LOCUS       NZ_OX030733             4921 bp    DNA     circular CON 16-JUL-2023
DEFINITION  Escherichia coli isolate 68 plasmid P5, complete sequence.
ACCESSION   NZ_OX030733
VERSION     NZ_OX030733.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMEA8065790
            Assembly: GCF_905330955.2
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1
  AUTHORS   Alioto,T., Alioto,T. and Gomez Garrido,J.
  TITLE     Direct Submission
  JOURNAL   Submitted (18-MAY-2022) CNAG-CRG, CNAG, Spain
COMMENT     ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/16/2023 03:42:00
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,517
            CDSs (total)                      :: 5,399
            Genes (coding)                    :: 5,222
            CDSs (with protein)               :: 5,222
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 177
            CDSs (without protein)            :: 177
            Pseudo Genes (ambiguous residues) :: 0 of 177
            Pseudo Genes (frameshifted)       :: 70 of 177
            Pseudo Genes (incomplete)         :: 116 of 177
            Pseudo Genes (internal stop)      :: 35 of 177
            Pseudo Genes (multiple problems)  :: 40 of 177
            Pseudo Genes (short protein)      :: 4 of 177
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            OX030733.1.
            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..4921
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /isolate="68"
                     /isolation_source="Hospital de Guadalajara (Guadalajara)"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="P5"
                     /geo_loc_name="Spain"
                     /collection_date="2018"
     gene            join(4353..4921,1..736)
                     /locus_tag="LQ200_RS27460"
     CDS             join(4353..4921,1..736)
                     /locus_tag="LQ200_RS27460"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002437803.1"
                     /GO_process="GO:0006935 - chemotaxis [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="PAS domain-containing methyl-accepting chemotaxis
                     protein"
                     /protein_id="WP_007899670.1"
                     /translation="MFSLKNMFSLNLQRSAISYDAICQNKPVIEFSPEGVINKASPLFL
                     STMGYRADEIIGHHHRIFCPPSLVSSPEYSQFWQRLARGESFSGKYLRLAKGNRSVWLE
                     ASYIPVSDRRGRVIRVIKIAADISERVHSALEQEAVVNAINRSMAIITFNPEGIVLEAN
                     ENFVNATGYKRDEIIGKHHRLFCAETLYKSDEYRHFWESLNQGEFFSGLFPRLNRQGDP
                     LWFRATYNPVFNSDGQLYKIVKFATDVTADVLRNQREQEAAVHAWDMAVQTRESAQNGA
                     NVIENSILMIDRIAQGMGAVSTDISRLNNQSESIDDMVETIRKFAMQTRLIALNAAIEA
                     ARAGASGRSFAVVAAEVRNLAASVSSATEEIEQVVASNSQLAKDVLCGIENSLMNTREG
                     VTLMREAGEVMTSIQRNAAGVETAVKDVAISVKAG"
                     /name="PAS domain-containing methyl-accepting chemotaxis
                     protein"
     gene            1743..2066
                     /locus_tag="LQ200_RS27465"
                     /old_locus_tag="AI2959V1_5295"
     CDS             1743..2066
                     /locus_tag="LQ200_RS27465"
                     /old_locus_tag="AI2959V1_5295"
                     /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_021243036.1"
                     /translation="MLTMWVTEDEHRRLLERCDGRQLAAWMRQTCLDEKPARTGKLPSI
                     SPALLRQLAGMGNNLNQIARRVNAGGGTGHDRVQIVAALMAIDAGLERLRHAVLEKGTD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            2275..>2709
                     /locus_tag="LQ200_RS27470"
                     /pseudo=""
     CDS             2275..>2709
                     /locus_tag="LQ200_RS27470"
                     /inference="COORDINATES: protein motif:HMM:NF015397.2"
                     /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            2744..3235
                     /locus_tag="LQ200_RS27475"
