LOCUS       NZ_CP084858             4369 bp    DNA     circular CON 10-JAN-2024
DEFINITION  Klebsiella pneumoniae strain SB1170 plasmid pKp_SB61170_2, complete
            sequence.
ACCESSION   NZ_CP084858
VERSION     NZ_CP084858.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN22024793
            Assembly: GCF_020525645.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4369)
  AUTHORS   Hawkey,J., Vezina,B., Monk,J.M., Judd,L.M., Harshegyi,T., Brisse,S.,
            Holt,K.E. and Wyres,K.L.
  TITLE     A curated collection of Klebsiella metabolic models reveals variable
            substrate usage and gene essentiality
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4369)
  AUTHORS   Hawkey,J., Vezina,B., Monk,J.M., Judd,L.M., Harshegyi,T., Brisse,S.,
            Holt,K.E. and Wyres,K.L.
  TITLE     Direct Submission
  JOURNAL   Submitted (04-OCT-2021) Infectious Diseases, Monash University, 85
            Commercial Rd, Melbourne, VIC 3004, Australia
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 01-JAN-2021
            Assembly Method :: Trycycler; Medaka; Pilon v. 0.3.3; 1.3.3; 1.23
            Assembly Name                     :: Klebsiella pneumoniae SB1170
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 50x
            Sequencing Technology :: Minion (Oxford Nanopore) and NextSeq
            500/550 (Illumina)
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/10/2024 04:24:53
            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)                     :: 5,526
            CDSs (total)                      :: 5,405
            Genes (coding)                    :: 5,294
            CDSs (with protein)               :: 5,294
            Genes (RNA)                       :: 121
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 111
            CDSs (without protein)            :: 111
            Pseudo Genes (ambiguous residues) :: 0 of 111
            Pseudo Genes (frameshifted)       :: 50 of 111
            Pseudo Genes (incomplete)         :: 55 of 111
            Pseudo Genes (internal stop)      :: 28 of 111
            Pseudo Genes (multiple problems)  :: 21 of 111
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP084858.1.
            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..4369
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="SB1170"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="pKp_SB61170_2"
                     /geo_loc_name="Netherlands"
                     /collection_date="2002"
     gene            complement(456..857)
                     /locus_tag="LGM12_RS27595"
                     /old_locus_tag="LGM12_27595"
     CDS             complement(456..857)
                     /locus_tag="LGM12_RS27595"
                     /old_locus_tag="LGM12_27595"
                     /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_023287146.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIRAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKGEHHSGQVSEQRDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(857..1048)
                     /locus_tag="LGM12_RS27600"
                     /old_locus_tag="LGM12_27600"
     CDS             complement(857..1048)
                     /locus_tag="LGM12_RS27600"
                     /old_locus_tag="LGM12_27600"
                     /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_085843021.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDVEADLCEKLHDDA
                     EHLFRTLSLRLDELQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            1464..1577
                     /locus_tag="LGM12_RS27730"
     CDS             1464..1577
                     /locus_tag="LGM12_RS27730"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_049026061.1"
                     /translation="MHEPPVQSDCCALSGNCHLESNPERHAKAPLAAATGN"
                     /name="hypothetical protein"
