LOCUS       NZ_CP011569             3223 bp    DNA     circular CON 14-APR-2024
DEFINITION  Enterobacter hormaechei strain CAV1311 plasmid pCAV1311-3223,
            complete sequence.
ACCESSION   NZ_CP011569
VERSION     NZ_CP011569.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN03733748
            Assembly: GCF_001022015.1
KEYWORDS    RefSeq.
SOURCE      Enterobacter hormaechei
  ORGANISM  Enterobacter hormaechei
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Enterobacter; Enterobacter cloacae complex.
REFERENCE   1  (bases 1 to 3223)
  AUTHORS   Sheppard,A.E., Stoesser,N., Wilson,D., Sebra,R., Kasarskis,A.,
            Anson,L., Giess,A., Pankhurst,L., Vaughan,A., Grim,C.J., Cox,H.,
            Yeh,A., Sifri,C.D., Walker,S., Peto,T.E., Crook,D.W. and
            Mathers,A.J.
  TITLE     Rapid spread of a carbapenem resistance gene driven by multiple
            levels of genetic mobility
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3223)
  AUTHORS   Sheppard,A.E., Stoesser,N., Wilson,D., Sebra,R., Kasarskis,A.,
            Anson,L., Giess,A., Pankhurst,L., Vaughan,A., Grim,C.J., Cox,H.,
            Yeh,A., Sifri,C.D., Walker,S., Peto,T.E., Crook,D.W. and
            Mathers,A.J.
  TITLE     Direct Submission
  JOURNAL   Submitted (02-JUN-2015) University of Oxford, John Radcliffe
            Hospital, Oxford OX39DU, United Kingdom
COMMENT     ##Taxonomic-Update-Statistics-START##
            This Genome (query)               :: GCA_001022015.1
            Current Name                      :: Enterobacter hormaechei
            Previous Name                     :: Enterobacter cloacae
            Date Updated                      :: 2019-03-07
            Analysis Type :: Average Nucleotide Identity (ANI)
            Analysis 1 (A1) :: Query vs. TYPE genome for current name
            A1 Genome (subject)               :: GCA_001729725.1
            A1 Name                           :: Enterobacter hormaechei
            A1 ANI                            :: 99.05396%
            A1 Query Coverage                 :: 85.98%
            A1 Subject Coverage               :: 90.01%
            Analysis 2 (A2) :: Query vs. TYPE genome for previous name
            A2 Genome (subject)               :: GCA_000025565.1
            A2 Name                           :: Enterobacter cloacae
            A2 ANI                            :: 87.60881%
            A2 Query Coverage                 :: 78.6%
            A2 Subject Coverage               :: 70.29%
            ##Taxonomic-Update-Statistics-END##
            ##Genome-Assembly-Data-START##
            Assembly Method                   :: HGAP3 v. 2.2.0
            Genome Coverage                   :: 96X
            Sequencing Technology             :: PacBio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_001022015.1-RS_2024_04_14
            Annotation Date                   :: 04/14/2024 17:06:10
            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)                     :: 4,854
            CDSs (total)                      :: 4,736
            Genes (coding)                    :: 4,630
            CDSs (with protein)               :: 4,630
            Genes (RNA)                       :: 118
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 106
            CDSs (without protein)            :: 106
            Pseudo Genes (ambiguous residues) :: 0 of 106
            Pseudo Genes (frameshifted)       :: 39 of 106
            Pseudo Genes (incomplete)         :: 63 of 106
            Pseudo Genes (internal stop)      :: 13 of 106
            Pseudo Genes (multiple problems)  :: 8 of 106
            Pseudo Genes (short protein)      :: 1 of 106
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP011569.1.
            The organism was changed from 'Enterobacter cloacae' to
            'Enterobacter hormaechei' in March 2019.
