LOCUS       NZ_CP149830             4261 bp    DNA     circular CON 21-APR-2024
DEFINITION  Klebsiella pneumoniae strain 2024CK-00241 plasmid unnamed4, complete
            sequence.
ACCESSION   NZ_CP149830
VERSION     NZ_CP149830.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN40254322
            Assembly: GCF_037009005.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4261)
  AUTHORS   Hergert,J., Casey,R., Wagner,J., Young,E.L. and Oakeson,K.F.
  TITLE     Pathogen: clinical or host-associated sample
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4261)
  AUTHORS   Hergert,J., Casey,R., Wagner,J., Young,E.L. and Oakeson,K.F.
  TITLE     Direct Submission
  JOURNAL   Submitted (18-MAR-2024) Utah Public Health Laboratory, Utah Public
            Health Laboratory Infectious Disease submission group, 4431 S 2700
            W, Salt Lake City, UT 84129, USA
REFERENCE   3  (bases 1 to 4261)
  CONSRTM   Clinical and Environmental Microbiology Branch: Whole genome
            sequencing antimicrobial resistance pathogens in the healthcare
            setting
  TITLE     Direct Submission
  JOURNAL   Submitted (04-MAR-2024) Division of Healthcare Quality Promotion, US
            Centers for Disease Control and Prevention, 1600 Clifton Rd,
            Atlanta, GA, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.5.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100.0x
            Sequencing Technology :: Oxford Nanopore GridION; Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_037009005.1-RS_2024_04_21
            Annotation Date                   :: 04/21/2024 15:45:52
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,585
            CDSs (total)                      :: 5,462
            Genes (coding)                    :: 5,308
            CDSs (with protein)               :: 5,308
            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)              :: 154
            CDSs (without protein)            :: 154
            Pseudo Genes (ambiguous residues) :: 0 of 154
            Pseudo Genes (frameshifted)       :: 59 of 154
            Pseudo Genes (incomplete)         :: 97 of 154
            Pseudo Genes (internal stop)      :: 23 of 154
            Pseudo Genes (multiple problems)  :: 22 of 154
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP149830.1.
            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..4261
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="2024CK-00241"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="unnamed4"
                     /geo_loc_name="USA"
                     /collection_date="2024-01-27"
     gene            join(3871..4261,1..32)
                     /locus_tag="WKV49_RS27905"
                     /old_locus_tag="WKV49_27905"
     CDS             join(3871..4261,1..32)
                     /locus_tag="WKV49_RS27905"
                     /old_locus_tag="WKV49_27905"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005229777.1"
                     /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_039817119.1"
                     /translation="MARVSISEAARLVKVSRPTIYKMINSGKLSFTSVVKHGKAIKVID
                     TSELIRVFGSLDGVIDTVKYDVKSDAESTGVNSVGLHDLQHRIALLEAENDGLKGAVKA
                     RDEHIDSLRQAMQFLEHKHEPSSPSDSPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            1566..2705
                     /locus_tag="WKV49_RS27910"
                     /old_locus_tag="WKV49_27910"
     CDS             1566..2705
                     /locus_tag="WKV49_RS27910"
                     /old_locus_tag="WKV49_27910"
                     /EC_number="2.7.7.49"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761319.1"
                     /GO_function="GO:0003964 - RNA-directed DNA polymerase
                     activity [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="reverse transcriptase family protein"
                     /protein_id="WP_072040880.1"
