LOCUS       NZ_CP027164             5446 bp    DNA     linear   CON 04-JAN-2024
DEFINITION  Klebsiella pneumoniae strain AR_0361 plasmid unnamed4.
ACCESSION   NZ_CP027164
VERSION     NZ_CP027164.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN07291504
            Assembly: GCF_002968495.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 5446)
  AUTHORS   Benahmed,F.H., Lutgring,J.D., Yoo,B., Machado,M., Brown,A.,
            McAllister,G., Perry,A., Halpin,A.L., Vavikolanu,K., Ott,S.,
            Zhao,X., Tallon,L.J., Sadzewicz,L., Aluvathingal,J., Nadendla,S.,
            Voskania-kordi,A., Simonyan,V., Patel,J. and Shawar,R.M.
  TITLE     FDA/CDC Antimicrobial Resistant Isolate Bank Genome Sequencing
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5446)
  AUTHORS   Benahmed,F.H., Lutgring,J.D., Yoo,B., Machado,M., Brown,A.,
            McAllister,G., Perry,A., Halpin,A.L., Vavikolanu,K., Ott,S.,
            Zhao,X., Tallon,L.J., Sadzewicz,L., Aluvathingal,J., Nadendla,S.,
            Voskania-kordi,A., Simonyan,V., Patel,J. and Shawar,R.M.
  TITLE     Direct Submission
  JOURNAL   Submitted (26-FEB-2018) Center for Devices and Radiological Health,
            US Food and Drug Administration, 10903 New Hampshire Avenue, Silver
            Sring, MD 20993-0002, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: SMRT v. 2.3.0; HGAP v. 3.0
            Genome Coverage                   :: 17.81x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/04/2024 16:32:59
            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)                     :: 5,541
            CDSs (total)                      :: 5,418
            Genes (coding)                    :: 5,287
            CDSs (with protein)               :: 5,287
            Genes (RNA)                       :: 123
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 131
            CDSs (without protein)            :: 131
            Pseudo Genes (ambiguous residues) :: 0 of 131
            Pseudo Genes (frameshifted)       :: 58 of 131
            Pseudo Genes (incomplete)         :: 80 of 131
            Pseudo Genes (internal stop)      :: 14 of 131
            Pseudo Genes (multiple problems)  :: 18 of 131
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP027164.1.
            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/
FEATURES             Location/Qualifiers
     source          1..5446
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="AR_0361"
                     /db_xref="taxon:573"
                     /plasmid="unnamed4"
     gene            55..915
                     /locus_tag="CSB98_RS28535"
                     /old_locus_tag="CSB98_5191"
     CDS             55..915
                     /locus_tag="CSB98_RS28535"
                     /old_locus_tag="CSB98_5191"
                     /EC_number="3.5.2.6"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001620095.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="extended-spectrum class A beta-lactamase SHV-12"
                     /protein_id="WP_002904004.1"
                     /translation="MRYIRLCIISLLATLPLAVHASPQPLEQIKQSESQLSGRVGMIEM
                     DLASGRTLTAWRADERFPMMSTFKVVLCGAVLARVDAGDEQLERKIHYRQQDLVDYSPV
                     SEKHLADGMTVGELCAAAITMSDNSAANLLLATVGGPAGLTAFLRQIGDNVTRLDRWET
                     ELNEALPGDARDTTTPASMAATLRKLLTSQRLSARSQRQLLQWMVDDRVAGPLIRSVLP
                     AGWFIADKTGASKRGARGIVALLGPNNKAERIVVIYLRDTPASMAERNQQIAGIGAALI
                     EHWQR"
                     /name="extended-spectrum class A beta-lactamase SHV-12"
     gene            complement(936..1697)
                     /locus_tag="CSB98_RS28540"
                     /old_locus_tag="CSB98_5192"
