LOCUS       NZ_CP024435             4167 bp    DNA     circular CON 08-MAY-2024
DEFINITION  Klebsiella pneumoniae strain DA48896 plasmid p48896_6, complete
            sequence.
ACCESSION   NZ_CP024435
VERSION     NZ_CP024435.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN05908511
            Assembly: GCF_003006175.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4167)
  AUTHORS   Nahid,F., Zahra,R. and Sandegren,L.
  TITLE     A blaOXA-181-harbouring multi-resistant ST147 Klebsiella pneumoniae
            isolate from Pakistan that represent an intermediate stage towards
            pan-drug resistance
  JOURNAL   PLoS One 12 (12), e0189438 (2017)
   PUBMED   29220374
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 4167)
  AUTHORS   Sandegren,L.
  TITLE     Direct Submission
  JOURNAL   Submitted (26-OCT-2017) Medical Biochemistry and Microbiology,
            Uppsala University, Husargatan 3, Uppsala SE-75123, Sweden
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 2017
            Assembly Method                   :: CLC Genomics Workbench v. 10
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 50.0x
            Sequencing Technology             :: Illumina MiSeq; PacBio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_003006175.1-RS_2024_05_07
            Annotation Date                   :: 05/07/2024 03:49:45
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,698
            CDSs (total)                      :: 5,575
            Genes (coding)                    :: 5,435
            CDSs (with protein)               :: 5,435
            Genes (RNA)                       :: 123
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 140
            CDSs (without protein)            :: 140
            Pseudo Genes (ambiguous residues) :: 0 of 140
            Pseudo Genes (frameshifted)       :: 55 of 140
            Pseudo Genes (incomplete)         :: 88 of 140
            Pseudo Genes (internal stop)      :: 19 of 140
            Pseudo Genes (multiple problems)  :: 20 of 140
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP024435.1.
            Bacteria and source DNA available from Linus Sandegren, Dep. of
            Medical Biochemistry and Microbiology, Husargatan 3, Box 582,
            SE-75123 Uppsala.
            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="DA48896"
                     /isolation_source="Trachaeal secretion"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="p48896_6"
                     /geo_loc_name="Pakistan"
                     /lat_lon="29.53522956 N 68.5546895 E"
                     /collection_date="2015-06"
                     /collected_by="Fouzia Nahid"
     gene            complement(join(3996..4167,1..71))
                     /locus_tag="BKL84_RS29565"
     CDS             complement(join(3996..4167,1..71))
                     /locus_tag="BKL84_RS29565"
                     /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(437..1069)
                     /locus_tag="BKL84_RS29230"
                     /old_locus_tag="BKL84_29115"
     CDS             complement(437..1069)
                     /locus_tag="BKL84_RS29230"
                     /old_locus_tag="BKL84_29115"
                     /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            complement(1069..2184)
                     /locus_tag="BKL84_RS29235"
