LOCUS       NZ_CP037740             3223 bp    DNA     circular CON 26-JAN-2024
DEFINITION  Citrobacter freundii strain CAV1857 plasmid pCAV1857-3223, complete
            sequence.
ACCESSION   NZ_CP037740
VERSION     NZ_CP037740.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN11055879
            Assembly: GCF_004344985.1
KEYWORDS    RefSeq.
SOURCE      Citrobacter freundii
  ORGANISM  Citrobacter freundii
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Citrobacter; Citrobacter freundii complex.
REFERENCE   1  (bases 1 to 3223)
  AUTHORS   Barry,K., Wailan,A., Sheppard,A., Crook,D., Vegesana,K.,
            Stoesser,N., Parikh,H., Sebra,R. and Mathers,A.
  TITLE     Don't overlook the little guy: An evaluation of the frequency of
            small plasmids co-conjugating with larger Carbapenamase gene
            containing plasmids
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3223)
  AUTHORS   Barry,K., Wailan,A., Sheppard,A., Crook,D., Vegesana,K.,
            Stoesser,N., Parikh,H., Sebra,R. and Mathers,A.
  TITLE     Direct Submission
  JOURNAL   Submitted (05-MAR-2019) School of Medicine, University of Virginia,
            409 Lane Road, Charlottesville, VA 22908, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: HGAP v. 2.3.0; Unicylcer v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 118.0x
            Sequencing Technology             :: PacBio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/24/2024 14:04:50
            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)                     :: 5,343
            CDSs (total)                      :: 5,222
            Genes (coding)                    :: 5,119
            CDSs (with protein)               :: 5,119
            Genes (RNA)                       :: 121
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 103
            CDSs (without protein)            :: 103
            Pseudo Genes (ambiguous residues) :: 0 of 103
            Pseudo Genes (frameshifted)       :: 25 of 103
            Pseudo Genes (incomplete)         :: 72 of 103
            Pseudo Genes (internal stop)      :: 19 of 103
            Pseudo Genes (multiple problems)  :: 13 of 103
            Pseudo Genes (short protein)      :: 1 of 103
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP037740.1.
            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..3223
                     /organism="Citrobacter freundii"
                     /mol_type="genomic DNA"
                     /strain="CAV1857"
                     /isolation_source="hospital sink"
                     /db_xref="taxon:546"
                     /plasmid="pCAV1857-3223"
                     /geo_loc_name="USA:Charlottesville"
                     /collection_date="2013-12-12"
     gene            150..473
                     /locus_tag="E1A41_RS27100"
                     /old_locus_tag="E1A41_27100"
     CDS             150..473
                     /locus_tag="E1A41_RS27100"
                     /old_locus_tag="E1A41_27100"
                     /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_004193914.1"
                     /translation="MLTMWVTEDEHRRLLERCEGKQLAAWMRQTCLDEKPARAGKLPSI
                     SPALLRQLAGMGNNLNQIARQVNAGGGSGHDRVQIVAALMAIDAGLERLRHAVLEKGAD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            682..>1116
                     /locus_tag="E1A41_RS27650"
                     /pseudo=""
     CDS             682..>1116
                     /locus_tag="E1A41_RS27650"
                     /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            1151..1636
