LOCUS       NZ_CP059307             4167 bp    DNA     circular CON 10-JAN-2024
DEFINITION  Klebsiella pneumoniae strain Kp46596 plasmid pKp46596-5, complete
            sequence.
ACCESSION   NZ_CP059307
VERSION     NZ_CP059307.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15578212
            Assembly: GCF_013694405.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4167)
  AUTHORS   Chen,L.
  TITLE     Genome sequencing of Kp46564 and Kp46596
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4167)
  AUTHORS   Chen,L.
  TITLE     Direct Submission
  JOURNAL   Submitted (19-JUL-2020) HMH-CDI, Hackensack-Meridian Health Center
            for Discovery and Innovation, 340 Kingsland Street, Building 102,
            Nutley, NJ 07110, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 01-SEP-2019
            Assembly Method                   :: Unicycler v. v0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x
            Sequencing Technology             :: Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/10/2024 01:29:58
            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)                     :: 5,730
            CDSs (total)                      :: 5,608
            Genes (coding)                    :: 5,473
            CDSs (with protein)               :: 5,473
            Genes (RNA)                       :: 122
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 135
            CDSs (without protein)            :: 135
            Pseudo Genes (ambiguous residues) :: 0 of 135
            Pseudo Genes (frameshifted)       :: 57 of 135
            Pseudo Genes (incomplete)         :: 79 of 135
            Pseudo Genes (internal stop)      :: 22 of 135
            Pseudo Genes (multiple problems)  :: 18 of 135
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP059307.1.
            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..4167
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="Kp46596"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="pKp46596-5"
                     /collection_date="2009"
                     /collected_by="CDI"
     gene            join(3080..4167,1..28)
                     /locus_tag="H1D28_RS00060"
                     /old_locus_tag="H1D28_00060"
     CDS             join(3080..4167,1..28)
                     /locus_tag="H1D28_RS00060"
                     /old_locus_tag="H1D28_00060"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_019405083.1"
                     /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_012579087.1"
                     /translation="MIKEISLKNFKCFNELYLKQLKTLNIIAGKNNYGKTSILDAIFCF
                     YDVKNPAVLLNIQAFRKEMAEINKNKPFWVSYFHDMDTSQKMSIVIRDERSEVTQTYET
                     ETNQRLESSLSLNVDTVLSNQNIPRQTIGSQATVNSLKINVTETPNAKNRVSNKLFSMQ
                     LKEDGVEIKSEIKNERDGINYKFKTATIITTSRKINKEATITNVSSLLTQKRKKDILEN
                     LKKIDDRIVDIAISAIGNNKEIYLDIGFSELNEISMLGEGISRALSFISSVLVQENSII
                     LIDEIENGIHYSVIKDIIKSLISSAKQNNNQIFATTHSQDVIRAINEIDSKNEDIAYIR
                     LGREKNSLKPTAVQFNMDDFSYSVENDWEVR"
                     /name="ATP-binding protein"
     gene            28..660
                     /locus_tag="H1D28_RS00065"
                     /old_locus_tag="H1D28_00065"
     CDS             28..660
                     /locus_tag="H1D28_RS00065"
                     /old_locus_tag="H1D28_00065"
