LOCUS       NZ_CP033845             6078 bp    DNA     circular CON 08-JAN-2024
DEFINITION  Klebsiella oxytoca strain FDAARGOS_500 plasmid unnamed1, complete
            sequence.
ACCESSION   NZ_CP033845
VERSION     NZ_CP033845.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN10163176
            Assembly: GCF_003812925.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella oxytoca
  ORGANISM  Klebsiella oxytoca
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 6078)
  AUTHORS   Minogue,T., Wolcott,M., Wasieloski,L., Aguilar,W., Moore,D.,
            Jaissle,J., Tallon,L.J., Sadzewicz,L., Zhao,X., 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  JOURNAL   Unpublished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 6078)
  AUTHORS   Minogue,T., Wolcott,M., Wasieloski,L., Aguilar,W., Moore,D.,
            Jaissle,J., Tallon,L.J., Sadzewicz,L., Zhao,X., Vavikolanu,K.,
            Mehta,A., Aluvathingal,J., Nadendla,S., Yan,Y. and Sichtig,H.
  TITLE     Direct Submission
  JOURNAL   Submitted (13-NOV-2018) 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. 1.2, SPAdes v. 3.6.0
            Genome Coverage                   :: 618.531570169491x
            Sequencing Technology             :: PacBio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/08/2024 03:53:13
            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)                     :: 5,511
            CDSs (total)                      :: 5,396
            Genes (coding)                    :: 5,326
            CDSs (with protein)               :: 5,326
            Genes (RNA)                       :: 115
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 70
            CDSs (without protein)            :: 70
            Pseudo Genes (ambiguous residues) :: 0 of 70
            Pseudo Genes (frameshifted)       :: 34 of 70
            Pseudo Genes (incomplete)         :: 41 of 70
            Pseudo Genes (internal stop)      :: 17 of 70
            Pseudo Genes (multiple problems)  :: 17 of 70
            CRISPR Arrays                     :: 3
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP033845.1.
            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..6078
                     /organism="Klebsiella oxytoca"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_500"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_500"
                     /db_xref="taxon:571"
                     /plasmid="unnamed1"
                     /collected_by="USAMRIID < ATCC < AR Prevot < R. Sohier"
                     /note="Clinical Isolate"
     gene            complement(join(5723..6078,1..331))
                     /locus_tag="EGY21_RS27995"
                     /old_locus_tag="EGY21_27960"
                     /db_xref="GeneID:39459692"
     CDS             complement(join(5723..6078,1..331))
                     /locus_tag="EGY21_RS27995"
                     /old_locus_tag="EGY21_27960"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004986708.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="pentapeptide repeat-containing protein"
                     /protein_id="WP_002011386.1"
                     /db_xref="GeneID:39459692"
                     /translation="MSKLPRFHNKHIEKRKYSNSLLAKSISSKVRFSNKTFFNVNLRGS
                     RLRSCSFKNIKIVLSDFSGVILNKNRFTNVHFKKCVFYAAIFRDCRFKNCTFEKCIFIN
                     TNTESLNHSILDCSKKYNFYEMKIPDDLKDQLTEYRNIPILQKNRLLHLKGGRINTATL