                     /old_locus_tag="BKL84_29120"
     CDS             complement(1069..2184)
                     /locus_tag="BKL84_RS29235"
                     /old_locus_tag="BKL84_29120"
                     /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            complement(2529..2642)
                     /locus_tag="BKL84_RS30465"
                     /old_locus_tag="BKL84_29125"
                     /pseudo=""
     CDS             complement(2529..2642)
                     /locus_tag="BKL84_RS30465"
                     /old_locus_tag="BKL84_29125"
                     /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            3058..3249
                     /locus_tag="BKL84_RS29250"
                     /old_locus_tag="BKL84_29135"
     CDS             3058..3249
                     /locus_tag="BKL84_RS29250"
                     /old_locus_tag="BKL84_29135"
                     /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            3249..3650
                     /locus_tag="BKL84_RS29255"
                     /old_locus_tag="BKL84_29140"
     CDS             3249..3650
                     /locus_tag="BKL84_RS29255"
                     /old_locus_tag="BKL84_29140"
                     /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"
     Typing          complement(2530..2937)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.399"
                     /coverage="99.0"
                     /evalue="5.92e-171"
ORIGIN
        1 ttttcggagg agaagaacgc cggaaacagg acttcccctg gctgaatggt gtgaatttcc
       61 gcgctatgca cttgcgcgca tactcatgca tgccgtaaaa acagagcctg cgcgtttctg
      121 gcgggttttc gggtggtttg ttgcctgttt taccggtttc ccgtcagaaa cgtcctgagt
      181 ccgttttagc ggtgcgtaca attatgattt tatgttaaat tgttttaagt gaatagagag
      241 aatataactt aagggagcat cttgtgctgg gtcttttaca ttagatctgc acaatcattg
      301 ttttggcatc tggtgatgtc tttaggacgt ttgagattgc tgataactaa agtgtatgat
      361 gctttctata cgttatccgg cgtttaataa caccctggtg ataagccagc ccgtgaaggg
      421 ctggcttgat ttggatttat atttttgaaa taaaatcttt tatttcatca aagcaattgt
      481 ctgctgtgtt tattattcca tttttcatgg atattcctat tcttgagtcg gattctctat
      541 tgcagctaag atagacttgt accttagctt ttttttcgtt tgttggataa gtgtactctt
      601 tgtcactcgc tgagatgtca tctttattat ttttaatttt ttcgaaaaat tctattatgt
      661 attcatataa cgctcgagtg cttgcgtgtt caattatcag atcttcaatg gcaccttgct
      721 tgtcttttcc tggcattata aagaaagaaa tttttgtatt gccattcata gctatctcgt
      781 tatgcgagct gggggaggag atttgtagtt ctcgcaatgt ggcaattatt gatctttctg
      841 tgtcagaaaa tgatgtgtca gcatctaata taataaaaat actttctttt tcatcgaaag
      901 aatcaatgtt tttgaatgct ctaagtgctt gttttaattt tgattttcca tttatttttt
      961 cgacaaaaac atcggtaatg ccttgtattt caagtaggtt gcatagaaaa tgaaaatcat
     1021 catcaccctc aacgaaaatg atctttttgc tattatttat gtctttcatt atcttacctc
     1081 ccagtcgttc tcaactgagt aggagaaatc atccatattg aattgtacgg ctgttggttt
     1141 tagggagttc ttttctcttc ctagtctaat ataagcgata tcttcatttt tgctatctat
     1201 ttcgtttatt gctcgtatca catcttgact atgagttgtt gcaaatattt gattgttgtt
     1261 ttgttttgca gatgaaatta atgattttat tatgtcttta attactgagt aatgtattcc
     1321 gttctcgatt tcatcaataa gaataattga gttttcctgt accagcactg agctgataaa
     1381 agataatgct cgactgatac cctcgccaag cattgatatt tcatttagct cactaaatcc
     1441 aatgtctaaa tatatttcct tattgttacc tatcgcagat attgctatat ctacaattct