            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="Enterobacter hormaechei"
                     /mol_type="genomic DNA"
                     /strain="CAV1311"
                     /isolation_source="Urine/Genitourinary"
                     /host="Homo sapiens"
                     /db_xref="taxon:158836"
                     /plasmid="pCAV1311-3223"
                     /geo_loc_name="USA:Virginia"
                     /lat_lon="38.14 N 78.45 W"
                     /collection_date="2011-01"
                     /collected_by="Clinical Microbiology University of Virginia
                     Health System"
     gene            55..270
                     /locus_tag="ABY62_RS25535"
     CDS             55..270
                     /locus_tag="ABY62_RS25535"
                     /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            438..770
                     /locus_tag="ABY62_RS24060"
     CDS             438..770
                     /locus_tag="ABY62_RS24060"
                     /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(979..1149)
                     /locus_tag="ABY62_RS00010"
                     /old_locus_tag="ABY62_00010"
     CDS             complement(979..1149)
                     /locus_tag="ABY62_RS00010"
                     /old_locus_tag="ABY62_00010"
                     /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"
     gene            1788..2111
                     /locus_tag="ABY62_RS00015"
                     /old_locus_tag="ABY62_00015"
     CDS             1788..2111
                     /locus_tag="ABY62_RS00015"
                     /old_locus_tag="ABY62_00015"
                     /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            2320..>2754
                     /locus_tag="ABY62_RS25695"
                     /pseudo=""
     CDS             2320..>2754
                     /locus_tag="ABY62_RS25695"
                     /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"
     ARG             439..770
                     /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          1501..1692
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="92.821"
                     /coverage="89.0"
                     /evalue="7.28e-73"
     Typing          complement(1038..1518)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="84.867"
                     /coverage="93.0"
                     /evalue="1.73e-132"
     Typing          4..368
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="87.097"
                     /coverage="99.0"
                     /evalue="1.22e-55"
     Typing          2102..3222
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="93.583"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 gcgggacagt tcggagagga ctcgagctgg atgatactgg cggggaaata gcacatgacg
       61 gagctggaaa aacagttgct gagcgcatta gagcagctac agcaggacta ctcgaaaagg
      121 ctggacgagt gggagaacgc cttcgcggaa tggcggacga tgtctggtct tattcaacgg
      181 gagaacgcgg cgctgaacga gcgcgtcacg gtcttgagca ggcaggtgca gagtttgagc
      241 gagcagctgc gccggttgtc gaaaggctga acgcgataga aactcaccgg cagcaggagc
      301 gggcggtgca gcaccagaaa gcgctggagc tggaacgatc gcagtggcag catcatggtc
      361 cttcgctatg ataagccggg ttctattaat tagttgttat gtaaagatat ttaaattttt
      421 caacatgagg tatttttatg aatacatata ttttcctggg aggggctatt gtggctgaag
      481 tcataggcac cacctttatg aaatattcag aaggatttac acgcctgtgg ccgtctgtag
