LOCUS       NZ_CP122386             4167 bp    DNA     circular CON 07-JUL-2023
DEFINITION  Klebsiella pneumoniae subsp. pneumoniae strain KPN-68 plasmid p5,
            complete sequence.
ACCESSION   NZ_CP122386
VERSION     NZ_CP122386.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN34122257
            Assembly: GCF_030388445.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae subsp. pneumoniae
  ORGANISM  Klebsiella pneumoniae subsp. pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4167)
  AUTHORS   Al Marzooq,F. and Daoud,L.
  TITLE     First report of cefiderocol resistance in a pan-drug resistant
            Klebsiella pneumoniae strain from the UAE
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4167)
  AUTHORS   Al Marzooq,F. and Daoud,L.
  TITLE     Direct Submission
  JOURNAL   Submitted (11-APR-2023) Microbiology, UAEU, uaeu, Al Ain, UAE 15551,
            United Arab Emirates
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 08-APR-2023
            Assembly Method :: SPAdes v. 2023-04-08; Unicycler v. 2023-04-08
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 30.0x
            Sequencing Technology :: Oxford Nanopore MinION; MGI DNBseq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/05/2023 07:30:04
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,648
            CDSs (total)                      :: 5,526
            Genes (coding)                    :: 5,377
            CDSs (with protein)               :: 5,377
            Genes (RNA)                       :: 122
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 149
            CDSs (without protein)            :: 149
            Pseudo Genes (ambiguous residues) :: 0 of 149
            Pseudo Genes (frameshifted)       :: 70 of 149
            Pseudo Genes (incomplete)         :: 74 of 149
            Pseudo Genes (internal stop)      :: 26 of 149
            Pseudo Genes (multiple problems)  :: 18 of 149
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP122386.1.
            Bacteria and source DNA available from Dr. Farah Al-Marzooq lab-
            CMHS-UAEU-Al Ain, UAE.
            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 subsp. pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="KPN-68"
                     /isolation_source="clinical"
                     /host="Homo sapiens"
                     /sub_species="pneumoniae"
                     /db_xref="taxon:72407"
                     /plasmid="p5"
                     /geo_loc_name="United Arab Emirates: Al Ain"
                     /lat_lon="24.20168402 N 55.67599108 E"
                     /collection_date="2021-03-14"
                     /collected_by="UAEU"
     gene            join(4032..4167,1..497)
                     /locus_tag="QBK98_RS28200"
                     /old_locus_tag="QBK98_28200"
     CDS             join(4032..4167,1..497)
                     /locus_tag="QBK98_RS28200"
                     /old_locus_tag="QBK98_28200"
                     /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(1451..1852)
                     /locus_tag="QBK98_RS28205"
                     /old_locus_tag="QBK98_28205"
     CDS             complement(1451..1852)
                     /locus_tag="QBK98_RS28205"
                     /old_locus_tag="QBK98_28205"
