LOCUS       NZ_CP134812             5596 bp    DNA     circular CON 29-SEP-2023
DEFINITION  Klebsiella pneumoniae strain F9 plasmid pWDMF9E, complete sequence.
ACCESSION   NZ_CP134812
VERSION     NZ_CP134812.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN37434702
            Assembly: GCF_031885215.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 5596)
  AUTHORS   Xiao,X.
  TITLE     Klebsiella pneumoniae F9, complete genome
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5596)
  AUTHORS   Xiao,X.
  TITLE     Direct Submission
  JOURNAL   Submitted (18-SEP-2023) Department of Laboratory Medicine, Southwest
            Medical University, Taiping, Luzhou, Sichuan 646000, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: unicycler v. v0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100.0x
            Sequencing Technology             :: Illumina HiSeq; PacBio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 09/28/2023 14:34:45
            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)                     :: 6,030
            CDSs (total)                      :: 5,909
            Genes (coding)                    :: 5,732
            CDSs (with protein)               :: 5,732
            Genes (RNA)                       :: 121
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 177
            CDSs (without protein)            :: 177
            Pseudo Genes (ambiguous residues) :: 0 of 177
            Pseudo Genes (frameshifted)       :: 66 of 177
            Pseudo Genes (incomplete)         :: 119 of 177
            Pseudo Genes (internal stop)      :: 22 of 177
            Pseudo Genes (multiple problems)  :: 30 of 177
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP134812.1.
            Bacteria and source DNA available from homo sapiens.
            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="F9"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="pWDMF9E"
                     /geo_loc_name="China:Luzhou"
                     /collection_date="2020-10-29"
     gene            join(5566..5596,1..182)
                     /locus_tag="RNM41_RS30100"
                     /old_locus_tag="RNM41_30100"
     CDS             join(5566..5596,1..182)
                     /locus_tag="RNM41_RS30100"
                     /old_locus_tag="RNM41_30100"
                     /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            849..1073
                     /locus_tag="RNM41_RS30105"
                     /old_locus_tag="RNM41_30105"
     CDS             849..1073
                     /locus_tag="RNM41_RS30105"
                     /old_locus_tag="RNM41_30105"
                     /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            1057..1323
                     /locus_tag="RNM41_RS30110"
                     /old_locus_tag="RNM41_30110"
     CDS             1057..1323
                     /locus_tag="RNM41_RS30110"
                     /old_locus_tag="RNM41_30110"
                     /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"
     gene            complement(1393..1743)
                     /locus_tag="RNM41_RS30115"
                     /old_locus_tag="RNM41_30115"
     CDS             complement(1393..1743)
                     /locus_tag="RNM41_RS30115"
                     /old_locus_tag="RNM41_30115"
                     /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(1809..2354)
                     /locus_tag="RNM41_RS30120"
