LOCUS       NZ_CP069949             4167 bp    DNA     circular CON 03-DEC-2023
DEFINITION  Klebsiella pneumoniae strain FDAARGOS_1325 plasmid unnamed3,
            complete sequence.
ACCESSION   NZ_CP069949
VERSION     NZ_CP069949.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357467
            Assembly: GCF_016903735.1
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  JOURNAL   Unpublished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                   :: 921.59x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 12/03/2023 04:02:21
            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)                     :: 5,418
            CDSs (total)                      :: 5,295
            Genes (coding)                    :: 5,161
            CDSs (with protein)               :: 5,161
            Genes (RNA)                       :: 123
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 134
            CDSs (without protein)            :: 134
            Pseudo Genes (ambiguous residues) :: 0 of 134
            Pseudo Genes (frameshifted)       :: 50 of 134
            Pseudo Genes (incomplete)         :: 86 of 134
            Pseudo Genes (internal stop)      :: 17 of 134
            Pseudo Genes (multiple problems)  :: 17 of 134
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP069949.1.
            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_1325"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1325"
                     /db_xref="taxon:573"
                     /plasmid="unnamed3"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            complement(153..395)
                     /locus_tag="I6K55_RS26905"
                     /old_locus_tag="I6K55_26895"
     CDS             complement(153..395)
                     /locus_tag="I6K55_RS26905"
                     /old_locus_tag="I6K55_26895"
                     /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"
     gene            complement(761..1393)
                     /locus_tag="I6K55_RS26910"
                     /old_locus_tag="I6K55_26900"
     CDS             complement(761..1393)
                     /locus_tag="I6K55_RS26910"
                     /old_locus_tag="I6K55_26900"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000804504.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /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(1393..2508)
                     /locus_tag="I6K55_RS26915"
                     /old_locus_tag="I6K55_26905"
     CDS             complement(1393..2508)
                     /locus_tag="I6K55_RS26915"
                     /old_locus_tag="I6K55_26905"
                     /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(2853..2966)
                     /locus_tag="I6K55_RS26920"
                     /old_locus_tag="I6K55_26910"
                     /pseudo=""
     CDS             complement(2853..2966)
                     /locus_tag="I6K55_RS26920"
                     /old_locus_tag="I6K55_26910"
                     /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            3382..3573
                     /locus_tag="I6K55_RS26925"
                     /old_locus_tag="I6K55_26915"
     CDS             3382..3573
                     /locus_tag="I6K55_RS26925"
                     /old_locus_tag="I6K55_26915"
                     /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            3573..3974
                     /locus_tag="I6K55_RS26930"
                     /old_locus_tag="I6K55_26920"
     CDS             3573..3974
                     /locus_tag="I6K55_RS26930"
                     /old_locus_tag="I6K55_26920"
                     /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"
     Typing          complement(2854..3261)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.399"
                     /coverage="99.0"
                     /evalue="5.92e-171"
ORIGIN
        1 agatccaagt cgtggacgac tctatggcga atcgctgacg aattgcccac gattcatatg
       61 tgaatcacgc tttattatca tattgttatg atgaatcgac tcttgattca attcatcact
      121 ttgggtgttt tttgctcatg gtgactcttg attcaattca cgattcgaat cgccggtgaa
      181 tcgtgtggtg agtcgtccgg cgacttgcca taacgtgatt gccggccgtc gacgaacccg
      241 attcctgaag gtgctgaaaa ccggttttcc ggctgcgccg gcaacgcttc acggccacgc
      301 aataaattgc gtccccgttc accgttttcg gaggagaaga acgccggaaa caggacttcc
      361 cctggctgaa tggtgtgaat ttccgcgcta tgcacttgcg cgcatactca tgcatgccgt
      421 aaaaacagag cctgcgcgtt tctggcgggt tttcgggtgg tttgttgcct gttttaccgg
      481 tttcccgtca gaaacgtcct gagtccgttt tagcggtgcg tacaattatg attttatgtt