                     /locus_tag="E1A41_RS27330"
     CDS             1151..1636
                     /locus_tag="E1A41_RS27330"
                     /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_025367738.1"
                     /translation="MNSLLTLAKDLEQKSKAQQQTTGEMLKAAFSEHEKSVRAELSESE
                     KRISAAILDHDRKLSSAMSQRTKGMLRMVSQTWLTIVLVSALLIASSAGILWWQGQQIL
                     ENYTTIREQKSTQAMLSERNSGVQLSTCGEQRRRCVRVNPEAGQFGEDSSWMILAGK"
                     /name="MbeB family mobilization protein"
     gene            1640..1855
                     /locus_tag="E1A41_RS27335"
     CDS             1640..1855
                     /locus_tag="E1A41_RS27335"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137421.1"
                     /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_024195375.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWENAFAEWRTMSGLIQRENA
                     ALNERVTVLSRQVQSLSEQLRRLSKG"
                     /name="MbeD family mobilization/exclusion protein"
     gene            2023..2355
                     /locus_tag="E1A41_RS27110"
                     /old_locus_tag="E1A41_27110"
     CDS             2023..2355
                     /locus_tag="E1A41_RS27110"
                     /old_locus_tag="E1A41_27110"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_008784643.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="EmrE family multidrug efflux SMR transporter"
                     /protein_id="WP_001099531.1"
                     /translation="MNTYIFLGGAIVAEVIGTTFMKYSEGFTRLWPSVGTAISYCAAFY
                     LLSQTLENIPTGIAYAIWSGAGIVLISLAGWLVSGQKLDWPAIAGMFLICVGVLVINIF
                     SKSSAH"
                     /name="EmrE family multidrug efflux SMR transporter"
     gene            complement(2564..2734)
                     /locus_tag="E1A41_RS27120"
                     /old_locus_tag="E1A41_27120"
     CDS             complement(2564..2734)
                     /locus_tag="E1A41_RS27120"
                     /old_locus_tag="E1A41_27120"
                     /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="hypothetical protein"
                     /protein_id="WP_004193911.1"
                     /translation="MHEPPVQSDYHARSGNYQLESNPERHDKSPVAVAIGNWVHGAEIV
                     ENAYRVLEVKA"
                     /name="hypothetical protein"
     ARG             2024..2355
                     /name="qacG"
                     /gene="qacG"
                     /gene_name="small multidrug resistance (SMR) antibiotic
                     efflux pump"
                     /tool="rgi"
                     /drug_class="disinfecting agents and antiseptics"
                     /identity="41.35"
                     /coverage="102.8"
     Typing          complement(2623..3103)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="84.867"
                     /coverage="93.0"
                     /evalue="1.73e-132"
     Typing          464..1953
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.784"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 cgctacgtga ctggttcagg gctgcgcccc gaaacccgct aaaaccactg ccgcgcctgc
       61 ggcttgtcca acaccgtgcc gaccgggaaa agatttcccg tccgtcccgg cgttatcagg
      121 aggccggatt ggcagacaaa cgcagcaaaa tgctcaccat gtgggtgact gaggacgagc
      181 accggcgtct gctggagcgc tgcgagggta agcaactcgc ggcctggatg cggcagacgt
      241 gcctggacga gaagcccgca cgcgccggca aacttccgtc gatctcgccg gcgctgcttc
      301 gtcagcttgc cggcatgggg aacaacctta accagattgc ccgccaggtt aacgccggtg
      361 gtggaagcgg acacgaccgc gtgcagattg tcgccgcgct gatggccatc gatgccggac
