LOCUS       NZ_CP044041             3693 bp    DNA     linear   CON 09-JAN-2024
DEFINITION  Klebsiella pneumoniae strain FDAARGOS_630 plasmid unnamed6.
ACCESSION   NZ_CP044041
VERSION     NZ_CP044041.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN11056345
            Assembly: GCF_008693405.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 3693)
  AUTHORS   Bachman,M., Young,C., Tallon,L., Sadzewicz,L., Vavikolanu,K.,
            Mehta,A., Aluvathingal,J., Nadendla,S., Nandy,P., Geyer,C., 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  JOURNAL   Unpublished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 3693)
  AUTHORS   Bachman,M., Young,C., Tallon,L., Sadzewicz,L., Vavikolanu,K.,
            Mehta,A., Aluvathingal,J., Nadendla,S., Nandy,P., Geyer,C., Yan,Y.
            and Sichtig,H.
  TITLE     Direct Submission
  JOURNAL   Submitted (17-SEP-2019) 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. 1.4
            Genome Coverage                   :: 695.31x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/09/2024 02:59:27
            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)                     :: 5,547
            CDSs (total)                      :: 5,425
            Genes (coding)                    :: 5,285
            CDSs (with protein)               :: 5,285
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 140
            CDSs (without protein)            :: 140
            Pseudo Genes (ambiguous residues) :: 0 of 140
            Pseudo Genes (frameshifted)       :: 59 of 140
            Pseudo Genes (incomplete)         :: 86 of 140
            Pseudo Genes (internal stop)      :: 22 of 140
            Pseudo Genes (multiple problems)  :: 24 of 140
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP044041.1.
            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/
FEATURES             Location/Qualifiers
     source          1..3693
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_630"
                     /isolation_source="clinical isolate"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_630"
                     /db_xref="taxon:573"
                     /plasmid="unnamed6"
                     /geo_loc_name="USA: MI"
                     /collected_by="University of Michigan Health System"
     gene            complement(84..485)
                     /locus_tag="FOB38_RS27995"
                     /old_locus_tag="FOB38_27995"
     CDS             complement(84..485)
                     /locus_tag="FOB38_RS27995"
                     /old_locus_tag="FOB38_27995"
                     /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_009310048.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKGEHHSGQVSEQRDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(485..676)
                     /locus_tag="FOB38_RS28000"
                     /old_locus_tag="FOB38_28000"
     CDS             complement(485..676)
                     /locus_tag="FOB38_RS28000"
                     /old_locus_tag="FOB38_28000"
                     /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_044525164.1"
                     /translation="MSKQQKTALNMAKFIQNQSLLLLEKLNELDLDVEADLCEKLHDDA
                     EHLFRTLSSRLDALQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            1092..1205
                     /locus_tag="FOB38_RS28980"
                     /old_locus_tag="FOB38_28010"
     CDS             1092..1205
                     /locus_tag="FOB38_RS28980"
