LOCUS       NZ_CP040860             5840 bp    DNA     circular CON 28-NOV-2023
DEFINITION  Klebsiella pneumoniae strain Xen39 plasmid unnamed2, complete
            sequence.
ACCESSION   NZ_CP040860
VERSION     NZ_CP040860.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN11618737
            Assembly: GCF_010586985.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 5840)
  AUTHORS   Conlan,S., Thomas,P.J., Mullikin,J., Singer,J., Weaver,C. and
            Segre,J.A.
  TITLE     Whole genome sequencing of Klebsiella pneumoniae strain Xen39
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5840)
  AUTHORS   Segre,J.A. and Mullikin,J.
  TITLE     Direct Submission
  JOURNAL   Submitted (04-JUN-2019) NIH Intramural Sequencing Center, 5625
            Fishers Lane, Rockville, MD 20852, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: canu v. 1.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 230.0x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/28/2023 06:54:16
            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)                     :: 5,780
            CDSs (total)                      :: 5,658
            Genes (coding)                    :: 5,470
            CDSs (with protein)               :: 5,470
            Genes (RNA)                       :: 122
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 188
            CDSs (without protein)            :: 188
            Pseudo Genes (ambiguous residues) :: 0 of 188
            Pseudo Genes (frameshifted)       :: 65 of 188
            Pseudo Genes (incomplete)         :: 115 of 188
            Pseudo Genes (internal stop)      :: 34 of 188
            Pseudo Genes (multiple problems)  :: 20 of 188
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP040860.1.
            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..5840
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="Xen39"
                     /db_xref="taxon:573"
                     /plasmid="unnamed2"
                     /geo_loc_name="USA"
     gene            join(4865..5840,1..1397)
                     /locus_tag="FEE38_RS00365"
                     /old_locus_tag="FEE38_00405"
     CDS             join(4865..5840,1..1397)
                     /locus_tag="FEE38_RS00365"
                     /old_locus_tag="FEE38_00405"
                     /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="klebicin B-related nuclease bacteriocin"
                     /protein_id="WP_264861585.1"
                     /translation="MENKKNKKNKRRKCVMGGFNYNGEGATSSGLSSPSASDVANQFNS
                     FGGTQIRASDVSNIRSDGNGGYMADIRGQIHTVSSEEGSTTSTTVGGFDGVRSSSTGNG
                     GSQGGQGPQGQSLVMHNGQMGYWENRSSGAGNNEHTTRAFVAVGPSEAEKAARAEKVAQ
                     EKQQAEEAAKAFAAKTAAASAAAEKERQNAISAAAAAGQHQTVPDARNNLNQATAEASR
                     LKTVADNALNTAKNKRKEAIDAVPVATQAEKKYQDLQQSIKGLTLNNNGQYGTQKWEVI
                     SSNKEHDHWGYRFYPSGITKAQVDAAQNDAVNKRNAATSLASQATAAEQASLQASAAYN
                     AAETRRQAAQAALASAEQAAAAERKRHEAEAAAAAAAEKKRQADAAAKAAEEARAIAEK
                     AKALQARRTAADKLKSSEIQAVRGIPATAAPFAIPLTWSTASRGSFTLAADAAASLGAF
                     ISEALATLRVAVVANPVALTIAGLVLSKSVGVGSDMVPGRDISSMMPGDAFGLPDTAAL
                     NKAADQKTSVSMPVRGRLVMNDSGILDVQLVKTNTAGAVKVARAVLDKETGYWGYTLPA
                     VADVPAQTIFVSPADAPGANGPLTLSGPVPLPERILHTGDQISAPQATDKTVTPVADDL
                     DFDDIILVFPPESGLKPLYVMYRSPRNMPGTVSGKGQNVGNNWMGGASTGDGAPVPSQI
                     ADKLRGKTFGSFDSFRRAFWKAVADDSALSKQFSEADINQMKAGRAPTADFLESVGKRV
                     KIELHHEKEISQGGAVMDVDNIKALTPKNHIETHKGK"
                     /name="klebicin B-related nuclease bacteriocin"