     gene            1879..2856
                     /locus_tag="LGM12_RS27605"
                     /old_locus_tag="LGM12_27605"
     CDS             1879..2856
                     /locus_tag="LGM12_RS27605"
                     /old_locus_tag="LGM12_27605"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001723132.1"
                     /GO_function="GO:0005524 - ATP binding [Evidence IEA];
                     GO:0016887 - ATP hydrolysis activity [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="ATP-binding protein"
                     /protein_id="WP_085843020.1"
                     /translation="MSILVKNIKAKGLFGSKDINWDLKDVNVLVGKNGAGKSTLLRSLH
                     SMLKQEGSEELTRSELMKVTLSEGGTITHTINKLSQDTDELLSTLMGFSSSIKKGKEAQ
                     KEKIKLEKLIDKIKAKKAEIKEIGFSKIEVSEDIRAKTKIKSELISTVNMSANSILPLT
                     GSDGEVTTILDMEIKNEINKLKKIINNKESECNELICKLEKSINDLFEESRKRVSFSSG
                     ELEIERIDKKEELYLSNLSSGERQVIYIMLKAANTSKEETVLLMDEPEISLHLTWQEKL
                     INSILYVNEKCQLIIVTHSPAIVMKGWMGAFVDIKNIQEETING"
                     /name="ATP-binding protein"
     gene            2849..3826
                     /locus_tag="LGM12_RS27610"
                     /old_locus_tag="LGM12_27610"
     CDS             2849..3826
                     /locus_tag="LGM12_RS27610"
                     /old_locus_tag="LGM12_27610"
                     /inference="COORDINATES: protein motif:HMM:NF025844.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF4435 domain-containing protein"
                     /protein_id="WP_064147929.1"
                     /translation="MADFEDIFIGEEYLEPYCAMIGSKGLVFVEGLKDISFWEGMLDNN
                     DDLKYSINYASHEGTRGKTVLMKFSHLANKFALFAIDSDFDYICPNNSEKSKNINSNKH
                     IIQTLVYSKESITLHHLVLSDCIKKIKIKDEITFPIKSYFESYSNEIYEVLTRFLFLKE
                     NGKAVNDSDFHKKITPIEPKINKNYFLENDPLITLREQKESLVSEYTSNELAEEDFIRF
                     RDELSIKGLNENSAAYFINGHFLEESVVMPLINELIRTLKANELEKIKIECKKNKKSIE
                     SNRNETFKYIDNELGIYKLLHDTKIKYQTSLSIMVKEANKRSLD"
                     /name="DUF4435 domain-containing protein"
     Typing          1170..1577
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.11"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 ttgccggcgc agccggaaaa ccggttttca gcacattcag gaatccggtt cgtcgatggc
       61 cggcaatcac gttatggcaa gtcaccgaac gactcaccac acgattcacc ggcgactctt
      121 cactagagtc gtacccagag tcgccacgtc taaaaaacaa ccaaacgggg agtcgggtct
      181 agagtcgggt cgttattaac tcattgtttt tatagtcatg agtcgttacc gactctatga
      241 cgactcgtca tagagtcgga tctatataaa tcaaatttaa aaaacgaaat ttaaccaact
      301 taaactactg atattaaata caaatccgca aaatgttaat tttgcgtggg gtgtgggtat
      361 ttttagtggt gaggagcgtt cagagatctg acgatttttg ggaaggttca ggaactcccc
      421 gggatggccg gagaggaaaa ctgaagcatg acgggtcagg attttttcca gaatttccac
      481 catggcgccg gggattcagt taattttgcc tggtgatttt caagaaggag catggcctgt
      541 ttcaggctgt caatatgcga atccttggac aaaagtaagg tgttcaggtg ttcaatctcc
      601 tgtttcagat gacgaatcac ctgttcactc tggtcagcag aggctgtatc acgctgttca
      661 gagacctgtc cagaatggtg ttcacccttc ggttgctcaa agggaccaaa gacacgcaaa
      721 agctctgaag tatctaccat ttttgcattg cgttcaccgc tacaggtgga caggtcacct
      781 gctctaatta acctatggag tgttgttcta ctcttacccg tcagtcgggc agcctcacta
      841 atagacactc tggccatcag ttaccatcct gtaattcatc cagtctcaag gacagtgtac
      901 ggaaaagatg ctccgcatca tcgtggagtt tctcacaaag gtcggcctca acatcgagat
      961 caagctcgtt aagcttctcc agcaggagca gagactgatt ttggatgaat ttagccatgt
     1021 tcagcgctgt tttctgttgt ttcgtcataa gaagcctcag agcgtcagtg ctcagtgtag
     1081 ggatgttctc ttttccgctt cctcgctcac tcagtcgcta cgctcctgcc gttcggctgc
     1141 ggcgagcggc aggagcatgc gtagaaacgc tcgagaaaac cgagcaatca cataacggaa
     1201 agaaggaaag gccgctcagc ggccgttttt ccataggctc cgcccccctg acaagcatca
     1261 cagaaactga cgctcaaatc agtggtggcg aaacccgaca ggactataaa gatatcaggc
