LOCUS       NZ_CP070109             5840 bp    DNA     circular CON 05-JAN-2024
DEFINITION  Klebsiella pneumoniae strain FDAARGOS_1314 plasmid unnamed4,
            complete sequence.
ACCESSION   NZ_CP070109
VERSION     NZ_CP070109.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357456
            Assembly: GCF_016904415.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 5840)
  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  JOURNAL   Unpublished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 5840)
  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
            Genome Coverage                   :: 1159.81x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/05/2024 07:47:05
            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)                     :: 5,696
            CDSs (total)                      :: 5,573
            Genes (coding)                    :: 5,417
            CDSs (with protein)               :: 5,417
            Genes (RNA)                       :: 123
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 156
            CDSs (without protein)            :: 156
            Pseudo Genes (ambiguous residues) :: 0 of 156
            Pseudo Genes (frameshifted)       :: 71 of 156
            Pseudo Genes (incomplete)         :: 86 of 156
            Pseudo Genes (internal stop)      :: 27 of 156
            Pseudo Genes (multiple problems)  :: 25 of 156
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP070109.1.
            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..5840
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1314"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1314"
                     /db_xref="taxon:573"
                     /plasmid="unnamed4"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            join(5667..5840,1..219)
                     /locus_tag="I6K44_RS28700"
     CDS             join(5667..5840,1..219)
                     /locus_tag="I6K44_RS28700"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004152299.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_048981310.1"
                     /translation="MDLIITVRVLRAQALALLLPVMWLISLIVLVGRKSGHQMSRIFAV
                     MVMVGIWRIFGGRFTLCPLKKAQQLQQLSVASMVSAVLLPVMAEVRVGRGHRDSLSLCI
                     TGRWDTGKTDHPGLVITNILPALLWQ"
                     /name="hypothetical protein"
     gene            132..2150
                     /locus_tag="I6K44_RS28705"
     CDS             132..2150
                     /locus_tag="I6K44_RS28705"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004228432.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="S-type pyocin domain-containing protein"
                     /protein_id="WP_049245974.1"
                     /translation="MHNGQMGYWENRSSGAGNNEHTTRAFVAVGPSEAEKAARAEKVAQ
                     EKQQAEEAAKAFAAKTAAASAAAEKERQNAISAAAAAGQHQTVPDARNNLNQATAEASR
                     LKTVADNALNTAKNKRKEAIDAVPVATQAEKKYQDLQQSIKGLTLNNNGQYGTQKWEVI
                     SSNKEHDHWGYRFYPSGITKAQVDAAQNDAVNKRNAATSLASQATAAEQASLQASAAYN
                     AAETRRQAAQAALASAEQAAAAERKRHEAEAAAAAAAEKKRQADAAAKAAEEARAIAEK
                     AKALQARRTAADKLKSSEIQAVRGIPATAAPFAIPLTWSTASRGSFTLAADAAASLGAF
                     ISEALATLRVAVVANPVALTIAGLVLSKSVGVGSDMVPGRDISSMMPGDAFGLPDTAAL
                     NKAADQKTSVSMPVRGRLVMNDSGILDVQLVKTNTAGAVKVARAVLDKETGYWGYTLPA
                     VADVPAQTIFVSPADAPGANGPLTLSGPVPLPERILHTGDQISAPQATDKTVTPVADDL
                     DFDDIILVFPPESGLKPLYVMYRSPRNMPGTVSGKGQNVGNNWMGGASTGDGAPVPSQI
                     ADKLRGKTFGSFDSFRRAFWKAVADDSALSKQFSEADINQMKAGRAPTADFLESVGKRV
                     KIELHHEKEISQGGAVMDVDNIKALTPKNHIETHKGK"
                     /name="S-type pyocin domain-containing protein"