                     /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            1026..1268
                     /locus_tag="H1D28_RS00070"
                     /old_locus_tag="H1D28_00070"
     CDS             1026..1268
                     /locus_tag="H1D28_RS00070"
                     /old_locus_tag="H1D28_00070"
                     /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"
     gene            complement(1614..2015)
                     /locus_tag="H1D28_RS00075"
                     /old_locus_tag="H1D28_00075"
     CDS             complement(1614..2015)
                     /locus_tag="H1D28_RS00075"
                     /old_locus_tag="H1D28_00075"
                     /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(2015..2206)
                     /locus_tag="H1D28_RS00080"
                     /old_locus_tag="H1D28_00080"
     CDS             complement(2015..2206)
                     /locus_tag="H1D28_RS00080"
                     /old_locus_tag="H1D28_00080"
                     /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            2622..2735
                     /locus_tag="H1D28_RS28470"
                     /pseudo=""
     CDS             2622..2735
                     /locus_tag="H1D28_RS28470"
                     /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"
     Typing          2328..2735
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.399"
                     /coverage="99.0"
                     /evalue="5.92e-171"
ORIGIN
        1 agttgagaac gactgggagg taagataatg aaagacataa ataatagcaa aaagatcatt
       61 ttcgttgagg gtgatgatga ttttcatttt ctatgcaacc tacttgaaat acaaggcatt
      121 accgatgttt ttgtcgaaaa aataaatgga aaatcaaaat taaaacaagc acttagagca
      181 ttcaaaaaca ttgattcttt cgatgaaaaa gaaagtattt ttattatatt agatgctgac
      241 acatcatttt ctgacacaga aagatcaata attgccacat tgcgagaact acaaatctcc
      301 tcccccagct cgcataacga gatagctatg aatggcaata caaaaatttc tttctttata
      361 atgccaggaa aagacaagca aggtgccatt gaagatctga taattgaaca cgcaagcact
      421 cgagcgttat atgaatacat aatagaattt ttcgaaaaaa ttaaaaataa taaagatgac
      481 atctcagcga gtgacaaaga gtacacttat ccaacaaacg aaaaaaaagc taaggtacaa
      541 gtctatctta gctgcaatag agaatccgac tcaagaatag gaatatccat gaaaaatgga
      601 ataataaaca cagcagacaa ttgctttgat gaaataaaag attttatttc aaaaatataa
      661 atccaaatca agccagccct tcacgggctg gcttatcacc agggtgttat taaacgccgg
      721 ataacgtata gaaagcatca tacactttag ttatcagcaa tctcaaacgt cctaaagaca
      781 tcaccagatg ccaaaacaat gattgtgcag atctaatgta aaagacccag cacaagatgc
      841 tcccttaagt tatattctct ctattcactt aaaacaattt aacataaaat cataattgta
      901 cgcaccgcta aaacggactc aggacgtttc tgacgggaaa ccggtaaaac aggcaacaaa
      961 ccacccgaaa acccgccaga aacgcgcagg ctctgttttt acggcatgca tgagtatgcg
     1021 cgcaagtgca tagcgcggaa attcacacca ttcagccagg ggaagtcctg tttccggcgt
     1081 tcttctcctc cgaaaacggt gaacggggac gcaatttatt gcgtggccgt gaagcgttgc
     1141 cggcgcagcc ggaaaaccgg ttttcagcac cttcaggaat cgggttcgtc gacggccggc
     1201 aatcacgtta tggcaagtcg ccggacgact caccacacga ttcaccggcg attcgaatcg
     1261 tgaattgaat caagagtcac catgagcaaa aaacacccaa agtgatgaat tgaatcaaga
     1321 gtcgattcat cataacaata tgataataaa gcgtgattca catatgaatc gtgggcaatt
     1381 cgtcagcgat tcgccataga gtcgtccacg acttggatct gcactttgta acacatcacc
     1441 gcacatttat ttttcattaa cccattgttg taaataagga atctgcaaaa ttttaatttt
