LOCUS       NZ_CP023252             4426 bp    DNA     linear   CON 26-NOV-2023
DEFINITION  Klebsiella pneumoniae strain CCUG 70742 plasmid pKpn70742_3.
ACCESSION   NZ_CP023252
VERSION     NZ_CP023252.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN07602587
            Assembly: GCF_003194285.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4426)
  AUTHORS   Johnning,A., Karami,N., Tang Hallback,E., Muller,V., Nyberg,L.,
            Boungermino Pereira,M., Stewart,C., Ambjornsson,T., Westerlund,F.,
            Adlerberth,I. and Kristiansson,E.
  TITLE     The resistome and induced phenotype of carbapenem-resistant
            pathogens
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4426)
  AUTHORS   Johnning,A.
  TITLE     Direct Submission
  JOURNAL   Submitted (05-SEP-2017) Department of Mathematical Sciences,
            Chalmers University of Technology, Chalmers University of
            Technology, Gothenburg SE-412 96, Sweden
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: SPAdes v. v3.7.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 71.0x
            Sequencing Technology             :: Illumina MiSeq; PacBio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/26/2023 01:28:40
            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)                     :: 5,306
            CDSs (total)                      :: 5,180
            Genes (coding)                    :: 5,074
            CDSs (with protein)               :: 5,074
            Genes (RNA)                       :: 126
            rRNAs                             :: 10, 9, 9 (5S, 16S, 23S)
            complete rRNAs                    :: 10, 9, 9 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 106
            CDSs (without protein)            :: 106
            Pseudo Genes (ambiguous residues) :: 0 of 106
            Pseudo Genes (frameshifted)       :: 42 of 106
            Pseudo Genes (incomplete)         :: 61 of 106
            Pseudo Genes (internal stop)      :: 15 of 106
            Pseudo Genes (multiple problems)  :: 10 of 106
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP023252.1.
            Bacteria and source DNA available from Klebsiella pneumoniae CCUG
            70742.
            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/
FEATURES             Location/Qualifiers
     source          1..4426
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="CCUG 70742"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /culture_collection="CCUG:70742"
                     /db_xref="taxon:573"
                     /plasmid="pKpn70742_3"
                     /geo_loc_name="Sweden: Gothenburg"
                     /lat_lon="57.6823 N 11.9613 E"
                     /collection_date="2012-01-20"
                     /collected_by="Clinical Microbiology Laboratory,
                     Sahlgrenska University Hospital"
     gene            <1..94
                     /locus_tag="CLH64_RS28615"
                     /old_locus_tag="CLH64_27020"
     CDS             <1..94
                     /locus_tag="CLH64_RS28615"
                     /old_locus_tag="CLH64_27020"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001549957.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=2
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_219133750.1"
                     /translation="EGRSYRWIARELGISKNTVADIVQRHRANA"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(313..714)
                     /locus_tag="CLH64_RS27170"
                     /old_locus_tag="CLH64_27025"
     CDS             complement(313..714)
                     /locus_tag="CLH64_RS27170"
                     /old_locus_tag="CLH64_27025"
                     /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_012579088.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKGEHHSGQVSGQRDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(714..905)
                     /locus_tag="CLH64_RS27175"
                     /old_locus_tag="CLH64_27030"
     CDS             complement(714..905)
                     /locus_tag="CLH64_RS27175"
                     /old_locus_tag="CLH64_27030"
                     /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            1321..1434
