LOCUS       NZ_CP068603             4379 bp    DNA     circular CON 03-DEC-2023
DEFINITION  Klebsiella pneumoniae strain 59493 plasmid p59493-4.379, complete
            sequence.
ACCESSION   NZ_CP068603
VERSION     NZ_CP068603.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN17348255
            Assembly: GCF_016772535.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4379)
  AUTHORS   Chen,L. and Kreiswirth,B.
  TITLE     Genome sequencing of apramycin resistant K. pneumoniae
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4379)
  AUTHORS   Chen,L. and Kreiswirth,B.
  TITLE     Direct Submission
  JOURNAL   Submitted (19-JAN-2021) HMH-CDI, Hackensack-Meridian Health Center
            for Discovery and Innovation, 111 ideation way, Nutley, NJ 07110,
            USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 01-SEP-2020
            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                   :: 12/03/2023 03:24:07
            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)                     :: 5,770
            CDSs (total)                      :: 5,650
            Genes (coding)                    :: 5,494
            CDSs (with protein)               :: 5,494
            Genes (RNA)                       :: 120
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 156
            CDSs (without protein)            :: 156
            Pseudo Genes (ambiguous residues) :: 0 of 156
            Pseudo Genes (frameshifted)       :: 66 of 156
            Pseudo Genes (incomplete)         :: 90 of 156
            Pseudo Genes (internal stop)      :: 22 of 156
            Pseudo Genes (multiple problems)  :: 19 of 156
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP068603.1.
            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..4379
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="59493"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="p59493-4.379"
                     /geo_loc_name="USA"
                     /collection_date="2017/2018"
     gene            complement(join(3938..4379,1..191))
                     /locus_tag="JMZ77_RS26475"
                     /old_locus_tag="JMZ77_26475"
     CDS             complement(join(3938..4379,1..191))
                     /locus_tag="JMZ77_RS26475"
                     /old_locus_tag="JMZ77_26475"
                     /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(191..1306)
                     /locus_tag="JMZ77_RS26480"
                     /old_locus_tag="JMZ77_26480"
     CDS             complement(191..1306)
                     /locus_tag="JMZ77_RS26480"
                     /old_locus_tag="JMZ77_26480"
                     /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            complement(1651..1764)
                     /locus_tag="JMZ77_RS26485"
                     /old_locus_tag="JMZ77_26485"
                     /pseudo=""
     CDS             complement(1651..1764)
                     /locus_tag="JMZ77_RS26485"
                     /old_locus_tag="JMZ77_26485"
                     /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            2180..2371
                     /locus_tag="JMZ77_RS26490"
                     /old_locus_tag="JMZ77_26490"
     CDS             2180..2371
