LOCUS       NZ_CP069824             4167 bp    DNA     circular CON 03-DEC-2023
DEFINITION  Klebsiella pneumoniae strain FDAARGOS_1326 plasmid unnamed5,
            complete sequence.
ACCESSION   NZ_CP069824
VERSION     NZ_CP069824.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357468
            Assembly: GCF_016903155.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4167)
  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  JOURNAL   Unpublished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 4167)
  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                   :: 1046.3x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 12/03/2023 03:43:46
            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)                     :: 5,440
            CDSs (total)                      :: 5,318
            Genes (coding)                    :: 5,186
            CDSs (with protein)               :: 5,186
            Genes (RNA)                       :: 122
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 132
            CDSs (without protein)            :: 132
            Pseudo Genes (ambiguous residues) :: 0 of 132
            Pseudo Genes (frameshifted)       :: 59 of 132
            Pseudo Genes (incomplete)         :: 75 of 132
            Pseudo Genes (internal stop)      :: 20 of 132
            Pseudo Genes (multiple problems)  :: 20 of 132
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP069824.1.
            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..4167
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1326"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1326"
                     /db_xref="taxon:573"
                     /plasmid="unnamed5"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            complement(join(4013..4167,1..478))
                     /locus_tag="I6K56_RS26710"
                     /old_locus_tag="I6K56_26715"
     CDS             complement(join(4013..4167,1..478))
                     /locus_tag="I6K56_RS26710"
                     /old_locus_tag="I6K56_26715"
                     /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="DUF3226 domain-containing protein"
                     /protein_id="WP_012579086.1"
                     /translation="MKDINNSKKIIFVEGDDDFHFLCNLLEIQGITDVFVEKINGKSKL
                     KQALRAFKNIDSFDEKESIFIILDADTSFSDTERSIIATLRELQISSPSSHNEIAMNGN
                     TKISFFIMPGKDKQGAIEDLIIEHASTRALYEYIIEFFEKIKNNKDDISASDKEYTYPT
                     NEKKAKVQVYLSCNRESDSRIGISMKNGIINTADNCFDEIKDFISKI"
                     /name="DUF3226 domain-containing protein"
     gene            complement(478..1593)
                     /locus_tag="I6K56_RS26715"
                     /old_locus_tag="I6K56_26720"
     CDS             complement(478..1593)
                     /locus_tag="I6K56_RS26715"
                     /old_locus_tag="I6K56_26720"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_019405083.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="ATP-binding protein"
                     /protein_id="WP_012579087.1"
                     /translation="MIKEISLKNFKCFNELYLKQLKTLNIIAGKNNYGKTSILDAIFCF
                     YDVKNPAVLLNIQAFRKEMAEINKNKPFWVSYFHDMDTSQKMSIVIRDERSEVTQTYET
                     ETNQRLESSLSLNVDTVLSNQNIPRQTIGSQATVNSLKINVTETPNAKNRVSNKLFSMQ
                     LKEDGVEIKSEIKNERDGINYKFKTATIITTSRKINKEATITNVSSLLTQKRKKDILEN
                     LKKIDDRIVDIAISAIGNNKEIYLDIGFSELNEISMLGEGISRALSFISSVLVQENSII
                     LIDEIENGIHYSVIKDIIKSLISSAKQNNNQIFATTHSQDVIRAINEIDSKNEDIAYIR
                     LGREKNSLKPTAVQFNMDDFSYSVENDWEVR"
