LOCUS       NZ_CP023983             5399 bp    DNA     circular CON 08-JAN-2024
DEFINITION  Klebsiella variicola strain X39 plasmid pX39-6, complete sequence.
ACCESSION   NZ_CP023983
VERSION     NZ_CP023983.1
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 5399)
  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  JOURNAL   Unpublished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 5399)
  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
            CP023983.1.
            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..5399
                     /organism="Klebsiella variicola"
                     /mol_type="genomic DNA"
                     /strain="X39"
                     /isolation_source="sputum"
                     /host="Homo sapiens"
                     /db_xref="taxon:244366"
                     /plasmid="pX39-6"
                     /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            complement(join(5264..5399,1..14))
                     /locus_tag="BC497_RS32115"
     CDS             complement(join(5264..5399,1..14))
                     /locus_tag="BC497_RS32115"
                     /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_162893632.1"
                     /translation="MANDWQPYFDRADRPRVNAWQTLTNDGWGCVTRTTRPTPPADTGQ
                     RSAP"
                     /name="hypothetical protein"
     gene            complement(44..310)
                     /locus_tag="BC497_RS30105"
                     /old_locus_tag="BC497_30050"
     CDS             complement(44..310)
                     /locus_tag="BC497_RS30105"
                     /old_locus_tag="BC497_30050"
                     /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_117339840.1"
                     /translation="MDYLLGKDRQREQASVLRGNPEYVRELIDGCDFARAYTSGVLSFQ
                     EPDIADAEKSRLMDEWEYTLLPGLDRDQYACLWWSTATRDGLS"
                     /name="hypothetical protein"
     gene            complement(348..671)
                     /gene="mobC"
                     /locus_tag="BC497_RS33230"
                     /old_locus_tag="BC497_30055"
                     /pseudo=""
     CDS             complement(348..671)
                     /gene="mobC"
                     /locus_tag="BC497_RS33230"
                     /old_locus_tag="BC497_30055"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001715145.1"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization relaxosome protein MobC"
                     /name="mobC"
     gene            1840..2130
                     /locus_tag="BC497_RS32120"
     CDS             1840..2130
                     /locus_tag="BC497_RS32120"
                     /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_162893631.1"
                     /translation="MTSYQKYMAMGTVYEQDKHLLANKKSVSSLKIDGETSLSRMDICL
                     HFIFPLVAAFITCYFFKVMPTPVVGIMVNFGSITTALLMSAVVMVYDQKAK"
                     /name="hypothetical protein"
     gene            complement(2407..3342)
                     /locus_tag="BC497_RS30120"
                     /old_locus_tag="BC497_30065"
                     /pseudo=""
     CDS             complement(2407..3342)
                     /locus_tag="BC497_RS30120"
                     /old_locus_tag="BC497_30065"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016946055.1"
                     /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(3535..3800)
                     /gene="nadS"
                     /locus_tag="BC497_RS30125"
                     /old_locus_tag="BC497_30070"
                     /pseudo=""
     CDS             complement(3535..3800)
                     /gene="nadS"
                     /locus_tag="BC497_RS30125"
                     /old_locus_tag="BC497_30070"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000007431.1"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="NadS family protein"
                     /name="nadS"
     gene            complement(3819..4148)
                     /locus_tag="BC497_RS30130"
                     /old_locus_tag="BC497_30075"
                     /pseudo=""
     CDS             complement(3819..4148)
