LOCUS       NZ_CP137191             4665 bp    DNA     circular CON 31-JAN-2024
DEFINITION  Citrobacter freundii strain F1917 plasmid pF1917-8, complete
            sequence.
ACCESSION   NZ_CP137191
VERSION     NZ_CP137191.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN37933681
            Assembly: GCF_036289145.1
KEYWORDS    RefSeq.
SOURCE      Citrobacter freundii
  ORGANISM  Citrobacter freundii
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Citrobacter; Citrobacter freundii complex.
REFERENCE   1  (bases 1 to 4665)
  AUTHORS   Li,X.
  TITLE     Citrobacter freundii F1917 Genome sequencing and assembly
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4665)
  AUTHORS   Li,X.
  TITLE     Direct Submission
  JOURNAL   Submitted (23-OCT-2023) Laboratory Medicine Center, Department of
            Clinical Laboratory, Zhejiang Provincial People's Hospital
            (Affiliated People's Hospital, Hangzhou Medical College), Shangtang
            road, Hangzhou 310014, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: unicycler v. v0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 200.0x
            Sequencing Technology             :: Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/31/2024 02:12:19
            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)                     :: 5,708
            CDSs (total)                      :: 5,588
            Genes (coding)                    :: 5,456
            CDSs (with protein)               :: 5,456
            Genes (RNA)                       :: 120
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 83
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 132
            CDSs (without protein)            :: 132
            Pseudo Genes (ambiguous residues) :: 0 of 132
            Pseudo Genes (frameshifted)       :: 31 of 132
            Pseudo Genes (incomplete)         :: 94 of 132
            Pseudo Genes (internal stop)      :: 25 of 132
            Pseudo Genes (multiple problems)  :: 17 of 132
            Pseudo Genes (short protein)      :: 1 of 132
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP137191.1.
            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..4665
                     /organism="Citrobacter freundii"
                     /mol_type="genomic DNA"
                     /strain="F1917"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:546"
                     /plasmid="pF1917-8"
                     /geo_loc_name="China: Hangzhou"
                     /lat_lon="29.86 N 121.56 E"
                     /collection_date="2017-11-22"
                     /collected_by="Jiayao Yao"
     gene            324..647
                     /locus_tag="R4T16_RS26520"
                     /old_locus_tag="R4T16_26500"
     CDS             324..647
                     /locus_tag="R4T16_RS26520"
                     /old_locus_tag="R4T16_26500"
                     /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="WP_007772081.1"
                     /translation="MLTMWVTEDEHRRLLERCDGRQLAAWMRQTCLDEKPARSGKLPSI
                     SPALLRQLAGMGNNLNQIARRVNAGGGTGHDRVQIVAALMAIDAGLERLRHAVLEKGTD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            856..>1290