                     /old_locus_tag="RNM41_30120"
     CDS             complement(1809..2354)
                     /locus_tag="RNM41_RS30120"
                     /old_locus_tag="RNM41_30120"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004197758.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_023317533.1"
                     /translation="MFFKRYLTEKEIYKAALPIVRLQGRVNTSLRFLSKYSDVNKNGLI
                     ALHLNLLHFISYNIHGVESLKITQAGINKAVQQSPHADEIKNIAQAIGRKGPEYIEGLI
                     RNPWGKKNDNPLIFIMSIEESIKETLNSGYMLYRVAPITEGEAAAFMDVLKQLLLFEDN
                     FRLFGRDLVYKIEKLKIR"
                     /name="hypothetical protein"
     gene            complement(2380..2706)
                     /locus_tag="RNM41_RS30125"
                     /old_locus_tag="RNM41_30125"
     CDS             complement(2380..2706)
                     /locus_tag="RNM41_RS30125"
                     /old_locus_tag="RNM41_30125"
                     /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(3064..3222)
                     /locus_tag="RNM41_RS30130"
                     /old_locus_tag="RNM41_30130"
     CDS             complement(3064..3222)
                     /locus_tag="RNM41_RS30130"
                     /old_locus_tag="RNM41_30130"
                     /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            3862..4038
                     /locus_tag="RNM41_RS30135"
                     /old_locus_tag="RNM41_30135"
     CDS             3862..4038
                     /locus_tag="RNM41_RS30135"
                     /old_locus_tag="RNM41_30135"
                     /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            4028..4372
                     /locus_tag="RNM41_RS30140"
                     /old_locus_tag="RNM41_30140"
     CDS             4028..4372
                     /locus_tag="RNM41_RS30140"
                     /old_locus_tag="RNM41_30140"
                     /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            4581..>5015
                     /locus_tag="RNM41_RS30145"
                     /old_locus_tag="RNM41_30145"
                     /pseudo=""
     CDS             4581..>5015
                     /locus_tag="RNM41_RS30145"
                     /old_locus_tag="RNM41_30145"
                     /inference="COORDINATES: protein motif:HMM:NF015397.3"
                     /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            5050..5559
                     /locus_tag="RNM41_RS30150"
                     /old_locus_tag="RNM41_30150"
     CDS             5050..5559
                     /locus_tag="RNM41_RS30150"
                     /old_locus_tag="RNM41_30150"
                     /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"
     Typing          3697..3776
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="90.361"
                     /coverage="97.0"
                     /evalue="1.1100000000000001e-21"
     Typing          complement(3114..3511)
                     /name="rep_cluster_2370"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.526"
                     /coverage="91.0"
                     /evalue="3.03e-139"
     Typing          4363..5594
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.757"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 cattagagca gctacagcag gactactcga aaaggctgga cgagtgggag agcgccttcg
       61 gggaatggcg gaaaatgtca gggcttatgc aacgggagaa cgcggcgctg agcgagcgcg
