LOCUS       NZ_CP083856             5607 bp    DNA     circular CON 30-MAR-2024
DEFINITION  Enterobacter roggenkampii strain 12795-yvys plasmid p12795_3,
            complete sequence.
ACCESSION   NZ_CP083856
VERSION     NZ_CP083856.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN21379549
            Assembly: GCF_023023685.1
KEYWORDS    RefSeq.
SOURCE      Enterobacter roggenkampii
  ORGANISM  Enterobacter roggenkampii
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Enterobacter; Enterobacter cloacae complex.
REFERENCE   1  (bases 1 to 5607)
  AUTHORS   Liao,W., Cui,Y., Quan,J., Zhao,D., Han,X., Shi,Q., Wang,Q.,
            Jiang,Y., Du,X., Li,X. and Yu,Y.
  TITLE     High prevalence of colistin resistance and mcr-9/10 genes in
            Enterobacter spp. in a tertiary hospital over a decade
  JOURNAL   Int J Antimicrob Agents 59 (5), 106573 (2022)
   PUBMED   35307563
REFERENCE   2  (bases 1 to 5607)
  AUTHORS   Liao,W.
  TITLE     Direct Submission
  JOURNAL   Submitted (20-SEP-2021) Infectious Diseases, Sir Run Run Shaw
            Hospital, 3# East Qingchun Road, Hangzhou, Zhejiang 310016, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 10x
            Sequencing Technology             :: Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_023023685.1-RS_2024_03_30
            Annotation Date                   :: 03/30/2024 07:03:22
            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)                     :: 4,918
            CDSs (total)                      :: 4,802
            Genes (coding)                    :: 4,717
            CDSs (with protein)               :: 4,717
            Genes (RNA)                       :: 116
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 7
            Pseudo Genes (total)              :: 85
            CDSs (without protein)            :: 85
            Pseudo Genes (ambiguous residues) :: 0 of 85
            Pseudo Genes (frameshifted)       :: 38 of 85
            Pseudo Genes (incomplete)         :: 47 of 85
            Pseudo Genes (internal stop)      :: 11 of 85
            Pseudo Genes (multiple problems)  :: 11 of 85
            Pseudo Genes (short protein)      :: 1 of 85
            CRISPR Arrays                     :: 3
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP083856.1.
            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..5607
                     /organism="Enterobacter roggenkampii"
                     /mol_type="genomic DNA"
                     /strain="12795-yvys"
                     /isolation_source="sputum"
                     /host="Homo sapiens"
                     /db_xref="taxon:1812935"
                     /plasmid="p12795_3"
                     /geo_loc_name="China"
                     /lat_lon="30.15 N 120.10 E"
                     /collection_date="2012-09"
                     /collected_by="Yushan Cui"
     gene            270..485
                     /locus_tag="LCD45_RS24530"
                     /old_locus_tag="LCD45_24580"
     CDS             270..485
                     /locus_tag="LCD45_RS24530"
                     /old_locus_tag="LCD45_24580"
                     /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_000137422.1"
                     /translation="MTELEKQLLSALEQLQQDYSQRLDEWESAFAEWRSMCGLMQRENA
                     VLNERVSDLSTQVLSLSEQLRRLSGN"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(1251..1478)
                     /locus_tag="LCD45_RS24535"
                     /old_locus_tag="LCD45_24585"
     CDS             complement(1251..1478)
                     /locus_tag="LCD45_RS24535"
                     /old_locus_tag="LCD45_24585"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_045265593.1"
                     /translation="MALVCNDIEKLKKEIVEKYKVTQSEKLTCTAFLFADPAFNGFIVN