                     /locus_tag="R4T16_RS26525"
                     /old_locus_tag="R4T16_26505"
                     /pseudo=""
     CDS             856..>1290
                     /locus_tag="R4T16_RS26525"
                     /old_locus_tag="R4T16_26505"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /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            1325..1810
                     /locus_tag="R4T16_RS26530"
                     /old_locus_tag="R4T16_26510"
     CDS             1325..1810
                     /locus_tag="R4T16_RS26530"
                     /old_locus_tag="R4T16_26510"
                     /inference="COORDINATES: protein motif:HMM:NF016710.4"
                     /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_012565228.1"
                     /translation="MNSLLTLAKDLEQKSKAQQQNTGEMLKAAFSEHEKSVKAELNESA
                     KRISAAILDHDRKLSSAMSQRTKGMVRMVSQTWLTIVLVSALLIASSAGILWWQGQQIL
                     DNYTTIREQKSTQAMLSERNSGVQLSTCGEQRRRCVKVNPEAGRFGEDSSWMILAGK"
                     /name="MbeB family mobilization protein"
     gene            1814..2029
                     /locus_tag="R4T16_RS26535"
                     /old_locus_tag="R4T16_26515"
     CDS             1814..2029
                     /locus_tag="R4T16_RS26535"
                     /old_locus_tag="R4T16_26515"
                     /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="WP_012565230.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWESAFAEWRTMSGLMLRENA
                     ALSERVTGLSRQVQSLSEQLRRLSSD"
                     /name="MbeD family mobilization/exclusion protein"
     gene            2375..3931
                     /locus_tag="R4T16_RS26540"
                     /old_locus_tag="R4T16_26520"
     CDS             2375..3931
                     /locus_tag="R4T16_RS26540"
                     /old_locus_tag="R4T16_26520"
                     /EC_number="2.7.7.65"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015589620.1"
                     /GO_function="GO:0052621 - diguanylate cyclase activity
                     [Evidence IEA]; GO:0046872 - metal ion binding [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="sensor domain-containing diguanylate cyclase"
                     /protein_id="WP_032993376.1"
                     /translation="MRIKKPHLRPIVITLSVGGILLTSIFLIAVIMVFQRENIEKDLLY
                     ANSSYAMKMSDVMSGYIEMAQGELAYGAKKIKSTNDIDSLKDEADRLRLQSGMFNSVLV
                     VSNDAVVLATSPESLDLVGTRLNSSASKLAIEEKKPFISSPLKSVTGNLIILLSHPIYD
                     KGGNYIGYVGGSIYLKKHNLFGDVLSRHFFKNNTEISIVSDDGNVIFNNDKSAVDRPMV
                     MSDDLKSKLTASDRGEGAFFSSGHRYLLGYASMKNTAWNVLVYSRADSVTTILIAYAKS
                     VLVLLIIIIIVFSLISYFIASSISLPLEKLAISTNAKDIGASLVYIKAINAWYAEADRL
                     KKALFTYIKVMMERVDFLNEVALKDPLTGVNNRLGFLSKIQNHKRDSGYSVIVIDVDFF
                     KEINDSFGHGVGDEVLVSLAHIINSCCRSEDVVCRFGGEEFVVFLPNTSVVTAKCVAER
                     IRSVIESTVFPNNLRVTISAGVATQDDPLGRIDFLLKNADDALYQAKREGRNKVIVYSA
                     I"
                     /name="sensor domain-containing diguanylate cyclase"
     Typing          38..211
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.857"
