LOCUS       NZ_CP122444             6305 bp    DNA     circular CON 20-APR-2024
DEFINITION  Enterobacter ludwigii strain I9455333cz plasmid pI945333_1, complete
            sequence.
ACCESSION   NZ_CP122444
VERSION     NZ_CP122444.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN34152342
            Assembly: GCF_029834565.1
KEYWORDS    RefSeq.
SOURCE      Enterobacter ludwigii
  ORGANISM  Enterobacter ludwigii
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Enterobacter; Enterobacter cloacae complex.
REFERENCE   1  (bases 1 to 6305)
  AUTHORS   Bitar,I.
  TITLE     mcr-10 producing Enterobacter ludwigii
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 6305)
  AUTHORS   Bitar,I.
  TITLE     Direct Submission
  JOURNAL   Submitted (12-APR-2023) Microbiology, Charles University in Prague,
            Alej Svobody 1655/76, Plzen 1 32300, Czech Republic
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Celera Assembler v. 8.2
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 35.0x
            Sequencing Technology :: hybrid, Illumina and Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_029834565.1-RS_2024_04_19
            Annotation Date                   :: 04/19/2024 11:06:32
            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)                     :: 5,305
            CDSs (total)                      :: 5,189
            Genes (coding)                    :: 5,060
            CDSs (with protein)               :: 5,060
            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)              :: 129
            CDSs (without protein)            :: 129
            Pseudo Genes (ambiguous residues) :: 0 of 129
            Pseudo Genes (frameshifted)       :: 27 of 129
            Pseudo Genes (incomplete)         :: 100 of 129
            Pseudo Genes (internal stop)      :: 17 of 129
            Pseudo Genes (multiple problems)  :: 14 of 129
            Pseudo Genes (short protein)      :: 1 of 129
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP122444.1.
            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..6305
                     /organism="Enterobacter ludwigii"
                     /mol_type="genomic DNA"
                     /strain="I9455333cz"
                     /isolation_source="rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:299767"
                     /plasmid="pI945333_1"
                     /geo_loc_name="Czech Republic: Plzen"
                     /lat_lon="49.73 N 13.37 E"
                     /collection_date="2021"
     gene            complement(join(5922..6305,1..552))
                     /locus_tag="QCL67_RS26370"
                     /old_locus_tag="QCL67_26370"
     CDS             complement(join(5922..6305,1..552))
                     /locus_tag="QCL67_RS26370"
                     /old_locus_tag="QCL67_26370"
                     /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_088912250.1"
                     /translation="MTAQDVINVLTILKANDSTSFSKIQRALKMSISQLEGIIDGLTAM
                     GIVYKSSFTSYSLTELTSKPVVSDGVRKAFEDIITNRGTYLSEELLQKVSTPFIPLMTH
                     EYKNAPVKVMIVGQETLGMEDAFSTIVSVDDYINESIESFNKFNFGEDLRNSHFWYAFD
                     EVVKYFNLPSRRHAYWTNLHKFQLIENDGDSVSISKLPSKDIMTMIHMQRELFLAEIKD
                     TKPDIIIYFTGGQTWVLDHYLNNGKKLAVKAIDERSHLGIIQTEFLHCPIAICTDHPGR
