LOCUS       NZ_CP023982             3374 bp    DNA     circular CON 08-JAN-2024
DEFINITION  Klebsiella variicola strain X39 plasmid pX39-5, complete sequence.
ACCESSION   NZ_CP023982
VERSION     NZ_CP023982.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN05439979
            Assembly: GCF_003429625.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella variicola
  ORGANISM  Klebsiella variicola
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 3374)
  AUTHORS   Guo,Y., Zhai,Y., Zhang,Z., Li,D. and Gao,Z.
  TITLE     Complete Genome Sequence of a Broad Host Range Clinical Klebsiella
            variicola
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3374)
  AUTHORS   Guo,Y., Zhai,Y., Zhang,Z., Li,D. and Gao,Z.
  TITLE     Direct Submission
  JOURNAL   Submitted (11-OCT-2017) Respiratory and Critical Care Medicine,
            Peking University People's Hospital, Xizhimen South Street on the
            11th, Beijing, Beijing 100044, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: SOAPdenovo v. june-2015
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 84.0x
            Sequencing Technology             :: PacBio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/08/2024 04:42:56
            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)                     :: 6,084
            CDSs (total)                      :: 5,959
            Genes (coding)                    :: 5,692
            CDSs (with protein)               :: 5,692
            Genes (RNA)                       :: 125
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 267
            CDSs (without protein)            :: 267
            Pseudo Genes (ambiguous residues) :: 0 of 267
            Pseudo Genes (frameshifted)       :: 150 of 267
            Pseudo Genes (incomplete)         :: 120 of 267
            Pseudo Genes (internal stop)      :: 40 of 267
            Pseudo Genes (multiple problems)  :: 39 of 267
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP023982.1.
            Bacteria and source DNA available from Zhancheng Gao.
            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..3374
                     /organism="Klebsiella variicola"
                     /mol_type="genomic DNA"
                     /strain="X39"
                     /isolation_source="sputum"
                     /host="Homo sapiens"
                     /db_xref="taxon:244366"
                     /plasmid="pX39-5"
                     /geo_loc_name="China:Beijing"
                     /lat_lon="39.56 N 116.20000000 E"
                     /collection_date="2010-03-11"
                     /collected_by="Peking University People's Hospital"
     gene            68..259
                     /locus_tag="BC497_RS30080"
                     /old_locus_tag="BC497_30030"
     CDS             68..259
                     /locus_tag="BC497_RS30080"
                     /old_locus_tag="BC497_30030"
                     /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            259..698
                     /locus_tag="BC497_RS33225"
                     /old_locus_tag="BC497_30035"
                     /pseudo=""
     CDS             259..698
                     /locus_tag="BC497_RS33225"
                     /old_locus_tag="BC497_30035"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_009310048.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="frameshifted; internal stop; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /name="helix-turn-helix domain-containing protein"
     Typing          2610..2824
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="82.727"
                     /coverage="100.0"
                     /evalue="3.5099999999999995e-46"
     Typing          complement(2113..2629)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="85.158"
                     /coverage="87.0"
                     /evalue="2.57e-146"
ORIGIN
        1 tctctgaacc attcgtacat ccgacccctt acggtttaca ctgagcactg atgctctgag
       61 ggcccttatg acgaaacaac agaaaacagc gctgaacatg gctaaattca tccagaatca
