LOCUS       NZ_CP010318             4599 bp    DNA     linear   CON 01-JUN-2024
DEFINITION  Escherichia coli strain 789 plasmid pAPEC-O78-3.
ACCESSION   NZ_CP010318
VERSION     NZ_CP010318.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN03083542
            Assembly: GCF_000819645.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4599)
  AUTHORS   Huja,S., Oren,Y., Trost,E., Brzuszkiewicz,E., Biran,D., Blom,J.,
            Goesmann,A., Gottschalk,G., Hacker,J., Ron,E.Z. and Dobrindt,U.
  TITLE     Genomic avenue to avian colisepticemia
  JOURNAL   mBio 6 (1), e01681-14 (2015)
   PUBMED   25587010
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 4599)
  AUTHORS   Brzuszkiewicz,E., Gottschalk,G., Hacker,J., Ron,E.Z. and Dobrindt,U.
  TITLE     The Genomic Avenue to Avian Colisepticemia
  JOURNAL   Unpublished
REFERENCE   3  (bases 1 to 4599)
  AUTHORS   Brzuszkiewicz,E., Gottschalk,G., Hacker,J., Ron,E.Z. and Dobrindt,U.
  TITLE     Direct Submission
  JOURNAL   Submitted (27-AUG-2014) Department of Genomic and Applied
            Microbiology, Goettingen Genomics Laboratory, Georg-August
            University of Goettingen, Institute of Microbiology and Genetics,
            Grisebachstr. 8, Goettingen 37077, Germany
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Newbler (Roche) v. 04
            Genome Coverage                   :: 12.0x
            Sequencing Technology             :: 454
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_000819645.1-RS_2024_06_01
            Annotation Date                   :: 06/01/2024 04:03:44
            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)                     :: 5,133
            CDSs (total)                      :: 5,013
            Genes (coding)                    :: 4,775
            CDSs (with protein)               :: 4,775
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 238
            CDSs (without protein)            :: 238
            Pseudo Genes (ambiguous residues) :: 0 of 238
            Pseudo Genes (frameshifted)       :: 110 of 238
            Pseudo Genes (incomplete)         :: 135 of 238
            Pseudo Genes (internal stop)      :: 54 of 238
            Pseudo Genes (multiple problems)  :: 52 of 238
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP010318.1.
            Source DNA and bacteria are available from the laboratory of Eliora
            Ron, Tel Aviv University (eliora@post.tau.ac.il).
            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/
FEATURES             Location/Qualifiers
     source          1..4599
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="789"
                     /isolation_source="Turkey with septicemic infection"
                     /db_xref="taxon:562"
                     /plasmid="pAPEC-O78-3"
                     /geo_loc_name="Israel"
                     /collection_date="1990"
     gene            complement(364..1203)
                     /locus_tag="AC789_RS26190"
                     /old_locus_tag="AC789_5pl00020"
     CDS             complement(364..1203)
                     /locus_tag="AC789_RS26190"
                     /old_locus_tag="AC789_5pl00020"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001354646.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001354646.1"