                     /old_locus_tag="FOB38_28010"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /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_074440787.1"
                     /translation="MHEPPVQSDCCVLSGNYHLESNPERHAKAPLAAATGN"
                     /name="replication initiation protein"
     gene            1472..2038
                     /locus_tag="FOB38_RS28015"
                     /old_locus_tag="FOB38_28015"
     CDS             1472..2038
                     /locus_tag="FOB38_RS28015"
                     /old_locus_tag="FOB38_28015"
                     /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_064279389.1"
                     /translation="MNMKTLKDIIEKQKKEEEEQKFDPAEQIEEYISLVEKLYTITLES
                     IDELIKDGLIKQSRKKISINEESLGDYEIDSLILTINSSKIKFEPVGTMLIGSKGRVDV
                     TGPFGKEKFILIRKGVKSPSDLIKVRVNVVGAYKPEKDKTDEDVKKPSIDDWEWKTMPS
                     DSRWVKFDDVNSETITNIIMRMING"
                     /name="hypothetical protein"
     gene            2031..2582
                     /locus_tag="FOB38_RS28020"
                     /old_locus_tag="FOB38_28020"
     CDS             2031..2582
                     /locus_tag="FOB38_RS28020"
                     /old_locus_tag="FOB38_28020"
                     /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_040173808.1"
                     /translation="MARVHAIKRSGLHIDIDYVVHKKIALDRAVILRYSTKNPDYHADF
                     VGLSEPEIEREKDLILKENDTTHCLLLLTAIEAIFRLDADQKYCNKKRDPLSRKIKEIY
                     DKTKGEKIKLDDDLINTRMNEDDARLKKDYNDLKTCFKFRHWLAHGRYWHPKRIKNFYF
                     DSILIVIDSILNSTKYNFEV"
                     /name="hypothetical protein"
     gene            complement(3017..3463)
                     /locus_tag="FOB38_RS28025"
                     /old_locus_tag="FOB38_28025"
     CDS             complement(3017..3463)
                     /locus_tag="FOB38_RS28025"
                     /old_locus_tag="FOB38_28025"
                     /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_125450400.1"
                     /translation="MNDKSGFSFMKIGAGAKVTGLRMKRNVMVVDDLSHVESFVTVGER
                     GEVINLDADGNELHTPDSYREKLKIERGELQASLEKAKEEINSIDNDITSQKIKNQLSA
                     ALSQPMDAEGEWNTKRILQGVLDLSKQVGCGVLTAAITHYLGVS"
                     /name="hypothetical protein"
     Typing          798..1205
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.866"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 gagcgttcag agatctggcg atttttggga aggttcagga actccccggg atggccggag
       61 aggaaaactg aagcatgccg gggtcaggat tttttccaga atttccacca tggcgccggg
      121 gattcagtta attttgcctg gtgattttca agaaggagca tggcttgttt caggctatca
      181 atgtgcgaat ccttggacaa aagtaaggtg ttcaggtgtt caatctcctg tttcagatga
      241 cgaatcacct gttcactctg gtcagcagag gctgtatcac gctgttcaga gacctgtccg
      301 gaatggtgtt cacccttcgg ttgctcaaag ggaccaaaga cacgtaaaag ctctgaagta
      361 tctaccattt ttgcattacg ttcaccgcta caggtggaca ggtcacctgc tttaattaac
      421 ctgtgcagtg ttgttctact cttacccgtc agtcgggcag cctcactaat agacactctg
      481 gccatcagtt accatcctgt aatgcatcca gtctcgagga cagtgtacgg aaaagatgct
      541 ccgcatcatc gtggagtttc tcacaaaggt cggcttcgac atcgagatca agctcgttaa
      601 gtttctccag caggagcaga gactgattct ggatgaattt agccatgttc agcgctgttt
      661 tctgttgttt agacataaga ggcctcagag cgtcagtgct caatgtaggt atgttctctt
      721 ttccgcttcc tcgctcactc agtcgctacg ctcctgccgt tcggctgcgg cgagcggcag
      781 gagtatgcgt acaagagctc gagaaaaccg agcggtagcg tgacggggaa aaggaaatgc
      841 cgcacggcgg ccgtttttcc ataggctccg cccccctgac aagcatcaca gagaatgaca