      541 aaattgtttt aagtgaatag agagaatata acttaaggga gcatcttgtg ctgggtcttt
      601 tacattagat ctgcacaatc attgttttgg catctggtga tgtctttagg acgtttgaga
      661 ttgctgataa ctaaagtgta tgatgctttc tatacgttat ccggcgttta ataacaccct
      721 ggtgataagc cagcccgtga agggctggct tgatttggat ttatattttt gaaataaaat
      781 cttttatttc atcaaagcaa ttgtctgctg tgtttattat tccatttttc atggatattc
      841 ctattcttga gtcggattct ctattgcagc taagatagac ttgtacctta gctttttttt
      901 cgtttgttgg ataagtgtac tctttgtcac tcgctgagat gtcatcttta ttatttttaa
      961 ttttttcgaa aaattctatt atgtattcat ataacgctcg agtgcttgcg tgttcaatta
     1021 tcagatcttc aatggcacct tgcttgtctt ttcctggcat tataaagaaa gaaatttttg
     1081 tattgccatt catagctatc tcgttatgcg agctggggga ggagatttgt agttctcgca
     1141 atgtggcaat tattgatctt tctgtgtcag aaaatgatgt gtcagcatct aatataataa
     1201 aaatactttc tttttcatcg aaagaatcaa tgtttttgaa tgctctaagt gcttgtttta
     1261 attttgattt tccatttatt ttttcgacaa aaacatcggt aatgccttgt atttcaagta
     1321 ggttgcatag aaaatgaaaa tcatcatcac cctcaacgaa aatgatcttt ttgctattat
     1381 ttatgtcttt cattatctta cctcccagtc gttctcaact gagtaggaga aatcatccat
     1441 attgaattgt acggctgttg gttttaggga gttcttttct cttcctagtc taatataagc
     1501 gatatcttca tttttgctat ctatttcgtt tattgctcgt atcacatctt gactatgagt
     1561 tgttgcaaat atttgattgt tgttttgttt tgcagatgaa attaatgatt ttattatgtc
     1621 tttaattact gagtaatgta ttccgttctc gatttcatca ataagaataa ttgagttttc
     1681 ctgtaccagc actgagctga taaaagataa tgctcgactg ataccctcgc caagcattga
     1741 tatttcattt agctcactaa atccaatgtc taaatatatt tccttattgt tacctatcgc
     1801 agatattgct atatctacaa ttctgtcatc tatttttttt aagttttcta gtatgtcttt
     1861 tttccttttt tgtgttagta ggctagatac atttgtaatt gttgcctctt tgtttatctt
     1921 tctggatgtt gttattattg ttgctgtctt aaatttataa ttaatcccat ccctttcgtt
     1981 ttttatttcg gattttattt ctacgccatc ttctttcaat tgcatagaga aaagcttatt
     2041 ggaaaccctg tttttcgcat tgggtgtctc ggtcacattt atttttaaag agtttactgt
     2101 ggcctgagaa ccgatagttt gacgaggtat gttttggtta gatagtacgg tgtcaacgtt
     2161 tagagacaaa cttgattcta atctctgatt tgtttctgtt tcatatgttt gtgttacttc
     2221 agagcgttca tctcgaatga ctatggacat cttttgtgat gtgtccatat catgaaagta
     2281 actaacccaa aatggcttgt ttttgtttat ttctgccatt tcttttctga atgcttgaat
     2341 gtttaacaaa acagccgggt tttttacatc ataaaaacaa aaaatagcat ccagtataga
     2401 tgttttcccg tagttgtttt tcccagctat gatatttaaa gtctttaatt gctttagata
     2461 tagctcattg aagcatttga agttctttaa acttatttcc tttatcatga tagcctctgt
     2521 tcgtgttttt gttatatgcc atacgatttg ttagtacctt aataaaatgt acagctttca
     2581 ttgtgattag ctagacttta tgtcaaagat taactttgat tgcttgtgtt ttaatcgatt
     2641 ttttttactt tcttcttgag attatctggc agcagccgta agcttccggc tgtgaacgaa
     2701 aaaaaccgcc ttggcgggcg gttttttcga aaggttcagt agagttggcg ctctatgaac
     2761 cgaggtaact ggcttaaagg gagcgcagtc accaaaactg ttcgtttagt ttagctttaa
     2821 ctggcgtata acttcaagac taactcccta aatcagttac cagtggctgc tgccagtggc
     2881 gctttgtcgt gtctttccgg gttggactca agacgatagt taccggatta ggcgcagcag
     2941 tcggactgaa cggggggttc gtgcatacag tccagcttgg agcgaactgc ctacccggaa
     3001 ctgagtgtca ggcgtggaat gagacaaacg cggccataac agcggaatga caccggtaaa
     3061 ccgaaaggca ggaacaggag agcgcacgag ggagccatca gggggaaacg cctggtatct
     3121 ttatagtcct gtcgggtttc gccaccactg atttgagcgt cagattccgt gatgctcgtc
     3181 aggggggcgg agcctatgga aaaacggccg ctgtgcggcc tttccttctt tcctccatgc
     3241 gattactcgg ttttctcgag cgtttctacg catgctcctg ccgctcgccg cagccgaacg
     3301 gcaggagcgt agcgactgag tgagcgagga agcggaaaag aggagatccc tacactgacc
     3361 actgacgctc tgaggcctct tatgacgaaa caacagaaaa cagcgctgaa catggctaaa
     3421 ttcatccaga atcagtctct gctcctgctg gagaagctta acgagcttga tctcgatgtc
     3481 gaggccgacc tttgtgagaa actccacgat gatgcggagc atcttttccg tacactgtcc
     3541 tcgagactgg atgcattaca ggatggtaac tgatggccag agtgtctatt agtgaggctg
     3601 cccgactgac gggtaagagt agaacaacac tgcacaggtt aattaaagca ggtgacctgt
     3661 ccacctgtag cggtgagcgc aatgcaaaaa tggtagatac ttcagagctt ttacgtgtct
     3721 ttggcccctt tgagcaaccg aagggtgaac accattctgg acaggtctct ggacagcgtg
     3781 atacagcctc tgctgaccag agtgaacagg tgatccgtca tctgaaacag gagattgaac
     3841 acctgaacac cttacttttg tccaaggatt cgcacattga cagcctgaaa caggccatgc
     3901 tccttcttga aaatcaccag gcaaaattaa ctgaatcccc ggcgccatgg tggaaattct
     3961 ggaaaaaatc ctgaccccgt catgcttcag ttttcctctc cggccatccc agggagttcc
     4021 tgaaccttcc caaaaatcgt cagatctctg aacgctcctc accactaaaa atacccacac
     4081 cccacgcaaa attaaaattt tgcagattcc ttatttacaa caatgggtta atgaaaaata
     4141 aatgtgcggt gatgtgttac aaagtgc
//
