LOCUS       NZ_OY754413             3746 bp    DNA     circular CON 01-NOV-2023
DEFINITION  Escherichia coli isolate F467 plasmid pF467-4, complete sequence.
ACCESSION   NZ_OY754413
VERSION     NZ_OY754413.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMEA113542980
            Assembly: GCF_963575455.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1
  AUTHORS   Leclercq,S.
  TITLE     Direct Submission
  JOURNAL   Submitted (24-OCT-2023) INRAE, ISP, Centre INRAE Val de Loire, Site
            de Tours, Bat 213, 37380 Nouzilly, France
COMMENT     ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/01/2023 09:56:00
            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)                     :: 4,979
            CDSs (total)                      :: 4,864
            Genes (coding)                    :: 4,605
            CDSs (with protein)               :: 4,605
            Genes (RNA)                       :: 115
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 259
            CDSs (without protein)            :: 259
            Pseudo Genes (ambiguous residues) :: 0 of 259
            Pseudo Genes (frameshifted)       :: 79 of 259
            Pseudo Genes (incomplete)         :: 171 of 259
            Pseudo Genes (internal stop)      :: 52 of 259
            Pseudo Genes (multiple problems)  :: 42 of 259
            Pseudo Genes (short protein)      :: 4 of 259
            CRISPR Arrays                     :: 3
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            OY754413.1.
            Complete genomic sequence of E. coli strain F467.
            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..3746
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /isolate="F467"
                     /db_xref="taxon:562"
                     /plasmid="pF467-4"
     gene            complement(join(3554..3746,1..734))
                     /locus_tag="R8801_RS24875"
                     /old_locus_tag="FGAF467_47830"
     CDS             complement(join(3554..3746,1..734))
                     /locus_tag="R8801_RS24875"
                     /old_locus_tag="FGAF467_47830"
                     /EC_number="3.1.21.-"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000362418.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="HindIII family type II restriction endonuclease"
                     /protein_id="WP_053531176.1"
                     /translation="MELGDFKFINKDAVIRRRYWIDEIVKLSGHFVNDSSRVENEIIDE
                     VKKSGNQALLDHLRLCTAIPESYGHDSSEEKLYSKYTDALISECFKYLGLNSIVLTERA
                     DAADVEVVCDNYSFVADAKVFRLSRTAKNQKDFKVQAMDGWRNTKDFAMVVCPIYQLPT
                     KSSQIYQQAILRNVCIFTYTHLAVLIRYSSIATTEDSKKILSDIFKSVSLLNPSKDSVQ
                     YWVNINRTMLNYDDRIAALWADEKLATTEGIAVSKKMAIEFLSSERTRMLMMTKDEAVN
                     ALIKMHKIDSRIDQINKVTDNNILSLK"
                     /name="HindIII family type II restriction endonuclease"
     gene            complement(1647..1838)
                     /locus_tag="R8801_RS24880"
                     /old_locus_tag="FGAF467_47840"
     CDS             complement(1647..1838)
                     /locus_tag="R8801_RS24880"
                     /old_locus_tag="FGAF467_47840"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041614.1"
                     /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_001041614.1"
