LOCUS       NZ_CP012166             2725 bp    DNA     circular CON 07-FEB-2024
DEFINITION  Enterobacter hormaechei subsp. xiangfangensis strain 34978 plasmid
            p34978-2.725kb, complete sequence.
ACCESSION   NZ_CP012166
VERSION     NZ_CP012166.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN03067415
            Assembly: GCF_000807405.2
KEYWORDS    RefSeq.
SOURCE      Enterobacter hormaechei subsp. xiangfangensis (Enterobacter
            xiangfangensis)
  ORGANISM  Enterobacter hormaechei subsp. xiangfangensis
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Enterobacter; Enterobacter cloacae complex.
REFERENCE   1  (bases 1 to 2725)
  AUTHORS   Chavda,K.D., Chen,L., Fouts,D.E., Sutton,G., Brinkac,L.,
            Jenkins,S.G., Bonomo,R.A., Adams,M.D. and Kreiswirth,B.N.
  TITLE     Comprehensive Genome Analysis of Carbapenemase-Producing
            Enterobacter spp.: New Insights into Phylogeny, Population
            Structure, and Resistance Mechanisms
  JOURNAL   mBio 7 (6), e02093-16 (2016)
   PUBMED   27965456
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 2725)
  AUTHORS   McCorrison,J., Sanka,R., Adams,M., Brinkac,L., Sutton,G.,
            Kreiswirth,B. and Chen,L.
  TITLE     Direct Submission
  JOURNAL   Submitted (28-JUL-2015) JCVI, 9704 Medical Center Drive, Rockville,
            MD 20850, USA
REFERENCE   3  (bases 1 to 2725)
  AUTHORS   McCorrison,J., Sanka,R., Adams,M., Brinkac,L., Sutton,G.,
            Kreiswirth,B. and Chen,L.
  TITLE     Direct Submission
  JOURNAL   Submitted (15-DEC-2014) JCVI, 9704 Medical Center Drive, Rockville,
            MD 20850, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: HGAP v. 3
            Assembly Name :: HGAP assembly of Enterobacter cloacae 34978
            Expected Final Version            :: Yes
            Genome Coverage                   :: 7.78x
            Sequencing Technology             :: Pacbio RS II
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/07/2024 01:42:21
            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)                     :: 5,071
            CDSs (total)                      :: 4,956
            Genes (coding)                    :: 4,848
            CDSs (with protein)               :: 4,848
            Genes (RNA)                       :: 115
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 83
            ncRNAs                            :: 7
            Pseudo Genes (total)              :: 108
            CDSs (without protein)            :: 108
            Pseudo Genes (ambiguous residues) :: 0 of 108
            Pseudo Genes (frameshifted)       :: 39 of 108
            Pseudo Genes (incomplete)         :: 70 of 108
            Pseudo Genes (internal stop)      :: 20 of 108
            Pseudo Genes (multiple problems)  :: 20 of 108
            Pseudo Genes (short protein)      :: 1 of 108
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP012166.1.
            The organism was changed from 'Enterobacter cloacae' to
            'Enterobacter hormaechei subsp. oharae' in June 2016 then to
            'Enterobacter hormaechei subsp. xiangfangensis' in 2018.
            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..2725
                     /organism="Enterobacter hormaechei subsp. xiangfangensis"
                     /mol_type="genomic DNA"
                     /strain="34978"
                     /isolation_source="Bodily fluid"
                     /host="Homo sapiens"
                     /sub_species="xiangfangensis"
                     /db_xref="taxon:1296536"
                     /plasmid="p34978-2.725kb"
                     /geo_loc_name="USA"
                     /collection_date="2011"
                     /collected_by="Barry Kreiswirth"
     gene            complement(1054..1239)
                     /locus_tag="LI63_RS25065"
                     /old_locus_tag="LI63_025405"
     CDS             complement(1054..1239)
                     /locus_tag="LI63_RS25065"
                     /old_locus_tag="LI63_025405"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165998.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_032105038.1"
                     /translation="MTRQESAALNMAKFIRSQTLLLLERLEQMDLDEAAGCCEHLHDQA
                     EALYTMLNAQTGEEDA"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(1606..1833)
                     /locus_tag="LI63_RS25070"
                     /old_locus_tag="LI63_025410"
     CDS             complement(1606..1833)
                     /locus_tag="LI63_RS25070"
                     /old_locus_tag="LI63_025410"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010615788.1"