                     RGYTQAIVDHRANLLKYSADKFHASESARV"
                     /name="hypothetical protein"
     gene            1086..1229
                     /locus_tag="QCL67_RS26375"
                     /old_locus_tag="QCL67_26375"
     CDS             1086..1229
                     /locus_tag="QCL67_RS26375"
                     /old_locus_tag="QCL67_26375"
                     /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_200442548.1"
                     /translation="MIDENEDVRLVGIKFFANSQMDAFVSDMQNRLNEGESLETASLSL
                     PL"
                     /name="hypothetical protein"
     gene            complement(1268..1852)
                     /locus_tag="QCL67_RS26380"
                     /old_locus_tag="QCL67_26380"
     CDS             complement(1268..1852)
                     /locus_tag="QCL67_RS26380"
                     /old_locus_tag="QCL67_26380"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010891053.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="mobilization protein MobX"
                     /protein_id="WP_040113348.1"
                     /translation="MSDEIKQIAALIGHHQALEKRVTSLTEQFQDASAQLQQQSDTLSR
                     LIRELDSASGNMTETVRQSVHAALIQVEKELKQAGLAQQKPATEALNQATDTAKAMIHE
                     MRREMSRYTWKSAIYLVLTIFFVMAACVTAFTWFMNDGYSQIAEMQRMEAVWQKKAPLA
                     DISRCDGKPCVKVDTRATYGDKENTWMIIKK"
                     /name="mobilization protein MobX"
     gene            complement(1865..2962)
                     /gene="mobA"
                     /locus_tag="QCL67_RS26385"
                     /old_locus_tag="QCL67_26385"
     CDS             complement(1865..2962)
                     /gene="mobA"
                     /locus_tag="QCL67_RS26385"
                     /old_locus_tag="QCL67_26385"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012443156.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="mobilization protein MobA"
                     /protein_id="WP_182321305.1"
                     /translation="MASYHLSVKTGGKGSASPHADYISREGKYAREKDSDLEHKESGNM
                     PAWAAHKPSEFWKAADTSERANGCTYREIEIALPRELKPEQRLELVRDFVRQEIGDRHA
                     YQFAIHNPKAAIAGGEQPHAHIMFSERMNDGIDRDPQQYFKRANSKAPERGGAKKARFG
                     ETPTERKEHLVAQRERWADLQNKHLERYQHTDRVDARSLKAQGIEREPERHLGAGQVQR
                     FDTAQLQAILERRDAERQAEQSRDERDSVIDVTTSLREAISERDNLTIKQEQKPEPAQE
                     DTSGRVFDFEKEPEKLNARVSDAMKDIQEEIDLQSLVNDAMAEFQGIHQEMERLAEKQR
                     QQEKEQQRLAEQTRQKPDKGWSFSR"
                     /name="mobA"
     gene            3127..3594
                     /gene="traD"
                     /locus_tag="QCL67_RS26390"
                     /old_locus_tag="QCL67_26390"
     CDS             3127..3594
                     /gene="traD"
                     /locus_tag="QCL67_RS26390"
                     /old_locus_tag="QCL67_26390"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016517641.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="conjugal transfer protein TraD"
                     /protein_id="WP_064645523.1"
                     /translation="MNKSEKQEKWAADRVQYIRGLKSPNEQQKLMLILTDKADKTAQDI
                     KTLSLLMKAEQAAEKAQEARAKVMNLIQAEKRAEARAARKARDHALYQSAGLLILAGLV
                     DSQTGKPVDDTAALLGALASLNDLSRDNPKWSDWKIRGQELLNSKKSDSSA"
                     /name="traD"
