LOCUS       NZ_CP070017             5627 bp    DNA     circular CON 03-DEC-2023
DEFINITION  Klebsiella pneumoniae strain FDAARGOS_1309 plasmid unnamed2,
            complete sequence.
ACCESSION   NZ_CP070017
VERSION     NZ_CP070017.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357451
            Assembly: GCF_016903955.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 5627)
  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  JOURNAL   Unpublished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 5627)
  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                   :: 1209.33x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 12/03/2023 03:53:02
            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)                     :: 5,448
            CDSs (total)                      :: 5,325
            Genes (coding)                    :: 5,168
            CDSs (with protein)               :: 5,168
            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)              :: 157
            CDSs (without protein)            :: 157
            Pseudo Genes (ambiguous residues) :: 0 of 157
            Pseudo Genes (frameshifted)       :: 57 of 157
            Pseudo Genes (incomplete)         :: 101 of 157
            Pseudo Genes (internal stop)      :: 26 of 157
            Pseudo Genes (multiple problems)  :: 23 of 157
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP070017.1.
            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..5627
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1309"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1309"
                     /db_xref="taxon:573"
                     /plasmid="unnamed2"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            81..983
                     /locus_tag="I6K39_RS27045"
                     /old_locus_tag="I6K39_27045"
     CDS             81..983
                     /locus_tag="I6K39_RS27045"
                     /old_locus_tag="I6K39_27045"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_003030989.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_100117394.1"
                     /translation="MHNAALALFNDRLPHKPYFSDDLHFGVRIAGKERAILAKYIQFNQ
                     PHAMFWLGFDVDRAGAAIDWSDRNAPAPTLTITNPDNGHAHLLYALKTSVRTAPDGKMK
                     PLRYAAAVENALRKKLEADAGYSGLICKNPNHGHWKIAVWQPELYTLDWLADFLDLNAA
                     NDKEIVADYGLGRNCTLFDKTRKWAYRAIRQGWPEYEQWLQACYERASAYNLQFASPLE
                     DKEVMGIAKSISKWTEKKFTASSFKEYVINSHKSDIQSKRGRLGGLKSKGGGRPTINSP
                     WKDMGISKSTYYRNIHGKR"
                     /name="replication initiation protein"
     gene            970..2730
                     /locus_tag="I6K39_RS27050"
                     /old_locus_tag="I6K39_27050"
     CDS             970..2730
                     /locus_tag="I6K39_RS27050"
                     /old_locus_tag="I6K39_27050"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_003030990.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="AIPR family protein"
                     /protein_id="WP_100117393.1"
                     /translation="MARDDFNSDTRTVGLARLANSLEETYGSFINMENTNSKGEARREV
                     LITRCIAAHAVRMYGDELDPEVAAASVCDGSDDGGVDAVYVNPSSKKLILVQSKYIKDG
                     NGSVTIKDFGRFKDACAKVIANDLNSFNDRFLEHKEAVTTAITSSSYKCICVFIYSGTQ
                     GLSSEVIGEIDFWEKSQNKALLFRDLESRDEYTILFETPNVTDISTSLSTQSTGAIDIS
                     NVILESYGEITEPYGAIYGTIAARVIHDWWKKYKYALFEKNIRSVLGDSTSVNAGIMST
                     IENSPENFWYYNNGITATYEEVDESIANAGASRKIGIFGFKKLNIINGAQTVSSIGAIF
                     DSIPEEKKDKARVMIRFINAKDPVFLGDVTKYNNTQNRVTGRDFTTQRPEQQKIQREIN
                     FVGGYTYKLLRQEDSGIAASNVIDIDDSLNALICASKKPQLIATLKSNRGRFFDTTEGN