     gene            1399..1656
                     /locus_tag="FEE38_RS00370"
                     /old_locus_tag="FEE38_00410"
     CDS             1399..1656
                     /locus_tag="FEE38_RS00370"
                     /old_locus_tag="FEE38_00410"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_013365855.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="bacteriocin immunity protein"
                     /protein_id="WP_032413518.1"
                     /translation="MAGNKISDFTEEEFTAFVSKIIAADFPTDKENDDAIYSFAQLTEH
                     PAGWNLIFKPKIGEDSSAKGIVKTVKEWRAANGKPGFKKA"
                     /name="bacteriocin immunity protein"
     gene            1764..1919
                     /locus_tag="FEE38_RS00375"
                     /old_locus_tag="FEE38_00415"
     CDS             1764..1919
                     /locus_tag="FEE38_RS00375"
                     /old_locus_tag="FEE38_00415"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_008323621.1"
                     /GO_component="GO:0019867 - outer membrane [Evidence IEA]"
                     /GO_process="GO:0019835 - cytolysis [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="colicin release lysis protein"
                     /protein_id="WP_071561715.1"
                     /translation="MKKLLFLGVVTVSVVLAACQVNNVRDTGGGAVSPSSTVTGVTLDS
                     GTNGNP"
                     /name="colicin release lysis protein"
     gene            complement(2124..2237)
                     /locus_tag="FEE38_RS29880"
                     /old_locus_tag="FEE38_00425"
     CDS             complement(2124..2237)
                     /locus_tag="FEE38_RS29880"
                     /old_locus_tag="FEE38_00425"
                     /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            2653..2844
                     /locus_tag="FEE38_RS00390"
                     /old_locus_tag="FEE38_00435"
     CDS             2653..2844
                     /locus_tag="FEE38_RS00390"
                     /old_locus_tag="FEE38_00435"
                     /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            2844..3245
                     /locus_tag="FEE38_RS00395"
                     /old_locus_tag="FEE38_00440"
     CDS             2844..3245
                     /locus_tag="FEE38_RS00395"
                     /old_locus_tag="FEE38_00440"
                     /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_025714819.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKGEHHSGQVSEQRDTASADHSEQVISHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(3994..4539)
                     /locus_tag="FEE38_RS00400"
                     /old_locus_tag="FEE38_00450"
     CDS             complement(3994..4539)
                     /locus_tag="FEE38_RS00400"
                     /old_locus_tag="FEE38_00450"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004178052.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_048981308.1"
                     /translation="MPLPERMKPARVTRKQMKELISQLNGILDHIDNGMDENNEELKQM
                     MADWNAKVVMPCGFSDFRDFSSWTSALDFTRMALNQEKYLDDFTWTELNDVINFIRKAE
                     GSESDHSYALQLLEINFKANPLDLIYHPDCWFNDEALFHARLTTEEIGGYLMKKSGRWL
                     NDAPDIQLVYAIPLDVYD"
                     /name="hypothetical protein"
     Typing          complement(2125..2532)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.161"
                     /coverage="99.0"
                     /evalue="5.8799999999999995e-176"
ORIGIN
        1 cggccgctga gcaggctagt ctgcaggcat cagctgccta taatgctgca gaaacgcgcc