                     FILLSKISKYKLLNGLKKIYIEEQSKVKILSTFKLLEEIKNLVDTNTAFKQNNGALPHP
                     IERLDS"
                     /name="pentapeptide repeat-containing protein"
     gene            1334..1741
                     /locus_tag="EGY21_RS28000"
                     /old_locus_tag="EGY21_27965"
                     /db_xref="GeneID:39459697"
     CDS             1334..1741
                     /locus_tag="EGY21_RS28000"
                     /old_locus_tag="EGY21_27965"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000016535.1"
                     /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_000016535.1"
                     /db_xref="GeneID:39459697"
                     /translation="MSGQEQENKQSKAVRERTFKVRLSESEYQLLDSNNPYGSIAKLLR
                     QAAVEKATKIHNSKAEDDQKIKATKVVESSYSKTERALILELGRIGNNVNQIAKAVNTD
                     IAGVGTFDKVKLLHLLISIDQQLRELRPDDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            1731..3545
                     /locus_tag="EGY21_RS28005"
                     /old_locus_tag="EGY21_27970"
                     /db_xref="GeneID:39459694"
     CDS             1731..3545
                     /locus_tag="EGY21_RS28005"
                     /old_locus_tag="EGY21_27970"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000634474.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /protein_id="WP_000634474.1"
                     /db_xref="GeneID:39459694"
                     /translation="MIVDFFRHGSGLSKGCLDYLLGEDREREHAQVLNGDVELTAQLID
                     SSPFAKKYTSGCLSFYEHDLSDQDKQKIMQNFEECLFPGLDKDQYQILWVQHQDKINQD
                     TGETRLELNFVIPNVELSTGKRLQPFYAPVDLDRVDLFKQITNTEHSLYDPDDPEHRQL
                     FLNKKNLPKDIKDFKAQLHQRVYRAVANGDVADRQELVQWLESNQINVTRQVKNSISIE
                     NPYEGAKRPIRLEGEIYEQGFRATGEYRQEVQQRIEEYRGTTSERYRTNVTDYQRQLEH
                     KSQYHCDRYPTVGRENSPEHSKQRPDGREAVKPVSNLAAIEIEPFNAIKRANTEPRTTS
                     PESSGTEKTYHFEYGTDFSSSYFAYSNFLAWSRHQKQVQRDADAKYRDQREANEGRPFE
                     PIGRQFDDQHMQATRQQSTAPMYSDQQERRRMAERLHDSNGVLNDDRIRNTIIENHRRT
                     TATINATTSAIAEATASFRHNANQNYPSLVSTIKDNQERSAKLTASTEIISDNAEAISR
                     ARTKYSKLYRADQWQSPRDEPYHSQQRRNSGENLNHTAFCLVRSSQSAAEFARNIRDIE
                     KNLVQMNERKQEIEKPRPKQDRGMDFGM"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            3654..4139
                     /locus_tag="EGY21_RS28010"
                     /old_locus_tag="EGY21_27975"
                     /db_xref="GeneID:39459693"
     CDS             3654..4139
                     /locus_tag="EGY21_RS28010"
                     /old_locus_tag="EGY21_27975"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005200081.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_051064109.1"
                     /db_xref="GeneID:39459693"
                     /translation="MNNNCVVVLTARGKTRILKEGGSQSWRLNAHNAGKCDYLVCVQNR
                     KQSWGEPEADHHTAFLVGKISSISQSQEEDADGRWIINISEYADISIPNMWDGNRNPVS
                     YSSLEEMNIDLNELKFTKLNEDNSSKTLDKISIPEAKRLLANYFDVPQENISITINM"
                     /name="hypothetical protein"
     gene            4272..4940
                     /locus_tag="EGY21_RS28015"
                     /old_locus_tag="EGY21_27980"
                     /db_xref="GeneID:39459695"
     CDS             4272..4940
                     /locus_tag="EGY21_RS28015"
