LOCUS       NZ_CP089026             3631 bp    DNA     circular CON 12-FEB-2024
DEFINITION  Klebsiella pneumoniae strain 49210 plasmid p49210-3.631, complete
            sequence.
ACCESSION   NZ_CP089026
VERSION     NZ_CP089026.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15146843
            Assembly: GCF_021166235.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 3631)
  AUTHORS   Chen,L., Hao,M., Lin,Y. and Kreiswirth,B.
  TITLE     Whole genome sequencing of K. pneumoniae isolates
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3631)
  AUTHORS   Chen,L., Hao,M., Lin,Y. and Kreiswirth,B.
  TITLE     Direct Submission
  JOURNAL   Submitted (01-DEC-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-2021
            Assembly Method                   :: Unicycler v. v0.4.9
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x
            Sequencing Technology :: Oxford Nanopore MiniION and Illumina HiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/12/2024 03:27:09
            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)                     :: 5,958
            CDSs (total)                      :: 5,835
            Genes (coding)                    :: 5,637
            CDSs (with protein)               :: 5,637
            Genes (RNA)                       :: 123
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 198
            CDSs (without protein)            :: 198
            Pseudo Genes (ambiguous residues) :: 0 of 198
            Pseudo Genes (frameshifted)       :: 78 of 198
            Pseudo Genes (incomplete)         :: 121 of 198
            Pseudo Genes (internal stop)      :: 36 of 198
            Pseudo Genes (multiple problems)  :: 34 of 198
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP089026.1.
            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..3631
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="49210"
                     /db_xref="taxon:573"
                     /plasmid="p49210-3.631"
                     /collected_by="HMH-CDI"
     gene            join(2968..3631,1..266)
                     /locus_tag="LRY78_RS26625"
                     /old_locus_tag="LRY78_26615"
     CDS             join(2968..3631,1..266)
                     /locus_tag="LRY78_RS26625"
                     /old_locus_tag="LRY78_26615"
                     /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="DUF4760 domain-containing protein"
                     /protein_id="WP_023307555.1"
                     /translation="MKEKIKKFGLPWICLFIVYFVCFLVVAATIIRHVINTTEEITLTT
                     YITPIFGLASLFVAMVTIRYNAVTNKEKNALDFVKEFKEKEIHDAMVEIYKTRRKYKNK
                     TNNRLNRKDISPYCEKAAAISQDDIKVIIPAEKKLELAEQIDLLTEEMKYTSSPSAKSK
                     IRGKISSLQKKLNDSNELEQICKFRSALIKVLNLMERCANGVRYGLYDEGLIYNSYGTQ
                     FIEIYELAFSFIKRRQDDEDKLFINAEWLAVKWTLQKEIQEDKPTFMTNQKRAIQHANE
                     GLKSHLKAPDKSKLEPLLNNLQKLKFPR"
                     /name="DUF4760 domain-containing protein"
     gene            complement(1382..1783)
                     /locus_tag="LRY78_RS26630"
                     /old_locus_tag="LRY78_26620"
     CDS             complement(1382..1783)
                     /locus_tag="LRY78_RS26630"
                     /old_locus_tag="LRY78_26620"
                     /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_064154307.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKDEHHSGQVSEQRDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHPAKLTESPTPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(1783..1974)
                     /locus_tag="LRY78_RS26635"
                     /old_locus_tag="LRY78_26625"
     CDS             complement(1783..1974)
                     /locus_tag="LRY78_RS26635"
                     /old_locus_tag="LRY78_26625"
                     /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_011977837.1"
                     /translation="MTKQQKTALNMAKFIQHQSLLLLEKLNELDLDAEADLCEKLHDDA
                     EHLFRTLSSRLDALQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            2379..2492
                     /locus_tag="LRY78_RS29855"
     CDS             2379..2492
                     /locus_tag="LRY78_RS29855"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_071787400.1"
                     /translation="MHEPPVQSDCCVLSGNYHLESNPVRHAKAPLAAAIGN"
                     /name="replication initiation protein"
     Typing          2116..2492
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.296"
                     /coverage="92.0"
                     /evalue="7.61e-175"
