LOCUS       NZ_CP033825             3897 bp    DNA     circular CON 08-JAN-2024
DEFINITION  Klebsiella sp. FDAARGOS_511 plasmid unnamed2, complete sequence.
ACCESSION   NZ_CP033825
VERSION     NZ_CP033825.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN10163205
            Assembly: GCF_003812845.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella sp. FDAARGOS_511
  ORGANISM  Klebsiella sp. FDAARGOS_511
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 3897)
  AUTHORS   Goldberg,B., Campos,J., Tallon,L., Sadzewicz,L., Zhao,X.,
            Vavikolanu,K., Mehta,A., Aluvathingal,J., Nadendla,S., Geyer,C.,
            Nandy,P., 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  JOURNAL   Unpublished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 3897)
  AUTHORS   Goldberg,B., Campos,J., Tallon,L., Sadzewicz,L., Zhao,X.,
            Vavikolanu,K., Mehta,A., Aluvathingal,J., Nadendla,S., Geyer,C.,
            Nandy,P., 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 :: SMRT v. 2.3.0, HGAP v. 3.0, SPAdes v. 3.6.0
            Genome Coverage                   :: 531.332164920635x
            Sequencing Technology             :: PacBio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/08/2024 04:21:47
            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)                     :: 6,021
            CDSs (total)                      :: 5,897
            Genes (coding)                    :: 5,769
            CDSs (with protein)               :: 5,769
            Genes (RNA)                       :: 124
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 128
            CDSs (without protein)            :: 128
            Pseudo Genes (ambiguous residues) :: 0 of 128
            Pseudo Genes (frameshifted)       :: 52 of 128
            Pseudo Genes (incomplete)         :: 82 of 128
            Pseudo Genes (internal stop)      :: 26 of 128
            Pseudo Genes (multiple problems)  :: 30 of 128
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP033825.1.
            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..3897
                     /organism="Klebsiella sp. FDAARGOS_511"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_511"
                     /isolation_source="Endotracheal aspirate"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_511"
                     /db_xref="taxon:2488567"
                     /plasmid="unnamed2"
                     /collection_date="2016-01-10"
                     /collected_by="Children's National Hospital"
     gene            366..557
                     /locus_tag="EGY08_RS30520"
                     /old_locus_tag="EGY08_30495"
     CDS             366..557
                     /locus_tag="EGY08_RS30520"
                     /old_locus_tag="EGY08_30495"
                     /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            557..958
                     /locus_tag="EGY08_RS30525"
                     /old_locus_tag="EGY08_30500"
     CDS             557..958
                     /locus_tag="EGY08_RS30525"
                     /old_locus_tag="EGY08_30500"
                     /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_049088770.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKGEHHSGLVSEQRDTASADHSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            2004..2756
                     /locus_tag="EGY08_RS30535"
                     /old_locus_tag="EGY08_30510"
     CDS             2004..2756
                     /locus_tag="EGY08_RS30535"
                     /old_locus_tag="EGY08_30510"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001711308.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_023307481.1"
                     /translation="MGIENSNQGPGWHDHDTPYGTIHSYDGDTGTYGGGGTGGNAGGGH