                     /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(1852..2043)
                     /locus_tag="QBK98_RS28210"
                     /old_locus_tag="QBK98_28210"
     CDS             complement(1852..2043)
                     /locus_tag="QBK98_RS28210"
                     /old_locus_tag="QBK98_28210"
                     /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            2459..2572
                     /locus_tag="QBK98_RS28215"
                     /old_locus_tag="QBK98_28215"
                     /pseudo=""
     CDS             2459..2572
                     /locus_tag="QBK98_RS28215"
                     /old_locus_tag="QBK98_28215"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /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            2917..4032
                     /locus_tag="QBK98_RS28220"
                     /old_locus_tag="QBK98_28220"
     CDS             2917..4032
                     /locus_tag="QBK98_RS28220"
                     /old_locus_tag="QBK98_28220"
                     /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"
     Typing          2165..2572
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.399"
                     /coverage="99.0"
                     /evalue="5.92e-171"
ORIGIN
        1 aacaagcact tagagcattc aaaaacattg attctttcga tgaaaaagaa agtattttta
       61 ttatattaga tgctgacaca tcattttctg acacagaaag atcaataatt gccacattgc
      121 gagaactaca aatctcctcc cccagctcgc ataacgagat agctatgaat ggcaatacaa
      181 aaatttcttt ctttataatg ccaggaaaag acaagcaagg tgccattgaa gatctgataa
      241 ttgaacacgc aagcactcga gcgttatatg aatacataat agaatttttc gaaaaaatta
      301 aaaataataa agatgacatc tcagcgagtg acaaagagta cacttatcca acaaacgaaa
      361 aaaaagctaa ggtacaagtc tatcttagct gcaatagaga atccgactca agaataggaa
      421 tatccatgaa aaatggaata ataaacacag cagacaattg ctttgatgaa ataaaagatt
      481 ttatttcaaa aatataaatc caaatcaagc cagcccttca cgggctggct tatcaccagg
      541 gtgttattaa acgccggata acgtatagaa agcatcatac actttagtta tcagcaatct
      601 caaacgtcct aaagacatca ccagatgcca aaacaatgat tgtgcagatc taatgtaaaa
      661 gacccagcac aagatgctcc cttaagttat attctctcta ttcacttaaa acaatttaac
      721 ataaaatcat aattgtacgc accgctaaaa cggcctcagg gcgtttctga cggaaaaccg
      781 gtaaaacagg caacaaacca cccgaaaacc cgccagaaac gcgcaggctc tgtttttacg
      841 gcatgcatga gtatgcacgc aagtgcatag cgcgaaaatt cacgccattc agccagagta
      901 agtcctgttt ccggcgttct ttccatccga aaacggtgaa cggggacgca atttattgcg
      961 tggccgtgaa gcgttgccgg cgcagccgga aaaccggttt tcagcacctt caggaatcgg
     1021 gttcgtcgac ggccggcaat cacgttatgg caagtcgccg gacgactcac cacacgattc
     1081 accggcgatt cgaatcgtga attgaatcaa gagtcaccat gagcaaaaaa cacccaaagt
     1141 gatgaattga atcaagagtc gattcatcat aacaatatga taataaagcg tgattcacat
     1201 atgaatcgtg ggcaattcgt cagcgattcg ccatagagtc gtccacgact tggatctgca
     1261 ctttgtaaca catcaccgca catttatttt tcattaaccc attgttgtaa ataaggaatc
     1321 tgcaaaattt taattttgcg tggggtgtgg gtatttttag tggtgaggag cgttcagaga
     1381 tctgacgatt tttgggaagg ttcaggaact ccccgggatg gccggagagg aaaactgaag
     1441 catgacgggg tcaggatttt ttccagaatt tccaccatgg cgccggggat tcagttaatt
     1501 ttgcctggtg attttcaaga aggagcatgg cctgtttcag gctgtcaatg tgcgaatcct
