgtct ttatagccca gcaggcctga gtctgattct
     3781 gtaggcttgc cgtcgctgac aattgtacgc ccgtcgttgg tgtggatggc atagcttgtg
     3841 cgcgtgcagc cggttagggc tgaaagcgca actgccgctg cgaacactga aacaaaaatc
     3901 tttttcaaag ccagctcctt ttatccgtat cagttgtcta gttcactcat gttggtaatt
     3961 ttgtcacggt tgatctgttc ggttcggcct gtatgggcat ctttgtagga tactaatccc
     4021 gtatcactgt caactttggg tttgccgtct gtaacgatag tgcgatcatc tgtggttttt
     4081 atttcttggt ttgaag
//