       61 gtcaggctgc ccaggctgca ttagcgtccg cagaacaagc cgccgctgct gaacgtaaac
      121 gccatgaggc ggaagcagca gccgccgctg cggcagaaaa aaaacgacag gctgatgcag
      181 cagcgaaagc cgctgaggag gccagagcca ttgctgaaaa agcaaaagcg ctgcaggccc
      241 gtcgtacagc cgcagataaa ctgaaatctt cagagattca ggctgtcagg ggtatcccgg
      301 ctacagctgc accttttgct attcctctga cctggtcaac tgcgtcacgt ggaagtttta
      361 ctctggcggc tgatgctgcg gccagcctgg gagctttcat cagcgaggct ctggcgacgt
      421 tacgtgtcgc tgtggtggct aacccggtag cattaaccat tgccggtctt gtgttatcga
      481 aatcagttgg cgtcggtagt gatatggtgc ccggtcggga tatcagttcg atgatgcctg
      541 gcgatgcgtt tggtctgcct gataccgcgg cattgaataa agcagcagat cagaaaacat
      601 ctgtcagtat gccggttcgt ggccgtctgg ttatgaatga tagcggcatt ctggatgttc
      661 agctggtcaa aaccaatact gccggtgccg tgaaggtcgc tcgtgctgta ctggataagg
      721 aaaccggcta ctggggctat actcttcccg ctgtcgcaga tgttccggcg caaactattt
      781 ttgtcagccc ggctgacgca cctggtgcaa acggaccact gacgctaagc gggccggtac
      841 cactaccgga gcgtattctg cataccggtg atcagatttc ggcgccacag gctacagata
      901 aaaccgtgac gccggtagcg gatgacctcg attttgacga tattattctg gtgtttcctc
      961 cggaatccgg cctaaaaccg ctgtatgtga tgtaccgtag ccctcgtaac atgcccggta
     1021 cagtgagcgg caaagggcag aacgttggca ataactggat ggggggggcc agtaccgggg
     1081 atggtgctcc tgttccttcc cagattgcgg ataaattacg cgggaagact ttcggtagtt
     1141 ttgattcttt ccgtcgggcg ttctggaaag cggttgctga cgattctgca ctgagcaagc
     1201 aatttagtga agctgatatt aatcagatga aagctggaag ggcacctact gcggactttt
     1261 tagaatcagt agggaaacgt gttaaaattg aattacacca cgaaaaagaa atatctcaag
     1321 gaggggctgt tatggatgtc gataacatta aggcgctaac acctaaaaat catattgaga
     1381 cacataaagg aaaataaaat ggctggtaat aaaatttcag attttacgga agaagaattt
     1441 actgcttttg ttagtaaaat aatcgctgct gattttccaa ctgacaaaga gaacgatgat
     1501 gctatttatt cgttcgccca actaacagag catcctgctg gttggaacct catcttcaag
     1561 cctaagatag gcgaagattc ttcggcgaaa gggattgtta aaaccgtaaa ggaatggcga
     1621 gctgctaacg gtaagccagg ttttaaaaaa gcgtgattga atttgcgggt tcaagttatg
     1681 agcccgctca tttgtaactc tggatttgaa gaataattac tagatatcca tttgcctaga
     1741 ataataaaaa taaaaggtga tatatgaaaa aattactttt cctaggggtt gttaccgttt
     1801 ctgtggttct ggcagcatgt caggtcaata atgttcgaga caccggaggt ggggctgttt
     1861 caccttcatc gacggtgacc ggagtcacgc ttgatagcgg tacgaacggc aatccgtaaa
     1921 ggatcttctt gagatcccat ttggatcgtc gtaatctctt gctctgtaaa cgaaaaaacc
     1981 gccttggcgg gcggtttttt cgaaggttcg aggagttggc gctctttgaa ccgaggtaac
     2041 tggcttagag gagcgcagta accaaattcg ttctttcagt ttagccttaa ctggcacata
     2101 acttcaagac taactcctct aaatcagtta ccagtggctg ctgccagtgg cgcttttgca
     2161 tgcctttccg ggttggactc aagatgacag ttaccggata aggcgcagca gtcggactga
     2221 acggggggtt cgtgcataca gtccagcttg gagcgaactg cctacccgga actgagtgtc
     2281 aggcgtggaa tgagacaaac gcggccataa cagcggaatg acaccggtaa accgaatggc
     2341 aggaacagga gagcgcacga gggagccatc agggggaaac gcctggtatc tttatagtcc
     2401 tgtcgggttt cgccaccact gatttgagcg tcaaattctg tgatgcttgt caggggggcg
     2461 gagcctatgg aaaaacggcc gctgggcggc ctcttctttt ccgcctccct tgatcgctcg
     2521 gttttctcga gcttttataa gaacggtctt gccgctcgcc gcagccgaac gaccggagcg
     2581 tagcgactga gtgagcgagg aagcggaaaa gagattgttc ttacactgag cactgacgct
     2641 ctgaggcttc ttatgacgaa acaacagaaa acagcgctga acatggctaa attcatccag
     2701 aatcagtctc tgctcctgct ggagaagctt aacgagcttg atctcgatgt agaggccgac
     2761 ctttgtgaga aactccacga tgatgcggag catcttttcc gtacactgtc ctcgagactg
     2821 gatgcattac aggatggtaa ctgatggcca gagtgtctat tagtgaggct gcccgactga
     2881 cgggtaagag tagaacaaca ctgcacaggt taattaaagc aggtgacctg tccacctgta