     1501 gtcatctatt ttttttaagt tttctagtat gtcttttttc cttttttgtg ttagtaggct
     1561 agatacattt gtaattgttg cctctttgtt tatctttctg gatgttgtta ttattgttgc
     1621 tgtcttaaat ttataattaa tcccatccct ttcgtttttt atttcggatt ttatttctac
     1681 gccatcttct ttcaattgca tagagaaaag cttattggaa accctgtttt tcgcattggg
     1741 tgtctcggtc acatttattt ttaaagagtt tactgtggcc tgagaaccga tagtttgacg
     1801 aggtatgttt tggttagata gtacggtgtc aacgtttaga gacaaacttg attctaatct
     1861 ctgatttgtt tctgtttcat atgtttgtgt tacttcagag cgttcatctc gaatgactat
     1921 ggacatcttt tgtgatgtgt ccatatcatg aaagtaacta acccaaaatg gcttgttttt
     1981 gtttatttct gccatttctt ttctgaatgc ttgaatgttt aacaaaacag ccgggttttt
     2041 tacatcataa aaacaaaaaa tagcatccag tatagatgtt ttcccgtagt tgtttttccc
     2101 agctatgata tttaaagtct ttaattgctt tagatatagc tcattgaagc atttgaagtt
     2161 ctttaaactt atttccttta tcatgatagc ctctgttcgt gtttttgtta tatgccatac
     2221 gatttgttag taccttaata aaatgtacag ctttcattgt gattagctag actttatgtc
     2281 aaagattaac tttgattgct tgtgttttaa tcgatttttt ttactttctt cttgagatta
     2341 tctggcagca gccgtaagct tccggctgtg aacgaaaaaa accgccttgg cgggcggttt
     2401 tttcgaaagg ttcagtagag ttggcgctct atgaaccgag gtaactggct taaagggagc
     2461 gcagtcacca aaactgttcg tttagtttag ctttaactgg cgtataactt caagactaac
     2521 tccctaaatc agttaccagt ggctgctgcc agtggcgctt tgtcgtgtct ttccgggttg
     2581 gactcaagac gatagttacc ggattaggcg cagcagtcgg actgaacggg gggttcgtgc
     2641 atacagtcca gcttggagcg aactgcctac ccggaactga gtgtcaggcg tggaatgaga
     2701 caaacgcggc cataacagcg gaatgacacc ggtaaaccga aaggcaggaa caggagagcg
     2761 cacgagggag ccatcagggg gaaacgcctg gtatctttat agtcctgtcg ggtttcgcca
     2821 ccactgattt gagcgtcaga ttccgtgatg ctcgtcaggg gggcggagcc tatggaaaaa
     2881 cggccgctgt gcggcctttc cttctttcct ccatgcgatt actcggtttt ctcgagcgtt
     2941 tctacgcatg ctcctgccgc tcgccgcagc cgaacggcag gagcgtagcg actgagtgag
     3001 cgaggaagcg gaaaagagga gatccctaca ctgaccactg acgctctgag gcctcttatg
     3061 acgaaacaac agaaaacagc gctgaacatg gctaaattca tccagaatca gtctctgctc
     3121 ctgctggaga agcttaacga gcttgatctc gatgtcgagg ccgacctttg tgagaaactc
     3181 cacgatgatg cggagcatct tttccgtaca ctgtcctcga gactggatgc attacaggat
     3241 ggtaactgat ggccagagtg tctattagtg aggctgcccg actgacgggt aagagtagaa
     3301 caacactgca caggttaatt aaagcaggtg acctgtccac ctgtagcggt gagcgcaatg
     3361 caaaaatggt agatacttca gagcttttac gtgtctttgg cccctttgag caaccgaagg
     3421 gtgaacacca ttctggacag gtctctggac agcgtgatac agcctctgct gaccagagtg
     3481 aacaggtgat ccgtcatctg aaacaggaga ttgaacacct gaacacctta cttttgtcca
     3541 aggattcgca cattgacagc ctgaaacagg ccatgctcct tcttgaaaat caccaggcaa
     3601 aattaactga atccccggcg ccatggtgga aattctggaa aaaatcctga ccccgtcatg
     3661 cttcagtttt cctctccggc catcccaggg agttcctgaa ccttcccaaa aatcgtcaga
     3721 tctctgaacg ctcctcacca ctaaaaatac ccacacccca cgcaaaatta aaattttgca
     3781 gattccttat ttacaacaat gggttaatga aaaataaatg tgcggtgatg tgttacaaag
     3841 tgcagatcca agtcgtggac gactctatgg cgaatcgctg acgaattgcc cacgattcat
     3901 atgtgaatca cgctttatta tcatattgtt atgatgaatc gactcttgat tcaattcatc
     3961 actttgggtg ttttttgctc atggtgactc ttgattcaat tcacgattcg aatcgccggt
     4021 gaatcgtgtg gtgagtcgtc cggcgacttg ccataacgtg attgccggcc gtcgacgaac
     4081 ccgattcctg aaggtgctga aaaccggttt tccggctgcg ccggcaacgc ttcacggcca
     4141 cgcaataaat tgcgtccccg ttcaccg
//