                     /translation="MNKPRFNGTPIASLDSLAAMLGIDRKRLDWMVLSVSRSYKQFTVE
                     TGKNKKERKIFEPKRSLKGIQKKINKEIFENIDYPHYLHGAITGRDYISNASVHTKKKT
                     IICLDITNFYPSISKRDVTLIFKNLMRFSPDVSIALTELVTLNNQVPQGGCCSSYIANL
                     LFFNSEYNLYNRLQSIGYSYTRLLDDITISSDEDISLEEKTKVIQLVYRMVSQHRLSIN
                     EDKTTIEHTKDSSSKLSVTGLWVKHGVPKLTKENRRYIRYLVYICQKQAAYERHTKEYH
                     DLWNRCSGKVAQMSRLGHVQANELRCVLSDILPIYDDYKIGKLKYVAKHYLSKFTHPLS
                     EEQIRKVDRMIYDFDIVGRTNEKLAKDYRSKLRALLPER"
                     /name="reverse transcriptase family protein"
     gene            2710..2913
                     /locus_tag="WKV49_RS27915"
                     /old_locus_tag="WKV49_27915"
     CDS             2710..2913
                     /locus_tag="WKV49_RS27915"
                     /old_locus_tag="WKV49_27915"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000427298.1"
                     /GO_function="GO:0003676 - nucleic acid binding [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="cold shock domain-containing protein"
                     /protein_id="WP_072040881.1"
                     /translation="MEKGFINFYDHVRGYGFIRRECGRDVFFKHDDFFDFESSVDVCKG
                     IFVNFEVIKADKGLRAVNIRIV"
                     /name="cold shock domain-containing protein"
     gene            complement(3122..3264)
                     /locus_tag="WKV49_RS27920"
                     /old_locus_tag="WKV49_27920"
                     /pseudo=""
     CDS             complement(3122..3264)
                     /locus_tag="WKV49_RS27920"
                     /old_locus_tag="WKV49_27920"
                     /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"
     gene            3680..3871
                     /locus_tag="WKV49_RS27925"
                     /old_locus_tag="WKV49_27925"
     CDS             3680..3871
                     /locus_tag="WKV49_RS27925"
                     /old_locus_tag="WKV49_27925"
                     /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_039817117.1"
                     /translation="MTKQQKTALNMAKFIQHQSLLLLEKLNELDLDAEADLCEKLHDDA
                     EHLFRTLSSRLDELQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(3156..3559)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.089"
                     /coverage="99.0"
                     /evalue="9.84e-174"
ORIGIN
        1 ccccgtggtg gaaattctgg aaaaaatcct gaccccgtca tgcttccgtt ttcctctccg
       61 gccatcccgg ggagttcctg aaccttccca aaaatcgtca gatctctgaa cgctcctcac
      121 cactaaaaat acccacacac tacgcaaaat taacattttg catatttgta tttaatatca
      181 gtgggttaac ttcctgaaat ttcgtttttt aaattttatt tatatagatc cgactctatg
      241 acgactcgtc atagagtccc cggcgagtcg tcatagagtc ggtaacgact caggactata
      301 aaaacaataa gttaataacg acccgactct agacacgact ccccgtttgg ttgtttttta
      361 gacgcggcga ctctgggtac gactctagtg aagagtcgcc ggtgaatcgt gtggtgagtc
      421 gtccggcgac ttgccataac gtgattgccg gccgtcgacg aacccgattc ctgaacgtgc
      481 tgaaaaccgg ttttccggct gcgccggcaa cgcttcacgg ccacgcaata aattgcgtct
      541 ccgttcaccg ttttcggatg gaaagaacgc cggaaacagg acttactctg gctgaatggc
      601 gtgaattttc gcgctatgca cttgcgtgca tactcatgca tgccgtaaaa acagagcctg
      661 cgcgtttctg gcgggttttc gggtggtttg ttgcctgttt taccggtttc ccgtcagaaa
      721 cgccctgagg ccgttttagc ggtgcgtaca atcatggcct tatgttaaat ggggttgtat
      781 gccattttca tttaatctta ggaaattcag aaagttaact tattattgag tatttgtgag
      841 tgtaactata aaagatgatc gcttaagaac tattgcgacc tttgacggca agcctctcaa
      901 ggatgatcgc ctgagaacca ttgcgaatgt taacgggagt gtagggggtg ttgtcgtggc
      961 ttttgctgct cgtttattct gaagtttata cgtaatgatg attcaggccc tctatacgag
     1021 ggattttcat cttgttcgtt ttctttgatg acagcatcat aaaaaacttt ataataatca
     1081 gagaagcggg cgaaccacgc ctggctctcg ctctttaaaa aatggttacg ctttatgttg
     1141 tgtcaaggaa accgatgcct tgttgtttaa ggcgatctca catgagatca tgaccggcct
