LOCUS       NZ_CP028785             5733 bp    DNA     circular CON 26-NOV-2023
DEFINITION  Klebsiella pneumoniae strain SCKP020049 plasmid p2_020049, complete
            sequence.
ACCESSION   NZ_CP028785
VERSION     NZ_CP028785.2
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN07609113
            Assembly: GCF_002852995.3
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 5733)
  AUTHORS   Liu,L., Long,H., Feng,Y. and Zong,Z.
  TITLE     The complete genome of Klebsiella pneumoniae strain SCKP020049
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5733)
  AUTHORS   Liu,L., Long,H., Feng,Y. and Zong,Z.
  TITLE     Direct Submission
  JOURNAL   Submitted (27-SEP-2018) Center of Infectious Diseases, West China
            Hospital, Sichuan University, Guoxuexiang 37, Chengdu, Sichuan
            610041, China
  REMARK    Sequence update by submitter
REFERENCE   3  (bases 1 to 5733)
  AUTHORS   Liu,L., Long,H., Feng,Y. and Zong,Z.
  TITLE     Direct Submission
  JOURNAL   Submitted (04-APR-2018) Center of Infectious Diseases, West China
            Hospital, Sichuan University, Guoxuexiang 37, Chengdu, Sichuan
            610041, China
REFERENCE   4  (bases 1 to 5733)
  AUTHORS   Liu,L., Lu,Y., Lin,J., Yang,B., Feng,Y. and Zong,Z.
  TITLE     Direct Submission
  JOURNAL   Submitted (07-SEP-2017) Center of Infectious Diseases, West China
            Hospital, Sichuan University, Guoxuexiang 37, Chengdu, Sichuan
            610041, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.4
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 200.0x
            Sequencing Technology             :: Illumina HiSeq; MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/26/2023 02:13:51
            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)                     :: 5,396
            CDSs (total)                      :: 5,275
            Genes (coding)                    :: 5,156
            CDSs (with protein)               :: 5,156
            Genes (RNA)                       :: 121
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 119
            CDSs (without protein)            :: 119
            Pseudo Genes (ambiguous residues) :: 0 of 119
            Pseudo Genes (frameshifted)       :: 56 of 119
            Pseudo Genes (incomplete)         :: 61 of 119
            Pseudo Genes (internal stop)      :: 20 of 119
            Pseudo Genes (multiple problems)  :: 14 of 119
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP028785.2.
            On Oct 9, 2018 this sequence version replaced NZ_CP028785.1.
            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..5733
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="SCKP020049"
                     /isolation_source="pus"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="p2_020049"
                     /geo_loc_name="China: Leshan, Sichuan"
                     /collection_date="2016-10-24"
     gene            join(5547..5733,1..122)
                     /locus_tag="CLQ68_RS01040"
                     /old_locus_tag="CLQ68_01075"
     CDS             join(5547..5733,1..122)
                     /locus_tag="CLQ68_RS01040"
                     /old_locus_tag="CLQ68_01075"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012564913.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_060628143.1"
                     /translation="MTEKLKGTASVLHETKTYEELVEKHSVEVANGLLANAINTALPNA
                     GITSNDVAGFSKVTIALRTGEVDLAKTAKEANADAAAVSANIIAGLKASQKSKDEIK"
                     /name="hypothetical protein"
     gene            complement(315..1007)