     1321 gtttccccct gatggctccc tcgtgcgctc tcctgttcct gcctttcggt ttaccggtgt
     1381 cattccgctg ttatggccgc gtttatctca ttccacgcct gacattcagt tccgggtagg
     1441 cagttcgctc caagctggac tgtatgcacg aaccccccgt tcagtccgac tgctgcgcct
     1501 tatccggtaa ctgtcatctt gagtccaacc cggaaagaca tgcaaaagcg ccactggcag
     1561 cagccactgg taactgattt agaggagata gtcttgaagt tatgcgccgg ttaaggctaa
     1621 actaaacgaa cagttttggt tactgcgctc ctccaagcca gttacctcgg ttcaaagagc
     1681 gccaactcag agaaccttcg aaaaaaccgc ccgccaaggc ggttttttcg tttaaagagg
     1741 aggatacagc tatcaaaatg cgatcacaag aggcctgcgg ccacatatag gcaaatcaat
     1801 ctatagattt actacagaca gctttaaata tagaatcaat aattattatc tacataatta
     1861 catgaggtaa ttataagaat gagcatatta gtaaaaaaca taaaagcaaa aggtctattt
     1921 gggagcaaag acatcaattg ggatttaaaa gatgtcaatg ttcttgttgg taaaaatggt
     1981 gcaggaaaat caacattact gagatctctt cactccatgt taaaacaaga aggaagcgag
     2041 gagctaacta gaagtgagtt aatgaaagta accttaagtg aaggtggaac aattactcat
     2101 actattaaca aactcagtca agacactgat gaattactta gcacactaat gggcttctct
     2161 agctctataa agaaaggaaa ggaggcccaa aaagaaaaaa taaaacttga aaagttaata
     2221 gacaaaataa aagccaaaaa agcagaaata aaagaaatag gatttagcaa aatagaagtt
     2281 agtgaagaca tcagagcaaa gacaaagatc aaatctgagt tgatatcaac tgtaaatatg
     2341 agtgcaaact ctatcttacc tttaactggt agtgatggag aggtcacaac tatactcgac
     2401 atggagataa agaacgagat aaataagtta aagaaaataa tcaacaataa agaaagtgaa
     2461 tgtaacgaat taatatgtaa gctagaaaaa tcaattaacg atctttttga ggaaagcaga
     2521 aaaagagtaa gcttctcatc tggagagcta gagatagaaa gaattgacaa aaaagaagaa
     2581 ctatacctgt caaatctatc ttctggtgaa cggcaagtaa tttacattat gcttaaagcc
     2641 gctaacacct ccaaggaaga aactgtttta ttaatggatg aaccagaaat atcattacac
     2701 ttaacttggc aagaaaaact aataaactcc atactttatg ttaacgaaaa atgccaattg
     2761 attattgtaa ctcacagtcc ggccatagta atgaaaggat ggatgggtgc ttttgttgat
     2821 atcaaaaaca ttcaagagga aaccataaat ggctgatttt gaagatattt ttataggaga
     2881 ggaatatctt gagccctatt gtgcaatgat tgggagtaag ggtcttgttt ttgtcgaggg
     2941 gttaaaagac atatccttct gggaaggaat gctagataac aatgatgact taaaatacag
     3001 cataaattat gcatctcatg aaggcactag aggcaaaacc gttttaatga aatttagcca
     3061 tctagccaac aaattcgcac tatttgctat agatagtgac tttgattaca tttgccctaa
     3121 caatagcgaa aaatctaaaa atataaattc aaataaacac ataattcaaa cattagttta
     3181 ttcaaaagaa agcataaccc ttcatcatct ggtccttagt gattgcataa aaaaaataaa
     3241 aataaaagac gaaataacat tcccgataaa gagttatttt gagtcatact caaatgaaat
     3301 atatgaagta ctgacaagat tcttattttt aaaagaaaat ggcaaggctg tcaatgattc
     3361 tgattttcac aaaaagataa cacccataga accaaaaata aacaagaatt attttttaga
     3421 aaacgaccct ctaattacat taagagagca aaaagaatct ctagtatctg aatacacaag
     3481 caatgaatta gcagaagagg atttcattag gtttagagat gaattatcaa tcaaagggct
     3541 taacgaaaac agcgcagctt acttcataaa cggtcatttt cttgaagaat cagtagtcat
     3601 gccattaata aatgaattaa taagaacact taaagcaaat gaacttgaaa aaataaaaat
     3661 agaatgcaaa aaaaacaaaa aatcgataga atccaacaga aatgaaacct ttaaatatat
     3721 tgataatgaa cttggcattt ataagttgct acacgataca aaaataaaat accaaacatc
     3781 tttatcgata atggtaaaag aagctaacaa aagatcatta gattagaaag acacaccacc
     3841 aaaatatcaa taataaaaaa tttggtggtg ctcttaactt tcaaaaaaaa tacgcatcac
     3901 catatcaccc cctaacaaaa caaaaaacat atatatatca attagttaca aaaacacatt
     3961 accgcatccg ccactaaaaa ggatgcgcga tacaaaatta ccagcgagca gctcaataac
     4021 taagtcaaca tgacggcgaa cagggcgccg gaatgtggcc aacttcgcag aataacctat
     4081 tagaccctat gaggatttta ggctccatta tttaacataa agctatgatt gtacgcaccg
     4141 ctaaaacggc ctcagggcgt ttctgacggg aaaccggtaa aacaggcaac aaaccacccg
     4201 aaaacccgcc agaaacgcgc aggctctgtt tttacggcat gcatgagtat gcacgcaagt
     4261 gcatagcgcg aaaattcacg ccattcagcc agggtaagtc ctgtttccgg cgttcttccc
     4321 atccgaaaac ggtgaacggg gacgcaattt attgcgtggc cgtgaagcg
//