                     /old_locus_tag="EGY21_27980"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000423610.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Abi family protein"
                     /protein_id="WP_000423610.1"
                     /db_xref="GeneID:39459695"
                     /translation="MELSNDAVLKIEQALSIPRLSKYENFYKDKGEPYEKSDVLMLYER
                     NLIISNKFFYLLNYFEVVLRNAVVQAIEISFRCNETNSWHENEAFIRSLSRRGRYSPKS
                     MFDSAKEKFPDSPSKMIPELKFVFWQKMLMANYEERIWQGCFNSIFPNATVENRQIFYD
                     WTDQLRELRNRIAHHEPIIFNRNLENDLEVLTKFIYCRCINTYDFIEQSALDLKEYLDF
                     "
                     /name="Abi family protein"
     gene            complement(5099..5632)
                     /gene="aadB"
                     /locus_tag="EGY21_RS28020"
                     /old_locus_tag="EGY21_27985"
                     /db_xref="GeneID:39459696"
     CDS             complement(5099..5632)
                     /gene="aadB"
                     /locus_tag="EGY21_RS28020"
                     /old_locus_tag="EGY21_27985"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000381802.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="aminoglycoside nucleotidyltransferase
                     ANT(2'')-Ia"
                     /protein_id="WP_010883707.1"
                     /db_xref="GeneID:39459696"
                     /translation="MDTTQVALIHQILAAADERNLPLWIGGGWAIDARLGRVTRKHDDI
                     DLTFPGERRGELEAIVEMLGGRVTEELDYGFLAEIGDELLDCEPAWWADEAYEIAEAPQ
                     GSCPEAAEGVIAGRPVRCNSWEAIIWDYFYYADEVPPVDWPTKHIESYRFACTSLGAEK
                     VEVLRAAFRSRYAA"
                     /name="aadB"
     ARG             complement(5103..5632)
                     /name="ant(2'')-Ia"
                     /gene="ant(2'')-Ia"
                     /gene_name="aminoglycoside nucleotidyltransferase
                     ANT(2'')-Ia"
                     /tool="amrfinderplus"
                     /drug_class="AMINOGLYCOSIDE"
                     /identity="98.31"
                     /coverage="100.0"
     ARG             complement(5100..5644)
                     /name="ANT(2'')-Ia"
                     /gene="ANT(2'')-Ia"
                     /gene_name="ANT(2'')"
                     /tool="rgi"
                     /drug_class="aminoglycoside antibiotic"
                     /identity="97.74"
                     /coverage="102.26"
     Typing          1732..3542
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ttaggctttc tgtatttgta ttaataaaaa tgcatttttc aaatgtgcaa tttttaaagc
       61 gacaatctct aaaaatagca gcataaaata cgcacttttt gaagtgaaca ttcgtaaacc
      121 tattcttatt taagattact cctgaaaaat cagataaaac aatttttata tttttgaatg
      181 aacatgatcg taggcgggat cctctcaaat taacattaaa aaatgtttta ttagagaaac
      241 gtactttaga agaaatagat ttggctagga ggctatttga atacttacgt ttttcgatgt
      301 gcttgttatg aaatctagga agttttgaca ttaatagtcc aaagaatagg agtttcagct
      361 taattcttag gtgtaatcaa aaaaaataat ggacaggtct cttgcgaaat ctgtccatta
      421 gttttaaatt cgatgggtac agttatttga tgcttgcaac atcaattaac gaaagatcgg
      481 cagagcttgc aactcatact gatattcacc ttaaaggcta gtaccactat ctattttaaa
      541 gaattagaac agtttgacaa gcctcaattt gaagtccttc gttaattcag cagtttaaat
      601 catcaaataa gcacctaacg gtcgagcttt atctacttct gtgcgccttt tttaaggaag
      661 atatgcgttg catgtggagg gaataagtgt cactggtgca tcgtagcgat agtcgcaagg