                     /locus_tag="CLQ68_RS01045"
                     /old_locus_tag="CLQ68_01080"
     CDS             complement(315..1007)
                     /locus_tag="CLQ68_RS01045"
                     /old_locus_tag="CLQ68_01080"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000550475.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF3800 domain-containing protein"
                     /protein_id="WP_071556240.1"
                     /translation="MHLLYVDESGTPSDPTLNHFVLSGISVFEKQTHWIEQEMNAIAAR
                     FNTDDPYERELHGSPMRGGRDGWKNFPFDDRKQAIKDCLTLLTQKHRDIRIFACVVPKG
                     SLGGKDVITESFYQISSRFDMYLSRLHYQGATSRGVAIFDKSSTEKSIQSLARTFKDTG
                     YGYGKLRNFSEVPLFLDSKASRLIQLADLVSYSIFRKFELNDDEFYKIIEHSFDYNNGK
                     VHGLYVAH"
                     /name="DUF3800 domain-containing protein"
     gene            complement(1969..2370)
                     /locus_tag="CLQ68_RS01055"
                     /old_locus_tag="CLQ68_01055"
     CDS             complement(1969..2370)
                     /locus_tag="CLQ68_RS01055"
                     /old_locus_tag="CLQ68_01055"
                     /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_060628044.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKGEHHSGQVAEQRDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(2370..2561)
                     /locus_tag="CLQ68_RS01060"
                     /old_locus_tag="CLQ68_01060"
     CDS             complement(2370..2561)
                     /locus_tag="CLQ68_RS01060"
                     /old_locus_tag="CLQ68_01060"
                     /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_060628048.1"
                     /translation="MMKQQKTALNMAKFIQNQSLLLLEKLNELDLDVEADLCEKLHDDA
                     EHLFRTLSSRLDALQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(3328..4002)
                     /locus_tag="CLQ68_RS01065"
                     /old_locus_tag="CLQ68_01065"
     CDS             complement(3328..4002)
                     /locus_tag="CLQ68_RS01065"
                     /old_locus_tag="CLQ68_01065"
                     /inference="COORDINATES: protein motif:HMM:NF014045.3"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="NYN domain-containing protein"
                     /protein_id="WP_001259273.1"
                     /translation="MRTIVYVDGFNFYHGLVKRSGYKWLDLYKLFEEQLLPIRARESQL
                     IQVKFFTAEIKAKFATRGELAHQAQQAYHRALLQIYGEKLQIIKGYYSERQECAMTFNE
                     GYPPSKTDRTTVWKLEEKQTDVRMALEMYRDAIRGEAEQLVLCTNDSDMIPPIEMIKAD
                     RPELKIGIVVPREQDTSRVISSLASLGDWSLPYVSYEALRLALLPDKVPTRRKPILKPN
                     HW"
                     /name="NYN domain-containing protein"
     gene            4350..4766
                     /locus_tag="CLQ68_RS01070"
                     /old_locus_tag="CLQ68_01070"
     CDS             4350..4766
                     /locus_tag="CLQ68_RS01070"
                     /old_locus_tag="CLQ68_01070"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001283459.1"
                     /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_060628320.1"
                     /translation="MSDQKNNFNLQKQTLESKWGKEALSMGWSAIPTSLFFLQGALNMT
                     PTTFNVLLHLIIHWWKPYDWPHPSQESIAVRMGVSSRTVQRSLQELENYGLLTKIRTSK
                     DNPKYKGRNIYDMSLLVKSLNILTPDLNAKLNEK"
                     /name="helix-turn-helix domain-containing protein"
     Typing          2683..3086
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.103"
                     /coverage="99.0"
                     /evalue="4.61e-167"
ORIGIN