                     /locus_tag="JMZ77_RS26490"
                     /old_locus_tag="JMZ77_26490"
                     /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            2371..>2580
                     /locus_tag="JMZ77_RS28880"
                     /pseudo=""
     CDS             2371..>2580
                     /locus_tag="JMZ77_RS28880"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_009310048.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(3330..3572)
                     /locus_tag="JMZ77_RS26495"
                     /old_locus_tag="JMZ77_26495"
     CDS             complement(3330..3572)
                     /locus_tag="JMZ77_RS26495"
                     /old_locus_tag="JMZ77_26495"
                     /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          complement(1652..2059)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.399"
                     /coverage="99.0"
                     /evalue="5.92e-171"
ORIGIN
        1 atactttctt tttcatcgaa agaatcaatg tttttgaatg ctctaagtgc ttgttttaat
       61 tttgattttc catttatttt ttcgacaaaa acatcggtaa tgccttgtat ttcaagtagg
      121 ttgcatagaa aatgaaaatc atcatcaccc tcaacgaaaa tgatcttttt gctattattt
      181 atgtctttca ttatcttacc tcccagtcgt tctcaactga gtaggagaaa tcatccatat
      241 tgaattgtac ggctgttggt tttagggagt tcttttctct tcctagtcta atataagcga
      301 tatcttcatt tttgctatct atttcgttta ttgctcgtat cacatcttga ctatgagttg
      361 ttgcaaatat ttgattgttg ttttgttttg cagatgaaat taatgatttt attatgtctt
      421 taattactga gtaatgtatt ccgttctcga tttcatcaat aagaataatt gagttttcct
      481 gtaccagcac tgagctgata aaagataatg ctcgactgat accctcgcca agcattgata
      541 tttcatttag ctcactaaat ccaatgtcta aatatatttc cttattgtta cctatcgcag
      601 atattgctat atctacaatt ctgtcatcta ttttttttaa gttttctagt atgtcttttt
      661 tccttttttg tgttagtagg ctagatacat ttgtaattgt tgcctctttg tttatctttc
      721 tggatgttgt tattattgtt gctgtcttaa atttataatt aatcccatcc ctttcgtttt
      781 ttatttcgga ttttatttct acgccatctt ctttcaattg catagagaaa agcttattgg
      841 aaaccctgtt tttcgcattg ggtgtctcgg tcacatttat ttttaaagag tttactgtgg
      901 cctgagaacc gatagtttga cgaggtatgt tttggttaga tagtacggtg tcaacgttta
      961 gagacaaact tgattctaat ctctgatttg tttctgtttc atatgtttgt gttacttcag
     1021 agcgttcatc tcgaatgact atggacatct tttgtgatgt gtccatatca tgaaagtaac
     1081 taacccaaaa tggcttgttt ttgtttattt ctgccatttc ttttctgaat gcttgaatgt
     1141 ttaacaaaac agccgggttt tttacatcat aaaaacaaaa aatagcatcc agtatagatg
     1201 ttttcccgta gttgtttttc ccagctatga tatttaaagt ctttaattgc tttagatata
     1261 gctcattgaa gcatttgaag ttctttaaac ttatttcctt tatcatgata gcctctgttc
     1321 gtgtttttgt tatatgccat acgatttgtt agtaccttaa taaaatgtac agctttcatt
     1381 gtgattagct agactttatg tcaaagatta actttgattg cttgtgtttt aatcgatttt
     1441 ttttactttc ttcttgagat tatctggcag cagccgtaag cttccggctg tgaacgaaaa
     1501 aaaccgcctt ggcgggcggt tttttcgaaa ggttcagtag agttggcgct ctatgaaccg
     1561 aggtaactgg cttaaaggga gcgcagtcac caaaactgtt cgtttagttt agctttaact
     1621 ggcgtataac ttcaagacta actccctaaa tcagttacca gtggctgctg ccagtggcgc
     1681 tttgtcgtgt ctttccgggt tggactcaag acgatagtta ccggattagg cgcagcagtc
     1741 ggactgaacg gggggttcgt gcatacagtc cagcttggag cgaactgcct acccggaact