     gene            4189..5145
                     /locus_tag="QCL67_RS26395"
                     /old_locus_tag="QCL67_26395"
     CDS             4189..5145
                     /locus_tag="QCL67_RS26395"
                     /old_locus_tag="QCL67_26395"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001293214.1"
                     /GO_function="GO:0003887 - DNA-directed DNA polymerase
                     activity [Evidence IEA]"
                     /GO_process="GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_039899550.1"
                     /translation="MAELVVFKANELAVSRYDLTEHETKLILFCVAKLNPTLETPDETE
                     RTVKFSCSEYSSFMGISYENAWGRLNTSTRELFKRSIELIYPTGAVSMRVFNWAEYAEF
                     NRETQEVTLVFSKYIIPLLFHLKRFIKYNLEHVKSFENKYSMRIYEWLLKELTQRKTHK
                     ANISISIDEFKFMLMLEKSYPEYKLLNHWVLKPISKDLNTYSNIKLSIDKRGRPADTLI
                     FQVELDKQIDLVTELAKEPISKKEDNSIRLTPENRLHEGLKTTLHDALTAKIQLTGFEA
                     KFLSDMQSKYDLNGSFTWLTQKQRATLEKILAKYGRN"
                     /name="replication initiation protein"
     gene            5153..5602
                     /locus_tag="QCL67_RS26400"
                     /old_locus_tag="QCL67_26400"
     CDS             5153..5602
                     /locus_tag="QCL67_RS26400"
                     /old_locus_tag="QCL67_26400"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001229901.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_016517644.1"
                     /translation="MALVSISEAARLTGKSRTTVQSYIKQGKLTKCTDSGGASKLDTSE
                     LLRVFGSFTGQQVGSEQSGSTVQHLAGDFVQLPDQNLLHENYALKAEIELVKALLREKE
                     LLLDEKDKRNEDLKHALLLIESKLPNTSEPVTPHVVKKSWQFWKK"
                     /name="helix-turn-helix domain-containing protein"
     Typing          4190..5140
                     /name="rep_cluster_1155"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="80.376"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(1869..2962)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.808"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 cttatgaaga ttagtccaat aagcatgcct tctggatggt aggttaaaat actttactac
       61 ttcatcaaat gcataccaaa agtggctatt ccttaaatct tcaccaaaat tgaatttatt
      121 gaaggattca atgctctcat taatgtagtc atcgaccgaa acgatggtac tgaaagcatc
      181 ttccattccc agagtttctt gccccacgat catcacttta actggggcat ttttgtattc
      241 gtgcgtcatc agtgggatga atggtgtact taccttttgt agtagttctt ctgacaggta
      301 agtaccgcga ttggtaatga tatcttcgaa tgcctttctt acaccgtcac taacaacagg
      361 tttagaggtt aactcagtaa ggctgtatga agtgaatgat gatttataca ctattcccat
      421 tgcagttaac ccatcaatga tgccctccaa ctgcgaaata ctcatcttta acgcgcgttg
      481 aatcttgcta aaactggttg agtcgttggc cttaagaata gtgagaacgt tgattacatc
      541 ttgtgctgtc attcctgttt tcctcatatt gaactgcttc aatgtagata cgcgtttaac
      601 tcattctgac ggtcgcagta caaaaaatta gtcaaaaatc acatgccccg gtaatccctg
      661 gattggcccc tatatttctc taatgaaccg gcatcaataa cgactttgcc tgattggtta
      721 taagctaaaa atcctcagag ataaacgact ataaccgagc attgcttcaa gacatcgacc
      781 gtagtggcct atcatgattt ttatgattgg ggtcagtttg gagatcggaa atttttgtac
      841 gttaagcgca ttatttaacc aatcctggtt cgtaaggggt tgattttgcg tcagtggcta
      901 tcgcttttaa gttgtcgctc ttgcagtatc gcatttaggt tatccgatta aggtcaaacc
      961 tctgaaaatg ccgtatagcg cgggagtaca ccctattgct ataggtaagt ctgttcaaaa