     1501 gcgtggggtg tgggtatttt tagtggtgag gagcgttcag agatctgacg atttttggga
     1561 aggttcagga actccctggg atggccggag aggaaaactg aagcatgacg gggtcaggat
     1621 tttttccaga atttccacca tggcgccggg gattcagtta attttgcctg gtgattttca
     1681 agaaggagca tggcctgttt caggctgtca atgtgcgaat ccttggacaa aagtaaggtg
     1741 ttcaggtgtt caatctcctg tttcagatga cggatcacct gttcactctg gtcagcagag
     1801 gctgtatcac gctgtccaga gacctgtcca gaatggtgtt cacccttcgg ttgctcaaag
     1861 gggccaaaga cacgtaaaag ctctgaagta tctaccattt ttgcattgcg ctcaccgcta
     1921 caggtggaca ggtcacctgc tttaattaac ctgtgcagtg ttgttctact cttacccgtc
     1981 agtcgggcag cctcactaat agacactctg gccatcagtt accatcctgt aatgcatcca
     2041 gtctcgagga cagtgtacgg aaaagatgct ccgcatcatc gtggagtttc tcacaaaggt
     2101 cggcctcgac atcgagatca agctcgttaa gcttctccag caggagcaga gactgattct
     2161 ggatgaattt agccatgttc agcgctgttt tctgttgttt cgtcataaga ggcctcagag
     2221 cgtcagtggt cagtgtaggg atctcctctt ttccgcttcc tcgctcactc agtcgctacg
     2281 ctcctgccgt tcggctgcgg cgagcggcag gagcatgcgt agaaacgctc gagaaaaccg
     2341 agtaatcgca tggaggaaag aaggaaaggc cgcacagcgg ccgtttttcc ataggctccg
     2401 cccccctgac gagcatcacg gaatctgacg ctcaaatcag tggtggcgaa acccgacagg
     2461 actataaaga taccaggcgt ttccccctga tggctccctc gtgcgctctc ctgttcctgc
     2521 ctttcggttt accggtgtca ttccgctgtt atggccgcgt ttgtctcatt ccacgcctga
     2581 cactcagttc cgggtaggca gttcgctcca agctggactg tatgcacgaa ccccccgttc
     2641 agtccgactg ctgcgcctaa tccggtaact atcgtcttga gtccaacccg gaaagacacg
     2701 acaaagcgcc actggcagca gccactggta actgatttag ggagttagtc ttgaagttat
     2761 acgccagtta aagctaaact aaacgaacag ttttggtgac tgcgctccct ttaagccagt
     2821 tacctcggtt catagagcgc caactctact gaacctttcg aaaaaaccgc ccgccaaggc
     2881 ggtttttttc gttcacagcc ggaagcttac ggctgctgcc agataatctc aagaagaaag
     2941 taaaaaaaat cgattaaaac acaagcaatc aaagttaatc tttgacataa agtctagcta
     3001 atcacaatga aagctgtaca ttttattaag gtactaacaa atcgtatggc atataacaaa
     3061 aacacgaaca gaggctatca tgataaagga aataagttta aagaacttca aatgcttcaa
     3121 tgagctatat ctaaagcaat taaagacttt aaatatcata gctgggaaaa acaactacgg
     3181 gaaaacatct atactggatg ctattttttg tttttatgat gtaaaaaacc cggctgtttt
     3241 gttaaacatt caagcattca gaaaagaaat ggcagaaata aacaaaaaca agccattttg
     3301 ggttagttac tttcatgata tggacacatc acaaaagatg tccatagtca ttcgagatga
     3361 acgctctgaa gtaacacaaa catatgaaac agaaacaaat cagagattag aatcaagttt
     3421 gtctctaaac gttgacaccg tactatctaa ccaaaacata cctcgtcaaa ctatcggttc
     3481 tcaggccaca gtaaactctt taaaaataaa tgtgaccgag acacccaatg cgaaaaacag
     3541 ggtttccaat aagcttttct ctatgcaatt gaaagaagat ggcgtagaaa taaaatccga
     3601 aataaaaaac gaaagggatg ggattaatta taaatttaag acagcaacaa taataacaac
     3661 atccagaaag ataaacaaag aggcaacaat tacaaatgta tctagcctac taacacaaaa
     3721 aaggaaaaaa gacatactag aaaacttaaa aaaaatagat gacagaattg tagatatagc
     3781 aatatctgcg ataggtaaca ataaggaaat atatttagac attggattta gtgagctaaa
     3841 tgaaatatca atgcttggcg agggtatcag tcgagcatta tcttttatca gctcagtgct
     3901 ggtacaggaa aactcaatta ttcttattga tgaaatcgag aacggaatac attactcagt
     3961 aattaaagac ataataaaat cattaatttc atctgcaaaa caaaacaaca atcaaatatt
     4021 tgcaacaact catagtcaag atgtgatacg agcaataaac gaaatagata gcaaaaatga
     4081 agatatcgct tatattagac taggaagaga aaagaactcc ctaaaaccaa cagccgtaca
     4141 attcaatatg gatgatttct cctactc
//