     1801 gagtgtcagg cgtggaatga gacaaacgcg gccataacag cggaatgaca ccggtaaacc
     1861 gaaaggcagg aacaggagag cgcacgaggg agccatcagg gggaaacgcc tggtatcttt
     1921 atagtcctgt cgggtttcgc caccactgat ttgagcgtca gattccgtga tgctcgtcag
     1981 gggggcggag cctatggaaa aacggccgct gtgcggcctt tccttctttc ctccatgcga
     2041 ttactcggtt ttctcgagcg tttctacgca tgctcctgcc gctcgccgca gccgaacggc
     2101 aggagcgtag cgactgagtg agcgaggaag cggaaaagag gagatcccta cactgaccac
     2161 tgacgctctg aggcctctta tgacgaaaca acagaaaaca gcgctgaaca tggctaaatt
     2221 catccagaat cagtctctgc tcctgctgga gaagcttaac gagcttgatc tcgatgtcga
     2281 ggccgacctt tgtgagaaac tccacgatga tgcggagcat cttttccgta cactgtcctc
     2341 gagactggat gcattacagg atggtaactg atggccagag tgtctattag tgaggctgcc
     2401 cgactgacgg gtaagagtag aacaacactg cacaggttaa ttaaagcagg tgacctgtcc
     2461 acctgtagcg gtgagcgcaa tgcaaaaatg gtagatactt cagagctttt acgtgtcttt
     2521 ggcccctttg agcaaccgaa gggtgaacac cattctggac aggtctctgg acagcgtgat
     2581 agggggctga tgctcagtcg aacgaaaact cacgttaggc gagagaagtc gtctgaaaaa
     2641 tcgattaatg gacaatggtg tccattaagt gccatttgcc gattaaaaac acaccgcttt
     2701 aggcacattt ttcactgtcc acaatattct gatttatcgg acaaaaagtc cttaacgtgt
     2761 gaaaccgttc cgttgagcgt caaacccctg atacagcctc tgctgaccag agtgaacagg
     2821 tgatccgtca tctgaaacag gagattgaac acctgaacac cttacttttg tccaaggatt
     2881 cgcacattga cagcctgaaa caggccatgc tccttcttga aaatcaccag gcaaaattaa
     2941 ctgaatcccc ggcgccatgg tggaaattct ggaaaaaatc ctgaccccgt catgcttcag
     3001 ttttcctctc cggccatccc agggagttcc tgaaccttcc caaaaatcgt cagatctctg
     3061 aacgctcctc accactaaaa atacccacac cccacgcaaa attaaaattt tgcagattcc
     3121 ttatttacaa caatgggtta atgaaaaata aatgtgcggt gatgtgttac aaagtgcaga
     3181 tccaagtcgt ggacgactct atggcgaatc gctgacgaat tgcccacgat tcatatgtga
     3241 atcacgcttt attatcatat tgttatgatg aatcgactct tgattcaatt catcactttg
     3301 ggtgtttttt gctcatggtg actcttgatt caattcacga ttcgaatcgc cggtgaatcg
     3361 tgtggtgagt cgtccggcga cttgccataa cgtgattgcc ggccgtcgac gaacccgatt
     3421 cctgaaggtg ctgaaaaccg gttttccggc tgcgccggca acgcttcacg gccacgcaat
     3481 aaattgcgtc cccgttcacc gttttcggag gagaagaacg ccggaaacag gacttcccct
     3541 ggctgaatgg tgtgaatttc cgcgctatgc acttgcgcgc atactcatgc atgccgtaaa
     3601 aacagagcct gcgcgtttct ggcgggtttt cgggtggttt gttgcctgtt ttaccggttt
     3661 cccgtcagaa acgtcctgag tccgttttag cggtgcgtac aattatgatt ttatgttaaa
     3721 ttgttttaag tgaatagaga gaatataact taagggagca tcttgtgctg ggtcttttac
     3781 attagatctg cacaatcatt gttttggcat ctggtgatgt ctttaggacg tttgagattg
     3841 ctgataacta aagtgtatga tgctttctat acgttatccg gcgtttaata acaccctggt
     3901 gataagccag cccgtgaagg gctggcttga tttggattta tatttttgaa ataaaatctt
     3961 ttatttcatc aaagcaattg tctgctgtgt ttattattcc atttttcatg gatattccta
     4021 ttcttgagtc ggattctcta ttgcagctaa gatagacttg taccttagct tttttttcgt
     4081 ttgttggata agtgtactct ttgtcactcg ctgagatgtc atctttatta tttttaattt
     4141 tttcgaaaaa ttctattatg tattcatata acgctcgagt gcttgcgtgt tcaattatca
     4201 gatcttcaat ggcaccttgc ttgtcttttc ctggcattat aaagaaagaa atttttgtat
     4261 tgccattcat agctatctcg ttatgcgagc tgggggagga gatttgtagt tctcgcaatg
     4321 tggcaattat tgatctttct gtgtcagaaa atgatgtgtc agcatctaat ataataaaa
//