      121 tgacgcgctt gagtcagcag gtggaacgct tgagcgggca actgcagcgt ttgagccggt
      181 agtgcagcgt catgagatgg ccgtggccgc agaacgggcg cacgagcaac ggcagcacga
      241 aaaggaactg acggaagcgc gttcccggca gcgaagctat gacggtccgt cgctgggctg
      301 aaatgcagga aaacagggtt ctcatcgggc atttacgctg aaaccggatg tcattcacct
      361 ggctgcatgg ctatgcagcc aggtaaaatt tatctgtcgc gaacggggcg gtttatcggg
      421 tggtttgttg ccggttttac ctgactgcca ccccgttcgc ggcgaacccg tccggggcgg
      481 tgcgggcaac gggtgttatg tttaatcagc gtgaacggca gatacaaaaa agccccggag
      541 ggcttttaac tactgactta tttttttgaa gatttgctgg gtttcaattt gtcagtattt
      601 cccggcgttt ttttattgtc acgctggcgt ttatcaggtt cccctgttga atcggcaatt
      661 cgtttcggac ccggcttaag acccataatc gttatccttt caatagttaa gaggaaagcc
      721 ctcaagctag atatattgac cgcgttacgg attatcaaga ggggctaaca agattatttt
      781 ttgttctttt aggttgattg tggtactgtt gatatacatg tatagcaaat ggtgttcggg
      841 aggtttatat gcttgctatc cggttatctg atgagattga gtcccgtctg gactcgctgg
      901 cgaagcaaac cggcagaaca aagacgtttt atgcgcggga agcaatactg gcgcatctgg
      961 aagacctgga ggattattat ctttcagcag aaactgctgc acgcgttcgc cgtggtgatg
     1021 aagcagtgca ttcgtctgaa gacgtgagga agtcacttgg tctggacgat taactattcc
     1081 gatcgggcgc tcaaatcgtt acgcaagatg gacaaacaga acgcacgacg gattgtggat
     1141 tttatgagtt tacgcattgc agttgctgcc gatcctcgcc agtcagggaa gccgctcaaa
     1201 ggtgagctgg gcgagttctg gcgctatcgg gtgggagatt atcgcgttct gtgtgagatc
     1261 cgagatgacg agcttgttat ccttgccgcc acgattggac atcgccgcga agtttacgac
     1321 tgaagcccgc tatgcgggct tttttgatgc cgacaacagg tattatggta aatactcgac
     1381 taactacgtg ttctactgtt tgtcggtttt agttaaccag caggttgtct taacgataat
     1441 gtagccgtta tttttaacta ataaggtcat attgttaacg tcaggcataa taaaagacat
     1501 tatggcctca gagttatcat cagaagcagc tctctgcatt actacttcga ttcccttttc
     1561 tttgaatcta taagtatcca gttgcctatt aaacttagaa agacctacaa ccatacttag
     1621 tttgttatct ttaacagtaa gagatgcttc ctgagtacca ttacatcggt agtaagcggt
     1681 gtaaccgtca gcaaaagatc gaccggggaa tataaatgct aggaacgcaa ttaaccaata
     1741 catagttgag aatcttggta ttacacattt cactatcctc tctttcattt ttcgttcacc
     1801 atactttgtt atctgatttt taatttttct attttataaa ccaagtctct accaaaaagg
     1861 cgaaaattat cctcaaataa taataattgt ttaagaacat ccatgaaagc agctgcttca
     1921 ccctcagtta tgggagctac tctatataac atataacctg agttaagggt ttcttttata
     1981 ctttcttcaa tgctcattat aaatattagt ggattatcat ttttcttccc ccatgggttt
     2041 ctaattaatc cttcgatgta ctcaggtcct ttgcgtccta ttgcctgcgc aatatttttt
     2101 atttcatctg cgtgagggct ttgttgtaca gctttgttta tgcctgcttg agtgattttc
     2161 agagactcta caccgtgtat gttgtatgag ataaaatgta ataaattaag atgcaatgca
     2221 attaatccat ttttgtttac atctgagtat ttggataaaa aacgtaatga agtgttaact
     2281 ctcccttgaa gcctaacaat tgggagtgct gccttgtata tttccttctc cgttaaatac
     2341 cgtttaaaaa acataattct ccgcctccgt atagcgtgcc tattttattt cgtcgtaaaa
     2401 cttagctctg aaatattcct ttagaaccat catgtcatta ataattgaat ctatctcatc
     2461 cattttttct tggtattctt ttaatggtga agggagcggt aactcaatat ttgaaaagtg
     2521 attggcgaga tagggatcaa ggtttctcat ccattcaggc ttttcgccaa tgcgttcttc
     2581 aactgaaagt gaacctgata atctctggtt aataagatca cttagactca ttttggtttt
     2641 attcgaaagc cgttgtaagg attgctttaa tcctatatct agcatgatat ttgttctttc
     2701 tctcattacc cccccttgct attgcgtttt ttgttgcgca caaagctacc attgcgcatt
     2761 aagaaacgca ataaaaaagg agggagggag tggtttgtac atgatgtgca gtgcgctgag
     2821 ggcatcagtg gcgggtgttt ttccgtggga tggatggagc tccggggata acagaactga