ORIGIN
        1 agttcattga aatatatgag ctcgccttct cattcataaa aagaaggcag gatgatgaag
       61 ataagttatt cataaatgct gaatggttag cagtaaaatg gactctccaa aaagagattc
      121 aggaagacaa gccaacattt atgactaatc aaaagagagc tatacaacat gctaacgaag
      181 ggctgaaatc acacctgaaa gcaccagata aaagcaaatt agaaccattg cttaacaact
      241 tacaaaaact gaaattcccg cgataaaaag tttttatcag gccgcgtaat ttgcattata
      301 tggaatgtaa acccctgaaa tacaggggtt tccctctcat caatccgtcc ttacgaactc
      361 gtcagttgtg atcactgaaa ttgcacgcta aaaaagccac acaaaggatg tagatatgga
      421 tccaatggac aaaatttgtg acggacgcgg cttacctggt agcgcttgca cttgcagcta
      481 ctgcagagag tgtaatcaga aagaggtgga ttatgtctgt aagcgttgta atgactgtga
      541 aaaatgcgga aacagaccgc atgagtgcac ctgctaagaa tgataaaaga taagtttcaa
      601 cagaggttct ccagtgagcc tctgttattt ctagtgcgag agtatttaac ataaagccct
      661 gattgtacgc accgctaaaa cggcctcagg gcgtttctga cgggaaaccg gtaaaacagg
      721 caacaaacca cccgaaaacc cgccagaaac gcgcaggctc tgtttttacg gcatgcatga
      781 gtatgcacgc aagtgcatag cgcgaaaatt cacgccattc agccagggta agtcctgttt
      841 ccgacgttct tcctatccga aaacggtgaa cggggacgca atttattgcg tggccgtgaa
      901 gcgttgccgg cgcagccgga aaaccggttt tcagcacgat caggaatcgg gttcgttgac
      961 ggccggcaat cacgttatgg caagtcgccg gacgactcac cacacgattc accggcgatt
     1021 cgactcgtga cttgactcta gagtcgccaa ggtcaaaaaa acaccaaaat gacgattcga
     1081 ctctagagtc aagtcgtcat aagttactga tagtctaaag tgagtcgtcg atgactctat
     1141 ggcgagtcgt cggcaagtcg tacacgaatc gccgacgact tggattcacc ttacagaaag
     1201 taatactgcg taatttaata acccacaact aactgatatt aatgagttat cttcaaaatt
     1261 ttaattttgc gtggggtgtg ggtattttta gtggtgagga gcgttcagag atctgacgat
     1321 ttttgggaag gttcaggaac tccccgggat ggccggagag gaaaactgaa gcatgacggg
     1381 gtcaggattt tttccagaat ttccaccatg gcgtcgggga ttcagttaat tttgccgggt
     1441 gattttcaag aaggagcatg gcctgtttca ggctgtcaat gtgcgaatcc ttggacaaaa
     1501 gtaaagtgtt caggtgttca atctcctgtt tcagatgacg aatcacctgt tcactctggt
     1561 cagcagaggc tgtatcacgc tgttcagaga cctgtccaga atggtgttca tccttcggtt
     1621 gttcaaaggg accaaagaca cgtaaaagct ctgaagtatc taccattttt gcattgcgtt
     1681 caccgctaca ggtggacagg tcacctgctt taattaacct gtgcagtgtt gttctactct
     1741 tacccgtcag tcgggcagcc tcactaatag acactctggc catcagttac catcctgtaa
     1801 tgcatccagt ctcgaggaca gtgtacggaa aagatgctcc gcatcatcgt ggagtttctc
     1861 acaaaggtcg gcctcagcat caagatcaag ctcgttaagc ttctccagca ggagtagaga
     1921 ctgatgctgg atgaatttag ccatgttcag cgctgttttc tgttgtttcg tcataagaag
     1981 cctcagagcg tcagtgctca gtgtaaaacc agtctctttt ccgcttcctc gctcactcag
     2041 tcgctacgct cctgccgttc ggctgcggcg agcggtagca acgcgcacat aacgacatag
     2101 gacaggcagc acggagaggg agaaggccgc gcaggggccg tttttccata ggctccgccc
     2161 ccctgacaag catcacagaa tttgacgctc aaatcagtgg tggcgaaacc cgacaggact
     2221 ataaagatac caggcgtttc cccctgatgg ctccctcgtg cgctctcctg ttcctgccat
     2281 tcggtttacc ggtatcattc cgctgttatg gccgcgtttg tctcattcca cgcctgacac
     2341 tcagttccgg gtaggcagtt cgctccaagc tggactgtat gcacgaaccc cccgttcagt
     2401 ccgactgctg cgtcttatcc ggtaactatc atcttgagtc caacccggta agacatgcaa
     2461 aagcgccact ggcagcagcc attggtaact gatttagagg agatagtctt gaagttatac
     2521 gccggttaag gctaaactaa acgaacagtt ttggtgactg tgctcctcta ctagccagtt
     2581 acctcggttc agaaacttgc cggtttactg aaccctcgaa aaaccacctt gccgggtggt
     2641 tttttcgttt gtatgccaaa agattacgat gatcgtcaga ggatctcaag aagatctttc
     2701 atggtgaatt tacccttaat gactaatcga actcacattt tttaactaaa cttaaacttg
     2761 taggcattta cttgccgagg aaacccatgt acatatgggg ctctacatta tgtagaggtg
     2821 ataatgataa tcattaccac ctcgattgag aggtaatcct atgcagaagc ttaacgttgt
     2881 cgaaaaaatg acccaaatcg ttagagagat tgacttaggc attttctgat agtaaaacgc
     2941 cgctataacc cacatagcgg catacacatg aaagaaaaaa taaaaaaatt tggcctccct
     3001 tggatatgcc tttttattgt ctactttgta tgttttttag tagtcgcagc cactattatc
     3061 aggcatgtaa taaatacaac cgaagagata acattaacca catatataac gccaatattt
     3121 ggactcgcca gcttatttgt tgctatggta accatacgat acaatgctgt taccaataaa
     3181 gaaaaaaatg cattggattt cgtaaaagaa ttcaaagaaa aagaaataca tgatgcaatg
     3241 gttgaaatat ataaaacaag aagaaagtat aaaaacaaaa caaacaatag attaaacaga
     3301 aaagacatct caccttactg cgaaaaagct gccgccatat ctcaggatga tataaaagta
     3361 atcatacccg cagaaaaaaa actagaactt gctgagcaaa tagatctact cactgaggag
     3421 atgaaataca cttcatcccc aagcgcaaaa tcaaaaatca gaggaaaaat atcctcactc
     3481 caaaaaaaac tcaatgatag caatgaatta gaacaaattt gcaaattcag atcagctcta
     3541 attaaagtgt taaatttaat ggagcgatgt gcaaatggtg tgagatatgg tctatacgat
     3601 gaaggtctta tatataactc atatggaacc c
//