                     /locus_tag="BC497_RS30130"
                     /old_locus_tag="BC497_30075"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015873600.1"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system RelE/ParE family
                     toxin"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     gene            complement(4336..4539)
                     /locus_tag="BC497_RS30135"
                     /old_locus_tag="BC497_30080"
     CDS             complement(4336..4539)
                     /locus_tag="BC497_RS30135"
                     /old_locus_tag="BC497_30080"
                     /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="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_228711909.1"
                     /translation="MTEMEKQLLSALESLQTSYEQQQQAWQDSYSSLQHMFEATSQALT
                     HSDRVCQHLSSQVDSLRARSRA"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(4600..4830)
                     /locus_tag="BC497_RS32880"
     CDS             complement(4600..4830)
                     /locus_tag="BC497_RS32880"
                     /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_228711910.1"
                     /translation="MGDNLVSGHDHHLAPERNGQLQPAAGEPESEKRRGVTIYSDDTRR
                     NTYLVVLPKQAHGVETYTSTTDNTVVKYTAK"
                     /name="hypothetical protein"
     Typing          complement(48..358)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.038"
                     /coverage="100.0"
                     /evalue="3.16e-63"
ORIGIN
        1 cagtcgtttg ccactctgca attcgatgtt gggatgacaa aattcagctc aagccgtccc
       61 ttgtcgcggt gctccaccac aggcaggcgt actggtcacg gtcgagacca ggcagcagcg
      121 tgtactccca ttcgtccatc aggcgtgatt tctcggcatc tgcaatgtcc ggctcctgaa
      181 atgacagcac gccggaagta taggcgcggg caaagtcgca gccgtctatc aactcgcgga
      241 cgtattcagg attgccgcgc agtacgctgg cctgttcgcg ctgccggtct tttccaagca
      301 ggtaatccac aggaccactg ccggaacctg caccgcgtga gtgaatttta acgatcacgg
      361 ttctgctcgc aggtcgccaa gctgacggtc aggctggtca gtacgacgag caacgaggca
      421 cgttcagaag gcgtcaggga atcagtctgg ttcaggcggc gggcaatctg gttcagattg
      481 ttgccatccc gctgacctgt cgaagcagtt cgggcgccac ctcaggcaca cggcgcttgc
      541 gtgaggtgtg ttcacccaga cctagctgac gcagccactc cgcaaggtga gtccggtcgg
      601 cagcgatcaa gcagtcgctg atgctcggtt tcggtgagcc ggattttgat ctctttcgtt
      661 cgcttttcca taggctccgc tgagaaaaaa ttcgcaccac tgtgagaatt tttcgcagtg
      721 gatgccgggg tttcgggggg gcgagcccct gaaccagtca cagaaggcac ctcgtagagg
      781 gacgctgtgt gtactgcttg gagtaaagtc agtatgtcag attctgtgct ggctgcaaaa
      841 aaaacagccc tctttagcag agggctgtta tctgatatag gcttgtttca gtgcaaagct
      901 ttgtgttgta ggattaacaa aagaaaaatt aatcattaac ggtaggtttt actatgcact
      961 cagtccacat gtctgctttt cgtgtgttaa caaagcaaga gcaagaacat catttaagct
     1021 tggcgaactg aataacgatc aaagcttcaa tgcgtatgag atagtgaagg ggattctaaa
     1081 cagaaactta agtatcccac tggaagatag cgacactaag ctgattgtct ctataccacc
     1141 aggaaatctg cacttcgacg atagtaaaag aactatatct ggctatgtta atgcaggccg
     1201 ctatggtgaa aattatactg tcaggcaaaa aatgctctct tccgccagcc ataaacaggt
     1261 taaccacgat gaggttactg agaaaaaaga tatatattca tgtaccttcc agatagcttg
     1321 gacacaggta tcattgcatt tcacgaaacg gcaaggctga atgcgagaac gccaataaag
     1381 agaataattg agctaggctt tagcgcccac actccatctt ttgaggccag agtaagccac
     1441 tccttcatca aagcatccct caaggcataa aaaattcgga tgttgttgaa ataaaggctg
     1501 ttggatacaa agtaagtaat gacacagctg atgctatgcg attaattgga aacagaacga
     1561 ccgctgaaat catcataaag aataaaggct attcaatggg gaaagtttct gatttcttag
     1621 gaagaagtaa atcgcagaat gaactgctag aggtgctgga accagctagt gataaaataa
     1681 aaataacagc ccaagtaaat gggaaaaaag agtctatgat ctgggtgaca tacttgccaa
     1741 aggcgtatcg atcaccctga tgatgctgcc tcaacataga tccgctgacg caagagccaa
     1801 acaaacagtc cttgcacaat gcgataaaaa cagaaataaa tgacttctta tcagaaatat
     1861 atggcaatgg gtacagtata tgaacaagat aaacatttac tggctaataa gaaatcagtt
     1921 tctagcttga aaattgatgg tgaaacatcc ctatcaagga tggatatatg cctgcatttc
     1981 atattcccct tggtggcagc cttcattact tgttattttt tcaaggtaat gcctacacct
     2041 gttgttggaa ttatggttaa ctttggttcg attacaacgg ctttacttat gagcgctgtt