        1 gcacaggaga agttgatcta gccaaaacag cgaaagaagc gaacgctgat gctgcagctg
       61 tttcagcaaa tattattgcg ggattgaaag catcacaaaa gagcaaggat gaaataaagt
      121 gattatcagc agggtaaaaa gccacctgaa tggtggcttt tttatgtcca taacgggctg
      181 tactcactat aacatccgtt gtgcgatgct aatgagaaaa tgcaatgcag gcttcagtcg
      241 taggccctgc atcgatggaa gatagtggct acagcggcat ctgacccgga gacaacctat
      301 ccacagcgat tcaattagtg agctacgtaa agtccgtgaa ctttaccatt attgtagtca
      361 aaggaatgct caataatctt gtagaactca tcatcattga gctcaaactt cctgaaaatt
      421 gagtacgata caagatccgc aagctgaatc aaccttgacg ccttggaatc caaaaacaaa
      481 ggcacttcag agaagttacg aagttttcca tatccatatc cagtatcttt aaacgtacga
      541 gcaagagact gaatactttt ctctgttgac gatttatcaa aaatggccac ccctcgagat
      601 gttgctcctt ggtaatgtaa tcggctcaaa tacatgtcga aacgagacga tatctgataa
      661 aaagattctg ttattacgtc ctttccacct aaggatccct tgggtacaac acacgcaaat
      721 atacggatat cccgatgctt ttgagtcagg agtgttaggc aatctttgat cgcttgtttc
      781 ctgtcatcga aaggaaaatt tttccagcca tctcgcccac ctctcatagg cgaaccatgc
      841 aattctcttt catacggatc atcagtatta aatctggctg cgatagcatt catctcttgc
      901 tctatccaat gagtctgctt ttcaaacact gagataccag aaaggacaaa atgattaagt
      961 gtagggtctg atggtgtacc agactcatca acgtataaga gatgcatcga agattcctta
     1021 aacgaaaaag gccgcgcaaa tgcgcggcct tttcataaat taggcaagcc agtgcgataa
     1081 aaatcgcata caccgctatg ggcagcgaac tgactcagtg ttgagcataa caggcaaacg
     1141 catatttacc aaaataattt atacacatat cataatcatg agcaattaaa taacataaat
     1201 tcaatcggat agttgcttca tcgtcactct tatttaccat aacatccgtt atcagcaccg
     1261 cctgagaggc cctcagagcg tttctgacgg aaaaccggta aaacaggcaa caaaccaccc
     1321 gaaaacccgc cagaaacgca caggctctgt ttttacggca tgcatgagta tgcgcacaag
     1381 tgcatagcgc ggaaattgac accattcagc caggggaagt cctgtttccg gcgttcttct
     1441 cctccgaaaa cggtgaacgg ggacgcaatt tattgcgtgg ccgtgaagcg ttgccggcgc
     1501 agccggaaaa ccggttttca gcacgttcag gaatcaggtt cgtcgacggc cggcaatcac
     1561 gttatggcaa gtcaccagac gactcaccac acgattcacc ggcgattcga ctcgtgactt
     1621 gactctagag tcactacggt caaaaaaacg ccaaagcgac gattcgactc tagagtcaag
     1681 tcgtcataag ttactgatag tgtggagtga gtcgtcgatg actctatgac gagtcgtcgg
     1741 caagtcgtac acgaatcgcc gacgacttgg attcacctta cagaaagtaa tactgcgtaa
     1801 tttaataacc cacaaataac tgatattaat gagttatctt caaaatttta attttgcgtg
     1861 gggtgtgggt atttttagtg gtgaggtgcg ttcagagatc tgacgatttt tgggaaggtt
     1921 caggaactcc ccgggatggc cggagaggaa aactgaagca tgacggggtc aggatttttt
     1981 ccagaatttc caccatggcg ccggggattc agttaatttt gcctggtgat tttcaagaag
     2041 gagcatggcc tgtttgaggc tgtcaatgtg cgaatccttg gacaaaagta aggtgttcag
     2101 gtgttcaatc tcctgtttca gatgacgaat cacctgttca ctctggtcag cagaggctgt
     2161 atcacgctgt tcagcgacct gtccagaatg gtgttcaccc ttcggttgtt caaagggacc
     2221 aaagacacgt aaaagctctg aagtatctac catttttgca ttgcgttcac cgctacaggt
     2281 ggacaggtca cctgctttaa ttaacctgtg cagtgttgtt ctactcttac ccgtcagtcg
     2341 ggcagcctca ctaatagaaa ctctggccat cagttaccat cctgtaatgc atccagtctt
     2401 gaggacagtg tacggaaaag atgctccgca tcatcgtgga gtttctcaca aaggtcggcc
     2461 tcgacatcga gatcaagctc attaagcttc tccagcagga gcagagactg attctggatg
     2521 aatttagcca tgttcagcgc tgttttctgt tgtttcatca taagaggcct cagagcgtca
     2581 gtgctcagtg tagggatgtt ctcttttccg cttcctcgct cactcagtcg ctatgctcct
     2641 gccgttcggc tgcggcgagc ggcaggagca tgcgtgtaaa agctcgagaa aaccgagcgg
     2701 tcgcgtgacg gggaaaagga aaggccgctt agcggccgtt tttccatagg ctccgccccc
     2761 ctgacaagca tcacagaagc tgacgctcaa atcagtggtg gcgaaacccg acaggactat
     2821 aaagatatca ggcgtttccc cctgatggct ccctcgtgcg ctctcctgtt cctgccattc