     CDS             complement(936..1697)
                     /locus_tag="CSB98_RS28540"
                     /old_locus_tag="CSB98_5192"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005226821.1"
                     /GO_function="GO:0003700 - DNA-binding transcription factor
                     activity [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DeoR/GlpR family DNA-binding transcription
                     regulator"
                     /protein_id="WP_002210513.1"
                     /translation="MIPIERHQRILALVEQRGAVSINELTEILGVSHMTIRRDVSKLEE
                     QGLLVSVSGGVRAVSRLAAEPSHLVKSTLQSEEKQAIGALAASHIAKNSCIYLDAGTTT
                     LALARAILDRNDLQVVTNDFEITQLLIDASQCGVIHTGGTLCRENRSCVGESAARTLRH
                     LAIDTAFISASGWDSRGIFTPDENKVTVKETVSQVSARSILLCDSSKYNQVATFMALPL
                     TRFTTIITDRHLSDAAASHIARHACEVLRAG"
                     /name="DeoR/GlpR family DNA-binding transcription
                     regulator"
     gene            1959..2861
                     /gene="ltnD"
                     /locus_tag="CSB98_RS28550"
                     /old_locus_tag="CSB98_5193"
     CDS             1959..2861
                     /gene="ltnD"
                     /locus_tag="CSB98_RS28550"
                     /old_locus_tag="CSB98_5193"
                     /EC_number="1.1.1.411"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005226820.1"
                     /GO_function="GO:0016616 - oxidoreductase activity, acting
                     on the CH-OH group of donors, NAD or NADP as acceptor
                     [Evidence IEA]"
                     /GO_process="GO:0005975 - carbohydrate metabolic process
                     [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="L-threonate dehydrogenase"
                     /protein_id="WP_002903955.1"
                     /translation="MAAHTNVCVIGLGSMGMGAARACLQAGLNTWGVDINPDNCRALLA
                     AGAKGAGPSAVPFAAELDAVVLLVVNAAQVRGILFGESGLAAHLKPGTVVMVSSTIASA
                     DAQAIAEALAEYQLLMLDAPVSGGAVKAAAGDMTVMASGSDAAFARLAPVLDAVAGKVY
                     RIGSDIGLGSTVKIIHQLLAGVHIAVAAEAMALAARAGIPLETMYDVVTHAAGNSWMFE
                     NRMQHVLDGDYSPKSAVDIFVKDLGLVNDTARALTFPLPLATTALNMFTSASNAGFGRE
                     DDSAVIKIFNGITLPGHKQ"
                     /name="ltnD"
     gene            2873..4083
                     /gene="otnK"
                     /locus_tag="CSB98_RS28555"
                     /pseudo=""
     CDS             2873..4083
                     /gene="otnK"
                     /locus_tag="CSB98_RS28555"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005226819.1"
                     /GO_function="GO:0005524 - ATP binding [Evidence IEA];
                     GO:0016301 - kinase activity [Evidence IEA]"
                     /GO_process="GO:0005975 - carbohydrate metabolic process
                     [Evidence IEA]"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="3-oxo-tetronate kinase"
                     /name="otnK"
     gene            complement(4070..>5446)
                     /locus_tag="CSB98_RS28560"
                     /old_locus_tag="CSB98_5196"
                     /pseudo=""
     CDS             complement(4070..>5446)
                     /locus_tag="CSB98_RS28560"
                     /old_locus_tag="CSB98_5196"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_032490160.1"
                     /GO_function="GO:0004803 - transposase activity [Evidence
                     IEA]"
                     /GO_process="GO:0006313 - DNA transposition [Evidence IEA]"
                     /note="incomplete; too short partial abutting assembly gap;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="Tn3-like element IS3000 family transposase"