     1021 aacaggctta ccgtacaata attctctata tccaaactga ccccctgaat gacagggagc
     1081 gcattgtgat tgatgaaaat gaggacgtca ggctggtcgg aattaaattc tttgccaaca
     1141 gtcagatgga cgccttcgtc agcgacatgc aaaaccggct gaatgagggc gaatcgctgg
     1201 aaaccgcttc gctctccctg ccgctgtaat tcacgacaac aataacggcg caatgtgcgc
     1261 cgttatgtta ttttttgata atcatccagg tattctcttt atcaccatac gtagctcggg
     1321 tgtccacctt aacgcagggc tttccgtcac aacgcgatat atcagccagc ggggctttct
     1381 tctgccagac cgcttccatc cgttgcattt cagcaatctg gctgtacccg tcattcataa
     1441 accacgtaaa tgccgtcacg caggcagcca tgacgaaaaa tatcgtcagc acgagataaa
     1501 tcgcggattt ccacgtatag cgcgacatct cgcgtcgcat ttcatggatc atcgccttcg
     1561 ccgtatcggt agcctgatta agcgcttctg tcgccggttt ctgctgtgct aatccggctt
     1621 gtttcagctc tttctcaacc tgaatgagcg cggcatgaac agattgcctg acggtttcag
     1681 tcatattacc ggacgcgctg tccagctcac gaatgagcct gctcagcgtg tcactctgct
     1741 gctgtaattg tgctgaggcg tcctgaaact gctcagtcag agaggtaaca cgcttttcca
     1801 gcgcctgatg atgcccgatg agggcagcga tttgtttaat ttcgtcgctc atgaaaaatc
     1861 ctgtctatcg tgaaaatgac cagcctttat ccggcttctg tcgtgtctgt tcggcgagtc
     1921 tctgctgttc tttctcctgc tgacgctgtt tttctgccag tcgctccatt tcctgatgta
     1981 tcccctgaaa ctccgccatc gcatcgttca caagggactg aaggtcgatt tcttcctgta
     2041 tgtccttcat ggcatcactg acccgtgcgt tcagtttctc cggctctttc tcaaaatcga
     2101 aaaccctgcc ggaagtgtct tcctgcgcag gttcaggctt ctgctcttgt tttatcgtca
     2161 ggttatcccg ctcgctgatg gcttcccgta gcgaggtggt cacgtcaatc acactgtcac
     2221 gttcatcacg ggactgctcc gcctgccttt cagcgtccct gcgctcaagg atggcctgta
     2281 actgcgcagt atcgaaccgc tgaacctgtc ccgcgccaag atgccgctca ggctcacgct
     2341 caatgccctg agctttgagt gagcgtgcat caacgcggtc ggtatgctga taccgttcaa
     2401 ggtgcttatt ctgtaggtca gcccagcgtt cccgctgggc gacgaggtgc tctttgcgtt
     2461 ctgtcggcgt ttccccgaaa cgtgcctttt tcgcaccgcc gcgctcaggg gctttgctgt
     2521 tagctcgctt aaaatactgc tgcgggtcac ggtcgatacc gtcattcatc cgctcagaga
     2581 acatgatatg cgcgtgcggc tgctcgccgc cggctatcgc cgctttcgga ttatgaatgg
     2641 cgaactgata cgcatgacgg tcgccgattt cctgccggac aaaatcgcgg acaagctcaa
     2701 ggcgttgttc gggttttagc tcgcgcggca gggcaatctc gatttcacgg taggtacagc
     2761 cgttggcacg ttcagacgtg tcagcagctt tccagaactc agacggttta tgcgctgccc
     2821 acgcaggcat attaccggac tccttgtgct caaggtcgga gtctttttca cgggcatact
     2881 ttccctcacg cgaaatataa tcggcatggg gagaggcact gcctttcccg ccggttttta
     2941 cgctgaggtg ataggaggcc atcgtgtttt tatcccgctg aaggcgcgca ccgtttctga
     3001 acgaagtgaa gaaacgtcta agtgcgcact gataataaaa agcttatcag tgattctacc
     3061 tgcatttgac ctcggccgcc attcctgacc ataatttcca catcaacatt cagaggataa
     3121 atgggcatga ataaaagcga aaaacaggaa aaatgggcag cagacagagt gcagtacatt
     3181 cgcggcttaa agtcgccgaa tgaacagcag aaactcatgc tgatactgac ggataaagcg
     3241 gataaaacag cgcaggatat caaaacgctg tccctgctga tgaaggctga acaggcagca
     3301 gaaaaagcgc aggaagccag agcaaaagtc atgaatctga tacaggccga aaaacgggca
     3361 gaagccagag ccgcccgtaa agcccgtgac catgcgctgt accagtcagc cggactgctt
     3421 atcctggcgg gtctggttga cagccagacg gggaagcctg ttgatgatac cgctgccttg
     3481 ctgggtgcat tagccagtct gaatgacctg tcgagggata atccgaagtg gtcagactgg
     3541 aaaatcagag gtcaggaact gctgaacagc aagaagtctg acagctctgc atagcagacc
     3601 tgccataaaa cgccctgaga agcccgtgac gggcttttct tgtgtcatgg gtagatttcc