     2101 gttatggtat atgatcaaaa agcaaaataa tagagaaaga gagagggaaa aagagaaagg
     2161 agaaaatagt gtggaagata aaataaaaac ctacactaaa aacatctcat tatataaaga
     2221 gctttgcaga aacatttgct tcgcgatatt aacatcaata ataattgtaa tattatcagc
     2281 aatcctatcc ttttatgata catcaataaa ggatttatct acatgtcatc tttactctat
     2341 tatcattctt ttgttatgct ttctttatat ctacaatgat aacattttta atgatcctaa
     2401 agagatttag cataatacta gataactaag tattattttt tttattatga agtaggttct
     2461 tctactcact cccaatttga cccatggttt ttcactttct tgtgaacatg ggtcttgctt
     2521 tcttcccctc cacggctttt cactccccct ttttttcctc ttaatgactg tatttctgag
     2581 ctatgcgttc ttagaacgta gtttttgaat ccatcatcag aaaagttaga caaagtccat
     2641 tttgagatgc ttttagcaat attcttaact tcagaatcgt ctagcggtgc tgaaaattgc
     2701 agattgtagg cgctggctcg atcgtaacac gcttgcagcc actgctcgta tgcgggccag
     2761 ccttgccgga tggcgcggta tgcccacttg cgggttttat cgaacagggt gcagttgcgg
     2821 cctaagccgt agtcggcaac gatttctttg tcgtttgccg cattcaggtc gagaaagtca
     2881 gccagccagt ccagcgtgta gagttccggc tgccacacgg caattttcca gtgaccgtgg
     2941 ttcggatttt tgcagattaa ccccgaatac cccgcgtcag cctctaattt tttacgcagc
     3001 gcgttctcca cggcggcagc gtagcgcagc ggcttcattt tcccgtcagg tgcggtgcgt
     3061 atcgaggttt ccagcgcgta cagcaggtgc gcgtgtccgt tttccggttg gtgatggtca
     3121 gcgtgggcgc ggcgcgttgc gatcgctcca gtcgatggcg gcaccggcgc gatcgacgtc
     3181 gaatcccagc cagaacatgg cgtgaggctg attgaactgg atgtatttcg ccagaatggc
     3241 gcgttctttc cctgcaatgc gtacaccaaa gtgtaaatca tccgagaagt acggcttgtg
     3301 cggtaagcgg tcgttgaaaa gttcgagtac tgcgttattc aattcgccct gcgcttatgg
     3361 cgggctgttg tctggcacgt ttcatgtgct aatatccttt caaggtttcg acctggccct
     3421 ggttatcatg tgcatccgcc aagattgagc atgatttccg gggctttgtt ttttctgttg
     3481 ccgttaaatt acacgcgaac ggcctcgcct gtctaatcct tctgtcacaa cggcttagtg
     3541 cgccgccagt tcctggaaga atttcgggtt cgcctggatg gttgccagta ccttcgccgc
     3601 cagtccggtc gggttacggc gtccggtttc ccagctcttg atggtgtcga ggctggttcc
     3661 cagcactttt gccatctcgc tctgagatac gttcagctgt gccctgatgg ctttcacgtc
     3721 tgccagctcg taacgggtga cgcgggctgg ctctctgacg ccgttttgat ttcaacggct
     3781 tcttccagcg atgctttcag ctcgtcaaaa aactcatgtc acacctcgtc tttcagttgt
     3841 tgggtcagcg tcttcagcgc ggctttttcc gcgtccgtca ggctgtcttt ggtcttttcg
     3901 ggtaggccat caccagatag atcacctcgg cggtggccag aaagtaaatc accctcacgc
     3961 tgccgctttt tccctggttg cccgtcgcca tcctgatttt tcgcagcccg ccggttttct
     4021 gaatgagatc gcctttgtcc ggcgactcaa tcagcgtctt ttgcagctcc ctgagttctt
     4081 catccgtgcg atctgtttta ctgacgggta aacatcgggg tctcgataaa ctcaatcgcg
     4141 tgactcacgg ctgtctcctg tttttaacga gtacatagta cacttaattc tgatttcgga
     4201 aaggcggtca catcgagggg ccatagtaac gagtcgtttt ttctgcggct cggctctggc
     4261 tgctgctcac gcagcttctc ggcgtaggcg cggtcgtgct gcctgatcag cgcatcaagc
     4321 ggctgacatt cctgctcaag ctctcgacct ggcgcgcaag ctgtccacct gactgctcaa
     4381 gtgctgacac accctgtcgc tgtgcgttag cgcctgcgag gtagcctcga acatgtgctg
     4441 caagctgctg tagctgtcct gccacgcctg ctgctgttgc tcgtagcttg tctgtaagct
     4501 ctctaaagcg ctcagaagct gtttttccat ctcggtcatg gttttggtcg tcctcagtgt
     4561 taaaaacgcg ctgtggcgtt tcagggcgct ctgacggggt tatttcgctg tgtatttcac
     4621 cacggtgttg tcggtcgtcg acgtgtaggt ttccacgccg tgcgcctgct tcggcagcac
     4681 taccagatag gtgttccggc gcgtgtcgtc gctgtaaatc gtcacgccgc gccgcttttc
     4741 gctttcaggc tcgccagctg ctggctgtag ctgtccattt cgctcaggcg cgaggtgatg
     4801 atcgtgccct gaaaccagat tatcccccat gatgccgatc aacagggcga agcagaggaa
     4861 tacccacgca tcgccgctga aacggaggtt ctgatcatgc cagtcagcct gccgttctgc
     4921 tcgcggatag cgttgctgat gctctgcgag cttgattgca gttccgcgct gatagacgtc
     4981 tcagctcgcg aactcgcgct tcacgctctg ctcgtatcct gcgctgctgc ttcgatttct
     5041 cctcgaagcc cttcgccaaa tttaaaatct cgctcataaa tcattccttt cagccggata
     5101 ttccggccgc cgtccggatc ggcaatgctg atgctgcttt tcgtttccgc gctacggtca
     5161 ggccgtagct ttccagctgc gtccacgtcc tgccgctgcg gatcacgcct gctgcatcag
     5221 gttcatcagg gccggcggtg attctctctg cgcctgctgt ttgtcacggg gcagatcgct
     5281 ggcctgtgtc agcgggcggc gtaggtcggg tcgttcgggt cacgcagccc cagccgtcgt
     5341 tggtcagggt ctgccaggcg ttgacgcggg gacggtcggc gcggtcaaag tagggttgc
//
