LOCUS       NZ_CP077774             5596 bp    DNA     circular CON 10-JAN-2024
DEFINITION  Klebsiella pneumoniae strain CDI694 plasmid pCDI694-5.6, complete
            sequence.
ACCESSION   NZ_CP077774
VERSION     NZ_CP077774.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN19925007
            Assembly: GCF_019107705.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 5596)
  AUTHORS   Chen,L.
  TITLE     Whole-genome sequencing of two K. pneumoniae isolates
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5596)
  AUTHORS   Chen,L.
  TITLE     Direct Submission
  JOURNAL   Submitted (28-JUN-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 and Illumina HiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/10/2024 02:27:17
            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)                     :: 5,977
            CDSs (total)                      :: 5,855
            Genes (coding)                    :: 5,658
            CDSs (with protein)               :: 5,658
            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)              :: 197
            CDSs (without protein)            :: 197
            Pseudo Genes (ambiguous residues) :: 0 of 197
            Pseudo Genes (frameshifted)       :: 95 of 197
            Pseudo Genes (incomplete)         :: 113 of 197
            Pseudo Genes (internal stop)      :: 24 of 197
            Pseudo Genes (multiple problems)  :: 34 of 197
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP077774.1.
            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..5596
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="CDI694"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="pCDI694-5.6"
     gene            complement(join(5341..5596,1..95))
                     /locus_tag="KUM43_RS27005"
                     /old_locus_tag="KUM43_27000"
     CDS             complement(join(5341..5596,1..95))
                     /locus_tag="KUM43_RS27005"
                     /old_locus_tag="KUM43_27000"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004197756.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_004197756.1"
                     /translation="MYWLIAFLAFIFPGRSFADGYTAYYRCNGTQEASLTVKDNKLSMV
                     VGLSKFNRQLDTYRFKEKGIEVVMQRAASDDNSEAIMSFIMPDVNNMTLLVKNNGYIIV
                     KTTCWLTKTDKQ"
                     /name="hypothetical protein"
     gene            complement(161..706)
                     /locus_tag="KUM43_RS27010"
                     /old_locus_tag="KUM43_27005"
     CDS             complement(161..706)
                     /locus_tag="KUM43_RS27010"
                     /old_locus_tag="KUM43_27005"
                     /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_023317533.1"
                     /translation="MFFKRYLTEKEIYKAALPIVRLQGRVNTSLRFLSKYSDVNKNGLI
                     ALHLNLLHFISYNIHGVESLKITQAGINKAVQQSPHADEIKNIAQAIGRKGPEYIEGLI
                     RNPWGKKNDNPLIFIMSIEESIKETLNSGYMLYRVAPITEGEAAAFMDVLKQLLLFEDN
                     FRLFGRDLVYKIEKLKIR"
                     /name="hypothetical protein"
     gene            complement(732..1058)
                     /locus_tag="KUM43_RS27015"
                     /old_locus_tag="KUM43_27010"
     CDS             complement(732..1058)
                     /locus_tag="KUM43_RS27015"
                     /old_locus_tag="KUM43_27010"
                     /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_050516389.1"
                     /translation="MRERTNIMLDIGLKQSLQRLSNKTKMSLSDLINQRLSGSLSVEER
                     IGEKPEWMRNLDPYLANHFSNIELPLPSPLKEYQEKMDEIDSIINDMMVLKEYFRAKFY
                     DEIK"
                     /name="hypothetical protein"
     gene            complement(1416..1574)
                     /locus_tag="KUM43_RS30160"
     CDS             complement(1416..1574)
                     /locus_tag="KUM43_RS30160"
                     /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_071596352.1"
                     /translation="MHEPPVQPDCCALSGNYHLESNPDGHAKTPLAAAIGNWIYTREIL
                     RGLEVGA"