     1201 tgccgcccat taacggtaag aacgcccctg agcgctcatt atcgcttcaa aaatggcgac
     1261 gattgtctgg caatgtgagt taaaagtccc aaagagccaa tagaattttt ccttgctttc
     1321 ctatggtctg gcaaaatttc acaaccacta ggagcagtac tatgtttatt ttcaacatca
     1381 acatttacgt aaccaagagc tcttcatctt gttccggaga cggacagaag aagaaaaaaa
     1441 gagaggttgg ctctctggaa gtgctgaaaa ccccgcagtt ttggggttgt atgttcttga
     1501 tttttgttaa attattagat tatatatcaa aattctttaa ctaatcgact tttaactcaa
     1561 acatcatgaa taaacctagg tttaatggaa cacctatagc atccttggat tctttggctg
     1621 cgatgttagg tatagacagg aaaagattgg actggatggt cttatcagta tctaggtcat
     1681 acaagcagtt tactgttgaa acaggaaaaa ataaaaaaga aagaaaaata tttgagccca
     1741 agagatcttt aaagggtatt caaaagaaaa taaataaaga aatatttgaa aatatagatt
     1801 accctcatta tttgcatggg gcgataactg ggcgtgacta tatatcaaat gcatccgtgc
     1861 acacaaagaa aaaaacaata atatgtctag atataactaa tttttatcca agcattagta
     1921 agcgggatgt tactcttata tttaaaaatt taatgcgatt ctctcctgat gtatctattg
     1981 ctttaactga gcttgtgaca ttgaataatc aagttccgca aggagggtgt tgctctagtt
     2041 acattgcaaa tcttttgttc tttaatagtg agtataatct ttataataga ttgcaatcta
     2101 ttgggtattc atacacaagg ttgttagatg atattacaat atcctctgat gaggatattt
     2161 cattagaaga gaaaacaaaa gtaattcaac tcgtctatag aatggtttct cagcataggc
     2221 tatccataaa tgaagataaa acgacaatag agcacaccaa ggactcctct tcgaagctta
     2281 gcgtcactgg gttgtgggtg aagcatggtg ttcctaaatt aacaaaagag aatagacgat
     2341 atataagata tttggtgtat atatgccaaa agcaagctgc ttatgagcgg catacgaaag
     2401 agtatcatga tttatggaat agatgttcag ggaaggttgc acaaatgtct cggcttgggc
     2461 atgttcaagc taatgagtta aggtgcgttc tttctgatat attgcctatt tatgatgact
     2521 ataaaatagg taagttaaaa tatgtggcta agcattattt aagtaagttt acgcaccctt
     2581 tgagtgaaga gcaaataaga aaagttgata gaatgatcta tgactttgat atagttggtc
     2641 gaactaatga aaaactagca aaagactata gaagtaagct tagagcgttg cttcctgaga
     2701 ggtgattata tggaaaaagg gtttattaac ttttacgacc atgttagggg atatggtttt
     2761 atacgaaggg agtgtgggcg tgacgttttt ttcaagcatg atgatttttt tgattttgaa
     2821 agtagtgttg atgtatgtaa ggggattttc gttaattttg aagtaataaa agcagataaa
     2881 gggcttaggg ctgtaaatat acgaattgta taaaatatag aggtttttga gcctttttga
     2941 tgaaatgatc tcttgagatc ctacctcgct cgtcgtaatc tcttgccctg taaacgaaaa
     3001 aaccacccgg caaggtggtt ttttcgaagg ttcattaacc ggcaagtttc tgaaccgtgg
     3061 taactggctt tcgcagagca cagaaaccga attcgttcta acagtgtagc tgtagtttac
     3121 ctcacacttc aacacttctt tgttctgcga atgcgttacc agtggctgct gccagtggtg
     3181 ataagtcgtg tcttttcggg ttggactcaa gttgatagtt accgaaaagg cgcagcagtc
     3241 ggactgaacg gggggttcgt gcatacagtc cagcttggag cgaactgcct tcccggaact
     3301 gagtgtcagg cgtggaatga gataaacgcg gccataacag cggaatgaca ccggtaaacc
     3361 gaaaggcagg aacaggagag cgcacgaggg agccatcagg gggaaacgcc tgatatcttt
     3421 atagtcctgt cgggtttcgc caccactgat ttgagcgtca gtttctgtga tgcttgtcag
     3481 gggggcggag cctatggaaa aacggccgct tagcggcctt tccttttcac cgtcacgcga
     3541 ccgctcggtt ttctcgagct tttatacgca tgctcctgcc gctcgccgca gccgaacggc
     3601 aggagcatag cgactgagtg agcgaggaag cggaaaagag aacatcccta cactgagcac
     3661 tgacgctctg aggcctctta tgacgaaaca acagaagacc gcgctgaaca tggctaaatt
     3721 catccagcat cagtctctgc tcctgctgga gaagcttaac gagcttgatc ttgatgctga
     3781 ggctgacctt tgtgagaaac tccacgatga tgcggagcat cttttccgta cactgtcctc
     3841 gagactggat gaattacagg atggtaactg atggccagag tgtctattag tgaagcggca
     3901 cggcttgtta aggttagtcg ccccacaatt tacaagatga ttaacagtgg gaagttaagt
     3961 ttcacctctg ttgtaaagca cgggaaggct attaaagtta ttgatacttc agagcttatt
     4021 agagtgtttg gttctctcga tggtgtcatc gatactgtaa aatatgatgt aaaaagtgac
     4081 gcagaatcta caggtgttaa cagcgttggt ttacatgatt tacaacatag aattgctttg
     4141 cttgaagctg aaaacgatgg tcttaaaggg gctgttaagg ctcgagatga gcatattgat
     4201 tcccttcgtc aggcaatgca gtttctggag cacaagcacg aaccttcttc accatccgat
     4261 t
//