                     /translation="MNKQQKTAVNMAKFIQDQSLLLLDRLNELDLDHEADFCEKLHEDA
                     ERLYRSLSARLNEQQDGA"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            2256..2414
                     /locus_tag="R8801_RS24885"
     CDS             2256..2414
                     /locus_tag="R8801_RS24885"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001403044.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_053893437.1"
                     /translation="MHEPPVQPDCCACSGNYRLESNPERHDKTPLAAAIGIWFTEQRGA
                     YKHTQSS"
                     /name="hypothetical protein"
     gene            2636..3553
                     /locus_tag="R8801_RS24890"
                     /old_locus_tag="FGAF467_47850"
     CDS             2636..3553
                     /locus_tag="R8801_RS24890"
                     /old_locus_tag="FGAF467_47850"
                     /EC_number="2.1.1.-"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_014263272.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA];
                     GO:0008170 - N-methyltransferase activity [Evidence IEA]"
                     /GO_process="GO:0009307 - DNA restriction-modification
                     system [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="site-specific DNA-methyltransferase"
                     /protein_id="WP_016243916.1"
                     /translation="MLKEIPLLDEIEHNSITNGDSIELIKKVQTQSAHLILSDIPYGIG
                     ADDWDVLHKNSNNAYLGSSPAQKSAGAIFKKRGKPINGWSDADRKIPLEYQQWCEEWAS
                     EWYRTLKPGASAIIFAGRRFSHRCICAMENAGFNLRDIIAWMRTKAPHRAQRLSCVYER
                     RGDKYNTEKWEGWRVGNLQPTFEPILWFSKPYKIGGTIADNVLLHGVGAYNQDAFVARN
                     GKPENVIHAGFASKESGLHPTQKPISLMKTLIELTTQEGQLVIDPFSGSGSTLVAAKEL
                     GRSYIGFELNPAYVEISKKRLKDK"
                     /name="site-specific DNA-methyltransferase"
     Typing          2076..2553
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.776"
                     /coverage="91.0"
                     /evalue="0.0"
ORIGIN
        1 tcatcagccc aaagggcagc tatcctgtca tcatagttta gcattgttct atttatatta
       61 acccaatatt gaacactatc tttgctgggg ttaagtaaag atacagattt aaatatatca
      121 ctaagaattt ttttgctatc ttcagttgtt gcaatacttg aatatcttat cagtacagcc
      181 agatgtgtat atgtaaaaat acaaacattg cgcaatatgg cttgctgata tatttgactt
      241 gatttagttg gtagctgata tattgggcag accaccattg caaagtcttt ggtatttctc
      301 caaccatcca tagcttgaac tttaaaatcc ttttgatttt tggctgttct acttaaacga
      361 aatacctttg catcggctac aaatgaatag ttatcgcaaa caacctcaac atcagctgca
      421 tctgcccttt cggttaaaac aatgctattt aaccctaagt atttaaagca ctctgatatt
      481 agtgcatctg tatactttga gtacagcttc tcttcacttg aatcatgacc atatgactca
      541 ggtattgctg tgcataatct caggtgatct agcaacgctt gatttccgga cttcttaacc
      601 tcatcgatta tttcattttc aaccctactt gaatcgttaa caaaatgacc gcttagtttt
      661 actatttcat caatccagta gcgccttctt attactgcat ctttattaat gaatttgaaa
      721 tcacctaatt ccatttttaa ttcccaatat tattgttcaa taactcaata taatttctcg
      781 atcataacaa cttttttacc tggataataa tacctccatc agttatgtgg ctagacattc
      841 acttgattta ccataacatc cgttgcgtgc accgcctgag aggctctcag ggcgtttctg
      901 acgggaaacc ggtaaaacag gcaacaaacc acccgaaaac ccgccagaaa cgcgcaggct
      961 ctgtttttac ggcatgcatg agtatgcgca caagtgcata gcgcggaaat tcacgccatt
     1021 cagccggggt aagtcctgtt tccgatgttc ttcttacccg aaaacggtga acggggacgc