                     /name="Tn3-like element IS3000 family transposase"
     ARG             56..912
                     /name="blaSHV-12"
                     /gene="blaSHV-12"
                     /gene_name="extended-spectrum class A beta-lactamase
                     SHV-12"
                     /tool="amrfinderplus"
                     /drug_class="BETA-LACTAM"
                     /identity="100.0"
                     /coverage="100.0"
ORIGIN
        1 ttgtcgcttc tttactcgcc tttatcggcc ttcactcaag gatgtattgt ggttatgcgt
       61 tatattcgcc tgtgtattat ctccctgtta gccaccctgc cgctggcggt acacgccagc
      121 ccgcagccgc ttgagcaaat taaacaaagc gaaagccagc tgtcgggccg cgtaggcatg
      181 atagaaatgg atctggccag cggccgcacg ctgaccgcct ggcgcgccga tgaacgcttt
      241 cccatgatga gcacctttaa agtagtgctc tgcggcgcag tgctggcgcg ggtggatgcc
      301 ggtgacgaac agctggagcg aaagatccac tatcgccagc aggatctggt ggactactcg
      361 ccggtcagcg aaaaacacct tgccgacggc atgacggtcg gcgaactctg cgccgccgcc
      421 attaccatga gcgataacag cgccgccaat ctgctgctgg ccaccgtcgg cggccccgca
      481 ggattgactg cctttttgcg ccagatcggc gacaacgtca cccgccttga ccgctgggaa
      541 acggaactga atgaggcgct tcccggcgac gcccgcgaca ccactacccc ggccagcatg
      601 gccgcgaccc tgcgcaagct gctgaccagc cagcgtctga gcgcccgttc gcaacggcag
      661 ctgctgcagt ggatggtgga cgatcgggtc gccggaccgt tgatccgctc cgtgctgccg
      721 gcgggctggt ttatcgccga taagaccgga gctagcaagc ggggtgcgcg cgggattgtc
      781 gccctgcttg gcccgaataa caaagcagag cgcattgtgg tgatttatct gcgggatacg
      841 ccggcgagca tggccgagcg aaatcagcaa atcgccggga tcggcgcggc gctgatcgag
      901 cactggcaac gctaagccgg cggtggccgc gcgcgttatc cggcccgcag cacctcgcag
      961 gcgtgccggg cgatatgact ggcggcggca tcggaaagat gccggtcggt aatgatggtg
     1021 gtgaaccggg tcaaaggtaa cgccataaac gtggccacct gattgtattt cgaactgtcg
     1081 cacagcagga tgcttctcgc gctgacctgg ctgacggtct ccttgacggt aaccttgttc
     1141 tcatcagggg tgaatatccc gcgactgtcc cagccgctgg cggagataaa ggccgtatcg
     1201 atagccaggt ggcgtaacgt acgcgccgcc gattcgccca cgcaggagcg gttctcccgg
     1261 cacagagtgc cgccggtgtg gatcacgccg cactggctgg catcgatcag cagctgggtt
     1321 atctcaaaat cattggtgac cacctggaga tcgttccggt cgaggatcgc ccgcgccagc
     1381 gccagggtgg tagtcccggc atccagatag atgcaactgt ttttagcgat atgactcgcc
     1441 gccagcgcgc cgatcgcctg tttctcctca ctctgcagcg tgcttttcac cagatgactg
     1501 ggttccgcgg ccagccggct gacggcgcgt acgccgcccg agacgctgac cagcagcccc
     1561 tgctcctcca gtttactgac gtcccgacgg atggtcatat gggacacgcc gaggatctcc
     1621 gtcagctcgt taatgcttac cgccccacgc tgctccacca gggctaaaat acgctgatgt
     1681 cgttctattg gaatcaccgc tctcccctta ccattttttc acaccaggcg tcaccaccca
     1741 ggctacggcc ctggcgacac ccggtgttgt tatcgcgctt tgccgctgtt ttttacgcta
     1801 ttttagggca agaatcgccg ctgtgcagcc tctttccgcc tgtgaatttt ttatattcat
     1861 gtgggttatt cgtgataact ctcacataaa ttcacatgat aacgctttat tctatcatta
     1921 aatcacatta attaactaat gttcacaagg agaccagcat ggctgcacac actaacgtct
     1981 gcgtgattgg actgggttca atgggcatgg gcgccgcccg cgcctgcctg caggcgggcc
     2041 tgaacacctg gggcgttgac atcaatcccg acaactgtcg cgcactgctg gcggcgggcg
     2101 ccaaaggcgc gggccccagc gcggtgccgt tcgccgcgga actggatgca gttgtgctgc
     2161 tggtggtcaa tgccgcccag gtgcggggga tcctgttcgg cgagagcggc ctcgccgccc
     2221 atctgaagcc gggcaccgtc gtgatggtgt cgtccaccat cgcctccgcc gatgctcagg
     2281 ccattgccga ggcgctggcg gagtaccagc tattgatgct cgacgcgccg gtatcgggcg
     2341 gcgccgtgaa agcggccgcc ggcgacatga cggtgatggc ctccgggagc gatgccgcct
     2401 ttgcccgact cgcgccggtg ctggacgccg tggccggcaa agtctaccgc atcgggagcg
     2461 acattggtct tggctcgacg gtaaaaatta tccatcagct gctggccggg gtgcacatcg