      901 ctcaaatcag tggtggcgaa acccgacagg actttaaaga taccaggcgt ttccccctga
      961 tggctccctc gtgcgctctc ctgttcctgc ctttcggttt accagtgtca ttccgctgtt
     1021 atggccgcgt ttatctcatt ccacgcctga cactcagttc cgggtaggca gttcgctcca
     1081 agctggactg tatgcacgaa ccccccgttc agtccgactg ctgcgtctta tccggtaact
     1141 atcatcttga gtccaacccg gaaagacatg caaaagcgcc actggcagca gccactggta
     1201 actgatttag aggagtttgt cttgaagtta tgcgccagtt aaggctaaac tgaaagaaca
     1261 agttttggtg acagcgctcc tccaagccag ttacctcggt tcaacgagcg ccaactctat
     1321 gaaccttcga aaaaaccgcc cgccaaggcg gttttttcgt ttcagaagcg acaatacctc
     1381 cgagcaagtt aagcgtcaag aacaacacat tgctcgacac caaagcaaag gctagaatcg
     1441 taaaataatt ccgatctaga ggttacaaaa aatgaacatg aaaacgctga aagatataat
     1501 tgaaaaacaa aaaaaagaag aagaagaaca aaaattcgac ccagcggaac aaatagaaga
     1561 atacataagc cttgttgaaa aattatatac tattacatta gaatctattg acgaactaat
     1621 caaagatgga ttgataaaac aatcaagaaa aaaaatatca ataaatgaag agtctctagg
     1681 tgattatgaa atcgactctc taatactcac tataaactca agtaaaataa aatttgagcc
     1741 agtaggaacc atgctaatag gttcaaaagg aagggttgac gtcacagggc catttggaaa
     1801 agaaaaattc attctgatca gaaaaggagt caaaagcccc agcgatttaa taaaagtaag
     1861 agttaacgta gtcggggcat ataaaccaga aaaagataag accgatgaag atgtgaaaaa
     1921 gccgtcaatt gatgattggg aatggaaaac aatgcctagc gatagtcgat gggttaaatt
     1981 tgatgatgtg aattccgaga ccattacgaa tattattatg agaatgataa atggctaggg
     2041 ttcatgcaat taaaagatct ggtctacaca tagacattga ctatgtcgta cataaaaaga
     2101 tagcactcga tcgtgctgta attctgcggt attcaacaaa gaacccagat taccatgccg
     2161 atttcgtcgg cttaagtgag ccggagattg aaagagaaaa agacttaata ctaaaagaaa
     2221 atgacacaac acattgcctt ttattgttaa cagctattga agcaatattt cgattagatg
     2281 cagatcagaa gtactgcaat aaaaaaagag acccattatc aagaaaaata aaagagatat
     2341 atgataaaac aaaaggagaa aaaataaaat tagatgatga tttaataaat accagaatga
     2401 atgaagatga tgctagatta aaaaaagact acaacgatct aaaaacatgt tttaaattca
     2461 ggcattggct tgctcatgga agatactggc atccaaagag aataaagaat ttttatttcg
     2521 actctatact aatagtgata gattccattt taaactcaac caaatacaat tttgaagttt
     2581 aggtcagtga cattaaaaaa agtcaccata acgtccctta agcacagcac atggggtcag
     2641 tttggatatc ggaaactttt gtacgttaag cgcattattt aaccaatatt gatgcgtaag
     2701 ggattgattt tgcctcagct acgatcgctt ttaagtcacc gctctttctg tatcgcattt
     2761 aggttatccg attaaggaaa attcacggga aacggcgtat agcgcgggag tacatcattg
     2821 cgagaggtaa gcctgttcaa aacacaggct taccgtacaa taattctcta tatccaaact
     2881 gaccccaaga agtctgacac taaccccaca caaatcgaat ccgttgcaag atgagacaca
     2941 caagaaaaga gctagacgaa ggtcgctccg ctccccatgg tttttgtata cccaccatgg
     3001 gggcataggt agtttattaa ctaactccaa gataatgcgt gatcgcagcc gtgagtacac
     3061 cacagcccac ttgtttagat aaatctaaaa ccccttgtag gattctctta gtgttccact
     3121 caccttctgc atccattggt tgagatagtg cagcactcaa ctggttctta atcttttgcg
     3181 aagttatatc gttatctatt gagttgattt cctccttggc tttctccaag gaagcctgga
     3241 gttcaccgcg ttctattttt aacttttcac gataactgtc tggtgtgtgt agttcgttcc
     3301 catccgcatc gagattaata acttcgcctc gctcaccaac agtaacaaag ctctctacgt
     3361 gagacagatc atcaacaacc atcacattcc ttttcattct taaaccagtc acttttgcac
     3421 ctgcaccgat cttcataaaa ctaaagcctg atttatcgtt cactcacatc acctcataag
     3481 ataaaaatgt taataacgtt ttcacgagca attatttacc ataacgcctc attacgcgca
     3541 ccgctaaaac ggcctcaggg cgtttctgac gggaaaccgg taaaacaggc aacaaaccac
     3601 ccgaaaaccc gccagaaacg cgcaggctct gtttttacgg catgcatgag tatgcacgca
     3661 agtgcatagc gcgaaaattc acgccattca gcc
//