                     /locus_tag="CLH64_RS28370"
                     /old_locus_tag="CLH64_27040"
                     /pseudo=""
     CDS             1321..1434
                     /locus_tag="CLH64_RS28370"
                     /old_locus_tag="CLH64_27040"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /note="internal stop; 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            1779..2894
                     /locus_tag="CLH64_RS27190"
                     /old_locus_tag="CLH64_27045"
     CDS             1779..2894
                     /locus_tag="CLH64_RS27190"
                     /old_locus_tag="CLH64_27045"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_019405083.1"
                     /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_012579087.1"
                     /translation="MIKEISLKNFKCFNELYLKQLKTLNIIAGKNNYGKTSILDAIFCF
                     YDVKNPAVLLNIQAFRKEMAEINKNKPFWVSYFHDMDTSQKMSIVIRDERSEVTQTYET
                     ETNQRLESSLSLNVDTVLSNQNIPRQTIGSQATVNSLKINVTETPNAKNRVSNKLFSMQ
                     LKEDGVEIKSEIKNERDGINYKFKTATIITTSRKINKEATITNVSSLLTQKRKKDILEN
                     LKKIDDRIVDIAISAIGNNKEIYLDIGFSELNEISMLGEGISRALSFISSVLVQENSII
                     LIDEIENGIHYSVIKDIIKSLISSAKQNNNQIFATTHSQDVIRAINEIDSKNEDIAYIR
                     LGREKNSLKPTAVQFNMDDFSYSVENDWEVR"
                     /name="ATP-binding protein"
     gene            2894..3526
                     /locus_tag="CLH64_RS27195"
                     /old_locus_tag="CLH64_27050"
     CDS             2894..3526
                     /locus_tag="CLH64_RS27195"
                     /old_locus_tag="CLH64_27050"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000804504.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF3226 domain-containing protein"
                     /protein_id="WP_012579086.1"
                     /translation="MKDINNSKKIIFVEGDDDFHFLCNLLEIQGITDVFVEKINGKSKL
                     KQALRAFKNIDSFDEKESIFIILDADTSFSDTERSIIATLRELQISSPSSHNEIAMNGN
                     TKISFFIMPGKDKQGAIEDLIIEHASTRALYEYIIEFFEKIKNNKDDISASDKEYTYPT
                     NEKKAKVQVYLSCNRESDSRIGISMKNGIINTADNCFDEIKDFISKI"
                     /name="DUF3226 domain-containing protein"
     gene            3892..4134
                     /locus_tag="CLH64_RS28245"
     CDS             3892..4134
                     /locus_tag="CLH64_RS28245"
                     /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_098963735.1"
                     /translation="MHSAEIHTIQPGEVLFPAFFSSENGERGRNLLRGREALPAQPENR
                     FSAPSGIGFVDGRQSRYGKSPDDSPHDSPAIRIVN"
                     /name="hypothetical protein"
     Typing          1027..1434
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.399"
                     /coverage="99.0"
                     /evalue="5.92e-171"
ORIGIN
        1 cgagggacgc agctatcgct ggatcgcacg cgagctcggt atcagcaaga ataccgtcgc
       61 tgacatcgtg caacgacaca gagctaacgc ttagggtgtc atttcgccct cagccggaac
      121 cgacccctaa cacatcaccg cacatttatt tttcattaac ccattgttgt aaataaggaa
      181 tctgcaaaat tttaattttg cgtggggtgt gggtattttt agtggtgagg agcgttcaga
      241 gatctgacga tttttgggaa ggttcaggaa ctccctggga tggccggaga ggaaaactga
      301 agcatgacgg ggtcaggatt ttttccagaa tttccaccat ggcgccgggg attcagttaa
      361 ttttgcctgg tgattttcaa gaaggagcat ggcctgtttc aggctgtcaa tgtgcgaatc
      421 cttggacaaa agtaaggtgt tcaggtgttc aatctcctgt ttcagatgac ggatcacctg
      481 ttcactctgg tcagcagagg ctgtatcacg ctgtccagag acctgtccag aatggtgttc
      541 acccttcggt tgctcaaagg ggccaaagac acgtaaaagc tctgaagtat ctaccatttt
      601 tgcattgcgc tcaccgctac aggtggacag gtcacctgct ttaattaacc tgtgcagtgt
      661 tgttctactc ttacccgtca gtcgggcagc ctcactaata gacactctgg ccatcagtta
      721 ccatcctgta atgcatccag tctcgaggac agtgtacgga aaagatgctc cgcatcatcg
      781 tggagtttct cacaaaggtc ggcctcgaca tcgagatcaa gctcgttaag cttctccagc
      841 aggagcagag actgattctg gatgaattta gccatgttca gcgctgtttt ctgttgtttc
      901 gtcataagag gcctcagagc gtcagtggtc agtgtaggga tctcctcttt tccgcttcct
      961 cgctcactca gtcgctacgc tcctgccgtt cggctgcggc gagcggcagg agcatgcgta
     1021 gaaacgctcg agaaaaccga gtaatcgcat ggaggaaaga aggaaaggcc gcacagcggc
