LOCUS       CP085738                4938 bp    DNA     circular BCT 28-APR-2023
DEFINITION  Citrobacter freundii strain 52323CZ plasmid p52323CZ_1, complete
            sequence.
ACCESSION   CP085738
VERSION     CP085738.1
DBLINK      BioProject: PRJNA772913
            BioSample: SAMN22377420
KEYWORDS    .
SOURCE      Citrobacter freundii
  ORGANISM  Citrobacter freundii
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Citrobacter; Citrobacter freundii complex.
REFERENCE   1  (bases 1 to 4938)
  AUTHORS   Bitar,I., Papagiannitsis,C.C., Kraftova,L., Marchetti,V.M.,
            Petinaki,E., Finianos,M., Chudejova,K., Zemlickova,H. and Hrabak,J.
  TITLE     Implication of different replicons in the spread of the
            VIM-1-encoding integron, In110, in Enterobacterales from Czech
            hospitals
  JOURNAL   Front Microbiol 13, 993240 (2023)
   PUBMED   36687644
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 4938)
  AUTHORS   Bitar,i.
  TITLE     Direct Submission
  JOURNAL   Submitted (20-OCT-2021) Microbiology, Charles University in Prague,
            Alej Svobody 1655/76, Plzen 1 32300, Czech Republic
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Microbial assembly v. v.1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 464x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 10/22/2021 13:17:38
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 5.3
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 5,099
            CDSs (total)                      :: 4,977
            Genes (coding)                    :: 4,889
            CDSs (with protein)               :: 4,889
            Genes (RNA)                       :: 122
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 88
            CDSs (without protein)            :: 88
            Pseudo Genes (ambiguous residues) :: 0 of 88
            Pseudo Genes (frameshifted)       :: 29 of 88
            Pseudo Genes (incomplete)         :: 54 of 88
            Pseudo Genes (internal stop)      :: 20 of 88
            Pseudo Genes (multiple problems)  :: 13 of 88
            ##Genome-Annotation-Data-END##
            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..4938
                     /organism="Citrobacter freundii"
                     /mol_type="genomic DNA"
                     /strain="52323CZ"
                     /isolation_source="rectum"
                     /host="Homo sapiens"
                     /db_xref="taxon:546"
                     /plasmid="p52323CZ_1"
                     /geo_loc_name="Czech Republic: Prague"
                     /lat_lon="50.07 N 14.43 E"
                     /collection_date="2019-08"
                     /collected_by="Vseobecna fakultni nemocnice v Praze"
     gene            complement(join(3771..4938,1..137))
                     /locus_tag="LJU39_23730"
     CDS             complement(join(3771..4938,1..137))
                     /locus_tag="LJU39_23730"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002437803.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="PAS domain-containing methyl-accepting chemotaxis
                     protein"
                     /protein_id="UDV55488.1"