     2881 cgatcattta aaggatcttc ttgagatcct ttttttctgc gcgtaatctc ttgcactgta
     2941 aacgaaaaaa ccgcctgggg aggcggtttg atcgaaggtt aagtcagttg gggaactgct
     3001 taaccgggta actgggtata cgagaccgca gataccaaaa ctgttctttc agtgtagccg
     3061 cagttaggca cccacttcaa gacctctcaa tatctctctc gtatatatcc agttaccaat
     3121 ggctgctgcc agtggcgttt ttgcgtgtcc gtccgggttg gactcaagat gatagttacc
     3181 ggaaagggcg cagcagtcgg gctgaacggg gggttcgtgc atacagccca gcttggagcg
     3241 aacgacctaa accgagccga gataccagca gcgtgagcta tgagaaagcg ccacgcttcc
     3301 cgaaagggaa aaaggcggaa caggtatccg gtaaacggca gggtcggaac aggagagcgc
     3361 acgagggagc cgccggagag aaatcaccgg catctttaag tcctgtcggg tttcgtcctc
     3421 ctctgacttg agcgtccatt tctgtgatgc tcgtcagggg aggcggagcc tatggaaaaa
     3481 cggcaacgcc gcatcctttt ctccggccct ttctgatttg agcgcctttg ctttatcccg
     3541 ttatccgtga gtcggtcacg cccgccgcag ccgaacggca ggagcgcagc taccgagtga
     3601 gcgaggaggc gtcatttcat ctgtccgtgc atggtattgc ggacgctcct gagccacata
     3661 tcacacctgc cacatgaggc actttcatga atcgtgctct catgccaaca tagtaagcca
     3721 gtatacacag cgtaaacgct gtgactggtt cagggctgcg ccccgaaacc cgctaacacc
     3781 actgacgcgc tggcgcttgt ccaacgccgg agcgacccgg aaaacttttc cgtgccgtcc
     3841 ggcgtttgcg aaggagggat aatgcagaag ccgaagaaga agccgctcgt cgtaaaaaaa
     3901 agatcctggc atccggcagt gatggcaaat ctgatgcgtc aggcacagga ggaagattac
     3961 cgccgggagc agatggcaga gcttgagcgt tcagcccggt cacattttgc ggatatcgga
     4021 ggagaggatg gcggttaagc gtacccgttt tttaggtatc cgggtgaccg atggggagta
     4081 ccagcagctg ctggagcgct gcaatggaag gcaactggcg gtgtggatgc gggaaacctg
     4141 tctcgatacg cgcccggcgc ggtcgttgcg gctgccgtcc atcgatccgg ttttgctgcg
     4201 ccagcttgcc gggatgggga acaacctcaa ccagatcgcc cggaaaatta acggcggcca
     4261 gtggtcaggc gctgaccggg ttcaggtggt ggccgcgctg atggccattg atgccgaact
     4321 cgagcggctg cggcatgccg tgctggaaaa gggggcagac gatgatcgtt aagtttcatc
     4381 cgcgagggcg aggcggcggt gccgggccgg tggattatct gctggggaaa gaccgccagc
     4441 gcgacggggc catcgtcctg cagggaaagc cggaggaggt ccgggagctt atcgacgcct
     4501 cgccctacgc caaaaagtac acctccggcg tcctgtcttt tgctgaacag gatttaccgc
     4561 ccggccagcg tgaaaagctg atggcgagct tcgagcgggt tctgatgccc ggactcgata
     4621 aagaccagta cagcgtgctg tgggttgaac accgggacaa ggggcggctg gaactgaatt
     4681 ttctggtacc gaacacggaa ctgctgaccg gcaggcgtct ccagccgtac tacgaccggg
     4741 cagaccgtcc gcgcatcgat gcgtggcaga ccgtggtgaa cgggcgactg gggctgcacg
     4801 acccgaacgc accggagaac cggcgcgcgc tggtgacgcc atcttcgtta cccaaaacga
     4861 agcaggaagc cgcagaggct attacgcggg gcttactggc cctcgcctcg tcaggggagc
     4921 ttaaaacgcg tcaggacgtc actgaggcgc tggaaagcgc aggttttgag gtcgtgcgca
     4981 ccacaaagag cagcatcagc attgccgacc cggacggagg gcgaaacatc cgacttaagg
     5041 gagccatcta tgaacagtct tttaacgctg gcgaaggact tagagcagaa atcgaaagcg
     5101 cagcagcaga gtaccggcga aatgctgaaa gccgcattca gcgagcacga gaagtctgtc
     5161 agagcggaac tgagcgaaag cgggaagaga atcagcgccg ccatccgcgc ccacgagcag
     5221 ggtatgagcg cggccatgca gtcgaaccgc ctgagcgtga tgcgtatggt cgggcggaca
     5281 tggctgacca tcacgatggt gtcaggactg ctgttcgcca gcctgagcgg ggtgttgtgg
     5341 tatcagggga gcttgatagc gtcaaatctg gccgaaatcg accggcagaa cgcagcgctg
     5401 tcgaagctga acgcgaagac ctggggcgtg acgtacctgg aagacagcaa cggacgtttt
     5461 ctggtgctgc cgaaggggac ggccgtagac aggacgcaga gctggacggt cgggaacggg
     5521 cggtcgaagc agaacgcgct gagactggtg aaggagtaag tgccgatgac cgagctggaa
     5581 aaacagttgc tgagcg
//