     1081 cgtttttcca taggctccgc ccccctgacg agcatcacgg aatctgacgc tcaaatcagt
     1141 ggtggcgaaa cccgacagga ctataaagat accaggcgtt tccccctgat ggctccctcg
     1201 tgcgctctcc tgttcctgcc tttcggttta ccggtgtcat tccgctgtta tggccgcgtt
     1261 tgtctcattc cacgcctgac actcagttcc gggtaggcag ttcgctccaa gctggactgt
     1321 atgcacgaac cccccgttca gtccgactgc tgcgcctaat ccggtaacta tcgtcttgag
     1381 tccaacccgg aaagacacga caaagcgcca ctggcagcag ccactggtaa ctgatttagg
     1441 gagttagtct tgaagttata cgccagttaa agctaaacta aacgaacagt tttggtgact
     1501 gcgctccctt taagccagtt acctcggttc atagagcgcc aactctactg aacctttcga
     1561 aaaaaccgcc cgccaaggcg gtttttttcg ttcacagccg gaagcttacg gctgctgcca
     1621 gataatctca agaagaaagt aaaaaaaatc gattaaaaca caagcaatca aagttaatct
     1681 ttgacataaa gtctagctaa tcacaatgaa agctgtacat tttattaagg tactaacaaa
     1741 tcgtatggca tataacaaaa acacgaacag aggctatcat gataaaggaa ataagtttaa
     1801 agaacttcaa atgcttcaat gagctatatc taaagcaatt aaagacttta aatatcatag
     1861 ctgggaaaaa caactacggg aaaacatcta tactggatgc tattttttgt ttttatgatg
     1921 taaaaaaccc ggctgttttg ttaaacattc aagcattcag aaaagaaatg gcagaaataa
     1981 acaaaaacaa gccattttgg gttagttact ttcatgatat ggacacatca caaaagatgt
     2041 ccatagtcat tcgagatgaa cgctctgaag taacacaaac atatgaaaca gaaacaaatc
     2101 agagattaga atcaagtttg tctctaaacg ttgacaccgt actatctaac caaaacatac
     2161 ctcgtcaaac tatcggttct caggccacag taaactcttt aaaaataaat gtgaccgaga
     2221 cacccaatgc gaaaaacagg gtttccaata agcttttctc tatgcaattg aaagaagatg
     2281 gcgtagaaat aaaatccgaa ataaaaaacg aaagggatgg gattaattat aaatttaaga
     2341 cagcaacaat aataacaaca tccagaaaga taaacaaaga ggcaacaatt acaaatgtat
     2401 ctagcctact aacacaaaaa aggaaaaaag acatactaga aaacttaaaa aaaatagatg
     2461 acagaattgt agatatagca atatctgcga taggtaacaa taaggaaata tatttagaca
     2521 ttggatttag tgagctaaat gaaatatcaa tgcttggcga gggtatcagt cgagcattat
     2581 cttttatcag ctcagtgctg gtacaggaaa actcaattat tcttattgat gaaatcgaga
     2641 acggaataca ttactcagta attaaagaca taataaaatc attaatttca tctgcaaaac
     2701 aaaacaacaa tcaaatattt gcaacaactc atagtcaaga tgtgatacga gcaataaacg
     2761 aaatagatag caaaaatgaa gatatcgctt atattagact aggaagagaa aagaactccc
     2821 taaaaccaac agccgtacaa ttcaatatgg atgatttctc ctactcagtt gagaacgact
     2881 gggaggtaag ataatgaaag acataaataa tagcaaaaag atcattttcg ttgagggtga
     2941 tgatgatttt cattttctat gcaacctact tgaaatacaa ggcattaccg atgtttttgt
     3001 cgaaaaaata aatggaaaat caaaattaaa acaagcactt agagcattca aaaacattga
     3061 ttctttcgat gaaaaagaaa gtatttttat tatattagat gctgacacat cattttctga
     3121 cacagaaaga tcaataattg ccacattgcg agaactacaa atctcctccc ccagctcgca
     3181 taacgagata gctatgaatg gcaatacaaa aatttctttc tttataatgc caggaaaaga
     3241 caagcaaggt gccattgaag atctgataat tgaacacgca agcactcgag cgttatatga
     3301 atacataata gaatttttcg aaaaaattaa aaataataaa gatgacatct cagcgagtga
     3361 caaagagtac acttatccaa caaacgaaaa aaaagctaag gtacaagtct atcttagctg
     3421 caatagagaa tccgactcaa gaataggaat atccatgaaa aatggaataa taaacacagc
     3481 agacaattgc tttgatgaaa taaaagattt tatttcaaaa atataaatcc aaatcaagcc
     3541 agcccttcac gggctggctt atcaccaggg tgttattaaa cgccggataa cgtatagaaa
     3601 gcatcataca ctttagttat cagcaatctc aaacgtccta aagacatcac cagatgccaa
     3661 aacaatgatt gtgcagatct aatgtaaaag acccagcaca agatgctccc ttaagttata
     3721 ttctctctat tcacttaaaa caatttaaca taaaatcata attgtacgca ccgctaaaac
     3781 ggactcagga cgtttctgac gggaaaccgg taaaacaggc aacaaaccac ccgaaaaccc
     3841 gccagaaacg cgcaggctct gtttttacgg catgcatgag tatgcgcgca agtgcatagc
     3901 gcggaaattc acaccattca gccaggggaa gtcctgtttc cggcgttctt ctcctccgaa
     3961 aacggtgaac ggggacgcaa tttattgcgt ggccgtgaag cgttgccggc gcagccggaa
     4021 aaccggtttt cagcaccttc aggaatcggg ttcgtcgacg gccggcaatc acgttatggc
     4081 aagtcgccgg acgactcacc acacgattca ccggcgattc gaatcgtgaa ttgaatcaag
     4141 agtcaccatg agcaaaaaac acccaaagtg atgaattgaa tcaagagtcg attcatcata
     4201 acaatatgat aataaagcgt gattcacata tgaatcgtgg gcaattcgtc agcgattcgc
     4261 catagagtcg tccacgactt ggatctgcac tttgtaacag gggtcggttc cggctgaggg
     4321 cgaaatgaca ccctaagctt tcggttcctt gggccaaaga tattcgccag tcagtagaat
     4381 gtgcgcccag cccaatgggg atatgtgggg aagaaattca ggggga
//