                     /name="replication initiation protein"
     gene            2214..2390
                     /locus_tag="KUM43_RS27020"
                     /old_locus_tag="KUM43_27015"
     CDS             2214..2390
                     /locus_tag="KUM43_RS27020"
                     /old_locus_tag="KUM43_27015"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004197757.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_004197757.1"
                     /translation="MQKPKKKPLVVKKRSWHPAVMANLMRQAQEEDYRREQMAELERSA
                     RSHFADIGGEDGG"
                     /name="hypothetical protein"
     gene            2380..2724
                     /locus_tag="KUM43_RS27025"
                     /old_locus_tag="KUM43_27020"
     CDS             2380..2724
                     /locus_tag="KUM43_RS27025"
                     /old_locus_tag="KUM43_27020"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006122514.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_062955149.1"
                     /translation="MAVKRTRFLGIRVTDGEYQQLLERCNGRQLAVWMRETCLDTRPAR
                     SLRLPSIDPVLLRQLAGMGNNLNQIARKINGGQWSGADRVQVVAALMAIDAELERLRHA
                     VLEKGADDDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            2933..>3367
                     /locus_tag="KUM43_RS30040"
                     /pseudo=""
     CDS             2933..>3367
                     /locus_tag="KUM43_RS30040"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /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="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            3402..3911
                     /locus_tag="KUM43_RS27035"
                     /old_locus_tag="KUM43_27030"
     CDS             3402..3911
                     /locus_tag="KUM43_RS27035"
                     /old_locus_tag="KUM43_27030"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_020325392.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_032433972.1"
                     /translation="MNSLLTLAKDLEQKSKAQQQSTGEMLKAAFSEHEKSVRAELSESG
                     KRISAAIRAHEQGMSAAMQSNRLSVMRMVGRTWLTITMVSGLLFASLSGVLWYQGSLIA
                     SNLAEIDRQNAALSKLNAKTWGVTYLEDSNGRFLVLPKGTAVDRTQSWTVGNGRSKQNA
                     LRLVKE"
                     /name="MbeB family mobilization protein"
     gene            3918..4130
                     /locus_tag="KUM43_RS27040"
                     /old_locus_tag="KUM43_27035"
     CDS             3918..4130
                     /locus_tag="KUM43_RS27040"
                     /old_locus_tag="KUM43_27035"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137423.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_021527181.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWESAFGEWRKMSGLMQRENA
                     ALSERVTRLSQQVERLSGQLQRLSR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            4797..5021
                     /locus_tag="KUM43_RS27045"
                     /old_locus_tag="KUM43_27040"
     CDS             4797..5021
                     /locus_tag="KUM43_RS27045"
                     /old_locus_tag="KUM43_27040"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000879771.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF6290 family protein"
                     /protein_id="WP_000879771.1"
                     /translation="MLAIRLSDEIESRLDSLAKQTGRTKTFYAREAILAHLEDLEDYYL
                     SAETAARVRRGDEAVHSSEDVRKSLGLDD"
                     /name="DUF6290 family protein"
     gene            5005..5271
                     /locus_tag="KUM43_RS27050"
                     /old_locus_tag="KUM43_27045"
     CDS             5005..5271
                     /locus_tag="KUM43_RS27050"
                     /old_locus_tag="KUM43_27045"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000262326.1"
                     /GO_function="GO:0008657 - DNA topoisomerase type II
                     (double strand cut, ATP-hydrolyzing) inhibitor activity
                     [Evidence IEA]; GO:0042803 - protein homodimerization
                     activity [Evidence IEA]"