                     TGLTANTWVDIATTKDYNGRYMSMCLNNLKDHEGSINTMYRDSKGNITVGIGHYLGSAE
                     MAQALPFNRTKVMHVHGDDLESEVAVSKSDIASAFNAYKSNPRDVPSMHLSNADVIGQC
                     IKDVQTTENGLRGLYPGYDRFSDPRKTALVDMGFNLGIPTLKSKFPKFNDAVNRGDWNV
                     AADESHRDLNQRGDKRNKDTADQLRYNR"
                     /name="hypothetical protein"
     gene            2858..3358
                     /locus_tag="EGY08_RS30540"
                     /old_locus_tag="EGY08_30515"
     CDS             2858..3358
                     /locus_tag="EGY08_RS30540"
                     /old_locus_tag="EGY08_30515"
                     /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_123829470.1"
                     /translation="MIRFVIAAFISILTIKGAFADINVFIAPNDLNYETNSTSEINHYL
                     DELKKNNTKVDVDKDPKISNELKKYIGIVNDRVSDVFSESEFKKYRGDVCKISITTGNT
                     APSDPVLTQVFTYDELADNKKQSCQKLNNELIKKVAKDKGLSYPKVVKDYGSLSIDMIF
                     LFK"
                     /name="hypothetical protein"
     gene            3406..3540
                     /locus_tag="EGY08_RS30545"
                     /old_locus_tag="EGY08_30520"
     CDS             3406..3540
                     /locus_tag="EGY08_RS30545"
                     /old_locus_tag="EGY08_30520"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000724569.1"
                     /GO_component="GO:0019867 - outer membrane [Evidence IEA]"
                     /GO_process="GO:0019835 - cytolysis [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="colicin release lysis protein"
                     /protein_id="WP_110216848.1"
                     /translation="MSICVIILLAACQANYIRDVKGGTVAPSASSDIRTSSSQPIGSS"
                     /name="colicin release lysis protein"
     gene            complement(3705..3847)
                     /locus_tag="EGY08_RS31360"
                     /old_locus_tag="EGY08_30525"
                     /pseudo=""
     CDS             complement(3705..3847)
                     /locus_tag="EGY08_RS31360"
                     /old_locus_tag="EGY08_30525"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001326446.1"
                     /note="frameshifted; 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"
     Typing          complement(2..82)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.78"
                     /coverage="90.0"
                     /evalue="9.65e-33"
     Typing          complement(3560..3897)
                     /name="rep_cluster_2374"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="88.92"
                     /coverage="98.0"
                     /evalue="8.61e-115"
ORIGIN
        1 gaatgagata aacgcggcca taacagcgga atgacaccgg taaaccgaat ggcaggaaca
       61 ggagagcgca cgagggagcc atcaggggga aacgcctggt atctttatag tcctgtcggg
      121 tttcgccacc actgatttga gcgtcagatt ccgtgatgct cgtcaggggg gcggagccta
      181 tggaaaaacg gccgccttgc ggcctttcct tcctctcctc cgttgaacgc tctgctttct
      241 cgagctttta tacggatgct cctgccgctc gccgcagccg aacggcggaa gcgtagcgac
      301 tgagtgagcg aggaagcgga aaagagaaca tccctatact gagcactgac gctctgaggc
      361 ctcttatgac gaaacaacag aaaacagcgc tgaacatggc taaattcatc cagaatcagt
      421 ctctgctctt gctggagaag cttaacgagc ttgatctcga tgttgaggcc gacctttgtg
      481 agaaactcca cgatgatgcg gagcatcttt tccgtacact gtcctcgaga ctggatgcat
      541 tacaggatgg taactgatgg ccagagtgtc tattagtgag gctgcccgac tgacgggtaa
      601 gagtagaaca acactgcaca ggttaattaa agcaggtgac ctgtccacct gtagcggtga
      661 acgcaatgca aaaatggtag atacttcaga gcttttacgt gtctttggtc cctttgagca
      721 accgaagggt gaacaccatt ctggactggt gtctgaacag cgtgatacag cctctgctga
      781 ccatagtgaa caggtgattc gtcatctgaa acaggagatt gaacacctga ataccttact
      841 tttgtccaag gattcgcaca ttgacagcct gaaacaggcc atgctccttc ttgaaaatca