                     VFHNGTVQFQGGFCADLKKQMENLVGFINS"
                     /name="hypothetical protein"
     gene            1680..2021
                     /locus_tag="LCD45_RS24540"
                     /old_locus_tag="LCD45_24590"
     CDS             1680..2021
                     /locus_tag="LCD45_RS24540"
                     /old_locus_tag="LCD45_24590"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_063930304.1"
                     /translation="MACTDAEVVEKLLSIYRDKFAGKQGQRFLISSNEIRELYGFGKLF
                     ESRIDKLVESAFDSGLYLFDLGESERGRLIAVIKSGTVNRWRRVPKKITEQYIEPQSSG
                     ENEEIEEDE"
                     /name="hypothetical protein"
     gene            2187..2627
                     /gene="gvpU"
                     /locus_tag="LCD45_RS24545"
                     /old_locus_tag="LCD45_24595"
     CDS             2187..2627
                     /gene="gvpU"
                     /locus_tag="LCD45_RS24545"
                     /old_locus_tag="LCD45_24595"
                     /inference="COORDINATES: protein motif:HMM:NF041667.1"
                     /GO_component="GO:0031411 - gas vesicle [Evidence IEA]"
                     /GO_process="GO:0031412 - gas vesicle organization
                     [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="gas vesicle accessory protein GvpU"
                     /protein_id="WP_045265594.1"
                     /translation="MEEKDQKEILETTRVDDKDWFLQMLVGMANDGMGIGLSLNVGGLI
                     ISGTLCGGKEYFYEFGKQLGDGMYPENADSAEEFAAAYKKIGDDVYSESEITPNPASYI
                     HMKNALFFSPKGDSIPSNAQGALWRGKVSDVDGFSLGRFSKG"
                     /name="gvpU"
     gene            complement(2624..3121)
                     /locus_tag="LCD45_RS24550"
                     /old_locus_tag="LCD45_24600"
     CDS             complement(2624..3121)
                     /locus_tag="LCD45_RS24550"
                     /old_locus_tag="LCD45_24600"
                     /inference="COORDINATES: protein motif:HMM:NF025323.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system YafO family toxin"
                     /protein_id="WP_045265591.1"
                     /translation="MPKIIVEIHQSIAHLPNIQKLKEQFIQYKSMSYEYAKDTGFAVTE
                     FLPTLSVADQEAFPPDHQMFGKDKLFEGPQRAIQEQLFHVHLFRPNQQKTYWHTDEKPV
                     MQWECTSDSALVYSHIPTSTDDSLFLFIRVIDPGAHDAYKQPGLVEKWAKLAQDYRCTV
                     RR"
                     /name="type II toxin-antitoxin system YafO family toxin"
     gene            complement(3134..3301)
                     /locus_tag="LCD45_RS24555"
                     /old_locus_tag="LCD45_24605"
     CDS             complement(3134..3301)
                     /locus_tag="LCD45_RS24555"
                     /old_locus_tag="LCD45_24605"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_154816510.1"
                     /translation="MNNTPKRKRALGTMIKASMSSYEIEMLVSAGKKMVDEEISALQRE
                     EGGSNAAKKH"
                     /name="hypothetical protein"
     gene            4378..4701
                     /locus_tag="LCD45_RS24560"
                     /old_locus_tag="LCD45_24610"
     CDS             4378..4701
                     /locus_tag="LCD45_RS24560"
                     /old_locus_tag="LCD45_24610"
                     /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_012477689.1"
                     /translation="MLTMWVTEDEHRRLLERCDGRQLAAWMRQICLDEKPARSGKLPSI
                     SPALLRQLAGMGNNLNQIARRVNAGGGTGHDRVQIVAALMAIDAGLERLRHAVLEKGTD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            4910..>5344
                     /locus_tag="LCD45_RS24565"
                     /pseudo=""
     CDS             4910..>5344
                     /locus_tag="LCD45_RS24565"
                     /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"
     Typing          4092..4265