                     /translation="MLTLFIFFVLLIAACFFCFAPPRRGYDRNEIIPYKIKLSINKYRL
                     YIYSSGKVRQYLLFLVILSLYYSIAEPFKSELIKNISYSLMAAFIFDTGLNFSKENITK
                     GVISTRWHNDLYSSFERMKAINKIYYPSNKEINTEGLSKAITSSLFNDDANSFAKRDFR
                     LMWDLSSEKYLSYKEIIIRKGDKLDAVCLRFINDDYKFLVNFNRDEEVFKYFPSIMQPS
                     LKTYRALSRLVNSIKDPSRFKFTTESLEMELLEYLELRNELFNDIEEVMGSYAQRAP"
                     /name="hypothetical protein"
     gene            complement(1395..1544)
                     /locus_tag="AC789_RS30790"
     CDS             complement(1395..1544)
                     /locus_tag="AC789_RS30790"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001326446.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_032194431.1"
                     /translation="MHEPPVQPDRCALSGNYRLESNPERHVKTPLAAAIGNRLEELVLK
                     LCAG"
                     /name="hypothetical protein"
     gene            complement(2220..2411)
                     /locus_tag="AC789_RS26195"
     CDS             complement(2220..2411)
                     /locus_tag="AC789_RS26195"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165979.1"
                     /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_000165986.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGESN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            2474..2797
                     /locus_tag="AC789_RS26200"
                     /old_locus_tag="AC789_5pl00060"
     CDS             2474..2797
                     /locus_tag="AC789_RS26200"
                     /old_locus_tag="AC789_5pl00060"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000956000.1"
                     /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_001677263.1"
                     /translation="MLTIRVSDEEHARLLERCEGKRLAEWMRRVCLGEPVARTGKLPTL
                     SPPLLRHLAAIGNNLNQTARKVNSGHWSSIDRVHVVAALMAIEGELRQLRQAVREQGGR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            3006..>3440
                     /locus_tag="AC789_RS30555"
                     /pseudo=""
     CDS             3006..>3440
                     /locus_tag="AC789_RS30555"
                     /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"
     gene            3475..4035
                     /locus_tag="AC789_RS29775"
     CDS             3475..4035
                     /locus_tag="AC789_RS29775"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000067488.1"
                     /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_000067488.1"
                     /translation="MSNLLQMGTDFEKKLKERAASTENMLNSEFRKLEESVDKALSLNR
                     QKIRDAISEHTTSVKQQLDTLSTTVSTQLSTTEAELSRQQKNLLWQVIKGRVLFPALTA
                     LSVTGGIFLGCWGLIQWQESRIAKNILTIREQENTLAKLEAKTWGVTFVNGENGKFLVL
                     PDGVKGENTWTVGDKNAVRLVRE"
                     /name="MbeB family mobilization protein"
     gene            4042..4275
                     /locus_tag="AC789_RS29780"
     CDS             4042..4275
                     /locus_tag="AC789_RS29780"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137438.1"