                     /name="ATP-binding protein"
     gene            complement(1938..2051)
                     /locus_tag="I6K56_RS26720"
                     /old_locus_tag="I6K56_26725"
                     /pseudo=""
     CDS             complement(1938..2051)
                     /locus_tag="I6K56_RS26720"
                     /old_locus_tag="I6K56_26725"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /note="internal stop; 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            2467..2658
                     /locus_tag="I6K56_RS26725"
                     /old_locus_tag="I6K56_26730"
     CDS             2467..2658
                     /locus_tag="I6K56_RS26725"
                     /old_locus_tag="I6K56_26730"
                     /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            2658..3059
                     /locus_tag="I6K56_RS26730"
                     /old_locus_tag="I6K56_26735"
     CDS             2658..3059
                     /locus_tag="I6K56_RS26730"
                     /old_locus_tag="I6K56_26735"
                     /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_012579088.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKGEHHSGQVSGQRDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(3405..3647)
                     /locus_tag="I6K56_RS26735"
                     /old_locus_tag="I6K56_26740"
     CDS             complement(3405..3647)
                     /locus_tag="I6K56_RS26735"
                     /old_locus_tag="I6K56_26740"
                     /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_098963735.1"
                     /translation="MHSAEIHTIQPGEVLFPAFFSSENGERGRNLLRGREALPAQPENR
                     FSAPSGIGFVDGRQSRYGKSPDDSPHDSPAIRIVN"
                     /name="hypothetical protein"
     Typing          complement(1939..2346)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.399"
                     /coverage="99.0"
                     /evalue="5.92e-171"
ORIGIN
        1 tgtactcttt gtcactcgct gagatgtcat ctttattatt tttaattttt tcgaaaaatt
       61 ctattatgta ttcatataac gctcgagtgc ttgcgtgttc aattatcaga tcttcaatgg
      121 caccttgctt gtcttttcct ggcattataa agaaagaaat ttttgtattg ccattcatag
      181 ctatctcgtt atgcgagctg ggggaggaga tttgtagttc tcgcaatgtg gcaattattg
      241 atctttctgt gtcagaaaat gatgtgtcag catctaatat aataaaaata ctttcttttt
      301 catcgaaaga atcaatgttt ttgaatgctc taagtgcttg ttttaatttt gattttccat
      361 ttattttttc gacaaaaaca tcggtaatgc cttgtatttc aagtaggttg catagaaaat
      421 gaaaatcatc atcaccctca acgaaaatga tctttttgct attatttatg tctttcatta
      481 tcttacctcc cagtcgttct caactgagta ggagaaatca tccatattga attgtacggc
      541 tgttggtttt agggagttct tttctcttcc tagtctaata taagcgatat cttcattttt
      601 gctatctatt tcgtttattg ctcgtatcac atcttgacta tgagttgttg caaatatttg
      661 attgttgttt tgttttgcag atgaaattaa tgattttatt atgtctttaa ttactgagta
      721 atgtattccg ttctcgattt catcaataag aataattgag ttttcctgta ccagcactga
      781 gctgataaaa gataatgctc gactgatacc ctcgccaagc attgatattt catttagctc
      841 actaaatcca atgtctaaat atatttcctt attgttacct atcgcagata ttgctatatc
      901 tacaattctg tcatctattt tttttaagtt ttctagtatg tcttttttcc ttttttgtgt
      961 tagtaggcta gatacatttg taattgttgc ctctttgttt atctttctgg atgttgttat
     1021 tattgttgct gtcttaaatt tataattaat cccatccctt tcgtttttta tttcggattt
     1081 tatttctacg ccatcttctt tcaattgcat agagaaaagc ttattggaaa ccctgttttt
     1141 cgcattgggt gtctcggtca catttatttt taaagagttt actgtggcct gagaaccgat
     1201 agtttgacga ggtatgtttt ggttagatag tacggtgtca acgtttagag acaaacttga
     1261 ttctaatctc tgatttgttt ctgtttcata tgtttgtgtt acttcagagc gttcatctcg