     CDS             2744..3235
                     /locus_tag="LQ200_RS27475"
                     /inference="COORDINATES: protein motif:HMM:NF016710.2"
                     /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_047720453.1"
                     /translation="MSSLLTLAKDLEQQSKAQQKSTGEMLKAAFSEHEQSVRAELNASA
                     RRISDAISAHEQSMSEAMEKNRRSVLLTAGRTWLTILMVSALLIATSGSILWWQGQQIT
                     DNYTHLRQQEDTLAKMTARTWGVRYQESSDGRRFLILPPGMQAEAIPYDGTTWIRLKQE
                     "
                     /name="MbeB family mobilization protein"
     gene            3242..3457
                     /locus_tag="LQ200_RS27480"
     CDS             3242..3457
                     /locus_tag="LQ200_RS27480"
                     /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_021243037.1"
                     /translation="MTELEKQLLSVLEQLQQDYSQRLDEWESAFAEWRSMCGLMQRENA
                     VLNERVSDLSTQVLSLSEQLRRLSGN"
                     /name="MbeD family mobilization/exclusion protein"
     Typing          1458..1630
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.851"
                     /coverage="100.0"
                     /evalue="1.98e-82"
     Typing          complement(987..1533)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.727"
                     /coverage="90.0"
                     /evalue="0.0"
     Typing          2057..3555
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="90.297"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ttacaaaagt gatgaatacc gacatttctg ggagagtctg aatcaaggtg agtttttttc
       61 tggtctgttt ccacgcctta accgtcaggg agaccctctg tggttccgtg caacttataa
      121 ccctgtcttt aacagtgatg ggcagcttta taaaattgtg aaattcgcta cagatgttac
      181 ggctgatgtc ctgcgaaacc agagagagca agaggctgct gtgcatgcat gggatatggc
      241 cgtgcagacc cgagaaagtg cgcagaacgg tgccaatgtt attgaaaata gcatccttat
      301 gattgacaga attgcgcagg ggatgggggc tgtctccacc gatatctcac ggctcaacaa
      361 tcagtctgaa agtattgacg atatggtgga aaccatccgg aagtttgcca tgcagacaag
      421 acttattgca ctgaatgccg cgattgaagc agcaagggct ggcgcatccg gaagaagttt
      481 tgcggttgtt gccgcagaag tgcgtaatct tgcggcgagc gtcagtagcg cgactgaaga
      541 aattgagcaa gtcgtggcca gcaatagtca actggccaag gatgttctct gtggcattga
      601 aaacagcctg atgaacactc gggaaggggt tacactcatg cgcgaagcgg gtgaagttat
      661 gaccagcatt cagaggaatg ctgcaggggt tgagactgcg gttaaggatg tcgccatttc
      721 agttaaagcc ggataggcca tggtgcatat ccccatatct gtcgaacatc acagatgatc
      781 ttcttgagat cctttccgtt gcgtcgtaat ctcttgctct gaaaacgaaa aaaccacccg
      841 gcaaggtggc tttttcgaag gttcgcaaga gttgacgctc ttttgaaccg cggtaactgg
      901 cttggaggag cacagtcacc aaaactgtcc tttcagtgta gccttatcgc acccgaaact
      961 tcaagactct cctcctctaa acctgttacc agtggctgct gccagtggcg ctttgtcgtg
     1021 tttttccgga ttggactcaa gttgatagtt accggataag gcgcagcggt cggactgaac
     1081 ggggggttcg tgcatacagt ccagcttgga gcgaactgcc ttcccggaac tgagtgtcag
     1141 gcgtggaatg agacaaacgc ggccataaca gcggaatgac accggtaaac cgaaaggcag
     1201 gaacaggaga gcgcacgagg gagccaccag ggggaaacgc ctggtatctt tatagtcctg
     1261 tcgggtttcg ccaccactga tttgagcgtc agatttcgtg atgcttgtca ggggggcgga
     1321 gcctatggaa aaacggcttc gccgtggcct tatcgcttcc ctgttaagct tctttctggc
     1381 atctcccagg aaatttccgc cccgcctgta agccggtacc gctcgccgca gccgaacgac
     1441 cgagcgcagc gagtcagtga gcgaggaagc ggaatatatc ctgtatcaca tattctgctg
     1501 acgctccgct gctgcatttt tctcctgcca catgaagcac ttcactgata ttcgcatccg
     1561 tgccaatata gtaagccagt atacactccg ctagcgctac gtgactggtt cagggctgcg
     1621 ccccgaaacc cgccaaaagc ctgacgcgcc tgcggcttgt ccaaccccgc gccgaccggg
     1681 aaaggctttc ccgcccgtcc cggcgttatc aggaggccgg tttgtcagag aaacggaaca
     1741 agatgctcac catgtgggtg acggaggacg agcaccggcg gctgcttgag cgctgtgacg
     1801 gcaggcagct ggcggcgtgg atgcggcaga cctgcctgga cgaaaaacct gcgcgcaccg
