LOCUS       NZ_CP125129             5010 bp    DNA     circular CON 05-APR-2024
DEFINITION  Klebsiella pneumoniae strain 181 plasmid unnamed3, complete
            sequence.
ACCESSION   NZ_CP125129
VERSION     NZ_CP125129.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN33790399
            Assembly: GCF_037477755.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 5010)
  AUTHORS   Konanov,D.N.
  TITLE     Direct Submission
  JOURNAL   Submitted (17-MAR-2023) Laboratory of mathematical biology and
            bioinformatics, Research Institute for Systems Biology and Medicine,
            Nauchniy proezd, Moscow 117246, Russia
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: No
            Genome Coverage                   :: 64x
            Sequencing Technology             :: Illumina; Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_037477755.1-RS_2024_04_05
            Annotation Date                   :: 04/05/2024 19:30:22
            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)                     :: 5,724
            CDSs (total)                      :: 5,599
            Genes (coding)                    :: 5,462
            CDSs (with protein)               :: 5,462
            Genes (RNA)                       :: 125
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 137
            CDSs (without protein)            :: 137
            Pseudo Genes (ambiguous residues) :: 0 of 137
            Pseudo Genes (frameshifted)       :: 54 of 137
            Pseudo Genes (incomplete)         :: 80 of 137
            Pseudo Genes (internal stop)      :: 22 of 137
            Pseudo Genes (multiple problems)  :: 17 of 137
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP125129.1.
            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..5010
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="181"
                     /db_xref="taxon:573"
                     /plasmid="unnamed3"
                     /geo_loc_name="Russia"
                     /collection_date="2022"
     gene            complement(join(4438..5010,1..42))
                     /locus_tag="P4G31_RS28540"
                     /old_locus_tag="P4G31_28500"
     CDS             complement(join(4438..5010,1..42))
                     /locus_tag="P4G31_RS28540"
                     /old_locus_tag="P4G31_28500"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012822468.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="TIR domain-containing protein"
                     /protein_id="WP_019725132.1"
                     /translation="MGKHKVFISYHHANDQYYKNALEKMNEEHEIFVNRSVSLGDIDED
                     EAPQKIREIIRDEYLRDTSVLILLVGTETKNRKHVDWELYSSMRDSTINKKSGILVVNL
                     PSTNTTYIRSTHGTNEKSEVHPTVTEWFSIDKRSTYEERFPYMPARIIDNFMKSGSYIS
                     VVNWNQIENNPETLRKLIDMTYNDREKATYDMSREMRMHNS"
                     /name="TIR domain-containing protein"
     gene            444..845
                     /locus_tag="P4G31_RS28545"
                     /old_locus_tag="P4G31_28505"
     CDS             444..845
                     /locus_tag="P4G31_RS28545"
                     /old_locus_tag="P4G31_28505"
                     /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_019725133.1"
                     /translation="MTRVSISEAARLTGKSRTTLHRLIKTGELSTCSGERNTKMVDISE
                     LLRVFGPFDQPKNEHLTRQVPEQRDTAPADQSEHVIRQLKQQIEHLNILILSKDSHIDS
                     LKQAMLLLENHQAKLTEPPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(1645..1806)