      901 ccaggcaaaa ttaactgaat ccccggcgcc atggtggaaa ttctggaaaa aatcctgacc
      961 ccgtcgtgct tcagttttcc tctccggcca tcccggggag ttcctgaacc ttcccaaaaa
     1021 tcgccagatc tctgaacgct cttcaccact aaaaataccc acacactacg caaaattaaa
     1081 attttgcaga tttgtattta atatcagtag tttactttca tgaaatttcg ttttttaaat
     1141 tttatttaca tagatccgac tctatgacga ctcgtcatag agtccccggc gagtcgtcat
     1201 agagtcggta acgactcagg actataaaaa caatgagtta ataacgaccc gactctagac
     1261 ccgactcccc gtttggttgt tttttagacg cggcaactct gggtacgact ctagtgagga
     1321 gtcgccggtg aatcgtgtgg tgagtcgtcc ggcgacttgc cataacgtga ttgccggccg
     1381 tcgacgaacc cgattcctga acgtgctgaa aactggtttt ccggctgcgc cggcaacgct
     1441 tcacggccac gcaataaatt gcgtccccgt tcaccgtttt cggatgggaa gaacgccgga
     1501 aacaggactt accctggctg aatggcgtga attttctcgc tatgcacttg cgtgcatact
     1561 catgcatgcc ttaaaaacag agcctgcgcg tttctggcgg gttttcgggt ggtttgttgc
     1621 ctgttttacc ggtttcccgt cagaaacgcc ctgaggccgt tttagcggtg cgtacaatta
     1681 tggctttatg ttaaatcatt gccgcaaaca gccacgaaaa gcttacttgg catcggctct
     1741 actagcctgt taaaactcat attttgaact caatcattta aatttcgtct tttcaggcgt
     1801 acaacttcga taactaaaaa tttatgtgaa atagatattt atccaacagt tatgtagata
     1861 agaataaaac atcaatattt ttttgagagt gtcaaggaag ttatagtgag aatttttcta
     1921 aaagtattga cagattcaaa gaagatgaat aaatttatac tgtttattta tacagttgtt
     1981 tttttgtcaa agaggtaatg tttatgggta ttgaaaattc aaatcagggg ccaggatggc
     2041 atgatcatga tactccttat ggcactattc acagctatga tggtgatact ggtacgtatg
     2101 gaggtggtgg aactggaggg aatgctggtg gtgggcatac cggtcttact gcaaatacat
     2161 gggtagatat cgcgacaaca aaagattata acggtagata tatgtctatg tgtttaaata
     2221 atcttaaaga ccatgaaggt tcaattaata caatgtatag agactctaaa ggtaatatta
     2281 ccgttggtat tggtcattac cttggttctg ctgagatggc tcaggcatta ccttttaatc
     2341 gaacaaaagt tatgcatgtg catggtgatg atcttgaaag tgaggtcgcc gtatctaagt
     2401 ctgatatagc ttcagcattt aatgcataca aatcaaaccc aagagatgtt cctagtatgc
     2461 atctttcaaa tgctgatgta ataggtcagt gtattaagga tgttcaaact actgaaaatg
     2521 gtttgcgtgg actttaccca ggttatgatc gtttttcaga tccacgaaaa acagcattgg
     2581 tagatatggg ttttaatctt ggtattccta cgcttaagtc taaatttccg aagtttaacg
     2641 atgcagttaa tcgtggtgat tggaatgttg ctgcagatga aagtcatcga gatcttaatc
     2701 aaagaggtga taagcgtaat aaagatacgg cagatcaatt gcgttataat cggtaatgat
     2761 ttagatttac aactcctgcc atcaaatggc aggagtgtcc tcacgatatt aaaactaagt
     2821 catgaggttt ctaatcttat attttatggg tggtattatg attcgttttg tgattgctgc
     2881 ttttatttca atcttgacaa ttaaaggagc ttttgctgat atcaatgttt ttatagcgcc
     2941 taacgatcta aattatgaaa caaattctac tagtgaaatt aatcattatt tagatgagct
     3001 gaaaaaaaat aatactaaag ttgatgttga taaagaccca aaaattagca atgagttaaa
     3061 aaaatatatt ggtattgtta acgatagagt gtctgatgtt ttcagtgaaa gtgaatttaa
     3121 gaagtatcgt ggcgatgtct gtaaaatatc aataacaact gggaatacgg ctccatctga
     3181 tcctgttttg actcaagtgt ttacttatga tgaactagct gataataaaa aacaatcatg
     3241 tcaaaaatta aataatgagc taataaaaaa agttgctaaa gataagggtt tatcatatcc
     3301 gaaagttgtt aaagattatg gatctttatc aattgatatg atctttttat ttaaataaaa
     3361 ataaatttac ggtgttgttt atgcctttta aaaaagtctt ttccaatttc tatttgtgta
     3421 attatattgt tggctgcctg ccaagctaac tatattaggg acgtaaaagg aggaactgtt
     3481 gctccatcag cttcttcaga tataagaacg tcgagttcgc aacccatagg atcttcttga
     3541 gatccttagc ggatagtcgt aatctttgct ctgtaaacga aaaaaccacc cggcaaggtg
     3601 gttttttcga aggttcatta accggcaagt ttctgaaccg tggtaactgg ctttcgcaga
     3661 gcacagaaac cgaattagtt ctaacagtgt agctgtagtt tacctcacac ttcaacactt
     3721 ctttgttctg cgaatgcgtt accagtggct gctgccagtg gtgataagtc gtgtcttttc
     3781 gggttggact caagttgata gttaccgaaa aggcgcagca gtcggactga acggggggtt
     3841 cgtgcataca gtccagcttg gagcgaactg cctacccgga actgagtgtc aggcgtg
//