      121 gtctctgctc ctgctggaga agcttaacga gcttgatctc gatgttgagg cggacctttg
      181 tgagaaactc cacgatgatg cggagcatct tttccgtaca ctgtcctcga gactggatgc
      241 attacaggat ggtaactgat ggccagagtg tctattagtg aggctgcccg actgacgggt
      301 aagagtagaa caacactgca caggttaatt aaagcaggtg atctgtccac tgtagcgtga
      361 acgcaatgca aaatggtaga tacttcagag cttttacgtg tctttggtcc ctttgaacaa
      421 ccgaagggtg aacaccattc tggacaggtc tctggacagc gtgatacagc ctatgctgac
      481 caggtgaaca ggtgattcgt catctgaaac aggagattga acacctgaac accttacttt
      541 tgtccaagga ttcgcacatt gacgcctgaa acggccatgc ccttcttgaa atcaccgcaa
      601 aattaactga atcaccggcg ccatggtgga aattctggaa aaatcctgac cccgtcatgc
      661 ttcagttttc ctctccggcc atccgcggga gttcctgaac cttcccaaaa atcgtcagat
      721 ctctgaacgc tcctcaccac taaaaatacc cacaccccac gcaaaattaa aattttgaag
      781 ataactcatt aatatcagtt agttgtgggt tattaaatta cgcagtatta ctttctgtaa
      841 ggtgaatcca agtcgtcggc gattcgtgta cgacttgccg acgactcgtc atagagtcat
      901 cgacgactca cataagacta tcagtaactt atgacgactt gactctagag tcgaatcgtc
      961 attttggtgt tttttgacct tgacgactct agagtcaagt cacgagtcga atcgccggtg
     1021 aatcgtgtgg tgagtcgtcc gtcgacttgc cataacgtga ttgccggccg tcgacgaacc
     1081 cgattcctga tcgtgctgaa aacggttttc cggctgcgcc ggcaacgctt cacggccacg
     1141 caataaattg cgtccccgtt caccgttttc ggatgggaag aacgccggaa acaggactta
     1201 cccgggctga tggcgtgaat tttcgcgcta tgcactgcgt gcatactcat gcatgccgta
     1261 aaacaggcct gcgcgtttct ggcgggtttt cgggtggttt gttgcctgtt ttaccggttt
     1321 ccgtcagaac gccctgaggc cgttttagcg gtgcgcgtaa tgagacgtta tggtaaatct
     1381 ctaaggcaat atttcccgtc ccttggagcg aactactctg tatttgatct ttggtgttga
     1441 tacccgctgc ttgcagaggg ggtattcatt atcgttgttg tttgctgtaa ttgtctaaat
     1501 atatttgggg atagatacgg gtacacattc agcagatatt atgtttttcc cggatatatt
     1561 gataaatgtc tttgtttgca atgattttat ctttgaattc aatgcattct tcattcagaa
     1621 tgaaggtgtt aacaacattg tctttcattc ccaaatttgc taattctgaa gaacaacttg
     1681 caatattatt cgtgttaaaa aagttgttag tattattcta tagtatggca ttaaataaac
     1741 ctatttaaaa agtacggaat gatagtgatc ttgttcggaa tatactagtc agactttaag
     1801 tctcagggat atgaacctag aacatcgttg tattaacttg tttgagtgtt ccaatcctga
     1861 atattgatgt tatttgagta taaaggaaac ataataaata tcacaaggat attggttaac
     1921 tatttatttt taaataattt cttgagatct gacgttggac gtcgtagtct cttgccatgt
     1981 aaacgaaaaa accaccttgc agggtggttt ttcgaaggtt cagtaaaccg gcaagtttct
     2041 gaaccgtggt aacagtcttg tgcgagacgt caccaaatct gtccttttag tgtagcctca
     2101 gtctggccac cacttcaaga actcttcgta aatctctcgc acatcctgtt taccagtggc
     2161 cgctgccagt ggcgttaagt cgtgtctttc cgggttggac tcaagacgat agttaccgga
     2221 aaaggcgcag cggtcgggct gaacgggggt tcttgcatac agcccagctt ggagcgaact
     2281 gtctaaacgg aacggggcgt ggtgatttag gtaaagcttc caccactaca cggatgccgc
     2341 aggacgggaa caggagagcg caagagggag ccaccagggg aaacgcctgg tatctttata
     2401 gtcctgtcgg gtttcgccac cactgatttg agcgtcagat ttcgtgatgc ttgtcagggg
     2461 ggcggagcct atggaaaaac ggctttgccg cggccttatc gtatccctgt taagtttctt
     2521 cctggcatcc accaggaaat aaatttccgc cccattagta agcctgcacc gctcgccgca
     2581 gcgcgaacga cgcgagcgca gcgagtcagt gagcgaggaa gcggaatatc acctgaacca
     2641 gcatcttctc ctgacgccgg aaagcctcat ttcactcctg ccacatgaag cactttggca
     2701 aatcaccact tcggtttaaa atatttagcc agtatgcact ccgctagcgc tacgtgactg
     2761 gttcagggct gcgcccgcga acccgctaac acccctcagc tactggatat cacaccatgc
     2821 catctgagta tgatgaacaa ccggatgcga ctgatgctct gtttccggcg aatatgacct
     2881 ttttgactta atggctcatg ttactgaaga gaacctgcac gccccggtgg attctggccc
     2941 gcctgtcggc cgggaagcgt tatagctttt tcgctggcca gcgtacatgt aatacgctgg
     3001 tattacatgt tatttgttta ttttcatgtt gttacagatg attgtaatac gcaacgtatt
     3061 acgctaatac acgaaataac tccatttttt tcatttaatt catgcagttg cgataaaatc
     3121 gcggctgcgt taggtgtatg accatttaag gggcaaaaaa ttatcattct ggctgggtga
     3181 tctgcgcagg ttaaggatca tcggcgacga aaaagcgtct taactgcttc gttcatgctt
     3241 gcatgaacgg attatttttc cagactacag gtaaactaca ggaagactac aaaagttgat
     3301 gatttaatcc tgcgttttag tgcgatgact acagataaac tacaaaataa ctacaggata
     3361 acctcagatc cgtt
//