                     /coverage="100.0"
                     /evalue="5.54e-83"
     Typing          complement(4227..4658)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.779"
                     /coverage="90.0"
                     /evalue="0.0"
     Typing          325..641
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="93.396"
                     /coverage="99.0"
                     /evalue="1.81e-61"
     Typing          638..2133
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.182"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gctcgccgca gccgaacgac cgagcgcagc gagtcagtga gcgaggaagc ggaatatatc
       61 ctgtatcaca tattctgctg acgcgccggt gccgcctttt ttctcctgcc acatgaagca
      121 cttcactgac accctcatcc gtgccaacat attaagccag tatacactcc gctagcgcta
      181 cgtgactggt tcagggctgc gccccgaaac ccgccaaaag cctgacgcgc ctgcggcttg
      241 tccaaccccg tgccgaccgg gaaaggtttt cccgcccgtc ccggcgttat caggagaccg
      301 gtttgtcaga gaaacggaac aagatgctca ccatgtgggt gacggaggac gagcaccggc
      361 ggctgcttga gcgctgtgac ggcaggcagc tggcggcgtg gatgcggcag acctgcctgg
      421 acgaaaagcc ggcacgttcc ggaaagctcc cctcaatctc gccggcgctg ctgcgccagc
      481 ttgccggcat gggcaataac ctgaaccaga tagcccgccg tgttaacgcc ggcggcggta
      541 ccggccatga cagggtgcag attgttgcgg cgctgatggc catcgatgcc ggacttgagc
      601 ggctgcggca cgccgttctt gagaaaggaa cggacgatga tcgttaaatt tcatccacgc
      661 ggtcgcggcg gtggcgccgg gccggtggac tatctgctgg gtaaagaccg gcagcgtgaa
      721 ggcgccaccg tcctgcaggg gaagccggaa gaagtccggg agctgattga cgcgtcgcct
      781 tacgttaaga aatacacctc cggggtactg tcgtttgcgg aagcggattt accttccggc
      841 cagcgggaaa agctgatggc aagctttgag cgggttctga tgcccggact tgataaagac
      901 cagtacagca tcctgtgggt ggagcatcgt gacaaggggc ggcttgagct gaattttctg
      961 atcccgaaca cggagctgct gaccggcaga cggctccagc cgtattacga tcgcgccgac
     1021 cgtccacgca tcgatgcctg gcagaccatc gtgaacggca gactggggct gcacgacccg
     1081 aacgcaccgg agaaccggcg ggcactggtc acaccgtctg cactgcctaa agcgaagcag
     1141 gaggctgcag aagcgattac acgcggtctg cttgctcttg cctcatccgg ggagctgaaa
     1201 acccgtcagg atgtcactga ggcgctggaa agcgcaggtt ttgaggtggt ccgcaccaca
     1261 aaaagcagta tcagcattgc cgacccggac ggggggcgaa acatccgact gaagggagcc
     1321 atttatgaac agtcttttaa cgctggcgaa ggacttagag cagaaatcga aagcgcagca
     1381 gcagaatacc ggcgagatgc tgaaagccgc attcagcgag cacgagaaat ctgtaaaagc
     1441 ggaactgaac gaaagcgcga agagaatcag cgccgccatc ctcgaccacg accggaaact
     1501 gtcctcagcc atgagccagc gcacgaaagg catggtgcgc atggtcagcc agacgtggct
     1561 gaccatcgtc ctggtctccg cgctgctgat cgcctcgagc gcgggcattc tgtggtggca
     1621 ggggcagcag atactcgaca actacacgac catccgggag cagaagagca cgcaggccat
     1681 gctgtcagag aggaacagcg gcgtgcagct ctcgacctgc ggcgagcaga gacgccgctg
     1741 cgtgaaggtg aacccggaag cgggacggtt cggagaggat tcgagctgga tgatactggc
     1801 ggggaaatag cacatgacgg agctggaaaa acagttgctg agcgcattag agcagctaca
     1861 gcaggactac tcgaaaaggc tggacgagtg ggagagcgcc ttcgcggaat ggcggacgat
     1921 gtctggtctt atgctacggg agaacgcagc gctgagcgag cgcgtcacgg gcttgagcag
     1981 gcaggtgcag agtttgagcg agcagctgcg ccggttgtcg agcgactgaa tgccgtcgag
     2041 ctgcaccggg agcaggagcg cgtggtgcag catcagaaag cgctggagct ggagcgatct