                     /translation="MFSLKNMFSLNLQRSAISYDAICQNKPVIEFSPEGVINKASPLFL
                     STMGYRADEIIGHHHRIFCPPSLVSSPEYSQFWQRLARGESFSGKYLRLAKGNRSVWLE
                     ASYIPVSDRRGRVIRVIKIAADISERVHSALEQEAVVNAINRSMAIITFNPEGIVLEAN
                     ENFVNATGYKRDEIIGKHHRLFCAETLYKSDEYRHFWESLNQGEFFSGLFPRLNRQGDP
                     LWFRATYNPVFNSDGQLYKIVKFATDVTADVLRNQREQEAAVHAWDMAVQTRESAQNGA
                     NVIENSILMIDRIAQGMGAVSTDISRLNNQSESIDDMVETIRKFAMQTRLIALNAAIEA
                     ARAGASGRSFAVVAAEVRNLAASVSSATEEIEQVVASNSQLAKDVLCGIENSLMNTREG
                     VTLMREAGEVMTSIQRNAAGVETAVKDVAISVKAG"
                     /name="PAS domain-containing methyl-accepting chemotaxis
                     protein"
     gene            complement(1048..1263)
                     /locus_tag="LJU39_23735"
     CDS             complement(1048..1263)
                     /locus_tag="LJU39_23735"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137422.1"
                     /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="UDV55489.1"
                     /translation="MTELEKQLLSALEQLQQDYSQRLDEWESAFAEWRSMCGLMQRENA
                     VLNERVSDLSTQVLSLSEQLRRLSGN"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(1270..1761)
                     /locus_tag="LJU39_23740"
     CDS             complement(1270..1761)
                     /locus_tag="LJU39_23740"
                     /inference="COORDINATES: protein motif:HMM:NF016710.2"
                     /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="UDV55490.1"
                     /translation="MSSLLTLAKDLEQQSKAQQKSTGEMLKAAFSEHEQSVRAELNASA
                     RRISDAISAHEQSMSEAMEKNRRSVLLTAGRTWLTILMVSALLIATSGSILWWQGRQIT
                     DNYTHLRQQEDTLAKMTARTWGVRYQESNDGRRFLILPPGMQAEAIPYDGTTWIRLKQE
                     "
                     /name="MbeB family mobilization protein"
     gene            complement(1736..2449)
                     /locus_tag="LJU39_23745"
                     /pseudo=""
     CDS             complement(1736..2449)
                     /locus_tag="LJU39_23745"
                     /inference="COORDINATES: protein motif:HMM:NF015397.2"
                     /note="incomplete; partial on complete genome; 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            complement(2439..2762)
                     /locus_tag="LJU39_23750"
     CDS             complement(2439..2762)
                     /locus_tag="LJU39_23750"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /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="UDV55491.1"
                     /translation="MLTMWVTEDEHRRLLERCDGRQLAAWMRQTCLDEKPARTAKLPSI
                     SPALLRQLAGMGNNLNQIARRVNAGVGTGHDRVQIVAALMAIDAGLERLRHAVLEKGTD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     Typing          complement(2878..3050)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="9.14e-86"
     Typing          2975..3521
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.545"
                     /coverage="90.0"
                     /evalue="0.0"
     Typing          complement(948..2449)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="83.692"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(2446..2762)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.509"