                     /GO_process="GO:0030541 - plasmid partitioning [Evidence
                     IEA]; GO:0051290 - protein heterotetramerization [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system RelE/ParE family
                     toxin"
                     /protein_id="WP_004197762.1"
                     /translation="MVWTINYSDRALKSLRKMDKQNARRIVDFMSLRIAVAADPRQSGK
                     PLKGELGEFWRYRVGDYRVLCEIRDDELVILAATIGHRREVYD"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     Typing          2049..2128
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="90.361"
                     /coverage="97.0"
                     /evalue="1.1100000000000001e-21"
     Typing          complement(1466..1863)
                     /name="rep_cluster_2370"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.526"
                     /coverage="91.0"
                     /evalue="3.03e-139"
     Typing          2715..4246
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.804"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tcctgagtac cattacatcg gtagtaagcg gtgtaaccgt cagcaaaaga tcgaccgggg
       61 aatataaatg ctaggaacgc aattaaccaa tacatagttg agaatcttgg tattacacat
      121 ttcactatcc tctctttcat ttttcgttca ccatactttg ttatctgatt tttaattttt
      181 ctattttata aaccaagtct ctaccaaaaa ggcgaaaatt atcctcaaat aataataatt
      241 gtttaagaac atccatgaaa gcagctgctt caccctcagt tatgggagct actctatata
      301 acatataacc tgagttaagg gtttctttta tactttcttc aatgctcatt ataaatatta
      361 gtggattatc atttttcttc ccccatgggt ttctaattaa tccttcgatg tactcaggtc
      421 ctttgcgtcc tattgcctgc gcaatatttt ttatttcatc tgcgtgaggg ctttgttgta
      481 cagctttgtt tatgcctgct tgagtgattt tcagagactc tacaccgtgt atgttgtatg
      541 agataaaatg taataaatta agatgcaatg caattaatcc atttttgttt acatctgagt
      601 atttggataa aaaacgtaat gaagtgttaa ctctcccttg aagcctaaca attgggagtg
      661 ctgccttgta tatttccttc tccgttaaat accgtttaaa aaacataatt ctccgcctcc
      721 gtatagcgtg cctattttat ttcgtcgtaa aacttagctc tgaaatattc ctttagaacc
      781 atcatgtcat taataattga atctatctca tccatttttt cttggtattc ttttaatggt
      841 gaagggagcg gtaactcaat atttgaaaag tgattggcga gatagggatc aaggtttctc
      901 atccattcag gcttttcgcc aatgcgttct tcaactgaaa gtgaacctga taatctctgg
      961 ttaataagat cacttagact cattttggtt ttattcgaaa gccgttgtaa ggattgcttt
     1021 aatcctatat ctagcatgat atttgttctt tctctcatta cccccccttg ctattgcgtt
     1081 ttttgttgcg cacaaagcta ccattgcgca ttaagaaacg caataaaaaa ggagggaggg
     1141 agtggtttgt acatgatgtg cagtgcgctg agggcatcag tggcgggtgt ttttccgtgg
     1201 gatggatgga gctccgggga taacagaact gacgatcatt taaaggatct tcttgagatc
     1261 ctttttttct gcgcgtaatc tcttgcactg taaacgaaaa aaccgcctgg ggaggcggtt
     1321 tgatcgaagg ttaagtcagt tggggaactg cttaaccggg taactgggta tacgagaccg
     1381 cagataccaa aactgttctt tcagtgtagc cgcagttagg cacccacttc aagacctctc
     1441 aatatctctc tcgtatatat ccagttacca atggctgctg ccagtggcgt ttttgcgtgt
     1501 ccgtccgggt tggactcaag atgatagtta ccggaaaggg cgcagcagtc gggctgaacg
     1561 gggggttcgt gcatacagcc cagcttggag cgaacgacct aaaccgagcc gagataccag
     1621 cagcgtgagc tatgagaaag cgccacgctt cccgaaaggg aaaaaggcgg aacaggtatc
     1681 cggtaaacgg cagggtcgga acaggagagc gcacgaggga gccgccggag agaaatcacc
     1741 ggcatcttta agtcctgtcg ggtttcgtcc tcctctgact tgagcgtcca tttctgtgat
     1801 gctcgtcagg ggaggcggag cctatggaaa aacggcaacg ccgcatcctt ttctccggcc
     1861 ctttctgatt tgagcgcctt tgctttatcc cgttatccgt gagtcggtca cgcccgccgc
     1921 agccgaacgg caggagcgca gctaccgagt gagcgaggag gcgtcatttc atctgtccgt
     1981 gcatggtatt gcggacgctc ctgagccaca tatcacacct gccacatgag gcactttcat
     2041 gaatcgtgct ctcatgccaa catagtaagc cagtatacac agcgtaaacg ctgtgactgg
     2101 ttcagggctg cgccccgaaa cccgctaaca ccactgacgc gctggcgctt gtccaacgcc
     2161 ggagcgaccc ggaaaacttt tccgtgccgt ccggcgtttg cgaaggaggg ataatgcaga
     2221 agccgaagaa gaagccgctc gtcgtaaaaa aaagatcctg gcatccggca gtgatggcaa
     2281 atctgatgcg tcaggcacag gaggaagatt accgccggga gcagatggca gagcttgagc
     2341 gttcagcccg gtcacatttt gcggatatcg gaggagagga tggcggttaa gcgtacccgt