      541 gaactgcaat aagttattgc gctgcctttt atctgctttc ccaaacattg gaaaatatac
      601 ctaccggtat tgcttacgca atttggtctg gtgcgggaat tgtactaata agcctagctg
      661 gttggttggt tagcggtcaa aaacttgatt ggcccgcaat tgcaggaatg ttccttattt
      721 gcgttggagt tttggttatt aatatttttt caaaatcttc tgcgcattaa ctttttaccg
      781 aagcatattg gccaaagcaa aaggatttcc ttgagatcct ttctttctgc gcgtaatctt
      841 tttccctgta aacaaaaaaa ccaccgctac caacggtggt tcgtttgccg gaattcagag
      901 ctaccaactc tttgttccga tggtaactgg ctttcacgga gcgcagatac ctaaactgtc
      961 ctttcagtgt agccgcactc aggctttcac ttcaagaact ctgtaggcat tctctacaat
     1021 ctctgctccg tgaacccagt taccaatggc taccgccact ggcgatttgt cgtgtctttc
     1081 cgggttggac tcaagttgat agttaccgga acgggcgtgg tagtcggact gaacgggggg
     1141 ttcgtgcata cagtccatcc tggagcgaac tgcctacccg gaaccgagtt tcaggcgtgg
     1201 aatgagaaac cgcggccata acagcggaat gacaccggta aaccgaaagg caggaatgcg
     1261 ggggagcacg agggagccac cagggggaaa cgcctggtat ctttaagccg catcgggttt
     1321 cgccaccgct gatttgagcg tcattttcgt gatactcgtc aggggggcgg agcctatgga
     1381 aaaacggcaa ctccgcatcc ttttcttggc ctttcctgct tcgagcggca tttgcttatc
     1441 ccgtaatctg tgagctggta acgcccgccg cagtctcacg gcaggagcgt agcgaccgag
     1501 tgagcgagga ggcgtcattt catcaccacc tgcattttgc acttacgccc ggcagccgca
     1561 tttttcccct gtcacatgaa gcactttcat aaattaccac tccgtcataa catgtttagc
     1621 cagtatacac tccgctagcg ctacgtgact ggttcagggc tgcgccccga aacccgctaa
     1681 aaccactgcc gcgtctgcgg cttgtccaac accgtgccga ccgggaaaag atttcccgtc
     1741 cgtcccggcg ttatcaggag gccggattgg cagacaaacg cagcaaaatg ctcaccatgt
     1801 gggtgactga ggacgagcac cggcgtctgc tggagcgctg cgagggtaag caactcgcgg
     1861 cctggatgcg gcagacgtgc ctggacgaga agcccgcacg cgccggcaaa cttccgtcga
     1921 tctcgccggc gctgcttcgt cagcttgccg gcatggggaa caaccttaac cagattgccc
     1981 gccaggttaa cgccggtggt ggaagcggac acgaccgcgt gcagattgtc gccgcgctga
     2041 tggccatcga tgccggactc gagcggttgc ggcatgccgt actggaaaag ggtgctgatg
     2101 atgatcgtta agtttcatcc tcgggggcgc ggcggcggcg gcgggccggt cgattatctg
     2161 ctgggtaaag atcgccagcg cgacggcgcc agcgttctgc aggggaagcc ggatgaagtc
     2221 cgggagctta tcgacgcctc gccctacgcc aaaaagtaca cttccggcgt tctgtctttt
     2281 gccgaacagg atttaccgcc cggccagcgc gaaaagctga tggcgagttt cgagcgggtt
     2341 ctgatgcccg gactcgataa agaccagtac agcgtgctgt gggttgagca ccgggacaag
     2401 gggcggctgg agctgaactt cctgatcccg aacacggagc ttctgaccgg caagcggcta
     2461 cagccgtatt acgaccgcgc cgaccgtccg cgcatcgatg cctggcagac catagtgaac
     2521 ggcaggctgg ggctgcatga cccgaacgcg ccggagaacc ggcgggtgct ggtctcgcct
     2581 tccgcgctgc cggaagcgaa gcaggaagcc gcccaggcga ttacgagcgg cctgcttgcc
     2641 cttgcctcat ccggggagct gaaaacgcgt caggacgtca ctgaggcgct ggaaagcgca
     2701 ggttttgagg tggtgcgcac cacaaaaagc agcatcagca ttgccgaccc ggacgggggg
     2761 cgaaacatcc gactgaaggg agccatctat gaacagtctt ttaacgctgg cgaaggactt
     2821 agagcagaaa tcgaaagcgc agcagcagac taccggcgag atgctgaaag ccgcattcag
     2881 cgagcacgag aagtctgtca gagcggaact gagcgaaagc gagaagagaa tcagcgccgc
     2941 catcctcgac cacgaccgga agctgtcctc agccatgagc cagcgcacga aagggatgct
     3001 gcgcatggtc agccagacgt ggctgaccat cgttctggtc tccgcgctgc tgatagcgtc
     3061 gagcgcgggc attctgtggt ggcaggggca gcagatactc gagaactata cgaccatccg
     3121 ggagcagaag agcacgcagg ccatgctgtc agagaggaac agcggcgtac agctctcgac
     3181 ctgcggcgag cagagacgcc gctgcgtgag ggtgaacccg gaa
//