                     /GO_component="GO:0005886 - plasma membrane [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="YgdI/YgdR family lipoprotein"
                     /protein_id="WP_021243043.1"
                     /translation="MKKIFVSVFAAAVALSALTGCTRTSYAIHTNDGRTIVSDGKPKES
                     DSGLLGYTDANGVKQQINKTDVKEVSEIPH"
                     /name="YgdI/YgdR family lipoprotein"
     gene            complement(2475..2618)
                     /locus_tag="LI63_RS27315"
     CDS             complement(2475..2618)
                     /locus_tag="LI63_RS27315"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001487656.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_032610644.1"
                     /translation="MHEPPVQSDCCALSGNYRLESNPERHVKTPLAAATGKGYTRLLVQ
                     SS"
                     /name="hypothetical protein"
     Typing          928..1007
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.67e-34"
     Typing          complement(11..289)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="87.234"
                     /coverage="89.0"
                     /evalue="3.65e-80"
     Typing          complement(2293..2725)
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="87.225"
                     /coverage="98.0"
                     /evalue="1.75e-137"
ORIGIN
        1 tgcgggggag cacgagggag ccatcagggg gaaacgcctg gtatctttaa gccgcatcgg
       61 gtttcgccac cactgatttg agcgtcagat ttcgtgatgc tcgtcagggg ggcggagcct
      121 atggaaaaac ggcttcggcg cggccttatg ccttcttcgc taagtatctt cctggcatcc
      181 cctagctggc atcccctagg aaatttctgc tccacccgta agcccgtacc gctcgccgca
      241 gccgaacgac cgagcgcagc gagtgagtga gcgaggaagc ggaatatatc ctgtattaca
      301 ttttctcctg acgcgttttc tttcattttc tgcgcctgtc ttatgtagca gttatgctat
      361 gcgttactgc ggtgttacat tttagccagt atacactccg ctagcgctga gtgactggtc
      421 cggcgctgcg cccggaaccc gcctgtaccg gttcagcagc cgttccgggc tgactgcaat
      481 ttttttattt tcctgcccgc taccctgtaa acctttcttc tgcgttgccg ttaacaggag
      541 gtaagccatg tttggttttt cttccggaga cctgatgact cttgatgatg agcgacacct
      601 gtttgtgtct gttgtttcgg gctggctccg gcgtgccggg gggatgccgg agccatgatg
      661 ctggatgcat accggcagat tttgtctgaa actgaaccgg ccgtaaggac ggtcatgctc
      721 gaatttcttg aatccgttcg cattcattac atttcgtcct gagcattttc tgtatttctg
      781 tccatactta aacgaggcgg ccgtcacgga cgatggtcgt cgttgcatga tgctgttatg
      841 gatgagtgaa agtaatctaa tctaacttga cttaccttcc gggcagctcc ccggtttttt
      901 tttgcctgtt cccggggaac cactcaggac aggatgtgta tttgtaatac cgcgcacgcg
      961 ccggcatcac aaatacccag gtcagggctg cgccccgaca ccccgccatc gcctcacggc
     1021 cgcgcactga attgcgcacc cgttcaccga ttttcacgca tcttcctcgc ctgtctgtgc
     1081 gttcagcatg gtgtaaagtg cttcggcctg atcgtgcagg tgctcacagc agccggcagc
     1141 ctcatccaga tccatctgtt cgagccgctc gaggaggagg agtgtctgtg agcggataaa
     1201 tttggccatg ttgagggcgg cggattcctg tctggtcact ggtgattttc cccgtctggt
     1261 gatgattttt gcgtgaaaag agcatgccgt cattctggtg catagtcatg catgccgtta
     1321 aaatttaaca ggagcgtttc tggcgggttc cggggtggtt tgttgtggtt tttggtcatg
     1381 gttccgtcag aaaagcgctg agtgcgtctg aggcggtgcg ggcaacggat gttatggtaa
     1441 attcttgggg ggcttgatta taaaaaccgc acttcctcta atgtcttgtg ctttttagac
     1501 aaccctggaa gcttttagct ttggtggtgc aatttgctgg gattttggcg gagaaaccca
     1561 ggtaaagaaa aaggccacat tagcggcctt tttcggagaa gatgctcagt gcggaatttc
     1621 ggagacttct ttaacgtcgg ttttattgat ctgctgtttg acaccattcg cgtctgtata
     1681 gccaagcagg cctgagtctg attctttagg tttgccgtcg ctgacaatag tgcgcccgtc
     1741 attggtgtgt atggcatagc ttgtgcgcgt gcagccggtg agggctgaaa gcgcaactgc
     1801 cgctgcgaac acggaaacaa aaatcttttt caaagccagc tccttttatc catatcagtt
     1861 ttggtcacta accatctaac tataggtcat tttttatgtg aaaagaggct tgatggtggg
     1921 ctgcatatcg agttaggtgc gaggtgttat ggttaaagtg tggtgtctgg cggggagggg
     1981 gcagtgcggg cttatatggg gtttgaggtc caaccgtacg aaaacgtacg gtaagaggaa
     2041 aattatcgtc tgaaaaatcg attagtagac aagaaagtcc gttaagtgcc aattttcgat
     2101 taaaaagaca ccgttttgat ggcgttttcc aatgtacatt atgtttcgat atatcagaca
     2161 gttacttcac taacgtacgt tttcgttcta ttggccttca gacccctata tctgatgtaa
     2221 tccgaccgat acatatacca agatgattta agtattcctc tttgtgaggt tggatgtcta
     2281 atttataaaa ggatcttctt gagatccttt tttttcgcgc gtaatctctt gccctgtaaa
     2341 cgaaaaaacc acccggcaag gtggtttttc gaaggttcag caaaccggca agtttctgaa
     2401 ccgtggtaac agggtgtaca agaccgctgc caccaaattt gtccttctag tgtagccgca
     2461 gtcaggcgtc aacttcaaga actctgcacc agtaatcttg tatacccctt accagtggcc
     2521 gctgccagtg gcgtttttac gtgtctttcc gggttggact caagacgata gttaccggat
     2581 aaggcgcagc agtcggactg aacggggggt tcgtgcatac agtccatcct ggagcgaact
     2641 gccttcccgg aaccgagtgt caggcgtgga atgagaaacc gcggccataa cagcggagtg
     2701 acaccggtaa accgaaaggc aggaa
//
