LOCUS       NZ_CP063146             3991 bp    DNA     circular CON 10-JAN-2024
DEFINITION  Klebsiella pneumoniae strain KP19-3088 plasmid pKP19-3088-4k,
            complete sequence.
ACCESSION   NZ_CP063146
VERSION     NZ_CP063146.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16418314
            Assembly: GCF_014961485.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 3991)
  AUTHORS   Qin,S. and Peng,J.
  TITLE     Klebsiella Pneumoniae
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3991)
  AUTHORS   Qin,S. and Peng,J.
  TITLE     Direct Submission
  JOURNAL   Submitted (12-OCT-2020) Pharmaceutical Sciences, Zhengzhou
            University, 100 Science Avenue, Zhengzhou, Henan 450001, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: CLC Genomics workbench v. 10.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 12.0x
            Sequencing Technology             :: Illumina; MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/10/2024 01:46:01
            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)                     :: 5,802
            CDSs (total)                      :: 5,680
            Genes (coding)                    :: 5,572
            CDSs (with protein)               :: 5,572
            Genes (RNA)                       :: 122
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 108
            CDSs (without protein)            :: 108
            Pseudo Genes (ambiguous residues) :: 0 of 108
            Pseudo Genes (frameshifted)       :: 35 of 108
            Pseudo Genes (incomplete)         :: 74 of 108
            Pseudo Genes (internal stop)      :: 13 of 108
            Pseudo Genes (multiple problems)  :: 12 of 108
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP063146.1.
            Bacteria and source DNA available from patient.
            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..3991
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="KP19-3088"
                     /isolation_source="blood culture from maile"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="pKP19-3088-4k"
                     /geo_loc_name="China"
                     /lat_lon="34.73 N 113.70 E"
                     /collection_date="2019-11-18"
                     /collected_by="Zhengzhou University"
     gene            complement(join(3654..3991,1..85))
                     /locus_tag="IMY63_RS00005"
                     /old_locus_tag="IMY63_00005"
     CDS             complement(join(3654..3991,1..85))
                     /locus_tag="IMY63_RS00005"
                     /old_locus_tag="IMY63_00005"
                     /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_040214596.1"
                     /translation="MAIVSISEAARLVKVSRPTIYKMINSGKLSYTSVVKHGKAIKVID
                     TSELIRVFGSLDGVIDTVKYDVKSDAESTGINSVGLHDLQHRIALLEAENDGLKGAVKA
                     RDEHIDSLRQAMQLLEHKHEPSSPPHSPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(85..276)
                     /locus_tag="IMY63_RS00010"
                     /old_locus_tag="IMY63_00010"
     CDS             complement(85..276)
                     /locus_tag="IMY63_RS00010"
                     /old_locus_tag="IMY63_00010"
                     /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_040198051.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLDKLNELDLDVEADLCEKLHDDA
                     EHLFRTLSSRLDELQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            684..796