     1861 gaaagctccc ctcaatctcg ccggcgctgc tgcgccagct tgccggcatg gggaataacc
     1921 tgaaccagat agcccgccgt gttaacgccg gcggcggcac cggccatgac agggtgcaga
     1981 ttgtggcggc gctgatggcc atcgatgccg ggcttgagcg gctgcggcac gccgttcttg
     2041 agaaaggaac ggacgatgat cgttaaattt catccacgtg gccgcggcgg tggcgccggg
     2101 ccggtggact atctgctggg taaagaccgg cagcgtgaag gcgccagcgt cctgcagggg
     2161 aagccggaag aagtccggga gctgattgac gcgtcgcctt acgtgaagaa atacacctcc
     2221 ggcgtcctgt cgtttgcgga ggccgatctg cctcccggcc agcgggaaaa actgatggcc
     2281 agcttcgagc gggttctgat gcccggactt gataaagatc agtacagcat tctgtgggtg
     2341 gagcacgagg acaaggggcg tctggagctg aactttctga tccccaatac cgagctgctg
     2401 accggcaggc ggctccagcc gtactacgac cgcgccgacc ggccgcgtat cgatgcctgg
     2461 cagaccatcg tgaacggcag actggggctg cacgatccga acgcgccgga aaaccgccgg
     2521 gcgctggtca cgccggccgg actgccgaaa acgaagcagg aagccgcaga agccatcacc
     2581 cgtggactgc tgagcttagc ctcgtccggg gagctgaaaa gccgtcagga cgtcactgag
     2641 gctcttgaag gtgcaggttt tgaggtggtg cgtacaacga aaagcagtat cagcattgcc
     2701 gaccctgacg gggggcgaaa catccgactg aagggagcca tctatgagca gtcttttaac
     2761 gctggcgaag gacttagagc agcaatcgaa agcgcagcag aagagtaccg gcgagatgct
     2821 gaaagccgca ttcagcgagc acgagcagtc tgtcagagcg gaactgaacg caagcgcgag
     2881 gagaatcagc gacgccatca gcgcccacga gcagagtatg agcgaggcga tggagaaaaa
     2941 ccggcggagc gtgttgctga cggccgggag gacatggctc accatcctga tggtgtcagc
     3001 gctgctgatc gccacgagcg ggagcattct gtggtggcag gggcagcaga taaccgacaa
     3061 ttacacgcat cttcgtcagc aggaagatac cctggcgaaa atgaccgccc ggacgtgggg
     3121 agtgcgctat caggagagca gcgacggccg gaggtttctt atcctgccgc cggggatgca
     3181 agccgaagcc atcccctacg acgggacgac atggatccgc ctgaaacagg agtagcggaa
     3241 aatgacagag ctggaaaagc agttgctgag cgtattagag cagctacagc aggactactc
     3301 gcaaaggctg gacgaatggg agagcgcctt cgcggaatgg cggagcatgt gtggtcttat
     3361 gcaacgggag aacgcggtgc tgaacgagcg cgtgtcggac ttgagcacgc aggtgctgag
     3421 tttaagcgag cagctgcgcc gcttgtccgg gaactgaatg ccatcgagga gaaggctgca
     3481 ctggagtatc agcgtcagaa cgagctggag ctgacgctcc gacagaagca gaagagtttc
     3541 gatggtccga agatgaggtg acagcccgca cgaagaaggg ctcatcgcgt tcctgctaaa
     3601 taggctgact accggaatgg tagtgactta tcccggagga agtgatgaaa attctcaacg
     3661 ttattgaagc cctgctgaac tgtttttacc tggtgatgga gctgtgtgag ttgccggaga
     3721 ggcatttgcc ggtttttaag gcgttcgcgc tgattttagt gtgactttac gctgcatgca
     3781 tctggctgca tgactatgca tcagtgtaat atccagcggc tgcgtttttg gtgttttttc
     3841 gtcatgtctg tcgccacttt ctcgcgtctg gcaccggaaa cgcagccaac cccgtttctg
     3901 cggtgcgggc aaggggtgtt atgttaaaag ccgaggtctg gcggatacgg aaaaaattat
     3961 gcccgcggca atccggccga tacttaaatt atccttcaca aaggatgtgc tgcgatccag
     4021 gcagttgagt gttttccggc tcccggatgg gagccatttt tttgccttct gatgcctgtt
     4081 aatgcatgcg gagctgcgct ggttcttcca agattgatag acgccagctt ctctgctgga
     4141 gccggcggat ttgccgtaaa tatgaacatt ttcttattgt tcagcccgct aaagatggcg
     4201 ggttttttac gcgtgaaatc cggagccgga catcatgccg gcatggctga atagcgggct
     4261 ttttcccgcc ctgtcgcagt aatatataac gctacataag gagtagccga taaccatggc
     4321 agtacttaca ttatccgggc aatctgattc atatgttttc acttaaaaat atgttctccc
     4381 tgaacctcca gcgatcagcc atttcgtatg acgcaatttg tcagaataag cctgtcattg
     4441 agttcagtcc ggagggggtg ataaataaag ccagcccgct ttttctctcc actatggggt
     4501 acagggctga tgaaataatc ggtcaccacc atcgtatatt ctgcccgccc tcgctggtaa
     4561 gttcaccgga atacagccag ttctggcagc gccttgccag gggagaaagc tttagtggca
     4621 agtacctgcg gctggcaaag ggaaatcgtt ccgtatggct tgaagccagt tatatccccg
     4681 tttctgacag gcgcggccgt gttatcagag tcattaaaat tgctgccgat atttctgagc
     4741 gcgtgcattc tgctcttgag caggaagcag ttgtaaatgc cataaaccgt tctatggcca
     4801 tcatcacctt caatcctgaa gggatcgtgc ttgaagcaaa tgaaaatttc gtcaatgcca
     4861 ctggctataa gcgggatgaa atcataggta agcatcatcg tctgttctgt gccgagacgc
     4921 t
//