     gene            2152..2409
                     /locus_tag="I6K44_RS27690"
                     /old_locus_tag="I6K44_27690"
     CDS             2152..2409
                     /locus_tag="I6K44_RS27690"
                     /old_locus_tag="I6K44_27690"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_013365855.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="bacteriocin immunity protein"
                     /protein_id="WP_032413518.1"
                     /translation="MAGNKISDFTEEEFTAFVSKIIAADFPTDKENDDAIYSFAQLTEH
                     PAGWNLIFKPKIGEDSSAKGIVKTVKEWRAANGKPGFKKA"
                     /name="bacteriocin immunity protein"
     gene            2517..2672
                     /locus_tag="I6K44_RS27695"
                     /old_locus_tag="I6K44_27695"
     CDS             2517..2672
                     /locus_tag="I6K44_RS27695"
                     /old_locus_tag="I6K44_27695"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_008323621.1"
                     /GO_component="GO:0019867 - outer membrane [Evidence IEA]"
                     /GO_process="GO:0019835 - cytolysis [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="colicin release lysis protein"
                     /protein_id="WP_071561715.1"
                     /translation="MKKLLFLGVVTVSVVLAACQVNNVRDTGGGAVSPSSTVTGVTLDS
                     GTNGNP"
                     /name="colicin release lysis protein"
     gene            complement(2877..2990)
                     /locus_tag="I6K44_RS28710"
     CDS             complement(2877..2990)
                     /locus_tag="I6K44_RS28710"
                     /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_049026061.1"
                     /translation="MHEPPVQSDCCALSGNCHLESNPERHAKAPLAAATGN"
                     /name="hypothetical protein"
     gene            3406..3597
                     /locus_tag="I6K44_RS27700"
                     /old_locus_tag="I6K44_27700"
     CDS             3406..3597
                     /locus_tag="I6K44_RS27700"
                     /old_locus_tag="I6K44_27700"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000166328.1"
                     /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_004187666.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDVEADLCEKLHDDA
                     EHLFRTLSSRLDALQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            3597..3998
                     /locus_tag="I6K44_RS27705"
                     /old_locus_tag="I6K44_27705"
     CDS             3597..3998
                     /locus_tag="I6K44_RS27705"
                     /old_locus_tag="I6K44_27705"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_009310048.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_025714819.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKGEHHSGQVSEQRDTASADHSEQVISHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(4747..5292)
                     /locus_tag="I6K44_RS27710"
                     /old_locus_tag="I6K44_27710"
     CDS             complement(4747..5292)
                     /locus_tag="I6K44_RS27710"
                     /old_locus_tag="I6K44_27710"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004178052.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_048981308.1"
                     /translation="MPLPERMKPARVTRKQMKELISQLNGILDHIDNGMDENNEELKQM
                     MADWNAKVVMPCGFSDFRDFSSWTSALDFTRMALNQEKYLDDFTWTELNDVINFIRKAE
                     GSESDHSYALQLLEINFKANPLDLIYHPDCWFNDEALFHARLTTEEIGGYLMKKSGRWL
                     NDAPDIQLVYAIPLDVYD"
                     /name="hypothetical protein"
     Typing          complement(2878..3285)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.161"