                     LYEQVFNPRNPPSGLSVINAVNLYRVCFDVLKDTITNASNSSEEEYSKIPSLLTHGNYV
                     FISILMGKIQPTNTVNGINTYDKNSVSVDTLELAKSIFEYIQSNYPNSYLARFFQNKEK
                     VEQIITHFSA"
                     /name="AIPR family protein"
     gene            2958..3284
                     /gene="mobC"
                     /locus_tag="I6K39_RS27055"
                     /old_locus_tag="I6K39_27055"
     CDS             2958..3284
                     /gene="mobC"
                     /locus_tag="I6K39_RS27055"
                     /old_locus_tag="I6K39_27055"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006674374.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization relaxosome protein MobC"
                     /protein_id="WP_100117396.1"
                     /translation="MEKRTKEIKIRLTETEHQRLLDRCDRTHLAEWLRQLGLGEHTSRK
                     RRVPEVAPELLRQVSGIGNNLNQIARRLNQIDSLTPTERASLLVVLTSLDRQLGDLLEQ
                     NRDR"
                     /name="mobC"
     gene            3493..>3915
                     /locus_tag="I6K39_RS27375"
                     /pseudo=""
     CDS             3493..>3915
                     /locus_tag="I6K39_RS27375"
                     /inference="COORDINATES: protein motif:HMM:NF015397.3"
                     /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            3962..4447
                     /locus_tag="I6K39_RS27380"
     CDS             3962..4447
                     /locus_tag="I6K39_RS27380"
                     /inference="COORDINATES: protein motif:HMM:NF016710.3"
                     /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_142351745.1"
                     /translation="MSEILNLAKGFEEKSKQQAQDTEQSVKREFARLETSISAELQSSS
                     QSISNAIREQNGRLTGMLRASVSTAMAWIFICFALLIGIMGGIIWFQGTIITSRLSEMD
                     SYSQQLESLKAKSGAGVAIYSDDKHRNTYMVVLPKQAHGVETYTSTTDNTVVKYTAK"
                     /name="MbeB family mobilization protein"
     gene            4517..4741
                     /locus_tag="I6K39_RS27065"
                     /old_locus_tag="I6K39_27065"
     CDS             4517..4741
                     /locus_tag="I6K39_RS27065"
                     /old_locus_tag="I6K39_27065"
                     /inference="COORDINATES: protein motif:HMM:NF016769.3"
                     /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_227639893.1"
                     /translation="MEKQLLSALESLQTSYEQQQQAWQDSYSSLQHMFEATSQALTNSD
                     RVCQHLSSQVDSLRVQVESLSRNVSRLMR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            4897..5229
                     /locus_tag="I6K39_RS27070"
                     /old_locus_tag="I6K39_27070"
     CDS             4897..5229
                     /locus_tag="I6K39_RS27070"
                     /old_locus_tag="I6K39_27070"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015873600.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system RelE/ParE family
                     toxin"
                     /protein_id="WP_044816545.1"
                     /translation="MSHAIEFIETPMFTRQIKQIATDEELRELQKTLIESPDKGDLIQK
                     TGGLRKIRMATGNQGKSGSARVIYFLATAEVIYLVMAYPKSTKDSLTDAEKAVLKSLTQ
                     QLKDEV"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     gene            5231..5515
                     /gene="nadS"
                     /locus_tag="I6K39_RS27075"
                     /old_locus_tag="I6K39_27075"
     CDS             5231..5515
                     /gene="nadS"
                     /locus_tag="I6K39_RS27075"
                     /old_locus_tag="I6K39_27075"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000007431.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="NadS family protein"