                     /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_000137388.1"
                     /translation="MTELEGHLLNALEHLQQDYMRRLNEWESAFAELQKMHAVTQQNNA
                     ILNERVVNLSQQVQLLAGQVDRLSRLFITNNR"
                     /name="MbeD family mobilization/exclusion protein"
     Typing          2048..2132
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.03e-37"
     Typing          1203..1654
                     /name="ColRNAI_rep_cluster_1857"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="83.0"
                     /evalue="0.0"
     Typing          2788..4373
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ctgtttttac ctgtctgctg ccgtgatcgc gctgaacgcg tttaagcggt acgcgcaatg
       61 cgacgttatg gtaaatacgg agtattttaa ttgcgggcct ttgttgtata tctctgtcgt
      121 ttgtccccgg ggggaagcat tactgctaac aagtcccgtg agaaaactgc gcaatcgtat
      181 tgcgcaccat gaacctattc tcaaccgcaa tctggaggat gattttgcta cgataaagag
      241 aattatcgcg tatcggtgtc agcattcatt ggagtggatg ctgaaaaacc aggtgttact
      301 ccctctactt acacttaaac ctctctaaaa atataagtaa gtactatcga gggctatcat
      361 gaactatggt gccctctgag catagctacc cattacttct tctatgtcat tgaataattc
      421 atttcttaac tctaagtatt ctagtaactc catttctaat gactctgtcg tgaacttaaa
      481 tctagaagga tctttgattg agtttactag tcttgataac gctctatatg ttttgagtga
      541 aggttgcatt atagatggaa agtatttgaa aacctcttca tctctgttga aattaactaa
      601 aaacttgtag tcatcattta taaatctcaa gcatacagcg tcaagcttat cgccttttct
      661 tattattatt tctttatagg aaagatattt ttcagaagat aagtcccaca tcaagcgaaa
      721 atctctcttt gcgaacgagt tcgcgtcatc attgaaaaga gatgatgtga tggctttgga
      781 tagaccttct gtgtttatct ctttgttgga tgggtagtaa attttattaa ttgctttcat
      841 tctctcaaat gatgaatata ggtcattatg ccaccttgtt gaaatcactc ctttagttat
      901 attctccttg ctaaaattaa gccctgtatc aaaaataaat gcagccatca gtgaatatga
      961 tatgtttttt attaactcag acttaaatgg ttccgctatg gagtagtaca gtgataaaat
     1021 aactaaaaat aaaaggtatt gtcttacctt tcccgatgag tatatgtaaa ggcgatattt
     1081 atttattgat agttttattt tgtatggaat gatctcattt ctgtcatatc ctcttcgtgg
     1141 tggagcaaaa caaaagaaac atgcagctat taataaaaca aaaaagatga acagtgtaag
     1201 caagttcggc tcctgtgtat gctcactatg catgattgtc ttgagatcta acgatcctga
     1261 aggtagtctt gtccgtaaac gaaaaaaccg cccagcaagg cggcttttcg aaggttctca
     1321 gagcagcaac tctttgaacc aaggtaactg gcttggagga gcacagccac caaatctgtc
     1381 ctttcagttt agccttaacc ggcgcataac ttcaagacta actcctctaa acggttacca
     1441 atggctgctg ccagtggcgt ttttacgtgt ctttccgggt tggactcaag acgatagtta
     1501 ccggataagg cgcagcggtc gggctgaacg gggggttcgt gcacacagcc cagcttggag
     1561 cgaacgacct acaccgggcc gagataccaa cagcgtgagc tatgagaaag cgccacgctt
     1621 cccgaaggga gaaaggcgga caggtatccg gtaagcggca gggtcggaac aggagagcgc
     1681 acgagggagc ttccaggggg aaacgcctgg tatctttata gtcctgtcgg gtttcgccac
     1741 ctctgacttg agcatctgtt tttgtgatgc tcgtcagggg ggcggagcct atggaaaaac
     1801 gccagcggcg cggccttctt cctgttcctg ttcctggcct tttgctcaca tgtttctttt
     1861 ggcgttatcc cctgattctg tggataaccg catcaccgtc tttgagtgag ctgataccgc
     1921 tcgccgcagc cgaacgaccg agcgtagcga gtcagtgagc gaggaagcgg aagagcgcct
     1981 gatgcggcat tttctcctta cgcatctgtg cggtatttca caccgcatat ggtgcacttt