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.0"
                     /coverage="100.0"
                     /evalue="1.21e-74"
     Typing          complement(3585..4168)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.062"
                     /coverage="97.0"
                     /evalue="0.0"
     Typing          3..577
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.875"
                     /coverage="99.0"
                     /evalue="1.42e-111"
     Typing          4692..5602
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.724"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 catggctcac catcctgatg gtgtcagcgc tgctgatcgg cacgagcggg agcattctgt
       61 ggtggcaggg gcagcagata accgacaatt acacgcatct tcgtcagcag gaatataccc
      121 tggcgaaaat gactgcccgg acgtggggag tgcgctatca ggagagcagc gacggccgga
      181 ggtttcttat cctgccgccg gggatgcaag ccgaagccat cccctacgac gggacgacat
      241 ggatccgcct gaaacaggag tagcggaaaa tgacagagct ggaaaagcag ttgctgagcg
      301 cattagagca gctacagcag gactactcgc aaaggctgga cgaatgggag agcgccttcg
      361 cggaatggcg gagcatgtgt gggcttatgc aacgggagaa cgcggtgctg aacgagcgcg
      421 tgtcggactt gagcacgcag gtgctgagtt taagcgagca gctgcgccgc ttgtccggga
      481 actgaatgcc atcgagctcc ggcacaggga gaatgagtat cagaaaacac tggagctgga
      541 gcgccagccg cagaaaacct accgcgggcc gacactttaa accatccagt caggtgacaa
      601 cccgcccgaa gaggggctct gatttctccc gctaaatagg ttcgtgatca aaaaggtcac
      661 gacttattca ggagcgggaa atgaagctgt taaatcttat tgaatcattg cttaactgcc
      721 tgtatctggc ggcggagctg tgggactggc tggagaagca tttgtcggtt tttaaggcat
      781 tggcgcggat tttagtgtga ctttaacatc catgcatctg gctgcatgac tatgcaccag
      841 tgtaatattc agcggctgcg tttctggtgt tttttcgtta tgtctgtcgc cactttctcg
      901 cgtctggcac cggaaacgca gccaaccccg tttcagcggt gcgggcaacg gatgttatgg
      961 taaattcaaa tctcaaccgc gatatggaga tcgctatttt tagttactcg attggttatt
     1021 ctgtaaacaa tcttatagct tttaccattg tgatttttca catctccagc tgcataagtt
     1081 tcattttctg ttgtgatcac tgacggaatc ttatcgccgt ttttatcaaa taaagcccat
     1141 tcgtacgtat acataaaatc actaattaat tgaatttatt tggtttttat tgtcactctt
     1201 ctgtctgcta gcttttttag ctaaaaaaac cgcctttaag gcggtttggc ttagctgtta
     1261 atgaagccaa ctaagttttc catctgcttt tttaggtcag cacaaaaacc accttggaac
     1321 tgcactgtac cgttatgaaa aacgttaaca atgaatccgt tgaatgcggg atctgcaaaa
     1381 agaaacgcgg tacatgtcaa tttctcactc tgggtgactt tgtatttttc tacgatttct
     1441 ttcttaagtt tttcaatgtc gttacaaact aaagccatct tttttccctt cgttactgtg
     1501 tgttagccaa caatcaactg cttctaaatt gaggcaatca tacccatttt tcaagccaca
     1561 aatttggtaa acataaggta tgagttcgcc tttgctaagc aaagaatctt gaatttattt
     1621 ttgccgcaat ataatctcca tgtcgtaata atgcgacatg tcgttttttt ggaggggtta
     1681 tggcttgtac tgatgcagaa gtcgttgaaa aattactaag tatttacaga gataaattcg
     1741 caggaaaaca ggggcaaagg tttctgattt cgtctaatga aattagagag ttgtacggat
     1801 ttggtaagct ttttgaatct cgtatagaca agttggttga atcagccttt gattctggtt
     1861 tgtatttgtt tgatctcggt gaaagcgaaa ggggacggct gattgcagtc atcaaaagtg
     1921 gcacagtaaa tcgctggcga cgagtaccta aaaagatcac ggaacagtac attgagcccc
     1981 aatcctctgg ggaaaatgaa gaaattgagg aggatgaatg atgattcatt tttcttatct
     2041 tacatcatca aatgatgcac tattgagcgt gtatttaagc tcaatagctg tgtgcttttg
     2101 ttcaaaatga cgtggttgat agttagattt aagattatgt gtcgacagaa aaatcgtatg
     2161 cccgcaatac tgaaagtgag atgagtatgg aagagaaaga tcaaaaagag atactagaaa
     2221 ctactcgtgt agacgacaaa gattggtttc tgcagatgct cgttggaatg gctaatgatg
     2281 ggatgggtat tggtctttca ctcaatgttg gggggttaat aatttcgggt accctctgtg
     2341 gagggaaaga gtatttttat gaattcggca agcagttagg tgacggtatg tatccagaaa
     2401 atgctgatag tgcagaggaa ttcgcggctg cttataaaaa aattggagat gatgtgtact
     2461 ctgagtcaga gataacaccg aatcccgcat catatatcca tatgaaaaat gcgttgtttt
     2521 tctctccaaa gggagactct attccaagca atgcacaagg tgcattgtgg agaggtaaag