                     /protein_id="WP_001697687.1"
                     /translation="MSFFDELKASLEEAVEIKNGVREPARVTRYELADVKAIRAQLNVS
                     QSEMAKVLGTSLDTIKSWETGRRNPTGLAAKVLATIQANPKFFQELAAH"
                     /name="nadS"
     Typing          3275..4833
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.594"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ccagggccag gtcgaaacct tgaaaggata ttagcacatg aaccgtgcca gacaacagcc
       61 cgccataagc gcagggcaca ttgcataacg ccgcactcgc actcttcaac gaccgcttac
      121 cgcacaagcc gtacttttcg gacgatctgc actttggcgt acgcattgcc ggtaaagaac
      181 gcgccattct ggcgaaatac atccagttca atcagcctca cgccatgttc tggctgggat
      241 tcgatgttga tcgcgccggt gccgccatcg actggagcga ccgcaacgcg cccgcgccca
      301 cgctgaccat taccaacccc gacaacggac acgcgcacct gctgtacgcg ctgaaaacct
      361 ctgtacgtac cgcgccggac ggaaaaatga agccgctgcg ctacgccgcc gccgtggaga
      421 atgcgctacg taaaaaatta gaggctgatg cggggtattc ggggctaatc tgtaaaaatc
      481 cgaaccacgg gcactggaaa attgccgtgt ggcagccgga actctacaca ctggactggc
      541 tggccgattt ccttgacctg aacgctgcga acgataaaga aatcgttgcc gactacggat
      601 taggtcgtaa ctgcaccctg ttcgacaaaa cccgtaagtg ggcataccgc gccatccgtc
      661 agggctggcc tgagtatgag cagtggctgc aagcctgcta cgaacgtgcc agcgcctata
      721 acctgcaatt tgcttctcct ttagaggata aagaagtaat gggcattgca aaaagcatat
      781 caaaatggac tgaaaaaaaa tttactgcat cttcatttaa agagtacgtc attaactctc
      841 ataagagtga tattcaatct aagagaggcc gcttaggcgg attaaaaagc aaaggtggcg
      901 ggcggccaac aataaactcc ccgtggaaag atatggggat tagtaaatcg acctattata
      961 ggaatatcca tggcaagaga tgattttaat agcgacacta gaaccgttgg acttgcaagg
     1021 ttggctaata gcctagaaga aacctatggt tcttttatta atatggaaaa taccaactct
     1081 aaaggtgagg ctagaaggga ggttctgatc acaagatgta ttgctgcgca tgcagtgagg
     1141 atgtatggtg atgaactcga ccctgaagtt gctgctgcat cagtttgcga tggtagcgat
     1201 gatgggggag ttgatgctgt ttatgtaaac ccaagctcta aaaaacttat tttggtacag
     1261 tcaaaataca taaaagatgg gaatgggtct gtaacaataa aagattttgg acgttttaaa
     1321 gatgcatgtg caaaagttat agctaacgat ctcaattcat ttaatgatag gtttttagag
     1381 cacaaagaag cagtgactac tgctatcact agcagtagct ataaatgtat atgcgttttt
     1441 atttactcag gaacccaagg attaagctca gaagttattg gagagattga tttttgggag
     1501 aagagccaaa ataaagctct gttgtttagg gatttagaat ctagggatga gtatacaata
     1561 ctatttgaaa cacctaatgt tactgacata tctactagct tgagtactca atctaccgga
     1621 gctatagata taagcaatgt aatattagag tcgtatggtg agatcactga accttacggc
     1681 gcaatctacg gaacgattgc tgcaagggtg atacatgatt ggtggaaaaa atacaaatat
     1741 gcgctttttg agaaaaacat aaggagtgta ttgggtgatt cgacatcagt aaatgcagga
     1801 attatgtcta ccatcgaaaa cagcccagaa aatttttggt attataataa tgggattact
     1861 gcgacgtatg aagaggtaga tgagagcata gctaatgctg gagcatctcg taaaattgga
     1921 atattcggct ttaaaaagtt aaatataata aatggggcgc aaactgtaag ctctattgga
     1981 gctatatttg atagtatacc tgaggaaaaa aaagacaaag ctcgagtaat gattaggttt
     2041 ataaatgcga aagatccagt ttttttaggt gacgtaacta agtacaacaa tactcagaat
     2101 agagttaccg gcagagattt cacgacacaa agacctgagc aacaaaaaat acagagagaa
     2161 ataaatttcg ttgggggtta tacatataag ctcttgcgac aggaagattc agggatagct
     2221 gcttctaatg tgattgatat agatgactca ttaaatgcac taatttgcgc atcaaagaaa
     2281 cctcaattga ttgcaacgtt gaagtctaac agaggtcgtt tttttgatac aacagaaggc
     2341 aatctttacg aacaagtttt caacccaaga aatccgccat ccggtctttc tgttatcaat
     2401 gctgtcaatt tgtacagagt gtgctttgat gttttaaaag atacaattac taacgcatct
     2461 aactcatcag aagaagagta tagtaaaatt ccatcattgc tgacgcatgg taactatgta
     2521 ttcatcagta ttttaatggg taaaatacaa cccacaaata cagttaatgg cataaacacc
     2581 tatgacaaga atagcgtttc tgttgatact cttgaactag ctaaaagcat atttgaatac
     2641 atccagtcta attatcctaa tagttatctg gctagatttt tccagaacaa agaaaaagta