     2881 ggtttaccgg tgtcattccg ctgttatggc cgcgtttatc tcattccacg cctgacactc
     2941 agttccgggt aggcagttcg ctccaagctg gactgtatgc acgaaccccc cgttcagccc
     3001 gactaccacg ttgtcccggt aactatcatc ttgagtccaa cccggaacag acacgaaaaa
     3061 tcgccagtgg cggtagccat tagtaagagg attcacggag cggagtagta gagtgttcta
     3121 cagagttctt gaagtggagg cctgactgcg gctacactgg aaggacagtt ttggtacctg
     3181 cgctccgtga aagccagtta ccttcggaag aaagagttgg tagctcttga ttccggcaaa
     3241 cgaaccaccg ttggtagcgg tggttttttt gtttgcaggg catgagatta cgacgagagt
     3301 aaaaggatca caagaagatc cggctgttta ccagtgattt ggcttcagta ttggtttccg
     3361 tctagtggga accttatctg gtaatagcgc taatctcaaa gcttcgtagg atacatatgg
     3421 caggctccaa tcccctaaac tagccagact actaataact cgactagtat cttgctccct
     3481 tggtactacg attccaattt tcaattcagg tcgatcggct tttatcattt ctattggcgg
     3541 tatcatatcc gaatcgttag tacagagaac caactgctct gcctcaccac gaatcgcatc
     3601 gcgatacatt tctaaagcca ttctaacgtc agtctgcttt tcttctaact tccagaccgt
     3661 tgttctatcc gttttcgatg gaggataccc ctcattgaag gtcatcgcac attcctgacg
     3721 ttctgagtag taccctttga ttatttgtag cttctcgcca taaatctgca gtaatgctcg
     3781 atggtaagct tgctgagcct ggtgagctaa ctcacctcgg gtagcaaatt tagctttgat
     3841 ctcagcagtg aagaacttca cctgaatcaa ctgtgactct cttgctctta tcggaagtag
     3901 ttgttcttca aagagcttat aaaggtccag ccacttatat cccgaacgtt tgaccaatcc
     3961 atggtaaaaa ttgaacccat ctacgtaaac tattgttctc attttatttc acgcataaaa
     4021 aaaccgcctc taagggcggt tttaacaaca aaaactaacg ttagcaaaca gtttaagttg
     4081 tagttcctca gggttaaaac taaccgagag agcggtttca agctcctgaa ggaagacgcg
     4141 taacttaatc gctgcccacc taaagggagg tttagagcct caagggagcc gcgtaactta
     4201 atcgcgctac caagaggtga gtgtagatta agtatagttg aatataatga tattataagc
     4261 gcgctggtgt cgtactaatt atatgaatta atttaccaac ctgctaagct gaagtcttct
     4321 aagaagactt cagcttagca ggttggtata tgtcagatca aaaaaataat tttaaccttc
     4381 aaaaacaaac acttgaatct aaatggggaa aggaagcatt aagcatgggc tggtcagcta
     4441 ttcctacatc acttttcttc ttacagggtg cgctcaatat gacacccaca acattcaatg
     4501 tcttactcca tctaattatc cactggtgga aaccctacga ttggccacat ccctctcagg
     4561 agagcattgc agttagaatg ggtgtttcat caagaacagt gcaacgctca ctccaagaac
     4621 ttgaaaacta cggattgctt acaaaaattc gtacaagtaa ggacaaccct aagtacaaag
     4681 gaagaaacat ttacgatatg tctcttttgg ttaagtcact aaatattctt actcctgacc
     4741 ttaacgccaa actgaacgaa aaataaccgc aaaatacatt taaaatcagg ccaccgtcgt
     4801 agcaggttta ccatttatca ggtctgtatc tcggactccg ccaagatgaa caggggattg
     4861 ccggcacact ctgcactcac cttagatcaa aatttaatca ccacgaaaga tgatctaaga
     4921 tagtgcttta caagcaaaac atcttaataa tatattcatt aaataaaatg aatatttaat
     4981 ggaaagcctt aaatgcctgg aaaaaagtgc cccttctgta acaagctgac cctcttcgga
     5041 aacagctgta cttcttgcaa tgctgtagtg agaacaccac caaacgaagg ccggggcgga
     5101 agaggtaagc aatgtccatt ttgtaagaca atgacactgt tcaaagatgg tacgaatgga
     5161 tctctaaaat gctccatgtg tcagcgtaag ttttccccat cgtaaggggg aaaatgtcac
     5221 acccagtagg aaagcacgta tcgaaaaagc aagaacacga acttaattac tggctaaaaa
     5281 agagggggtt caaagagagt aaacatcact agtgtggctg attgggtgag caaagctagg
     5341 actaggaatg cctagcaatg agtatctcga tgcatgccga attagataaa tactttcaag
     5401 ataacaaagg gttatgggtt gacgaatttg agacaaaatg atctctgtta catctgagat
     5461 aaattccata acgtgggatt tatccattta aaatcaaaac aatatgtaaa atcccacatc
     5521 taaattatca cagacaagag gtttacatga ccgagaaact gaaaggaacg gctagtgttc
     5581 tgcatgaaac caaaacttat gaggaattgg ttgagaagca ttcagtagaa gtcgctaacg
     5641 gcttgctggc aaatgcgatc aatactgctt tgcctaacgc aggaataact tcaaatgacg
     5701 tcgccggatt cagcaaggtg acgatagcct tgc
//