     2101 cagcgacagc ggacgtataa cagcccttca ctgtgataac ctgataaaac ggggctttcg
     2161 gcggacatct gcgctgaaag ccggagccat tcacccgact gcatagccat gcagccgggt
     2221 gaaatttatc tggcgcagaa tgcgcggttt agcggagagt ttgctgccgg ttttaccggg
     2281 ctgacgccgc atttgttccg aacccgtccg gggcggtgct gataagggat gttatggtaa
     2341 atgcggcatt ttttattata tggagtgtat ttttatgaga attaaaaagc ctcaccttcg
     2401 tccgatagtc ataaccttgt ccgttggtgg gattttgtta acttctattt ttctgattgc
     2461 cgttattatg gtttttcagc gcgaaaatat agaaaaagat ttgctttatg ctaattcatc
     2521 gtacgctatg aaaatgtcag atgtaatgag tggttatatt gaaatggctc aaggtgaatt
     2581 agcatatgga gcaaaaaaaa taaaatcaac taatgatatt gactcactta aagatgaggc
     2641 ggataggtta agattgcagt ctggtatgtt taattcagtt cttgttgtta gtaatgatgc
     2701 tgttgttctg gcgacttcgc cagaatctct tgatttagtt ggtacccgct tgaattcaag
     2761 tgccagcaaa ttggcgattg aggaaaagaa accattcata tcttcaccgt taaaatcagt
     2821 tactgggaat ttgattattt tgttgtcaca tcctatttat gataagggtg gcaattacat
     2881 agggtatgtc ggtgggtcta tatatctaaa aaaacataat ttatttggcg atgttttgag
     2941 caggcatttt ttcaagaaca acactgaaat tagcattgtt agtgatgatg ggaatgtgat
     3001 ctttaataac gataaaagtg ctgttgatcg gcctatggtt atgtctgatg atttgaaatc
     3061 aaagttaact gcgtctgata gaggtgaggg ggcatttttt tcttcggggc atagatatct
     3121 tcttggttat gctagtatga aaaatactgc ttggaatgtg ttggtttata gtcgtgctga
     3181 cagtgtgact actattctta ttgcttatgc taaaagtgta cttgttctgc taattataat
     3241 aattattgtg ttttcactta tttcatattt cattgcctcc agtatttcac ttcctttaga
     3301 aaagcttgct atatctacca atgctaaaga tatcggagct tcgctagttt atattaaagc
     3361 tatcaatgct tggtatgccg aagctgatag gcttaaaaag gcgcttttta cgtatattaa
     3421 ggtaatgatg gaaagagttg attttctaaa tgaggtggcg cttaaagatc cccttaccgg
     3481 cgtgaacaat agattggggt ttttaagtaa aatacagaat cataagcggg attcagggta
     3541 ttcagttatt gtaattgatg ttgatttttt taaagagata aatgacagtt tcgggcatgg
     3601 ggtcggagat gaggtgcttg tttctttggc tcatattatt aattcctgtt gccgtagtga
     3661 agatgttgtt tgtcggtttg gtggcgaaga gtttgttgtt ttcctgccga atacatctgt
     3721 ggtaacagct aagtgtgttg cggagcgtat taggagtgtt attgaaagta ctgtcttccc
     3781 taataacttg cgggtcacca tatctgctgg tgtggcaaca caagatgatc ctcttggtag
     3841 gatcgatttt ttgctgaaaa atgctgacga tgctctttat caagccaaaa gggaggggcg
     3901 taataaagtg attgtatata gcgctatttg agttttttga tgatgcttta cgcgctagtg
     3961 tgtcgttttt tttgtggcga agagtgggca agaagcggat cctcttgtta tcccttcgat
     4021 gtcgtcgtaa tctcataccc tgtaaacaaa aaaaccaccg ctaccaacgg tggttcgttt
     4081 gccggaattc agagctacca actctttctt ccgaaggtaa ctggctttca cggagcgcag
     4141 gtaccaaaac tgtccttcca gtgtagccgc agtcaggcca ccacttcaag aactctgtag
     4201 aacactctac tactccgctc cgtgaatcct cttactaatg gctaccgcca ctggcgattt
     4261 ttcgtgtctg ttccgggttg gactcaagat gatagttacc gggacaacgt ggtagtcggg
     4321 ctgaacgggg ggttcgtgca tacagtccag cttggagcga actgccttcc cggaaccgag
     4381 tgtcaggcgt ggaatgagat aaacgcggcc ataacagcgg aatgacaccg gtaaaccgaa
     4441 aggcaggaac aggagagcgc acgagggagc caccaggggg aaacgcctgg tatctttaag
     4501 tcctgtcggg tttcgccacc actgatttga gcgtcagatt tcgtgatgct tgtcaggggg
     4561 gcggagccta tggaaaaacg gcttcgccgc ggccttctcg cttccctgtt acgttccttc
     4621 ctggcatctt ccaggaaatt tccgccccac ctgtaagccg gcacc
//