     2701 gagcagatca tcactcactt ttcagcgtga gactaaacaa gcctatatca gataacagcc
     2761 ctctctaaag agggcttttt ttttgcagcc agcacaggat ctgacatact gcaccatact
     2821 ttaagccagt acacacagcg tcccctctac cgaggtgccg cccgtgactg gttcaggggg
     2881 ctcgccgccc cccgaaaccc ccggcatcca ctgcgaaaaa ttctcacagt ggtgcgaatt
     2941 ttttctcagc ggagcctatg gaaaagcgaa cgaaagagat caaaatccgg ctcactgaaa
     3001 ctgagcatca gcgactgctc gatcgctgcg accggactca ccttgcggag tggctacgtc
     3061 agcttggtct gggtgaacac acctcacgca agcgccgtgt gcctgaggtg gcacccgaac
     3121 tgctgcggca ggtcagtggg attggtaaca acctgaacca aattgcccgc cgcctgaacc
     3181 agattgactc cctgacgccg actgaacgtg cctcgctgct tgtcgtactg accagccttg
     3241 accggcagct tggcgacctg ctggagcaga accgtgatcg ttaaaattca ctcacgcggt
     3301 gcaggttccg gcagtggtcc ggtggattac ctgctgggta aagaccggca gcgcgaacag
     3361 gccagcgtac tgcgcgggaa tcctgaacac gtgcgcgagc tgatcgacgg ctgcgacttt
     3421 gcccgcgcct acacttctgg cgtgctttca ttccaggaac ctgacattgc agacgccgag
     3481 aaatcgcgcc tgatggacga atgggagcac acgctgctga ccggcctcga ccgcgaccag
     3541 tacgcctgcc tgtgggtaga gcatcgcgac aagggacggc ttgagctgaa ttttgtcatc
     3601 ccgaacatcg aattgcagag tggaaaacgc ctgcaaccct actttgaccg cgccgaccgt
     3661 ccccgcgtca acgcctggca gaccctgact aacgaccggc tggcgctgcg cgacccgaac
     3721 gacccgactt atcgccgccc gctgacgcag gccagcgatc tgccccgcga caaacagcag
     3781 gcggcagaga aaattactgc tgggctgatg aacctgatgc agcagggcat gatccgcagc
     3841 cggcaggacg tggtgacgca actggaaagc tatggcctga ccgtggcgcg ggaaacgaaa
     3901 agcagcatca gcattgccga tccggacggc ggccgaaata tccggctgaa aggaatgatt
     3961 tatgagcgag attttaaatt tggcgaaggg cttcgaggag aaatcgaagc agcaagcgca
     4021 ggataccgag cagagcgtga agcgcgagtt cgcgaggctg gagacgtcta tcagcgcgga
     4081 actgcaatca agctcgcaga gcatcagcaa cgctatccgc gagcagaacg gcagactgac
     4141 gggcatgctc agagcttctg tctcaacggc gatggcgtgg atattcatct gcttcgccct
     4201 gctgatcggc atcatgggcg ggataatctg gtttcagggc acgatcatca cctcgcgcct
     4261 gagcgagatg gacagctaca gccaacagct ggagagcctg aaagcgaaaa gcggtgcggg
     4321 cgtggcgatc tacagcgacg acaagcaccg gaatacctac atggtggtgc tgccgaagca
     4381 ggcgcacggc gtggaaacct atacatcgac gaccgacaac accgtagtga aatacacggc
     4441 gaaataactc cgtcagagcg ccctgaaacg ccacagcgcg tttttaacac cgaggatgac
     4501 caaaaccatg accgagatgg aaaaacagct tctgagcgcc ttagagagct tacagacaag
     4561 ctacgagcaa cagcagcagg cgtggcagga cagctacagc agcttgcagc acatgttcga
     4621 ggctacctca caggcgctga cgaacagcga cagggtgtgt cagcacttga gcagtcaggt
     4681 ggacagcttg cgcgtgcagg tcgagagctt aagcaggaac gtcagccgct tgatgcgctg
     4741 attgcacagc acgaccgcgc ccgtgcggag aagctgcgcg agcagcagcc ggagccgcag
     4801 aaaaagccga cccgctatta cggcccctcg atgtgaccgc ttttctgaaa ttaaaattaa
     4861 gtgtactatg tacgctattg aacacaggag acagccgtga gtcacgcgat tgagtttatc
     4921 gagaccccga tgtttacccg tcagataaaa cagatcgcca cggatgaaga actcagggag
     4981 ctgcaaaaga cgctgattga gtcaccggat aaaggcgatc tcatccagaa aaccggtggg
     5041 ctgcgcaaaa tcagaatggc gacgggcaac cagggaaaaa gcggcagtgc gagggttatt
     5101 tactttctgg ccaccgccga ggtgatttat ctggtgatgg cctacccgaa aagcaccaaa
     5161 gacagcctga cggacgcgga gaaagccgtg ctgaagtcgc tgacccaaca actgaaagac
     5221 gaggtgtgac atgagttttt ttgacgagct gaaagcatcg ctggaagaag ccgttgaaat
     5281 caaaaacggc gtcagagagc ctgcccgcgt cacccgttac gagctggcag acgtgaaagc
     5341 catcagggca cagctgaacg tatctcagag cgagatggca aaagtactgg gaaccagcct
     5401 cgacacgatc aagagctggg aaaccggacg ccgtaatccg accggactgg cggcgaaggt
     5461 gctggcaacc atccaggcga acccgaaatt cttccaggag ctggcggcgc actaagccgt
     5521 tgtgacagaa ggattcgaca gacgaggccg ttcgcgtgta atttaacggc aacagaaaaa
     5581 acaaagcccc ggcaatcatg agctatcttg gcggatgagc atgacta
//