     2521 ccgttgccgc cgaagcgatg gcgcttgccg cccgcgccgg gatcccactg gagacgatgt
     2581 atgacgtggt cacccacgcg gcgggtaatt cctggatgtt tgagaatcgc atgcagcacg
     2641 tcctggatgg cgattactcg ccaaaatccg ctgtcgatat ttttgtcaaa gatctcgggc
     2701 tggtgaatga cactgcccgg gcgctgacct tcccgctgcc gctcgctacc accgcgctga
     2761 atatgttcac ctccgccagt aatgccggat tcggtcggga agatgacagc gcggtgatca
     2821 agattttcaa cggcatcacc ctgccgggcc ataaacagtg aggagagaca acatgcagct
     2881 tggtgtcatt gccgatgact tcaccggcgc cacggatatt gccagcttcc tcgtgcgcaa
     2941 cggcatgccg acggtgcaac tgaatggcgt gccgacccgc gatattccgc tgaccagcga
     3001 ggcggtggtc atcagcctga aaacccgctc ctgcccggcg gaaatggccg tcagccagtc
     3061 gctggcggcc ctgcgctggc tgcaggccca gggctgtcag cagttttatt tcaagtactg
     3121 ttccactttc gacagcaccg cgcagggcaa cattggcccg gtgctggatg ccctgctggc
     3181 cgagctgggt gagacgcgga cggtgatttc cccggcgctg ccggttaacg gccgcacggt
     3241 ctatcaggga tatctgttcg tcggcgagca actgctgaat gagtccggga tgcgccacca
     3301 tccggtgacg ccgatggagg atgcgcacct gggccgctta attgagcgcc aagggcgcgg
     3361 aaaagccgcg ctgattgcct ggccgattgt cgcccggtcg ccgccgcgct ggcggcagtc
     3421 aacgatccgg cggtgcgcta tgtggtgctc gacgccctca gcgaacagga tctgctcacc
     3481 cagggcgtgg cgctgcggga gatgaagctg gtctccggcg gttccggcct cgccatcggc
     3541 ctcgcccgcg actgggcgca gcgccatggc gccagggggg aaagcgctca ggccggcatg
     3601 ccgctggccg gtccggcggt ggtgctctcg ggctcctgct cggtgatgac caacagccag
     3661 gtggcggcct atcgtcaaca ggcccccgcc cgcgccgtcg acttaagcgc ctgctttacc
     3721 gatctggaga gctacgtcag gacgctgact gactgggtgg acgcgcagcg cgatgcgccg
     3781 ctggcgccga tgatctatgc caccaccgag ccgcaaacgc tgcagcggat ccaggcgcag
     3841 tatggcgaca aggccagcag cgaacgggtg gaacagctgt ttgccgctct tgccgccgcc
     3901 ctgaaggcga acggatttac ccgctttatt gtggccggag gggaaacgtc gagcattgtg
     3961 gcgcagaccc tgggggttga ggcgttccat attggggttc tagggatttt ccgtccaaaa
     4021 acgacaaagt gctctggagg ccgcgccgtc cgtggcctcc agaggggtat tacttttcgc
     4081 tgacgggtaa atatccctcg attgagcgca taagctcctc cagatctggc aatttttcgc
     4141 tcaattcgaa gtggtaagtc cccttgaggt taatgttgtg ccaggccaca ggggatgcct
     4201 gtttgacgat atctattctc ttggtatctc cttggtattc gaagctggtc aacagctggc
     4261 tgagtatcct ggagttgaag taaacgatgg cattggtgac caggcgagcg cactcattcc
     4321 atagctggat ttcttcgtct gaactgcccc ggaactgatc cccattgacg ctgctcacgg
     4381 cccgacgcag ttggtgatag gcctctcccc ggttcagcgc gcgctgaaca tagtttctta
     4441 aactggcatc atcgatgtag cacagtagat aattcgcttt caccaggcga ttgtattccg
     4501 tcagggcttc cagcagcggg tgattgcgct tgtactccga gagctttctc accaaggtgg
     4561 cttgcgttgt tttccgctgc ttaagtgata ctgcaatccg ttggatggta tcccagtgct
     4621 gcgcaatacg atgggtattg attggctttt ttaagcacag ctgaattcgg tgttctttgt
     4681 cttccttgac atcaaacatg tcattgatca ctttgccaac ctgggcatag cgtggggcaa
     4741 actggtatcc gaacagatcc agtaacgcga agttcacatg gttcacccca tgggtatcgg
     4801 ttgagagcac atccggaatg atgtctgacg tattgctcat caacaaatca aagatgtagt
     4861 gcgattcatg ttcgttggcg ccgatcactc tggcgttgat cgcagcgtga ttggcgatca
     4921 aggtcatggc agaaacacct ttttgagtgc caaagtactt cgacgaataa cgggttttga
     4981 aggtctcgcg ccgggcttcg aacttttgac catcggcact ggcgtggatc acatcttcct
     5041 ggatgttgta gtaccggaag atgggtagct tggctgtcgc gttattgatg ttgtcgttag
     5101 cagcattcaa tgtttccagg cgaagatagt tcgcctggat agtgctgagc tgatcatagg
     5161 tacgatcaga gatctgtgcc atgccgtaaa tgccttgatt ggttgcattg ccgaccagaa
     5221 ttgccaacag gtcatattca tgggaacggc ttctggattg ggaacccagc acatgagcga
     5281 agcagtcaat gaaaccggtg tcacgatcaa ccatgcgcag tacatccgca atccccgttg
     5341 tgggaatttg ctggaagaag ggattgttga ccagatgatg tttgctggcc gaaggcaggc
     5401 gccagaagcg tttaccctgc ggattacgca agatgatatt ccggtt
//