                     /locus_tag="P4G31_RS28550"
                     /old_locus_tag="P4G31_28510"
     CDS             complement(1645..1806)
                     /locus_tag="P4G31_RS28550"
                     /old_locus_tag="P4G31_28510"
                     /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_162870772.1"
                     /translation="MAKHWSGQECPKTGTYGQYHDTDNSYAGSEYDRHVSKGDKFPPSK
                     NNHHFQEK"
                     /name="hypothetical protein"
     gene            2043..2288
                     /locus_tag="P4G31_RS28555"
                     /old_locus_tag="P4G31_28515"
     CDS             2043..2288
                     /locus_tag="P4G31_RS28555"
                     /old_locus_tag="P4G31_28515"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012848468.1"
                     /GO_component="GO:0110001 - toxin-antitoxin complex
                     [Evidence IEA]"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA];
                     GO:0097351 - toxin sequestering activity [Evidence IEA]"
                     /GO_process="GO:0045927 - positive regulation of growth
                     [Evidence IEA]; GO:0006355 - regulation of DNA-templated
                     transcription [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 Phd/YefM family
                     antitoxin"
                     /protein_id="WP_025987695.1"
                     /translation="MHAINFTDARKHFAETMKRVTDDAEPVRVMRRDAPDIVMIDAGEY
                     EALIETVYLFSNPANAEHINESMKQAERGEFVEVEY"
                     /name="type II toxin-antitoxin system Phd/YefM family
                     antitoxin"
     gene            2269..2544
                     /locus_tag="P4G31_RS28560"
                     /old_locus_tag="P4G31_28520"
     CDS             2269..2544
                     /locus_tag="P4G31_RS28560"
                     /old_locus_tag="P4G31_28520"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017412855.1"
                     /GO_process="GO:0008219 - cell death [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Txe/YoeB family addiction module toxin"
                     /protein_id="WP_019725129.1"
                     /translation="MSKWNIKFTRNGADDLNYWRDTDKKKFERIRQLLLSIEADPLTGI
                     GKPERLRHHKDPALYSRRIDQSHRLVYSIQNGEIIIYAARYHYGDK"
                     /name="Txe/YoeB family addiction module toxin"
     gene            2792..3697
                     /locus_tag="P4G31_RS28565"
                     /old_locus_tag="P4G31_28525"
     CDS             2792..3697
                     /locus_tag="P4G31_RS28565"
                     /old_locus_tag="P4G31_28525"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001697689.1"
                     /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_019725130.1"
                     /translation="MHNAALELFNERLPHKPYFSDDLHFGVRIAGKERAILAKYIQFNQ
                     PHAMFWLGFDVDRAGSSIDWSDRNAPAPTLTITNPENGHAHLLYALENSIRTAPDGKIK
                     PLRYAASVENALRKKLEADAGYSGLICKNPNHNHWKIAVWQPKLYTLDWLADFLDLNTG
                     NDKEIVADYGLGRNCTLFDKTRKWAYRAIRQGWPEYEQWLQACYERACAYNLQFARPLD
                     ENEVRGIAKSIAKWTSNKFSPEEFSKFVDITHSSEIQSKRGKKSGQSRRKGSLEEIKPW
                     VAMGISRRKYFYIKKNGEIR"
                     /name="replication initiation protein"
     gene            3694..4401
                     /locus_tag="P4G31_RS28570"
                     /old_locus_tag="P4G31_28530"
     CDS             3694..4401