     2041 tcttataatc cgcactgatg ccacatagtt aagccagtat acactccgct atcgctacgt
     2101 gactgggtca gggctgcgcc ccgacacccg ctaaaacccg ctgacgcgcc ctgacgggct
     2161 tgtctgctcc cggcatccgc tcacaggcaa gctgtgaacg tctccgggag ctgcatgttt
     2221 cagttgcttt caccgtcatc gccgaagcgt gcgaggcaac tacggtagag ttcgtcggcg
     2281 tggtcgtgaa gtgattcgca gatgtctgcc tgttcgtccg cgtccagctc gttgagtttt
     2341 tccagcaggg tcagcgtctg gcttctgata aagcgggcca tgttaagggc tgttttttcc
     2401 tgtttggtca tggtcttaag gctccttaat aggggatttt ttagggggaa tgataccgat
     2461 gaaacgcgag aagatgctca cgatacgggt tagcgatgag gagcacgccc ggttactgga
     2521 acgctgcgag ggtaaacgac tggcagaatg gatgcggcgg gtctgtctgg gggagccggt
     2581 tgcgcgcaca ggaaaactgc cgacactatc gccgccattg ctgcggcatc tggctgccat
     2641 cgggaacaat ctgaaccaga cagcccggaa ggtgaacagc ggccactggt cttcgattga
     2701 ccgggttcat gtggtggccg ctctgatggc catcgagggt gaattgcgcc agttgcggca
     2761 ggctgtcagg gaacaggggg gacgggatga tagttaaatt tcatgccagg gggaaaggcg
     2821 gtggaagtgg cccggtcgat tacctgctgg ggcgggagcg taaccgcgaa ggcgcaacgg
     2881 tgctccgggg taacccggaa gaaatccggg aactcattga tgccacgcca ttttcgaaga
     2941 aatacacgtc aggcgttctg tcgttcgcgg agaaggagtt accgccgggt gaacgcgaaa
     3001 gagtgatgac gagctttgag cgtgttctta tgcccggtct cgaaaaagat cagtacagca
     3061 ttctctgggt ggaacaccag gataaggggc ggctcgaact gaattttgtc attccgaaca
     3121 tggaactaca gagcggtaag cgcctccagc cgtactacga ccgtgcggac aggccgagga
     3181 taaatgcctg gcagacgctg gttaatcatc attacgggct gcgtgacccg aacgcaccgg
     3241 agaacagacg gacgcttgtc acaccgaata atctgccaaa agcgaaacag gaggccgcag
     3301 aagcgattac acggggtctt gaggcgcttt accgtgccgg agcaataaaa acgcgtcagg
     3361 atgtcactga ggcgctcaca gcggcaggtt ttgaggtggt gaggacaacc agaagcagta
     3421 tcagtattgc cgacccggag ggggggcgga atctcaggct aaagggggcg ctgtatgagc
     3481 aatcttttac aaatgggaac ggacttcgag aagaaactga aagagcgagc cgcttctacc
     3541 gagaacatgc tgaacagcga gttcaggaag ctagaagagt ctgtagacaa ggcactgagc
     3601 ttaaacaggc agaaaatcag agacgctatc agcgaacata caacatccgt gaaacagcaa
     3661 ctggatacgc tgagcaccac cgtgagcacg cagctcagca ccacagaggc cgaactgtcc
     3721 cggcagcaga aaaacctgct ctggcaggtg atcaaagggc gggtactgtt tccggcgctg
     3781 accgcgctca gcgtcacggg cggcattttc ctggggtgct gggggctgat tcagtggcag
     3841 gaaagcagga ttgcgaaaaa tatcttgacc atcagagagc aggaaaacac gctggcgaaa
     3901 ctcgaggcaa aaacctgggg ggtgacgttc gtcaatggcg agaacgggaa atttctggtg
     3961 ctgccggacg gggtgaaagg ggaaaacacc tggacggtgg gcgacaagaa cgccgtgagg
     4021 ctggtcaggg agtaaacgag tatgacggaa ctggaagggc atttgctgaa cgccttagag
     4081 catttgcaac aggactatat gcggcggctg aacgagtggg agagcgcctt cgcagaattg
     4141 cagaagatgc acgcggttac gcaacagaac aacgcgatac tgaacgagcg tgtcgtgaac
     4201 ttgagtcagc aggtgcagct attagccgga caagtcgacc gcttgagtcg gttatttatc
     4261 acgaacaaca gataagggat gaacaggagc gtcaggcgca ggagcttgcc cggcgctggc
     4321 atgaagagca ggaacccgaa gcgcggatct ggcgtggccc gtcaatgggg atgtgaccgg
     4381 ggtaccccct gaaatcgagc cagtttgtgg cacgccctac ccggatggcg ccaatgttaa
     4441 tgtacgtaca ttagcattaa caatatccaa acctccccat tttgccccgt tcgacggctg
     4501 gaacgtgcga aactgatcgt cattcagttt cgcgcataac tatgcatgag gttaaaattt
     4561 accaggcgcg atcgcggcag tttttcgggt ggtttgttg
//