      721 ctaaaccgct tacaggggat ctcacatagg cggagcgttg gaagtagttg tataggttgg
      781 ttaagttgca tgttggagta atcctcgcag agataccacc atacttcgac agggagcgcg
      841 tgggagaagg tgcaaaacct ttagtccttg tctgcatggt cagcaaaacc atgtgcggat
      901 acgaccgatg cgtggctccg tcagcccaat tacaggttaa tcggcaatac ttaagaggat
      961 atttgatttt tttaaatcaa agcctcttag ggaaagtatt gccgaaactc tctcaacgtt
     1021 caccatcagc ccgagcaaag cgagggatgt ggggacggtg agaaagagtt gagcgcattt
     1081 gtttttacaa gattcatgcc aatacctact agagtttata taccgtgtca tttgattagt
     1141 ttttattgaa tttcactcgt ccatttttaa ataagcaagg atacacagct acccctattt
     1201 aacttcgtta aacagtgata gtctgtgacc ttgatcaggg gcttcacccc cgataccccc
     1261 gaaaagcttt aaacagaaaa atcaaagatt ttccaattta aagcttacaa aagccaaagc
     1321 agggtagatt gaaatgtcag gacaggaaca agaaaacaaa cagagcaaag cagttcgaga
     1381 acgaaccttt aaagtcagac tttcagaatc agaatatcaa ttgctcgatt ccaataatcc
     1441 ttatggttcg attgcaaagt tgcttagaca agcagcagta gagaaagcga ctaaaattca
     1501 taattccaaa gcagaagatg accaaaaaat taaagcaaca aaggttgttg aatcttcgta
     1561 tagcaagaca gagcgagcat taattttaga gcttggtcgg attggcaaca atgtgaatca
     1621 gattgctaaa gcagtgaata ccgatattgc aggggtaggt acttttgaca aagtgaagtt
     1681 acttcatttg ttgatttcca tagatcagca gcttcgggag ttacgtccag atgatcgttg
     1741 atttctttag acatggttca ggtttatcaa aaggctgtct cgattatttg ttaggtgaag
     1801 atcgagagcg tgaacatgct caagtgctca atggtgatgt agaactgaca gcacaactca
     1861 ttgatagcag tccttttgcc aaaaaatata ccagtggttg tttgtccttt tatgagcatg
     1921 atttatctga ccaggataaa cagaaaatca tgcaaaattt tgaggaatgt ttattcccgg
     1981 gactagataa agaccaatat caaattttat gggtacagca ccaagacaaa attaatcagg
     2041 acacaggtga gacaaggctt gagcttaatt ttgtgattcc taatgttgag ctttcaacag
     2101 gcaaacgcct acagccattc tatgcgccag tcgatttaga tcgagtcgat ctatttaagc
     2161 agatcactaa taccgaacat tcactgtatg accccgatga tcctgagcat cgacagctat
     2221 ttttaaataa aaagaaccta cccaaagata ttaaggattt taaagcgcag ttacatcaac
     2281 gtgtttaccg agcggttgcc aatggtgatg ttgccgatcg gcaagaattg gtgcaatggc
     2341 ttgaatcgaa tcaaatcaat gtcactcgac aagtaaaaaa ctccatatcc attgaaaacc
     2401 catatgaggg cgcaaaacgt cccatccgtt tagagggcga gatttatgag caaggcttta
     2461 gagctactgg cgaatataga caagaagtac aacaacgaat tgaagaatac agaggaacaa
     2521 cttctgagcg gtatcgaaca aacgtcacag actatcagag acagcttgaa cataagagcc
     2581 aatatcactg cgaccgctat ccaacagtcg gacgagaaaa tagcccagag cattcaaaac
     2641 aacgcccaga cggtcgagaa gcagttaagc ctgtatcaaa ccttgctgca atcgaaattg
     2701 agccatttaa cgcaattaaa cgagcaaata cagagccaag aacaacaagc ccagaatcaa
     2761 gcggtacaga aaaaacttac cactttgaat atgggactga tttcagtagc agttattttg
     2821 cttatagcaa ttttctcgct tggtctcgtc accaaaaaca agtacagcga gatgcagacg
     2881 ctaaataccg tgatcaacga gaagcaaatg agggtcgacc atttgaaccg atcgggaggc
     2941 agtttgacga tcagcacatg caagcgacca gacagcaaag cacagcgcct atgtattcag
     3001 atcaacaaga acgcaggcga atggcagaac ggctacatga ttccaatggg gtattaaacg
     3061 atgaccgaat tagaaacaca attattgaga atcatcgaag aacaacagca acaattaatg
     3121 caacaacaag tgcaattgca gaagcaacag caagctttag acacaatgca aaccaaaatt
     3181 atccaagcct tgtcagcaca atcaaagaca atcaagagcg atcagcaaag cttacagcaa
     3241 gcacagaaat cattagcgac aatgcagaag caatttcacg agctagaacg aagtacagca
     3301 agctataccg agcagatcaa tggcaaagtc cgagagatga gccttatcac agccaacaac
     3361 gaagaaattc tggagagaat ctcaaccaca cagcattctg tctcgtcaga agtagccaaa