     3661 tcgtgtgagt ccatgaaaag cgcctgtagc atcatttacc cccattccct gccagagccg
     3721 tgagcgtagc gaactgaatg tcacgaaaaa gacagcgact caggtgtctg atggtcggag
     3781 acgaaaggaa tattcagcga tttgcccgag cttgcgaggg tgctacctca ttctttcgtg
     3841 tttgaaggta tgttttttgg aggagcaaac gctgtttgcg acatcctttt atcatatcgc
     3901 tcaactggca ctggcggtta gttatccaca aagctgggat ctattctttt ttatcttttt
     3961 tattctttct ttattctagt gattttaata ttttgtttta taagtaaaaa acacatgaaa
     4021 ggttaagtga aaattaggaa aggttaagca aaaattagga tctcctttca aaaggttaag
     4081 tgaaaattag gtaatccaca caaccccata aaaggttatg acaatgaaat tgacataacc
     4141 aagcggaagg gttatgttgt tttaaaatca caaccaatgg ttttagtcat ggctgaattg
     4201 gtagtattca aagcaaacga gcttgcggtt agtcgttatg acctaacaga gcacgaaacg
     4261 aaactaatcc tgttttgtgt tgcaaagcta aaccctacat tagaaacacc agatgaaact
     4321 gaacgaacgg ttaaattttc atgctccgaa tattcttcat ttatggggat aagttatgag
     4381 aatgcgtggg ggcgattaaa tacatcaaca cgagagttat ttaagcggtc tattgaatta
     4441 atatatccaa caggtgctgt atctatgcgt gtttttaatt gggctgaata tgcagagttc
     4501 aatagggaaa cacaagaggt aactttagtt tttagtaaat atataatccc attactattt
     4561 cacctaaaga gattcattaa atacaacctc gagcatgtta agtcctttga aaataaatac
     4621 tcaatgcgaa tttatgaatg gctgctaaaa gaactaacgc aaagaaaaac acataaagcc
     4681 aatatttcaa taagcattga tgagtttaaa ttcatgctaa tgttagaaaa aagctaccca
     4741 gaatataaat tactaaatca ttgggtttta aaaccaattt caaaagattt aaatacctat
     4801 agcaatataa aactatctat tgataagcgc ggtcgtcctg ctgatacgct gatcttccaa
     4861 gttgaactgg ataaacaaat tgaccttgtg actgagctag caaaagaacc aatatcaaaa
     4921 aaagaagata actcaatccg tttaacgcct gaaaatcgtc tgcatgaggg gctaaaaaca
     4981 acattacatg atgctttaac tgcgaaaata caacttactg gatttgaagc taaattcctg
     5041 agtgacatgc agagtaagta tgatctcaac ggctcattta catggctgac tcaaaaacaa
     5101 cgagccacgc tagagaaaat tttagctaag tacggacgga actgaggtat ctatggcttt
     5161 agtatcaata agcgaagcag ccagactaac tggaaaaagc cgcacaacag tacagtcata
     5221 cattaagcag ggaaaactga ccaagtgcac agatagcggt ggtgcttcaa aactagacac
     5281 atcagagctt ctacgtgttt tcggatcatt tactggtcag caggttggca gtgaacaatc
     5341 aggcagtact gtgcagcatt tggcaggcga ttttgtgcag ttacctgacc agaatttgct
     5401 acatgaaaac tatgccttaa aagctgaaat agaactcgta aaggcattgc tgcgtgagaa
     5461 agagctacta ctcgatgaaa aagacaaacg caatgaggat ctcaaacatg ctttgctgct
     5521 aatcgagtct aaactgccga atacatcgga accagtgaca cctcatgtgg tgaaaaaatc
     5581 atggcaattc tggaagaaat agcgctttca gccggcaaac cggctgaagc cggatctgcg
     5641 attctgataa caaactagca acaccagaac agcccgtttg cgggcagcaa aacccgtact
     5701 tttggacgtt ccggcgggtt tttgtggcga gtggtgttcg ggcggtgcgc gcaagggatg
     5761 ttatggtaaa ttgaatcgcc acggataatc tagacacttc cgagccgttg ataatactag
     5821 ttttaatatt ctgtcggtga catgtgttcg ctagaaccat gccgacgtta ctgttataaa
     5881 acatttcgat gtaagcgatc ttaaatgact ctggggggct gttaaacccg tgccgattca
     5941 cttgcatgaa atttgtcagc agaatattta agcagattag ctctatgatc tacgatggct
     6001 tgagtatatc cccttctacc agggtggtcg gtacatatag cgattgggca atgcaaaaat
     6061 tctgtctgga taatccccag atgcgagcgt tcatctattg ccttaactgc taatttttta
     6121 ccattgttta gataatgatc taacacccag gtttgcccac ccgtgaagta gatgatgata
     6181 tctggcttgg tatctttaat ttcagccaag aataattcac gctgcatatg aatcattgtc
     6241 atgatatctt ttgaaggtag tttggaaatg ctgacactat ctccatcatt ttcaattaat
     6301 tgaaa
//