                     /coverage="99.0"
                     /evalue="3.03e-59"
ORIGIN
        1 gagagaaaaa gcgggctggc tttatttatc accccctccg gactgaactc aatgacaggc
       61 ttattctgac aaattgcgtc atacgaaatg gctgatcgct ggaggttcag ggagaacata
      121 tttttaagtg aaaacatatg aatcagattg cccggataat gtaagtactg ccatggttat
      181 cggctactcc ttatgtagcg ttatatatta ctgcgacagg gcgggaaaaa gcccgctctt
      241 cagccatgcc ggcatgatgt ccggctccgg atttcacgcg taaaaaaccc gccatcttta
      301 gcgggctgaa caataagaaa atgttcatat ttacggcaaa tccgccggct ccagcagaga
      361 agctggcgtc tatcaatctt ggaagaacca gcgcagctcc gcatgcatta acaggcatca
      421 gaaggcaaaa aaatggctca catccgggag ccggaaaaca ctcaactgcc tggatcgcag
      481 cacatccttt gtgaaggata atttaagtat cggccggatt gccgcgggca taagcccggc
      541 cggcataatt ttttccgtat ccgccagacc tcggctttta acataacacc ccttgcccgc
      601 accgcagaaa cggggttggc tgcgtttccg gtgccagacg cgagaaagtg gcgacagaca
      661 tgacgaaaaa acaccaaaaa cgcagccgct ggatattaca ctgatgcata gtcatgcagc
      721 cagatgcatg cagcgtaaag tcacactaaa atcagcgcga acgccttaaa aaccggcaaa
      781 tgcctctccg gcaactcaca cagctccatc accaggtaaa aacagttcag cagggcttca
      841 ataacgttga gaattttcat cacttcctcc gggataagtc actaccattc cggtagtcag
      901 cctatttagc aggaacgcga tgagcccttc ttcgtgcggg ctgtcacctc atcttcggac
      961 catcgaaact cttctgcttc tgtcggagcg tcagctccag ctcgttctga cgctgatact
     1021 ccagtgcagc cttctcctcg atggcattca gttcccggac aagcggcgca gctgctcgct
     1081 taaactcagc acctgcgtgc tcaagtccga cacgcgctcg ttcagcaccg cgttctcccg
     1141 ttgcataagt ccacacatgc tccgccattc cgcgaaggcg ctctcccatt cgtccagcct
     1201 ttgcgagtag tcctgctgta gctgctctaa tgcgctcagc aactgctttt ccagctctgt
     1261 cattttccgc tactcctgtt tcaggcggat ccaggtcgtc ccgtcgtagg ggatggcttc
     1321 ggcttgcatc cccggcggca ggataaggaa cctccggccg tcgttgctct cctgatagcg
     1381 tactccccac gtccgggcgg tcattttcgc cagggtatct tcctgctgac gaagatgtgt
     1441 gtaattgtcg gttatctgcc gtccctgcca ccacagaatg ctcccgctcg tggcgatcag
     1501 cagcgctgac accatcagga tggtgagcca tgtcctcccg gccgtcagca acacgctccg
     1561 ccggtttttc tccatcgcct cgctcatact ctgctcgtgg gcgctgatgg cgtcgctgat
     1621 tctcctcgcg cttgcgttca gttccgctct gacagactgc tcgtgctcgc tgaatgcggc
     1681 tttcagcatc tcgccggtac tcttctgctg cgctttcgat tgctgctcta agtccttcgc
     1741 cagcgttaaa agactgctca tagatggctc ccttcagtcg gatgtttcgc cccccgtcag
     1801 ggtcggcaat gctgatactg cttttcgttg tacgcaccac ctcaaaacct gcaccttcaa
     1861 gagcctcagt gacgtcctga cggcttttca gctccccgga cgaggctaag ctcagcagtc
     1921 cacgggtgat ggcttctgcg gcttcctgct tcgttttcgg cagtccggcc ggcgtgacca
     1981 gcgcccggcg gttttccggc gcgttcggat cgtgcagccc cagtctgccg ttcacgatgg
     2041 tctgccaggc atcgatacgc ggccggtcgg cgcggtcgta gtacggctgg agccgcctgc
     2101 cggtcagcag ctcggtattg gggatcagaa agttcagctc cagacgcccc ttgtcctcgt
     2161 gctccaccca cagaatgctg tactgatctt tatcaagtcc gggcatcaga acccgctcga
     2221 agctggccat cagtttttcc cgctggccgg gaggcagatc ggcctccgca aacgacagga
     2281 cgccggaggt gtatttcttc acgtaaggcg acgcgtcgat cagctcccgg acttcttccg
     2341 gcttcccctg caggacgctg gcgccttcac gctgccggtc tttacccagc agatagtcca