     3421 gcgcagcaga atttgctcga aacatccgag atattgaaaa aaatctcgtc cagatgaatg
     3481 agcgtaaaca agagatagaa aaacctcgac ctaagcaaga tcgaggtatg gattttggga
     3541 tgtaattatt ttctagtatg ttggtgttta tttcttagta ttagcttgta ctaatgttta
     3601 aatttagcta tattgaatgt agtataggct tgtttatata ttttggtggt gttatgaata
     3661 ataactgtgt agtagtacta actgctcgtg gaaagactag aattttaaaa gaaggtggta
     3721 gtcagtcttg gagactaaat gctcataatg caggaaagtg cgattatcta gtttgtgtgc
     3781 aaaataggaa acaatcttgg ggagaaccag aggctgatca tcacactgca tttttagttg
     3841 gcaaaatatc tagtatcagc caatctcaag aagaagatgc agatggtaga tggataataa
     3901 atatctccga atatgctgat atatctattc ccaatatgtg ggatggtaat cggaatccag
     3961 tttcttatag ttcattagaa gagatgaata tcgatttgaa tgagctgaaa tttaccaaat
     4021 taaatgaaga taattcttct aaaacactgg ataaaatatc tattcctgaa gctaagagac
     4081 tattagctaa ttattttgat gtccctcaag aaaatatttc aattacaatc aatatgtaag
     4141 cttttaattg accaaaaaaa gaaaaaagcc tttcacgtta atgaaaggct tttttgaatc
     4201 ttagcgcttg ggagggaaga tcttagatcc gcagtctctc aaacttacaa ctatatatta
     4261 gggtatatac ggtggaattg tcaaatgatg cagtgcttaa gatagagcag gctttatcta
     4321 taccacgctt atctaagtat gaaaatttct ataaagataa aggtgaacca tatgaaaaat
     4381 ctgatgtatt gatgctttat gaacgtaatt taataatttc caataagttt ttttacttat
     4441 taaattattt tgaagttgtt ctgagaaatg ctgttgttca ggcaatagaa atatctttta
     4501 ggtgtaatga aacaaatagt tggcatgaaa atgaagcttt tattcgaagc cttagccgta
     4561 gagggaggta tagccctaaa agtatgtttg atagtgctaa agagaagttc ccagattcgc
     4621 ctagtaaaat gatccctgag cttaaatttg tattctggca aaagatgctt atggctaatt
     4681 atgaagaacg tatttggcag ggatgtttta attctatttt tcctaatgca acagttgaaa
     4741 acaggcaaat tttttacgat tggacagatc aattacgtga attaagaaac aggattgctc
     4801 atcatgaacc gattattttt aaccgtaatc tagaaaatga tttagaggtt ttaacaaaat
     4861 ttatttactg tcgttgtatt aatacatacg attttatcga gcaatctgca ttagatctaa
     4921 aagaatattt agatttttaa gataagaatt tcaccccaaa caatcgaaag gtcagactat
     4981 tttgcaaatg ttgaattaac aaggttagta gtaaagcagt aaatccgata acggtagcag
     5041 tgtttcctaa cacctgagtt aagccgcgcc gcaaagcggc gtcggcttgg acgaattgtt
     5101 aggccgcata tcgcgacctg aaagcggcac gcaagacctc aaccttttcc gccccgagtg
     5161 aggtgcatgc gaacctgtag gactctatgt gctttgtagg ccagtccact ggtggtactt
     5221 catcggcata gtaaaagtaa tcccagatga tcgcctccca gctgttacaa cggactggcc
     5281 gcccggcgat gacaccctca gccgcctctg ggcacgagcc ctgcggagcc tccgcgattt
     5341 catacgcttc gtctgcccac caagcaggtt cgcagtcaag taactcatcc ccgatctccg
     5401 ctaagaatcc atagtccaac tcctccgtga cgcgcccgcc gagcatttca actattgcct
     5461 cgagctcgcc gcgcctctcg ccgggaaaag tcagatcaat atcatcgtgc ttgcgtgtta
     5521 cacgccctag ccgtgcatcg atcgcccagc ccccaccgat ccagagcggc agatttcgct
     5581 catctgccgc agctagaatt tggtgtatca atgcgacctg cgttgtgtcc atgcggccta
     5641 acatagtaag ccctcccaga atgtcagtaa ttagactatt aattgaattg ttacatccaa
     5701 tagtgagctc ccagtgattg tcttaactat ccaacctttc gattggatgg ggcagagcac
     5761 cattattctg tttgaatgcg gtgttagtgt caactaggtt ctttatttct tcaaggagtt
     5821 tgaaagtgct aagtattttt actttacttt gttcctcaat ataaattttt ttaagaccat
     5881 ttagcagctt gtatttggat attttggata ggagaatgaa taaggttgcg gtattgattc
     5941 ttcccccttt tagatgaagt aaacggtttt tttgcagtat tggaatattt ctatattctg
     6001 ttagttgatc ttttaagtca tcaggaattt tcatttcgta aaaattatat tttttagaac
     6061 agtctaatat cgagtgat
//