                     /locus_tag="IMY63_RS28880"
                     /pseudo=""
     CDS             684..796
                     /locus_tag="IMY63_RS28880"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /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            complement(1023..1997)
                     /locus_tag="IMY63_RS00015"
                     /old_locus_tag="IMY63_00015"
     CDS             complement(1023..1997)
                     /locus_tag="IMY63_RS00015"
                     /old_locus_tag="IMY63_00015"
                     /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_114269875.1"
                     /translation="MAFFNLLFVASLICFGGVMGSYSRGCRDSQNKFSKDKDENNKRAS
                     VYRFGIASAFICVPFISSFLHVDYSSIIFPVADGGGTKFIEQILLLISVSGISAYLGYA
                     LLDGLANKVLKEQVDGIDKKQQDLEAEQDEFKDELDRSKELIEQLEMDKKTTKFELGYF
                     KAISAVDKAESMMSIPDEALSVKKKLTEALDAVTESLSLVKREDVAKDDYDKLLVLKAY
                     ILKRLDRIDDALSITDELLMSNEDNPILIYNKACYQYILRRCQADNSDIKDMIRRALTI
                     KVTDPEFIRRQEKIRTKVIGNKDNDLEGLFTDAELEELKVAIK"
                     /name="hypothetical protein"
     gene            complement(2578..2850)
                     /locus_tag="IMY63_RS00020"
                     /old_locus_tag="IMY63_00020"
     CDS             complement(2578..2850)
                     /locus_tag="IMY63_RS00020"
                     /old_locus_tag="IMY63_00020"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004897311.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_019405140.1"
                     /translation="MATDAQVKEINALIKKYPDSCSICHEVYDEDDVTYTVFGYDRKGK
                     IQVTTGCCAGMLTEPVLLGVCGCFDPEERDEIMQNHPMAKQFFTE"
                     /name="hypothetical protein"
     Typing          325..796
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="86.777"
                     /coverage="92.0"
                     /evalue="7.8799999999999974e-146"
ORIGIN
        1 acttcccact gttaatcatc ttgtaaattg tggggcgact aaccttaaca agccgtgccg
       61 cttcactaat agacactatg gccatcagtt accatcctgt aattcatcca gtctcgagga
      121 cagtgtacgg aaaagatgct ccgcatcatc atggagtttc tcacaaaggt cggcctcgac
      181 atcgagatca agctcgttaa gcttatccag caggagcaga gactgattct ggatgaattt
      241 agccatgttc agcgctgttt tctgttgttt tgtcataaga agcctcagag cgtcagtgct
      301 caatgtcaaa ctagtctctt ttccgcttcc tcgctcactc agtcgctacg ctccagccgt
      361 tcggctgcgg cgagcggcag gagcgtgtac ataaaaacgt aggcaaccaa gatatgaggc
      421 agaaaagcaa aggccgccga acggctgttt ttccataggc tccgcccccc tgacaagcat
      481 cgcggaaacg gacgctcaaa tcagtggtgg cgaaacccga caggacttaa agataccagg
      541 cgtttccccc tggtggctcc ctcgtgcgct ctcctgttcc tgcctttcgg tttaccggtg
      601 tcattccgct gttatggccg cgttttctca ttccatgcct gatactcggc tccgggaagg
      661 cagttcgctc caagctggac tgtatgcacg aaccccccgt tcagtccgac tgctgcgccc
      721 gttccagtaa ctatctcttg agtccaaccc ggaaagacac gacttatcgc cattggcagc
      781 agccactggt aattgattta gaggagttag tcttgaagtt atgcgccagt taaggctaaa
      841 ctaaacgaac tgttttggtg actgcgctcc tctaagccag ttacctcggt tcagaaactt
      901 gccggttact gaaccttcga aaaaccacct tgccgggtgg ttttttcgtt tgaggggtag
      961 agtacgctgc acctcaaagg atcgtcaagg atctttttgg aattcataga gctagccact
     1021 gcctatttga tagccacctt taattcctcc agctcagcgt cagtaaacaa cccttcaaga
     1081 tcattatctt tatttcctat gaccttggtt cttatttttt cttgcctgcg aatgaattca
     1141 ggatctgtaa ctttaatagt cagagccctg cgaatcatat ccttaatatc ggagttatca
     1201 gcttggcaac gacgcaaaat atattgatag caagccttat tgtaaataag tatagggtta