      421 tcgagcggtt gcggcatgcc gtactggaaa agggtgctga tgatgatcgt taagtttcat
      481 cctcgggggc gcggcggcgg cggcgggccg gtcgattatc tgctgggtaa agatcgccag
      541 cgcgacggcg ccagcgttct gcaggggaag ccggatgaag tccgggagct tatcgacgcc
      601 tcgccctacg ccaaaaagta cacttccggc gttctgtctt ttgccgaaca ggatttaccg
      661 cccggccagc gcgaaaagct gatggcgagt ttcgagcggg ttctgatgcc cggactcgat
      721 aaagaccagt acagcgtgct gtgggttgag caccgggaca aggggcggct ggagctgaac
      781 ttcctgatcc cgaacacgga gcttctgacc ggcaagcggc tacagccgta ttacgaccgc
      841 gccgaccgtc cgcgcatcga tgcctggcag accatagtga acggcaggct ggggctgcat
      901 gacccgaacg cgccggagaa ccggcgggtg ctggtctcgc cttccgcgct gccggaagcg
      961 aagcaggaag ccgcccaggc gattacgagc ggcctgcttg cccttgcctc atccggggag
     1021 ctgaaaacgc gtcaggacgt cactgaggcg ctggaaagcg caggttttga ggtggtgcgc
     1081 accacaaaaa gcagcatcag cattgccgac ccggacgggg ggcgaaacat ccgactgaag
     1141 ggagccatct atgaacagtc ttttaacgct ggcgaaggac ttagagcaga aatcgaaagc
     1201 gcagcagcag actaccggcg agatgctgaa agccgcattc agcgagcacg agaagtctgt
     1261 cagagcggaa ctgagcgaaa gcgagaagag aatcagcgcc gccatcctcg accacgaccg
     1321 gaagctgtcc tcagccatga gccagcgcac gaaagggatg ctgcgcatgg tcagccagac
     1381 gtggctgacc atcgttctgg tctccgcgct gctgatagcg tcgagcgcgg gcattctgtg
     1441 gtggcagggg cagcagatac tcgagaacta tacgaccatc cgggagcaga agagcacgca
     1501 ggccatgctg tcagagagga acagcggcgt acagctctcg acctgcggcg agcagagacg
     1561 ccgctgcgtg agggtgaacc cggaagcggg acagttcgga gaggactcga gctggatgat
     1621 actggcgggg aaatagcaca tgacggagct ggaaaaacag ttgctgagcg cattagagca
     1681 gctacagcag gactactcga aaaggctgga cgagtgggag aacgccttcg cggaatggcg
     1741 gacgatgtct ggtcttattc aacgggagaa cgcggcgctg aacgagcgcg tcacggtctt
     1801 gagcaggcag gtgcagagtt tgagcgagca gctgcgccgg ttgtcgaaag gctgaacgcg
     1861 atagaaactc accggcagca ggagcgggcg gtgcagcacc agaaagcgct ggagctggaa
     1921 cgatcgcagt ggcagcatca tggtccttcg ctatgataag ccgggttcta ttaattagtt
     1981 gttatgtaaa gatatttaaa tttttcaaca tgaggtattt ttatgaatac atatattttc
     2041 ctgggagggg ctattgtggc tgaagtcata ggcaccacct ttatgaaata ttcagaagga
     2101 tttacacgcc tgtggccgtc tgtaggaact gcaataagtt attgcgctgc cttttatctg
     2161 ctttcccaaa cattggaaaa tatacctacc ggtattgctt acgcaatttg gtctggtgcg
     2221 ggaattgtac taataagcct agctggttgg ttggttagcg gtcaaaaact tgattggccc
     2281 gcaattgcag gaatgttcct tatttgcgtt ggagttttgg ttattaatat tttttcaaaa
     2341 tcttctgcgc attaactttt taccgaagca tattggccaa agcaaaagga tttccttgag
     2401 atcctttctt tctgcgcgta atctttttcc ctgtaaacaa aaaaaccacc gctaccaacg
     2461 gtggttcgtt tgccggaatt cagagctacc aactctttgt tccgatggta actggctttc
     2521 acggagcgca gatacctaaa ctgtcctttc agtgtagccg cactcaggct ttcacttcaa
     2581 gaactctgta ggcattctct acaatctctg ctccgtgaac ccagttacca atggctaccg
     2641 ccactggcga tttgtcgtgt ctttccgggt tggactcaag ttgatagtta ccggaacggg
     2701 cgtggtagtc ggactgaacg gggggttcgt gcatacagtc catcctggag cgaactgcct
     2761 acccggaacc gagtttcagg cgtggaatga gaaaccgcgg ccataacagc ggaatgacac
     2821 cggtaaaccg aaaggcagga atgcggggga gcacgaggga gccaccaggg ggaaacgcct
     2881 ggtatcttta agccgcatcg ggtttcgcca ccgctgattt gagcgtcatt ttcgtgatac
     2941 tcgtcagggg ggcggagcct atggaaaaac ggcaactccg catccttttc ttggcctttc
     3001 ctgcttcgag cggcatttgc ttatcccgta atctgtgagc tggtaacgcc cgccgcagtc
     3061 tcacggcagg agcgtagcga ccgagtgagc gaggaggcgt catttcatca ccacctgcat
     3121 tttgcactta cgcccggcag ccgcattttt cccctgtcac atgaagcact ttcataaatt
     3181 gccactccgt cataacatgt ttagccagta tacactccgc tag
//