     1561 tggacaaaag taaggtgttc aggtgttcaa tctcctgttt cagatgacgg atcacctgtt
     1621 cactctggtc agcagaggct gtatcacgct gtccagagac ctgtccagaa tggtgttcac
     1681 ccttcggttg ctcaaagggg ccaaagacac gtaaaagctc tgaagtatct accatttttg
     1741 cattgcgctc accgctacag gtggacaggt cacctgcttt aattaacctg tgcagtgttg
     1801 ttctactctt acccgtcagt cgggcagcct cactaataga cactctggcc atcagttacc
     1861 atcctgtaat gcatccagtc tcgaggacag tgtacggaaa agatgctccg catcatcgtg
     1921 gagtttctca caaaggtcgg cctcgacatc gagatcaagc tcgttaagct tctccagcag
     1981 gagcagagac tgattctgga tgaatttagc catgttcagc gctgttttct gttgtttcgt
     2041 cataagaggc ctcagagcgt cagtggtcag tgtagggatc tcctcttttc cgcttcctcg
     2101 ctcactcagt cgctacgctc ctgccgttcg gctgcggcga gcggcaggag catgcgtaga
     2161 aacgctcgag aaaaccgagt aatcgcatgg aggaaagaag gaaaggccgc acagcggccg
     2221 tttttccata ggctccgccc ccctgacgag catcacggaa tctgacgctc aaatcagtgg
     2281 tggcgaaacc cgacaggact ataaagatac caggcgtttc cccctgatgg ctccctcgtg
     2341 cgctctcctg ttcctgcctt tcggtttacc ggtgtcattc cgctgttatg gccgcgtttg
     2401 tctcattcca cgcctgacac tcagttccgg gtaggcagtt cgctccaagc tggactgtat
     2461 gcacgaaccc cccgttcagt ccgactgctg cgcctaatcc ggtaactatc gtcttgagtc
     2521 caacccggaa agacacgaca aagcgccact ggcagcagcc actggtaact gatttaggga
     2581 gttagtcttg aagttatacg ccagttaaag ctaaactaaa cgaacagttt tggtgactgc
     2641 gctcccttta agccagttac ctcggttcat agagcgccaa ctctactgaa cctttcgaaa
     2701 aaaccgcccg ccaaggcggt ttttttcgtt cacagccgga agcttacggc tgctgccaga
     2761 taatctcaag aagaaagtaa aaaaaatcga ttaaaacaca agcaatcaaa gttaatcttt
     2821 gacataaagt ctagctaatc acaatgaaag ctgtacattt tattaaggta ctaacaaatc
     2881 gtatggcata taacaaaaac acgaacagag gctatcatga taaaggaaat aagtttaaag
     2941 aacttcaaat gcttcaatga gctatatcta aagcaattaa agactttaaa tatcatagct
     3001 gggaaaaaca actacgggaa aacatctata ctggatgcta ttttttgttt ttatgatgta
     3061 aaaaacccgg ctgttttgtt aaacattcaa gcattcagaa aagaaatggc agaaataaac
     3121 aaaaacaagc cattttgggt tagttacttt catgatatgg acacatcaca aaagatgtcc
     3181 atagtcattc gagatgaacg ctctgaagta acacaaacat atgaaacaga aacaaatcag
     3241 agattagaat caagtttgtc tctaaacgtt gacaccgtac tatctaacca aaacatacct
     3301 cgtcaaacta tcggttctca ggccacagta aactctttaa aaataaatgt gaccgagaca
     3361 cccaatgcga aaaacagggt ttccaataag cttttctcta tgcaattgaa agaagatggc
     3421 gtagaaataa aatccgaaat aaaaaacgaa agggatggga ttaattataa atttaagaca
     3481 gcaacaataa taacaacatc cagaaagata aacaaagagg caacaattac aaatgtatct
     3541 agcctactaa cacaaaaaag gaaaaaagac atactagaaa acttaaaaaa aatagatgac
     3601 agaattgtag atatagcaat atctgcgata ggtaacaata aggaaatata tttagacatt
     3661 ggatttagtg agctaaatga aatatcaatg cttggcgagg gtatcagtcg agcattatct
     3721 tttatcagct cagtgctggt acaggaaaac tcaattattc ttattgatga aatcgagaac
     3781 ggaatacatt actcagtaat taaagacata ataaaatcat taatttcatc tgcaaaacaa
     3841 aacaacaatc aaatatttgc aacaactcat agtcaagatg tgatacgagc aataaacgaa
     3901 atagatagca aaaatgaaga tatcgcttat attagactag gaagagaaaa gaactcccta
     3961 aaaccaacag ccgtacaatt caatatggat gatttctcct actcagttga gaacgactgg
     4021 gaggtaagat aatgaaagac ataaataata gcaaaaagat cattttcgtt gagggtgatg
     4081 atgattttca ttttctatgc aacctacttg aaatacaagg cattaccgat gtttttgtcg
     4141 aaaaaataaa tggaaaatca aaattaa
//