     2401 tttttaggta tccgggtgac cgatggggag taccagcagc tgctggagcg ctgcaatgga
     2461 aggcaactgg cggtgtggat gcgggaaacc tgtctcgata cgcgcccggc gcggtcgttg
     2521 cggctgccgt ccatcgatcc ggttttgctg cgccagcttg ccgggatggg gaacaacctc
     2581 aaccagatcg cccggaaaat taacggcggc cagtggtcag gcgctgaccg ggttcaggtg
     2641 gtggccgcgc tgatggccat tgatgccgaa ctcgagcggc tgcggcatgc cgtgctggaa
     2701 aagggggcag acgatgatcg ttaagtttca tccgcgaggg cgaggcggcg gtgccgggcc
     2761 ggtggattat ctgctgggga aagaccgcca gcgcgacggg gccatcgtcc tgcagggaaa
     2821 gccggaggag gtccgggagc ttatcgacgc ctcgccctac gccaaaaagt acacctccgg
     2881 cgtcctgtct tttgctgaac aggatttacc gcccggccag cgtgaaaagc tgatggcgag
     2941 cttcgagcgg gttctgatgc ccggactcga taaagaccag tacagcgtgc tgtgggttga
     3001 acaccgggac aaggggcggc tggaactgaa ttttctggta ccgaacacgg aactgctgac
     3061 cggcaggcgt ctccagccgt actacgaccg ggcagaccgt ccgcgcatcg atgcgtggca
     3121 gaccgtggtg aacgggcgac tggggctgca cgacccgaac gcaccggaga accggcgcgc
     3181 gctggtgacg ccatcttcgt tacccaaaac gaagcaggaa gccgcagagg ctattacgcg
     3241 gggcttactg gccctcgcct cgtcagggga gcttaaaacg cgtcaggacg tcactgaggc
     3301 gctggaaagc gcaggttttg aggtcgtgcg caccacaaag agcagcatca gcattgccga
     3361 cccggacgga gggcgaaaca tccgacttaa gggagccatc tatgaacagt cttttaacgc
     3421 tggcgaagga cttagagcag aaatcgaaag cgcagcagca gagtaccggc gaaatgctga
     3481 aagccgcatt cagcgagcac gagaagtctg tcagagcgga actgagcgaa agcgggaaga
     3541 gaatcagcgc cgccatccgc gcccacgagc agggtatgag cgcggccatg cagtcgaacc
     3601 gcctgagcgt gatgcgtatg gtcgggcgga catggctgac catcacgatg gtgtcaggac
     3661 tgctgttcgc cagcctgagc ggggtgttgt ggtatcaggg gagcttgata gcgtcaaatc
     3721 tggccgaaat cgaccggcag aacgcagcgc tgtcgaagct gaacgcgaag acctggggcg
     3781 tgacgtacct ggaagacagc aacggacgtt ttctggtgct gccgaagggg acggccgtag
     3841 acaggacgca gagctggacg gtcgggaacg ggcggtcgaa gcagaacgcg ctgagactgg
     3901 tgaaggagta agtgccgatg accgagctgg aaaaacagtt gctgagcgca ttagagcagc
     3961 tacagcagga ctactcgaaa aggctggacg agtgggagag cgccttcggg gaatggcgga
     4021 aaatgtcagg gcttatgcaa cgggagaacg cggcgctgag cgagcgcgtg acgcgcttga
     4081 gtcagcaggt ggaacgcttg agcgggcaac tgcagcgttt gagccggtag tgcagcgtca
     4141 tgagatggcc gtggccgcag aacgggcgca cgagcaacgg cagcacgaaa aggaactgac
     4201 ggaagcgcgt tcccggcagc gaagctatga cggtccgtcg ctgggctgaa atgcaggaaa
     4261 acagggttct catcgggcat ttacgctgaa accggatgtc attcacctgg ctgcatggct
     4321 atgcagccag gtaaaattta tctgtcgcga acggggcggt ttatcgggtg gtttgttgcc
     4381 ggttttacct gactgccacc ccgttcgcgg cgaacccgtc cggggcggtg cgggcaacgg
     4441 gtgttatgtt taatcagcgt gaacggcaga tacaaaaaag ccccggaggg cttttaacta
     4501 ctgacttatt tttttgaaga tttgctgggt ttcaatttgt cagtatttcc cggcgttttt
     4561 ttattgtcac gctggcgttt atcaggttcc cctgttgaat cggcaattcg tttcggaccc
     4621 ggcttaagac ccataatcgt tatcctttca atagttaaga ggaaagccct caagctagat
     4681 atattgaccg cgttacggat tatcaagagg ggctaacaag attatttttt gttcttttag
     4741 gttgattgtg gtactgttga tatacatgta tagcaaatgg tgttcgggag gtttatatgc
     4801 ttgctatccg gttatctgat gagattgagt cccgtctgga ctcgctggcg aagcaaaccg
     4861 gcagaacaaa gacgttttat gcgcgggaag caatactggc gcatctggaa gacctggagg
     4921 attattatct ttcagcagaa actgctgcac gcgttcgccg tggtgatgaa gcagtgcatt
     4981 cgtctgaaga cgtgaggaag tcacttggtc tggacgatta actattccga tcgggcgctc
     5041 aaatcgttac gcaagatgga caaacagaac gcacgacgga ttgtggattt tatgagttta
     5101 cgcattgcag ttgctgccga tcctcgccag tcagggaagc cgctcaaagg tgagctgggc
     5161 gagttctggc gctatcgggt gggagattat cgcgttctgt gtgagatccg agatgacgag
     5221 cttgttatcc ttgccgccac gattggacat cgccgcgaag tttacgactg aagcccgcta
     5281 tgcgggcttt tttgatgccg acaacaggta ttatggtaaa tactcgacta actacgtgtt
     5341 ctactgtttg tcggttttag ttaaccagca ggttgtctta acgataatgt agccgttatt
     5401 tttaactaat aaggtcatat tgttaacgtc aggcataata aaagacatta tggcctcaga
     5461 gttatcatca gaagcagctc tctgcattac tacttcgatt cccttttctt tgaatctata
     5521 agtatccagt tgcctattaa acttagaaag acctacaacc atacttagtt tgttatcttt
     5581 aacagtaaga gatgct
//