                     /locus_tag="P4G31_RS28570"
                     /old_locus_tag="P4G31_28530"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001258875.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_004198042.1"
                     /translation="MKTFVTLWTIVFLAFIAVMCTVDISNYIPSVYTVFSKNRPLVTGA
                     LSILLISVFIWLMVSLYLLKKYSVKVEKLSLGGVNILFNESATLYKKSVKNHLDSKRAI
                     FKLRKNVDAFDEVISSYYQTYQFIRDEMKILNPKKDREIYDFSNEMLMVLNRFLTNYQN
                     NYKRWYKYISDKDEVVDRVSGDVMRFHATSINKIQMQYYDYERILKGFKDVNRFFVNDV
                     KPKFGINTDKWNW"
                     /name="hypothetical protein"
ORIGIN
        1 attcgcatgg tggtagctaa tgaatacctt atgctttccc atttttattg tccttttttt
       61 gtttgtgtgc actctatttt gcacttgaac ctatatcaga taacagctct cttttagaga
      121 gctctttttt tctcagccag cacacatagg gtcccttcag caaggtctcg ccatgactgg
      181 tttagggcgg gctcgttgct tccctaaacg ccttgagaag agagctatca cctcacttta
      241 ttcttacgta ccgctcgccg cagtcttatg accgaacgta gtgagcgaat gcgcgaggaa
      301 gcggaaagtc atttgttgcc tgcattttgc acggtcactc ctgtgtttca tcgcccttct
      361 gaaaaacaca tcacttctgg accagtatgt cgtaagctgg cccctgtttc cttgagactg
      421 aatgtattaa aggatgataa ctgatgacca gagtgtctat tagtgaggct gcacggctga
      481 cgggtaagag ccggacaacg ctgcacaggt taatcaaaac aggtgaactg tccacttgta
      541 gcggtgaacg aaatacaaaa atggtcgata tatcagagct tttacgtgtt ttcggaccgt
      601 ttgaccaacc gaagaatgaa caccttactc gacaagtacc tgaacagcgt gatacagcgc
      661 ctgctgacca gagtgaacat gtcattcgtc aactgaaaca gcagattgaa caccttaaca
      721 tattgatttt atcgaaggat tcgcacattg acagcctgaa acaggccatg ctccttcttg
      781 aaaatcacca ggcaaaatta actgaacccc cggcgccgtg gtggaaattc tggaaaaaat
      841 cctgaccccg tcatgcttca gttttcctct ccggccattc cggggagttc ctgaaccttc
      901 ccgaaaatcg tcagatctct gaacgctcct caccacgaaa aatacccaca ccccacgcaa
      961 aattttaatt ttgcagattt gtatttaata tcagcagctt actttactga aatttcgttt
     1021 tttaaatttt atttatatag atccgactct atgacgagtc gtcatagagt ccccggcgag
     1081 tcgtcataga gtcggtaacg actcaggcct ataaaaacaa tgagttaata acgacccgac
     1141 tctagatccg actccccgtt tggttgtttt ttagacgtgg cgactctggg tacgactcta
     1201 gtgaagagtc gccggggaat cgtgtggtga gtcgtccggc gacttgccat aacgtgattg
     1261 ccggccgtgg acgaaccgat tcctgaacgt gctgaaaacc ggttttccgg ctgcgccggc
     1321 aacgcttcac ggccacgcaa taaattgcgt ccccgttcac cgttttcgga tgggaagaac
     1381 gccggaaaca ggacttcccc tggctgaatg gtgtcaattt ccgcgctatg cacttgtgcg
     1441 catactcatg catgccgtaa aaacagagcc tgcgcgtttc tggcgggttt tcgggtggtt
     1501 tgttgccttg tttaccggtt tcccgtcaga aacgccctga gggcatctca ggcggtgctg
     1561 ataacggatg ttatggtaaa tcaagtgaat ggcaggtaca aaaaaagccc cagagggctt
     1621 ttagtttaga cttctgaaga tattttattt ttcttggaag tggtggttgt ttttgctcgg
     1681 agggaactta tcacccttgc tcacatggcg atcatattca gaaccagcgt atgagttgtc
     1741 ggtatcatga tattgaccgt aagtacctgt ttttggacat tcttgcccag accaatgttt
     1801 tgccatttac ttttcctttg ctcgttttag gagctaagct cctagcggta cgaaattgtg
     1861 ccgcacttca taaatgtaat tgcttgaaat tatgcttcaa tgtattgact tgttgttttt
     1921 gtggttattc gattgagttc acattttgag ctgatttggt tgtgggtttt tagggaaata
     1981 tctttatgta cttatttgcg tacatgttct atgctaagcc ccaacaaatg ggggttaaca
     2041 acatgcatgc aatcaatttt actgatgccc gtaaacattt tgccgagacg atgaagcgcg
     2101 tcactgatga tgctgaaccg gtacgtgtca tgcgccgtga tgcgcctgat attgttatga
     2161 tcgatgcggg agagtatgag gcgctaatcg aaacggtcta tctgttcagc aatccggcga
     2221 acgcagagca tatcaatgag tcaatgaaac aggcggagcg cggcgaattt gtcgaagtgg