     2581 tctctgatgt tgatggattt agcttaggtc gtttttctaa aggctaacgt ctgacagtgc
     2641 acctgtagtc ttgtgcgagt ttagcccatt tttctacaag tccgggttgc ttgtaagcat
     2701 catgagctcc cggatcgata acacggataa acaagaacaa agagtcatct gttgaggttg
     2761 ggatatggga gtaaacaagc gctgaatcgc tagtgcattc ccattgcatt actggttttt
     2821 cgtcagtatg ccagtaagtt ttttgttgat tcggcctgaa tagatgtacg tgaaaaagct
     2881 gctcttgtat cgccctttgc ggaccttcga agagtttatc ttttccaaac atctggtgat
     2941 ctggagggaa tgcttcctga tctgcgactg acaaagttgg caagaattca gttactgcaa
     3001 agcctgtgtc cttggcatac tcataagaca tagatttgta ctgaatgaac tgttctttta
     3061 acttttgtat gtttggtaaa tgagcgatgc tttgatgaat ttctacgatg attttaggca
     3121 tttttcttta gcatcagtgc tttttggccg cattagaccc gccttcttct ctttgtaagg
     3181 ccgagatctc ttcgtctacc atctttttgc cagctgaaac cagcatttca atttcataag
     3241 aactcataga ggcttttatc atggtgccca gagctctttt cctttttgga gtattgttca
     3301 taatttaccc tcataacatg acagaacgat ctgttttttt atgagcgata tgacctttaa
     3361 gttagccagg tgcttgttat aacactttca ttgtagcact ggaacaagaa cgtctcttga
     3421 ctgaagctgc ttttgaagcg taacctcgga aacgaaaaaa ccaccctggc aggtggtttt
     3481 tcgaaggtta gttaatcctg gcagattctc taaccgtggt aacagtcttg tgcgagacat
     3541 gtcaccaaat tcgtcctttc agtgtagcct cagtctggcc accacttcaa gaactctcga
     3601 tacatctctc gcacattctg tctaccagtg gctgccgcca atggcgattt gtcgtgcctt
     3661 ttcaggttgg actcaagttg atagttactg aaaagagcgt ggtagtcgga ctgaacgggg
     3721 ggttcgtgca tacagtccag cttggagcga actgccttcc cggaaccgag tgtcaggcgt
     3781 ggaatgagaa accgcggcca taacagcgga gtgacaccgg taaaccgaaa ggcaggaaca
     3841 ggagagcgca cgagggagcc accaggggga aacgcctggt atctttaagt cctgtcgggt
     3901 ttcgccacca ctgatttgag cgtcagattt cgtgatgctt gtcagggggg cggagcctat
     3961 ggaaaaacgg cttcgccgtg gccttcttgc ttccctgtta agtatcttcc tggcatcttc
     4021 caggaaattt ccgccccgcc agtaagccgg taccgctcgc cgcagccgaa cgaccgagcg
     4081 cagcgagtca gtgagcgagg aagcggaata tatcctgtat cgcatattct gctgacgcgc
     4141 cggtgccgcc ttttttctcc tgtcacatga agcacttcat tgatttccgc atccgtgcca
     4201 acataataag ccagtataca ctccgctagc gctacgtgac tggttcaggg ctgcgccccg
     4261 aaacccgcca aaagcctgac gcgcctgcgg cttgtccaac cccgcgccga ccgggaaagg
     4321 ctttcccgcc cgtcccggcg ttatcaggag gccggtttgt cagagaaacg gagcaagatg
     4381 ctcaccatgt gggtgacgga ggacgagcac cggcggctgc tcgagcgctg tgacggcagg
     4441 cagctggcgg cgtggatgcg gcagatctgc ctggacgaaa agccggcacg ttccggaaag
     4501 ctcccctcaa tctcgccggc gctgctgcgc cagcttgccg gcatgggcaa taacctgaac
     4561 cagatagccc gccgtgttaa cgccggcggc ggcaccggcc atgacagggt acagattgtg
     4621 gcggcgctga tggccatcga tgccggcctt gagcggctgc ggcacgccgt tcttgagaaa
     4681 ggaacggacg atgatcgtta aatttcatcc gcgcggccgc ggcggtggcg ccgggccggt
     4741 ggactatctg ctgggtaaag accggcagcg tgaaggcgcc accgtcctgc aggggaagcc
     4801 ggaagaagtc cgggagctga ttgacgcgtc gccttacgtt aagaaataca cctccggcgt
     4861 actgtcgttt gcggaggccg atctgcctcc cggccagcgg gaaaaactga tggccagctt
     4921 cgagcgggtt ctgatgcccg gactcgataa agatcagtac agcattctgt gggtggagca
     4981 cgcggacaag gggcgtctgg agctgaactt tctgatcccc aataccgagc tgctgaccgg
     5041 caggcggctc cagccgtact acgaccgcgc cgaccggccg cgcatcgatg cctggcagac
     5101 catcgtgaac ggcagactgg ggctgcatga cccgaacgcg ccggaaaacc gccgggcgct
     5161 ggtcacgccg tccggactgc cgaaaacgaa gcaggaggcc gcagaagcca tcacgcgcgg
     5221 actgctgacc cttgcttcgt ccggggagct gaaaaaacgt caggacgtca ctgaggccct
     5281 ggaacggtca ggttttgagg tggtgcgcac cacgaaaagc agtatcagca ttgccgaccc
     5341 ggacgggggg cgaaacatcc gactgaaggg agccatctat gagcagtctt ttaacgctgg
     5401 cgaaggactt agagcagcaa tcgaaagcgc agcagcagag taccggcgag atgctgaaag
     5461 ccgcattcag cgagcacgag cagtctgtca gatcggaact gagcgcaagc gcgaggagaa
     5521 tcagcgacgc catcctcgca cacgagcaga gtatgagcga ggcgatggag aaaaaccggc
     5581 ggagcgtact gcggactgcc gggcgga
//