                     /coverage="99.0"
                     /evalue="5.8799999999999995e-176"
ORIGIN
        1 ttcacactgt gtcctctgaa gaaggctcaa caacttcaac aactgtcggt ggcttcgatg
       61 gtgtccgcag ttcttctacc ggtaatggcg gaagtcaggg tgggcagggg ccacagggac
      121 agtctctcgt tatgcataac gggcagatgg gatactggga aaaccgatca tccggggctg
      181 gtaataacga acatactacc cgcgcttttg tggcagtagg cccatcagaa gcagaaaaag
      241 ctgcacgagc ggagaaggta gctcaggaaa aacagcaagc agaagaggct gcaaaagcat
      301 tcgcagcgaa aacagcagcg gcatccgccg ctgctgaaaa agaacgtcag aatgcgattt
      361 ctgctgcggc tgctgcaggt caacatcaaa ctgttcctga tgcgcgtaat aatctgaatc
      421 aggcgactgc tgaagcatca cgcctgaaaa cagtggcaga taatgccctt aatacagcga
      481 agaataagcg aaaggaagct atcgatgccg taccagtagc aactcaggct gagaaaaaat
      541 atcaggatct gcagcaaagc attaaaggcc tcactctaaa taataacggc caatacggta
      601 cccaaaaatg ggaggttatc agttcgaata aagagcatga ccactgggga taccggttct
      661 atccatctgg gatcacaaaa gctcaggttg atgcagcgca gaatgatgcg gtgaacaaac
      721 gaaatgctgc taccagtctt gccagtcagg caacggccgc tgagcaggct agtctgcagg
      781 catcagctgc ctataatgct gcagaaacgc gccgtcaggc tgcccaggct gcattagcgt
      841 ccgcagaaca agccgccgct gctgaacgta aacgccatga ggcggaagca gcagccgccg
      901 ctgcggcaga aaaaaaacga caggctgatg cagcagcgaa agccgctgag gaggccagag
      961 ccattgctga aaaagcaaaa gcgctgcagg cccgtcgtac agccgcagat aaactgaaat
     1021 cttcagagat tcaggctgtc aggggtatcc cggctacagc tgcacctttt gctattcctc
     1081 tgacctggtc aactgcgtca cgtggaagtt ttactctggc ggctgatgct gcggccagcc
     1141 tgggagcttt catcagcgag gctctggcga cgttacgtgt cgctgtggtg gctaacccgg
     1201 tagcattaac cattgccggt cttgtgttat cgaaatcagt tggcgtcggt agtgatatgg
     1261 tgcccggtcg ggatatcagt tcgatgatgc ctggcgatgc gtttggtctg cctgataccg
     1321 cggcattgaa taaagcagca gatcagaaaa catctgtcag tatgccggtt cgtggccgtc
     1381 tggttatgaa tgatagcggc attctggatg ttcagctggt caaaaccaat actgccggtg
     1441 ccgtgaaggt cgctcgtgct gtactggata aggaaaccgg ctactggggc tatactcttc
     1501 ccgctgtcgc agatgttccg gcgcaaacta tttttgtcag cccggctgac gcacctggtg
     1561 caaacggacc actgacgcta agcgggccgg taccactacc ggagcgtatt ctgcataccg
     1621 gtgatcagat ttcggcgcca caggctacag ataaaaccgt gacgccggta gcggatgacc
     1681 tcgattttga cgatattatt ctggtgtttc ctccggaatc cggcctaaaa ccgctgtatg
     1741 tgatgtaccg tagccctcgt aacatgcccg gtacagtgag cggcaaaggg cagaacgttg
     1801 gcaataactg gatggggggg gccagtaccg gggatggtgc tcctgttcct tcccagattg
     1861 cggataaatt acgcgggaag actttcggta gttttgattc tttccgtcgg gcgttctgga
     1921 aagcggttgc tgacgattct gcactgagca agcaatttag tgaagctgat attaatcaga
     1981 tgaaagctgg aagggcacct actgcggact ttttagaatc agtagggaaa cgtgttaaaa
     2041 ttgaattaca ccacgaaaaa gaaatatctc aaggaggggc tgttatggat gtcgataaca
     2101 ttaaggcgct aacacctaaa aatcatattg agacacataa aggaaaataa aatggctggt
     2161 aataaaattt cagattttac ggaagaagaa tttactgctt ttgttagtaa aataatcgct
     2221 gctgattttc caactgacaa agagaacgat gatgctattt attcgttcgc ccaactaaca
     2281 gagcatcctg ctggttggaa cctcatcttc aagcctaaga taggcgaaga ttcttcggcg
     2341 aaagggattg ttaaaaccgt aaaggaatgg cgagctgcta acggtaagcc aggttttaaa
     2401 aaagcgtgat tgaatttgcg ggttcaagtt atgagcccgc tcatttgtaa ctctggattt
     2461 gaagaataat tactagatat ccatttgcct agaataataa aaataaaagg tgatatatga
     2521 aaaaattact tttcctaggg gttgttaccg tttctgtggt tctggcagca tgtcaggtca
     2581 ataatgttcg agacaccgga ggtggggctg tttcaccttc atcgacggtg accggagtca
     2641 cgcttgatag cggtacgaac ggcaatccgt aaaggatctt cttgagatcc catttggatc
     2701 gtcgtaatct cttgctctgt aaacgaaaaa accgccttgg cgggcggttt tttcgaaggt
     2761 tcgaggagtt ggcgctcttt gaaccgaggt aactggctta gaggagcgca gtaaccaaat
     2821 tcgttctttc agtttagcct taactggcac ataacttcaa gactaactcc tctaaatcag
