LOCUS       NZ_CP122467             2476 bp    DNA     circular CON 30-MAY-2024
DEFINITION  Klebsiella pneumoniae subsp. pneumoniae strain IITJ_U23 plasmid
            pU23UNK2, complete sequence.
ACCESSION   NZ_CP122467
VERSION     NZ_CP122467.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN34035886
            Assembly: GCF_029834625.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae subsp. pneumoniae
  ORGANISM  Klebsiella pneumoniae subsp. pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 2476)
  AUTHORS   Chakrabortty,A., Kapoor,A., Khochare,S., Dey,T., Arora,L., Tak,V.,
            Nag,V.L., Sivashanmugam,K. and Shankar,M.
  TITLE     Genome sequence of two ST16 strains causing ICU-acquired infections
            in Jodhpur India
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2476)
  AUTHORS   Chakrabortty,A., Kapoor,A., Khochare,S., Dey,T., Arora,L., Tak,V.,
            Nag,V.L., Sivashanmugam,K. and Shankar,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (04-APR-2023) Department of Bioscience & Bioengineering,
            Indian Institute of Technology Jodhpur, NH65, Nagaur Road, Karwar,
            Jodhpur, Rajasthan 342030, India
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.5.0
            Assembly Name                     :: IITJ_GMPL_KpnU23v1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 166x
            Sequencing Technology :: Illumina NovaSeq and Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_029834625.1-RS_2024_05_30
            Annotation Date                   :: 05/30/2024 05:01:51
            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)                     :: 5,816
            CDSs (total)                      :: 5,681
            Genes (coding)                    :: 5,520
            CDSs (with protein)               :: 5,520
            Genes (RNA)                       :: 135
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 95
            ncRNAs                            :: 15
            Pseudo Genes (total)              :: 161
            CDSs (without protein)            :: 161
            Pseudo Genes (ambiguous residues) :: 0 of 161
            Pseudo Genes (frameshifted)       :: 70 of 161
            Pseudo Genes (incomplete)         :: 90 of 161
            Pseudo Genes (internal stop)      :: 17 of 161
            Pseudo Genes (multiple problems)  :: 15 of 161
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP122467.1.
            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..2476
                     /organism="Klebsiella pneumoniae subsp. pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="IITJ_U23"
                     /isolation_source="Urine of ICU admitted patient"
                     /host="Homo sapiens"
                     /sub_species="pneumoniae"
                     /db_xref="taxon:72407"
                     /plasmid="pU23UNK2"
                     /geo_loc_name="India: Jodhpur"
                     /collection_date="2020-08-02"
                     /collected_by="AIIMS Jodhpur"
                     /identified_by="Prof. Vijaya Lakshmi Nag"
     gene            join(2389..2476,1..149)
                     /locus_tag="P9M41_RS29025"
                     /old_locus_tag="P9M41_29025"
     CDS             join(2389..2476,1..149)
                     /locus_tag="P9M41_RS29025"
                     /old_locus_tag="P9M41_29025"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001676031.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_096768690.1"
                     /translation="MNRLTNLTPAEKKFLDDAVAAAERASGKKLNQPNRHIVLNRARAQ
                     IESQRYADRQRALREGERQQSEFAWSRPRAPRS"
                     /name="hypothetical protein"
     gene            532..1416
                     /locus_tag="P9M41_RS29030"
                     /old_locus_tag="P9M41_29030"
     CDS             532..1416
                     /locus_tag="P9M41_RS29030"
                     /old_locus_tag="P9M41_29030"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001517860.1"
                     /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_094307619.1"
                     /translation="MRNAALELFNDRLPHKPYFSDDLHFGVRIAGKERAILAKYIQFNQ