     1081 aatttattgc gtggccgtga ggcgttgccg gcacagccgg aaaaaccatt ttcagcacgt
     1141 gcaggaggcc caggaagagg gggcggatgt acgaatagct cagaggtcag atctgacgta
     1201 aaaatgatgt aaaagtgatg tacttttgat gtaattctgt tgtacacccg cgatctgacg
     1261 taaaagtgat gtaattttga tgtacttttg atgtaattct gttgtacacc cgcgttctgg
     1321 ggtaaaagca gatgcaattt tgtagtttat gtgtagtcgc tgaacccata gggtcatacg
     1381 agcatgaccc tttcccggaa aaggacgctt tttagccaga atcatcctta acctgcggcg
     1441 ccagcactcg ggagtggtcg ttttatatac taaaaaatga catacaccta acgcagctgc
     1501 gattttcatc gcaacttcat gaaaagtaaa taaaaaataa aaaacacagg gattctgggt
     1561 attaccgggg taataatgtt aagcgctaac acaatgaaaa ttaaggcgat gccggtatta
     1621 ctccggtaat acccagaacg gagccattac gcaccgtcct gctgctcatt caggcgcgct
     1681 gacaggcttc ggtaaaggcg ttccgcatcc tcatggagtt tctcgcagaa atcagcctca
     1741 tgatccagat ccagctcatt aagcctgtcc agaagaagca gggactgatc ctggatgaat
     1801 ttagccatgt taacggcagt cttttgttgt ttgttcatga aagccccggc gcgaaagtgc
     1861 ttattgtacg ttctgatggt tttccgcttc ctcgctcatt cgctcactcc gttcggtcat
     1921 gagtctgcgg cgagcggagg gaggataagc agataacgta acggtaagca taacgaaagc
     1981 taaggacaag ggcgaaaagg ccacgccccg ccggggcgtt tttccatagg ctccgccccc
     2041 ctgacaagca tcacagaatc tgacgctcaa atcagtggtg gcgaaacccg acaggactta
     2101 aagataccag gcgtttcccc ctggtggctc cctcgtgcgc tctcctgttc ctgcctttcg
     2161 gtttaccggt gtcattccgc tgttatggcc gcgtttatct cattccacgc ctgacactcg
     2221 attccgggaa ggcagttcgc tccaagctgg actgtatgca cgaacccccc gttcagcccg
     2281 actgctgcgc ctgttccggt aactatcgac ttgagtccaa cccggaaaga cacgacaaaa
     2341 cgccactggc agcagccatt ggtatctggt ttacggagca gagaggcgcg tacaagcata
     2401 cacagagttc ttgaagtgtt gacctgacta cggctacact ggaaggacag atttggtcac
     2461 tgcgctccgt ttaagccagt taccacggtt cagaagttcc ccaactaact gaaccctgaa
     2521 aaaaccgcct ccccaggcgg ttttttcttt tcaaaaggct acgacgaaag gttatcctgc
     2581 gtcaagatac tttaacagtt ataatgaagt gaaataatcg cgggtaaggt gttgaatgtt
     2641 aaaagaaatt ccattgcttg atgagataga acacaactcc ataacaaatg gtgactcaat
     2701 cgagctaata aaaaaagtac aaactcaatc cgcacacttg atactgagtg acatccctta
     2761 cggaataggt gctgatgatt gggatgtact acataaaaac tcaaacaatg cctacctagg
     2821 ttcaagccct gcacaaaaat cggctggagc cattttcaaa aaaagaggaa agcctataaa
     2881 tggctggtca gatgcagata gaaaaatacc tttagagtat cagcaatggt gtgaagagtg
     2941 ggcgagtgag tggtatcgaa ctttaaaacc aggagctagt gccattattt ttgctggtag
     3001 aagattttca catagatgta tttgtgcaat ggaaaatgct ggatttaacc tcagagatat
     3061 aatcgcctgg atgagaacaa aagcacctca tcgcgcacaa aggctaagct gcgtatatga
     3121 aaggcgtggc gacaaatata acacagaaaa atgggaaggc tggagagtgg gtaacttaca
     3181 accaacattt gagcctatac tatggttttc aaaaccttat aaaataggag gtaccattgc
     3241 tgataacgtt ctattgcatg gcgtgggtgc atataaccaa gacgcgttcg tagcgagaaa
     3301 tggaaaaccg gaaaatgtaa tacatgcagg ttttgcgagc aaggaaagcg gattacaccc
     3361 aacgcagaaa cctatttctc tgatgaaaac cctaatagaa ctaaccactc aagaaggtca
     3421 gctagtaata gatccattta gtggtagcgg ttcaactctt gttgccgcaa aagagctggg
     3481 tagaagctat ataggctttg aacttaaccc agcatatgta gaaataagca aaaaaagatt
     3541 aaaagacaaa taattattta agtgacagta tgttattatc tgtcacttta tttatttggt
     3601 ctatcctgct atctatttta tgcattttta tcagcgcgtt gacagcctca tctttggtca
     3661 tcattaacat tcttgtacgt tcagaagata agaattcgat agccattttt tttgaaacgg
     3721 caatgccctc agttgtggct agcttt
//