     2941 gcggtgaacg caatgcaaaa atggtagata cttcagagct tttacgtgtc tttggtccct
     3001 ttgaacaacc gaagggtgaa caccattctg gacaggtctc tgaacagcgt gatacagcct
     3061 ctgctgacca tagtgaacag gtgattagtc atctgaaaca ggagattgaa cacctgaata
     3121 ccttactttt gtccaaggat tcgcacattg acagcctgaa acaggccatg ctccttcttg
     3181 aaaatcacca ggcaaaatta actgaatccc cggcgccatg gtggaaattc tggaaaaaat
     3241 cctgaccccg tcatgcttcc gttttcctct ccggccatcc cggggagttc ctgaaccttc
     3301 ccaaaaatcg ccagatctct gaacgctcct cacgactaaa aatacccaca cactacgcaa
     3361 aattaaaatt ttgcagataa ctccttaata tcagttagtt agatgttatt aaattacgct
     3421 gtattacatt ctgtaaggta aatccaagtc gtcggcgatt cgcgtacgac ttgtcgatga
     3481 ctcgtcatag agtcatcgac gactcactta agactatcag taacttatga cgacttgact
     3541 ctagagtcga gtcgtcattt tggttttttt ttgaccttgg cgactctaga gtcaagtcac
     3601 gagtcgaatc gccggtgaat cgtgtggtga gtcgtccggt gacttgccat aacgtgattg
     3661 ccggccgtcg acgaacccga ttcctgaacg tgatgaaaac cggttttccg gctgcgccgg
     3721 caacgcttca cggccacgca ataaattgcg tccccgttca ccgttttcgg ataggaagaa
     3781 cgccggaaac aggacttacc ctggctgaat ggtgtgaatt ttcgcgctat gcacttgcgt
     3841 gcatactcat gcatgccgta aaaacagagc ctgcgcgttt ctggcgggtt ttcgggtggt
     3901 ttgttgcctg ttttgccggt ttcccgtcgg aaacgccctg aggccgtttt agcggtgcgt
     3961 acaattaagg gattatggta aatggtgact tggttaatca taaacatcca gggggatggc
     4021 atacaccagt tggatatccg gtgcatcgtt gagccatcga cctgattttt tcattaagta
     4081 gccaccaatt tcttcggtag tcagccgggc atgaaacaat gcttcatcat tgaaccagca
     4141 gtcagggtga tagatgagat ccagtgggtt tgccttgaaa ttaatctcca gtaactggag
     4201 tgcatagctg tggtcagatt cactaccttc tgctttgcgt atgaagttga taacgtcgtt
     4261 cagttctgtc catgtaaagt catcgaggta tttttcctga ttaagcgcca tcctggtgaa
     4321 atctagtgca cttgtccagg atgaaaaatc acgaaaatca gagaacccgc agggcatgac
     4381 gacctttgca ttccagtctg ccatcatctg ttttagttct tcattgtttt cgtccatccc
     4441 gttatcgatg tgatcgagaa tgccattcag ctgactgatc agttctttca tctgtttacg
     4501 ggtgacccgt gcgggtttca ttcgctcagg taatggcatc agaaatactc tcttttttat
     4561 cgtgcactcg ggggaactga gtaatctatc gggctatgaa tcagagcaca aatcgttttt
     4621 ttttctttct gatgatccgc attctgcctc agatttacct ctgccgtaac ttttaaccga
     4681 ttgaaaataa ataaaaatat tgttgacgtc tgcatattga cagagctggc atgtcaagag
     4741 tagtatcaaa ctactgtata taaacacatg tttttatata cagtagtttg gcgtggcaga
     4801 gaactaataa cagcctccgg ataactgtcc tgaagcaata aaccgcacgc cggatttcag
     4861 aaaagtggaa aacaaaaaaa acaaaaaaaa caaaagaagg aaatgtgtga tgggtggatt
     4921 taattataac ggtgagggtg ctacgagctc aggccttagc tctccttctg ccagtgatgt
     4981 ggctaatcag tttaatagtt ttggtgggac gcaaatccgg gcatcagatg tctcgaatat
     5041 tcgcagtgat ggtaatggtg ggtatatggc ggatattcgg gggcagattc acactgtgtc
     5101 ctctgaagaa ggctcaacaa cttcaacaac tgtcggtggc ttcgatggtg tccgcagttc
     5161 ttctaccggt aatggcggaa gtcagggtgg gcaggggcca cagggacagt ctctcgttat
     5221 gcataacggg cagatgggat actgggaaaa ccgatcatcc ggggctggta ataacgaaca
     5281 tactacccgc gcttttgtgg cagtaggccc atcagaagca gaaaaagctg cacgagcgga
     5341 gaaggtagct caggaaaaac agcaagcaga agaggctgca aaagcattcg cagcgaaaac
     5401 agcagcggca tccgccgctg ctgaaaaaga acgtcagaat gcgatttctg ctgcggctgc
     5461 tgcaggtcaa catcaaactg ttcctgatgc gcgtaataat ctgaatcagg cgactgctga
     5521 agcatcacgc ctgaaaacag tggcagataa tgcccttaat acagcgaaga ataagcgaaa
     5581 ggaagctatc gatgccgtac cagtagcaac tcaggctgag aaaaaatatc aggatctgca
     5641 gcaaagcatt aaaggcctca ctctaaataa taacggccaa tacggtaccc aaaaatggga
     5701 ggttatcagt tcgaataaag agcatgacca ctggggatac cggttctatc catctgggat
     5761 cacaaaagct caggttgatg cagcgcagaa tgatgcggtg aacaaacgaa atgctgctac
     5821 cagtcttgcc agtcaggcaa
//