     1261 tcctcattac tcataagtaa ctcatccgta attgacagag catcatcaat acgatcaagt
     1321 cttttcaaaa tataagcttt aagcactaag agcttgtcgt agtcatcctt agctacatcc
     1381 tctcttttaa caagagacaa tgattccgtt acagcatcta atgcctcagt tagttttttc
     1441 ttaacagaaa gagcctcatc cggaatggac atcattgatt ctgctttatc cacagctgaa
     1501 atggctttaa agtatcctag ctcgaatttt gttgttttct tatccatttc aagctgttct
     1561 atcagctcct tgctcctatc aagctcatct ttaaactcat cttgttcagc ctccaaatct
     1621 tgttgctttt tatctatacc gtctacttgc tcttttaata ctttgttggc aagaccatcc
     1681 agtaatgcgt acccaagata cgcagagatc cccgaaacag aaataagaag caatatttgt
     1741 tctatgaact tagttccacc accatcagcc acaggaaata ttatacttga gtaatcaaca
     1801 tgaagaaatg atgatatgaa aggaacacaa ataaatgcgg atgctatacc aaatctataa
     1861 acactagctc ttttattatt ctcatcctta tcttttgaaa atttattttg ggagtctcgg
     1921 caacctctgg aatagctccc cataacacca ccaaaacaaa ttagagatgc aacaaacaat
     1981 aggttaaaaa aagccatgag agaatccttg cgcaaagcaa acaataaaac tttgttcagg
     2041 taagttaaga taagctcaat catatactaa ccaataacaa aaaaggcagc cttggctgcc
     2101 tttttctgct gacttgacac ttacaagtct ggacgctcat cgtgaagttt gatttttttc
     2161 atagagcacc tctcattaat tgttcctttg caagcccatg cttgcttagc gctgaatata
     2221 gggcataaac ccagcactca caacaacaaa aatgcttaaa atgataaaat caacccatgt
     2281 attgacattg ggtgaaaaaa aaagtataat gcactggtag ccaaaggggc ggggcttcgc
     2341 ttattcctta ggaataagcg aagccccgcc cctttggcta ccataattaa atgattgaat
     2401 ttaaaggatt tttttacaat aacatccttc ctctcaatag tcatataaac atgccccatg
     2461 tattcgtcat tctggatttt tcaaaagaat gaatgcgtgc atttaccata acgcctcatt
     2521 tcacgcagat atgaaaaagc ccgcacaagg cgggcttcag actcaacaga tacggaatca
     2581 ctctgtgaaa aactgctttg ccatggggtg attctgcatg atctcgtcac gttcttccgg
     2641 gtcaaagcac ccacagacac ccagcagaac cggctctgtc agcattccgg cacagcatcc
     2701 cgtggtgacc tgtattttac ctttccggtc atacccaaaa acggtgtagg tcacatcatc
     2761 ctcatcatag acttcatgac agatggagca tgagtccggg tattttttga tgagtgcatt
     2821 aatttctttt acctgagcgt cagtagccaa aacatctccc tgagtcactg attatcacaa
     2881 tccgctgact ctaacacaga ctcaggcatc cgccgttgat ttaccataac gtcccattac
     2941 acgcaccgct aaaacggcct cagaacgatt ctggggcgta acccattaaa tcctacgtct
     3001 taccccctga aaacgcctca aaatcgctcc agggcgtttt acgggcatga atcgttatgc
     3061 acttgactga ctgtctgggg atttcagcct gaattcaggc caggcaactc aaaacccgca
     3121 ccaaaccaga ctgaaaacgg tgaacgggtg cgcaatttat tgcgtggccg tgaagcgttg
     3181 ccggcgcagc cggaaaaccg gttttcagca cgttcaggaa tcgggtttgt cgagaccagc
     3241 aatcacatta tggcaagtcg ccggacgact caccacacga ttcaccggcg attcgactcg
     3301 tgacttgact ctagagtcgc catggtcaaa aagccaccaa cccggcaagt cgactctaga
     3361 gtcaagtcat cataacgtac tgattatatg gcgtgattca catatgaatc gtgggcaagt
     3421 catcggcgat tcgccataga gtcgtccacg actcggattc accttacaaa aaataaaatt
     3481 gcgtaattta aaatagataa ctgattgaaa ataaaggtct atctgcaaaa ttttaatttt
     3541 gcgtagtgtg tgggtatttt tagtggtgag gagcgttcag ggatctgacg atttttggga
     3601 aggttcagga actccccgga atggccggag agcaaaatgg aagcatggcg ggatcaggat
     3661 tttttccaga atttccacca cggggaatgg ggtggtgaag aaggttcgtg cttgtgctcc
     3721 agaagctgca tagcctgacg aagggaatca atatgctcat ctcgagcctt aacagcccct
     3781 ttaagaccat cgttttcagc ttcaagtaaa gcgattctat gttgtaaatc atgtaaacca
     3841 acgctgttaa tacctgtaga ttctgcgtca ctttttacat catattttac agtatcgatt
     3901 acaccatcaa gagaaccaaa cactctaatt agctctgaag tatcaataac tttaatagct
     3961 ttcccgtgct ttaccacaga ggtgtaactt a
//