     2401 ccggcccggc gccaccgccg cgaccgcgtg gatgaaattt aacgatcatc gtccgttcct
     2461 ttctcaagaa cggcgtgccg cagccgctca agcccggcat cgatggccat cagcgccgcc
     2521 acaatctgca cccggtcatg accggtaccg acgccggcgt taacacggcg ggctatctgg
     2581 ttcaggttgt tgcccatacc ggcaagctgg cgcagcagcg ccggcgagat cgaaggaagt
     2641 tttgcggtac gagccggctt ttcgtccagg caggtctgcc gcatccacgc cgccagctgc
     2701 ctgccgtcgc agcgctcaag tagccgcctg tgctcatcct ccgtcaccca catggtgagc
     2761 atcttgttcc gtttctctga caaaacagtc tcctgataac cccgggacgg gcgggaaaac
     2821 ctttcccggt cggcgcgggg ttggacaagc cgcaggcgcg tcagtggctg ttagcgggtt
     2881 tcggggcgca gccctgaacc agtcacgtag cgctagcgga gtgtatactg gcttactatg
     2941 ttggcacgga tgcgaatatc agtgaagtgc ttcatgtggc aggagaaaaa tgcagcagcg
     3001 gagcgtcagc agaatatgcg atacaggata tattccgctt cctcgctcac tgactcgctg
     3061 cgctcggtcg ttcggctgcg gcgagcggta ccggcttaca ggcggggcgg aaatttcctg
     3121 ggagatgcca gaaagaagct taacagggaa gcgataaggc cgcggcgaag ccgtttttcc
     3181 ataggctccg cccccctgac aagcatcacg aaatctgacg ctcaaatcag tggtggcgaa
     3241 acccgacagg actataaaga taccaggcgt ttccccctgg tggctccctc gtgcgctctc
     3301 ctgttcctgc ctttcggttt accggtgtca ttccgctgtt atggccgcgt ttgtctcatt
     3361 ccacgcctga cactcagttc cgggaaggca gttcgctcca agctggactg tatgcacgaa
     3421 ccccccgttc agtccgaccg ctgcgcctta tccggtaact atcaacttga gtccaatccg
     3481 gaaaaacacg acaaagcgcc actggcagca gccactggta acaggtttag aggaggagag
     3541 tcttgaagtt tcgggtgcga taaggctaca ctgaaaggac agttttggtg actgtgctcc
     3601 tccaagccag ttaccgcggt tcaaaagagc gtcaactctt gcgaaccttc gaaaaagcca
     3661 ccttgccggg tggttttttc gttttcagag caagagatta cgacgcaacg gaaaggatct
     3721 caagaagatc atctgtgatg ttcgacagat atggggatat gcaccatggc ctatccggct
     3781 ttaactgaaa tggcgacatc cttaaccgca gtctcaaccc ctgcagcatt cctctgaatg
     3841 ctggtcataa cttcacccgc ttcgcgcatg agtgtaaccc cttcccgagt gttcatcagg
     3901 ctgttttcaa tgccacagag aacatccttg gccagttgac tattgctggc cacgacttgc
     3961 tcaatttctt cagtcgcgct actgacgctc gccgcaagat tacgcacttc tgcggcaaca
     4021 accgcaaaac ttcttccgga tgcgccagcc cttgctgctt caatcgcggc attcagtgca
     4081 ataagtcttg tctgcatggc aaacttccgg atggtttcca ccatatcgtc aatactttca
     4141 gactgattgt tgagccgtga gatatcggtg gagacagccc ccatcccctg cgcaattctg
     4201 tcaatcataa ggatgctatt ttcaataaca ttggcaccgt tctgcgcact ttctcgggtc
     4261 tgcacggcca tatcccatgc atgcacagca gcctcttgct ctctctggtt tcgcaggaca
     4321 tcagccgtaa catctgtagc gaatttcaca attttataaa gctgcccatc actgttaaag
     4381 acagggttat aagttgcacg gaaccacaga gggtctccct gacggttaag gcgtggaaac
     4441 agaccagaaa aaaactcacc ttgattcaga ctctcccaga aatgtcggta ttcatcactt
     4501 ttgtaaagcg tctcggcaca gaacagacga tgatgcttac ctatgatttc atcccgctta
     4561 tagccagtgg cattgacgaa attttcattt gcttcaagca cgatcccttc aggattgaag
     4621 gtgatgatgg ccatagaacg gtttatggca tttacgactg cttcctgctc aagagcagaa
     4681 tgcacgcgct cagaaatatc ggcagcaatt ttaatgactc tgataacacg gccgcgcctg
     4741 tcagaaacgg ggatataact ggcttcaagc catacggaac gatttccctt tgccagccgc
     4801 aggtacttgc cactaaagct ttctcccctg gcaaggcgct gccagaactg gctgtattcc
     4861 ggtgaactta ccagcgaggg cgggcagaat atacgatggt ggtgaccgat tatttcatca
     4921 gccctgtacc ccatagtg
//