                     PHAMFWLGFDVDRAGAAIDWSDRNAPAPTLTITNPENGHAHLLYALKTSIRTAPDGKMK
                     PLRYAAAVENALRKKLEADTGYSGLICKNPNHSHWKIAVWQPELYTLDWLADYLDLTTA
                     NDKEIVADYGLGRNCTLFDKTRRWAYRAIRQGWPEYDQWLQACYERASAYNLQFALPLD
                     ENEVMGIAKSIAKWTECNFSKDLFLEYVKNTHSSEIQSKRGKMSKGGGRKSLGEPWVEL
                     GVSRATYFRNRKK"
                     /name="replication initiation protein"
     gene            1413..2054
                     /locus_tag="P9M41_RS29035"
                     /old_locus_tag="P9M41_29035"
     CDS             1413..2054
                     /locus_tag="P9M41_RS29035"
                     /old_locus_tag="P9M41_29035"
                     /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_094307618.1"
                     /translation="MRLKNWLIPLVAWIVIFMGLKLILGGGCNDGWGSSSIGRMGACSH
                     HGGVNHTPGFIAFFISTAIAAYLFFKIDEMDTRKIKNAHSIQASYFEMESTSAPFNPCY
                     SLRLSSKEINFTHSSSWDGDKTVINIPSSPEELKYILSLSEKIKKDIENFREENTTFGC
                     DGEFVSIKTFNGSQEMSFVTPMLFISFESISPATLEMMTYLRNRLGFYLH"
                     /name="hypothetical protein"
ORIGIN
        1 taaatcagcc gaaccggcat atcgtcctga acagagcgcg tgcgcagatt gagtcgcagc
       61 gttacgccga ccgccagcgt gcattacgtg agggtgagcg gcagcagtcc gagtttgcct
      121 ggtcacgtcc gcgcgcgccg cgcagctgat tgcgcctttt ggcggtttag tggtgctgac
      181 actccgaaat cgtctgccat tcacccgcgt gcatagccat gcagtcgcgc agaaatcatc
      241 aggtgcgttt ttcagggtta tggccaggga aaggtgctgg aaatggctaa ctcgttacag
      301 agtggcgctg agggcctttc agagggtgcg cccaacggat gttatggtaa atcgtggtga
      361 gatcgacaga cggggaaaga cggtgtaacg ttaggaccag aaaaaacaaa gccccggcat
      421 catgtctaat cttggcggat ccgcatgata accagggcca ggtcgaaacc ttgaaaggat
      481 attagcacat gaaccgtgcc agacaacagc ccgccataag cgcagggcac attgcgtaac
      541 gccgcactcg aactttttaa cgaccgctta ccgcacaagc cgtacttctc ggacgatctg
      601 cacttcggtg tacgcatcgc agggaaagag cgagctatcc tggcgaaata catccagttc
      661 aatcagcctc acgccatgtt ctggctggga ttcgatgtcg atcgcgccgg tgccgccata
      721 gactggagcg accgcaacgc gcccgcgccc acgctgacca tcaccaatcc cgaaaacgga
      781 cacgcgcacc tgctctatgc gctgaaaact tcgatccgta ctgcgccaga cggaaaaatg
      841 aagccgctgc gctacgccgc cgctgtagag aacgcgctac gtaaaaaatt agaggccgat
      901 acgggttatt caggactaat ctgcaaaaac ccgaaccata gccattggaa aattgccgtg
      961 tggcagccag aactgtacac actggactgg ctagctgact atctcgactt gaccaccgcg
     1021 aacgataaag aaatcgttgc tgattacggc ttaggccgta actgcacttt gttcgataaa
     1081 acccgcagat gggcataccg agctattcgt cagggctggc ctgaatatga ccagtggctg
     1141 caagcctgct atgaacgtgc cagcgcttac aacctgcagt ttgcattacc tctggatgaa
     1201 aatgaggtta tgggaatagc aaaaagcatt gctaaatgga ctgagtgtaa tttcagcaaa
     1261 gatttgtttt tggaatacgt aaaaaatacg cattcttcag aaatacaatc aaaaagaggc
     1321 aaaatgagta aaggtggagg tagaaagtct cttggcgaac cgtgggttga attaggtgta
     1381 agtagagcta cttactttag gaatcggaaa aaatgagatt gaaaaactgg cttatcccac
     1441 ttgttgcatg gattgttatt tttatggggt tgaagttaat tttaggtggc gggtgcaatg
     1501 atggatgggg ttcgtcctca ataggaagga tgggggcctg ctctcatcat ggcggtgtta
     1561 accatacccc aggcttcatt gcttttttca tttccacggc cattgccgcc tatctttttt
     1621 ttaaaataga tgaaatggat acaaggaaaa taaaaaacgc ccatagcatt caagcaagtt
     1681 attttgaaat ggagtctact agcgctcctt tcaatccttg ctattcgtta aggttaagtt
     1741 caaaggaaat caatttcact cacagttcta gttgggatgg tgacaagact gttattaata
     1801 tcccatcctc ccccgaggag ttaaaataca ttctatcttt atcagagaaa ataaaaaaag
     1861 acattgaaaa ttttagagaa gaaaacacta cttttggatg tgacggggag tttgtgtcca
     1921 ttaaaacttt taatggctcc caagagatga gctttgttac cccaatgcta ttcattagct
     1981 ttgaaagtat atctcccgca acgcttgaaa tgatgactta cctaaggaat aggttaggtt
     2041 tttaccttca ttgaaggtca tcttagcttt agtgagacta aacaacctat atcagataac
     2101 agccctctct agcagagggc tgtttttttg cagccagcat agaatctgac atactgcacc
     2161 tatcttcagc cagtatacac tccgctagcg ctgcgtgact ggttcagggc tgcgccccga
     2221 aacccgctga aaagcactgt cgcgcctgcg gcttgcccaa cgtctcacgt caccggatta
     2281 aaatccgctc ccgttcaccg tttctggctg tctttcagca ccgccagcgc ttcatcggtt
     2341 ctgctgtgtc tggcagactg tgcggagtta ttctggcggg agaatgctat gaacagactg
     2401 acaaacctga cacctgcaga gaaaaaattt cttgatgatg ctgttgccgc agctgagaga
     2461 gcgtcaggca aaaagc
//