     2281 aatattaagt tcactaggaa tggcgctgat gaccttaact actggcgtga tactgacaaa
     2341 aagaagtttg agcgtatccg gcaactgttg ctcagcatcg aggctgatcc gctgacaggt
     2401 ataggaaaac ccgaacggct gcggcaccac aaagatccgg cactctactc ccgcaggatt
     2461 gatcagagcc accgtctggt ctattcaatc cagaacggag aaatcatcat ctacgcagcc
     2521 cgttatcact atggtgacaa atagcaaaag tcgatatagc ccgcttgatg cgggcttttc
     2581 atgcaaggcg tacaacggat gttagggtaa gtcgctgtca gatcgacaca aaggcaaagt
     2641 cggtgtaacg ttagcctcag aaaaaacaaa gccccggaaa tcatgtcata tcttggcgga
     2701 tcgcatgata accagggcta ggtcgaaacc ttgaaaggat attagcacat gaaccgtgcc
     2761 agacaacagc ccgccataag cgcagggcac attgcataac gccgcactcg aacttttcaa
     2821 cgaacgctta ccacacaagc cgtacttttc ggacgatctg cactttggtg tccgtatcgc
     2881 cggtaaggaa cgcgctattc tggcgaaata tatccagttc aatcagcctc acgccatgtt
     2941 ctggctggga tttgacgttg accgcgccgg ttcctccatc gactggagcg accgcaacgc
     3001 gcctgcaccg acgctgacca taactaaccc cgaaaacgga cacgcgcacc tgctgtacgc
     3061 gctggaaaac tcgatacgca ccgcgccgga cggcaaaata aaaccgttac gctacgccgc
     3121 ctccgtggag aatgcgctac gtaaaaaatt agaggctgac gctggatatt cggggctcat
     3181 ctgcaaaaat ccgaaccaca accactggaa aatcgccgtg tggcagccga agctctacac
     3241 tctggactgg ctggccgact ttctcgatct gaacacaggg aatgacaagg aaatcgttgc
     3301 cgactacggc ttaggccgta actgcacgtt gttcgacaaa acccgtaagt gggcatatcg
     3361 cgccatccgt cagggctggc ctgagtatga gcagtggctg caagcctgct acgaacgcgc
     3421 ttgcgcatac aacctgcaat ttgcacggcc tctggatgaa aatgaggtaa gagggatagc
     3481 taagagcatt gctaaatgga catcaaataa attttcacct gaagaattca gtaaatttgt
     3541 tgatattact cattcctctg aaattcaatc aaagagaggg aaaaagtcag gacagtcaag
     3601 gaggaaagga agcctagagg aaataaaacc ttgggtagct atgggaataa gcaggcggaa
     3661 gtatttttat atcaagaaaa atggtgaaat aagatgaaaa ccttcgtaac tctttggact
     3721 atagtttttt tagcatttat tgccgtgatg tgtactgttg atatatctaa ttacattccg
     3781 tctgtttaca cagtttttag taagaataga cctcttgtaa ctggcgccct ttctattctt
     3841 ttgatatctg tttttatttg gctgatggta tccctctact tacttaaaaa gtattcggtt
     3901 aaggttgaga aacttagcct tggtggagtg aatatacttt tcaatgagag tgctacactt
     3961 tacaaaaaga gtgtaaaaaa tcacctagat tcaaaaagag caattttcaa attaagaaaa
     4021 aacgttgatg cctttgatga ggttatttca tcatattatc agacttacca atttattcgt
     4081 gatgaaatga aaatactaaa ccctaaaaaa gatcgtgaga tttatgattt cagcaatgag
     4141 atgctcatgg tgttaaatag atttctaact aactaccaga acaactacaa gcgttggtat
     4201 aagtacatat cagacaaaga tgaggttgtt gatagggtta gcggtgatgt catgagattt
     4261 catgcaacca gcataaataa aatacaaatg cagtattatg attatgagcg tattttaaaa
     4321 ggttttaaag atgttaaccg gttctttgtt aatgatgtga agcctaagtt tggaatcaat
     4381 acagataagt ggaactggta aattaaagga gtagccaagg ctactccttg gatagtacta
     4441 tgaattatgc attctcattt ctctcgacat atcatacgtt gctttttctc tatcgttata
     4501 agtcatgtct attaattttc tgagtgtttc tgggttgttt tctatttgat tccagttgac
     4561 cactgatata taagacccgc tcttcatgaa gttgtctatt attcttgctg gcatatatgg
     4621 gaacctttcc tcataagttg agcgcttatc aatagaaaac cattcagtta cggtaggatg
     4681 aacttctgat ttttcattag ttccatgtgt tgaacgaatg tacgtagtat ttgttgacgg
     4741 gagattgacg actaaaattc ctgatttttt gttaatggta ctatctctca tgctagagta
     4801 aagttcccaa tctacgtgtt ttctgttttt tgtttcagtt ccaacaagaa ggataagaac
     4861 tgatgtatct ctaagatatt catctcttat tatctctctt attttttgtg gggcttcatc
     4921 ttcatctata tcacctaatg atactgagcg attcacgaat atttcatgtt cctcattcat
     4981 tttttcaagt gcgtttttgt agtactgatc
//