     2881 ttaccagtgg ctgctgccag tggcgctttt gcatgccttt ccgggttgga ctcaagatga
     2941 cagttaccgg ataaggcgca gcagtcggac tgaacggggg gttcgtgcat acagtccagc
     3001 ttggagcgaa ctgcctaccc ggaactgagt gtcaggcgtg gaatgagaca aacgcggcca
     3061 taacagcgga atgacaccgg taaaccgaat ggcaggaaca ggagagcgca cgagggagcc
     3121 atcaggggga aacgcctggt atctttatag tcctgtcggg tttcgccacc actgatttga
     3181 gcgtcaaatt ctgtgatgct tgtcaggggg gcggagccta tggaaaaacg gccgctgggc
     3241 ggcctcttct tttccgcctc ccttgatcgc tcggttttct cgagctttta taagaacggt
     3301 cttgccgctc gccgcagccg aacgaccgga gcgtagcgac tgagtgagcg aggaagcgga
     3361 aaagagattg ttcttacact gagcactgac gctctgaggc ttcttatgac gaaacaacag
     3421 aaaacagcgc tgaacatggc taaattcatc cagaatcagt ctctgctcct gctggagaag
     3481 cttaacgagc ttgatctcga tgtagaggcc gacctttgtg agaaactcca cgatgatgcg
     3541 gagcatcttt tccgtacact gtcctcgaga ctggatgcat tacaggatgg taactgatgg
     3601 ccagagtgtc tattagtgag gctgcccgac tgacgggtaa gagtagaaca acactgcaca
     3661 ggttaattaa agcaggtgac ctgtccacct gtagcggtga acgcaatgca aaaatggtag
     3721 atacttcaga gcttttacgt gtctttggtc cctttgaaca accgaagggt gaacaccatt
     3781 ctggacaggt ctctgaacag cgtgatacag cctctgctga ccatagtgaa caggtgatta
     3841 gtcatctgaa acaggagatt gaacacctga ataccttact tttgtccaag gattcgcaca
     3901 ttgacagcct gaaacaggcc atgctccttc ttgaaaatca ccaggcaaaa ttaactgaat
     3961 ccccggcgcc atggtggaaa ttctggaaaa aatcctgacc ccgtcatgct tccgttttcc
     4021 tctccggcca tcccggggag ttcctgaacc ttcccaaaaa tcgccagatc tctgaacgct
     4081 cctcacgact aaaaataccc acacactacg caaaattaaa attttgcaga taactcctta
     4141 atatcagtta gttagatgtt attaaattac gctgtattac attctgtaag gtaaatccaa
     4201 gtcgtcggcg attcgcgtac gacttgtcga tgactcgtca tagagtcatc gacgactcac
     4261 ttaagactat cagtaactta tgacgacttg actctagagt cgagtcgtca ttttggtttt
     4321 tttttgacct tggcgactct agagtcaagt cacgagtcga atcgccggtg aatcgtgtgg
     4381 tgagtcgtcc ggtgacttgc cataacgtga ttgccggccg tcgacgaacc cgattcctga
     4441 acgtgatgaa aaccggtttt ccggctgcgc cggcaacgct tcacggccac gcaataaatt
     4501 gcgtccccgt tcaccgtttt cggataggaa gaacgccgga aacaggactt accctggctg
     4561 aatggtgtga attttcgcgc tatgcacttg cgtgcatact catgcatgcc gtaaaaacag
     4621 agcctgcgcg tttctggcgg gttttcgggt ggtttgttgc ctgttttgcc ggtttcccgt
     4681 cggaaacgcc ctgaggccgt tttagcggtg cgtacaatta agggattatg gtaaatggtg
     4741 acttggttaa tcataaacat ccagggggat ggcatacacc agttggatat ccggtgcatc
     4801 gttgagccat cgacctgatt ttttcattaa gtagccacca atttcttcgg tagtcagccg
     4861 ggcatgaaac aatgcttcat cattgaacca gcagtcaggg tgatagatga gatccagtgg
     4921 gtttgccttg aaattaatct ccagtaactg gagtgcatag ctgtggtcag attcactacc
     4981 ttctgctttg cgtatgaagt tgataacgtc gttcagttct gtccatgtaa agtcatcgag
     5041 gtatttttcc tgattaagcg ccatcctggt gaaatctagt gcacttgtcc aggatgaaaa
     5101 atcacgaaaa tcagagaacc cgcagggcat gacgaccttt gcattccagt ctgccatcat
     5161 ctgttttagt tcttcattgt tttcgtccat cccgttatcg atgtgatcga gaatgccatt
     5221 cagctgactg atcagttctt tcatctgttt acgggtgacc cgtgcgggtt tcattcgctc
     5281 aggtaatggc atcagaaata ctctcttttt tatcgtgcac tcgggggaac tgagtaatct
     5341 atcgggctat gaatcagagc acaaatcgtt tttttttctt tctgatgatc cgcattctgc
     5401 ctcagattta cctctgtcgt aacttttaac cgattgaaaa taaataaaaa tattgttgac
     5461 gtctgcatat tgacagagct ggcatgtcaa gagtagtatc aaactactgt atataaacac
     5521 atgtttttat atacagtagt ttggcgtggc agagaactaa taacagcctc cggataactg
     5581 tcctgaagca ataaaccgca cgccggattt cagaaaagtg gaaaacaaaa aaaacaaaaa
     5641 aaacaaaaga aggaaatgtg tgatgggtgg atttaattat aacggtgagg gtgctacgag
     5701 ctcaggcctt agctctcctt ctgccagtga tgtggctaat cagtttaata gttttggtgg
     5761 gacgcaaatc cgggcatcag atgtctcgaa tattcgcagt gatggtaatg gtgggtatat
     5821 ggcggatatt cgggggcaga
//