     1321 aatgactatg gacatctttt gtgatgtgtc catatcatga aagtaactaa cccaaaatgg
     1381 cttgtttttg tttatttctg ccatttcttt tctgaatgct tgaatgttta acaaaacagc
     1441 cgggtttttt acatcataaa aacaaaaaat agcatccagt atagatgttt tcccgtagtt
     1501 gtttttccca gctatgatat ttaaagtctt taattgcttt agatatagct cattgaagca
     1561 tttgaagttc tttaaactta tttcctttat catgatagcc tctgttcgtg tttttgttat
     1621 atgccatacg atttgttagt accttaataa aatgtacagc tttcattgtg attagctaga
     1681 ctttatgtca aagattaact ttgattgctt gtgttttaat cgattttttt tactttcttc
     1741 ttgagattat ctggcagcag ccgtaagctt ccggctgtga acgaaaaaaa ccgccttggc
     1801 gggcggtttt ttcgaaaggt tcagtagagt tggcgctcta tgaaccgagg taactggctt
     1861 aaagggagcg cagtcaccaa aactgttcgt ttagtttagc tttaactggc gtataacttc
     1921 aagactaact ccctaaatca gttaccagtg gctgctgcca gtggcgcttt gtcgtgtctt
     1981 tccgggttgg actcaagacg atagttaccg gattaggcgc agcagtcgga ctgaacgggg
     2041 ggttcgtgca tacagtccag cttggagcga actgcctacc cggaactgag tgtcaggcgt
     2101 ggaatgagac aaacgcggcc ataacagcgg aatgacaccg gtaaaccgaa aggcaggaac
     2161 aggagagcgc acgagggagc catcaggggg aaacgcctgg tatctttata gtcctgtcgg
     2221 gtttcgccac cactgatttg agcgtcagat tccgtgatgc tcgtcagggg ggcggagcct
     2281 atggaaaaac ggccgctgtg cggcctttcc ttctttcctc catgcgatta ctcggttttc
     2341 tcgagcgttt ctacgcatgc tcctgccgct cgccgcagcc gaacggcagg agcgtagcga
     2401 ctgagtgagc gaggaagcgg aaaagaggag atccctacac tgaccactga cgctctgagg
     2461 cctcttatga cgaaacaaca gaaaacagcg ctgaacatgg ctaaattcat ccagaatcag
     2521 tctctgctcc tgctggagaa gcttaacgag cttgatctcg atgtcgaggc cgacctttgt
     2581 gagaaactcc acgatgatgc ggagcatctt ttccgtacac tgtcctcgag actggatgca
     2641 ttacaggatg gtaactgatg gccagagtgt ctattagtga ggctgcccga ctgacgggta
     2701 agagtagaac aacactgcac aggttaatta aagcaggtga cctgtccacc tgtagcggtg
     2761 agcgcaatgc aaaaatggta gatacttcag agcttttacg tgtctttggc ccctttgagc
     2821 aaccgaaggg tgaacaccat tctggacagg tctctggaca gcgtgataca gcctctgctg
     2881 accagagtga acaggtgatc cgtcatctga aacaggagat tgaacacctg aacaccttac
     2941 ttttgtccaa ggattcgcac attgacagcc tgaaacaggc catgctcctt cttgaaaatc
     3001 accaggcaaa attaactgaa tccccggcgc catggtggaa attctggaaa aaatcctgac
     3061 cccgtcatgc ttcagttttc ctctccggcc atcccaggga gttcctgaac cttcccaaaa
     3121 atcgtcagat ctctgaacgc tcctcaccac taaaaatacc cacaccccac gcaaaattaa
     3181 aattttgcag attccttatt tacaacaatg ggttaatgaa aaataaatgt gcggtgatgt
     3241 gttacaaagt gcagatccaa gtcgtggacg actctatggc gaatcgctga cgaattgccc
     3301 acgattcata tgtgaatcac gctttattat catattgtta tgatgaatcg actcttgatt
     3361 caattcatca ctttgggtgt tttttgctca tggtgactct tgattcaatt cacgattcga
     3421 atcgccggtg aatcgtgtgg tgagtcgtcc ggcgacttgc cataacgtga ttgccggccg
     3481 tcgacgaacc cgattcctga aggtgctgaa aaccggtttt ccggctgcgc cggcaacgct
     3541 tcacggccac gcaataaatt gcgtccccgt tcaccgtttt cggaggagaa gaacgccgga
     3601 aacaggactt cccctggctg aatggtgtga atttccgcgc tatgcacttg cgcgcatact
     3661 catgcatgcc gtaaaaacag agcctgcgcg tttctggcgg gttttcgggt ggtttgttgc
     3721 ctgttttacc ggtttcccgt cagaaacgtc ctgagtccgt tttagcggtg cgtacaatta
     3781 tgattttatg ttaaattgtt ttaagtgaat agagagaata taacttaagg gagcatcttg
     3841 tgctgggtct tttacattag atctgcacaa tcattgtttt ggcatctggt gatgtcttta
     3901 ggacgtttga gattgctgat aactaaagtg tatgatgctt tctatacgtt atccggcgtt
     3961 taataacacc ctggtgataa gccagcccgt gaagggctgg cttgatttgg atttatattt
     4021 ttgaaataaa atcttttatt tcatcaaagc aattgtctgc tgtgtttatt attccatttt
     4081 tcatggatat tcctattctt gagtcggatt ctctattgca gctaagatag acttgtacct
     4141 tagctttttt ttcgtttgtt ggataag
//
