LOCUS       NZ_CP006633             3319 bp    DNA     circular CON 07-MAY-2024
DEFINITION  Escherichia coli PCN033 plasmid p1PCN033, complete sequence.
ACCESSION   NZ_CP006633
VERSION     NZ_CP006633.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN02469619
            Assembly: GCF_000219515.2
KEYWORDS    RefSeq.
SOURCE      Escherichia coli PCN033
  ORGANISM  Escherichia coli PCN033
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3319)
  AUTHORS   Liu,C., Zheng,H., Yang,M., Xu,Z., Wang,X., Wei,L., Tang,B., Liu,F.,
            Zhang,Y., Ding,Y., Tang,X., Wu,B., Johnson,T.J., Chen,H. and Tan,C.
  TITLE     Genome analysis and in vivo virulence of porcine extraintestinal
            pathogenic Escherichia coli strain PCN033
  JOURNAL   BMC Genomics 16 (1), 717 (2015)
   PUBMED   26391348
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 3319)
  AUTHORS   Liu,C., Tan,C., Xu,Z. and Chen,H.
  TITLE     Direct Submission
  JOURNAL   Submitted (24-JUL-2013) Division of Animal Infectious
            Disease,College of Veterinary Medicine, Huazhong Agricultural
            University, Shizishan Street 1, Wuhan, Hubei 430070, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Newbler v. 2.3
            Genome Coverage                   :: 30X
            Sequencing Technology             :: 454
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_000219515.2-RS_2024_05_06
            Annotation Date                   :: 05/06/2024 07:49:31
            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)                     :: 5,005
            CDSs (total)                      :: 4,885
            Genes (coding)                    :: 4,706
            CDSs (with protein)               :: 4,706
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 179
            CDSs (without protein)            :: 179
            Pseudo Genes (ambiguous residues) :: 0 of 179
            Pseudo Genes (frameshifted)       :: 68 of 179
            Pseudo Genes (incomplete)         :: 110 of 179
            Pseudo Genes (internal stop)      :: 32 of 179
            Pseudo Genes (multiple problems)  :: 28 of 179
            Pseudo Genes (short protein)      :: 4 of 179
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP006633.1.
            Source DNA is available from Chen Tan, email:
            tanchen@mail.hzau.edu.cn.
            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..3319
                     /organism="Escherichia coli PCN033"
                     /mol_type="genomic DNA"
                     /strain="PCN033"
                     /db_xref="taxon:1001989"
                     /plasmid="p1PCN033"
     gene            300..413
                     /locus_tag="PPECC33_RS29335"
     CDS             300..413
                     /locus_tag="PPECC33_RS29335"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001459398.1"
                     /translation="MHEPPVQPDRCALSGNYRLESNPVRHDLSPLAAAIGN"
                     /name="hypothetical protein"
     gene            678..1718
                     /gene="lsoA"
                     /locus_tag="PPECC33_RS24550"
                     /old_locus_tag="PPECC33_p12"
     CDS             678..1718
                     /gene="lsoA"
                     /locus_tag="PPECC33_RS24550"
                     /old_locus_tag="PPECC33_p12"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052606.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system mRNA
                     endoribonuclease LsoA"
                     /protein_id="WP_047938481.1"
                     /translation="MAQNPFKALNINIDKIESALTQNGVTNYSSNVKNERETHISGTYK
                     GIDFLIKLMPSGGNTTIGRASGQNNTYFDEIALIIKENCLYSDTKNFEYTIPKFSDDDR
                     ANLFEFLSEEGITITEDNNNDPNCKHQYIMTTSNGDRVRAKIYKRGSIQFQGKYLQIAS
                     LINDFMCSILNMKEIVEQKNKEFNVDIKKETIESELHSKLPKSIDKIHEDIKKQLSCSL
                     IMKKIDVEMEDYSTYCFSALRAIEGFIYQILNDVCNPSSSKNLGEYFTENKPKYIIREI
                     HRETINGEIAEVLCECYTYWHENRHGLFHMKPGIADTKTINKLESIAIIDTVCQLIDGG
                     VARLKL"
                     /name="lsoA"
     gene            1715..2095
                     /gene="lsoB"
                     /locus_tag="PPECC33_RS24555"
                     /old_locus_tag="PPECC33_p13"
     CDS             1715..2095
                     /gene="lsoB"
                     /locus_tag="PPECC33_RS24555"
                     /old_locus_tag="PPECC33_p13"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052605.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system antitoxin LsoB"
                     /protein_id="WP_000710826.1"
                     /translation="MKKDKKYQIEAIKNKDKTLFIVYATDIYSPSEFFSKIESDLKKKK
                     SKGDVFFDLIIPNGGKKDRYVYTSFNGEKFSSYTLNKVTKTDEYNDLSELSASFFKKNF
                     DKINVNLLSKATSFALKKGIPI"
                     /name="lsoB"
     gene            complement(2330..2653)
                     /gene="mobA"
                     /locus_tag="PPECC33_RS24560"
     CDS             complement(2330..2653)
                     /gene="mobA"
                     /locus_tag="PPECC33_RS24560"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052604.1"
                     /GO_process="GO:0006355 - regulation of DNA-templated
                     transcription [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization protein MobA"
                     /protein_id="WP_000166966.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="mobA"
     gene            2938..3132
                     /locus_tag="PPECC33_RS24565"
                     /old_locus_tag="PPECC33_p15"
     CDS             2938..3132
                     /locus_tag="PPECC33_RS24565"
                     /old_locus_tag="PPECC33_p15"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041639.1"
                     /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_001041620.1"
                     /translation="MNKQQQAVLNMAGFIKSQSLTLLEKLDALDADEQAAMCEKLHELA
                     EELQNSIQTRFEVENSTER"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(2663..2903)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.12e-123"
     Typing          2..450
                     /name="rep_cluster_2370"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.683"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(2334..2653)
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.065"
                     /coverage="100.0"
                     /evalue="1.76e-62"
ORIGIN
        1 gtgagcaaaa agcaaagcac cggaagaagc caacgctgca ggcgtttttc cataggctcc
       61 gcccccctga cgagcatcac aaaaatcgac gctcaagcca gaggtggcga aacccgacag
      121 gactataaag ataccaggcg tttccccctg gaagctccct cgtgcgctct cctgttccga
      181 ccctgccgct taccggatac ctgtccgcct ttctcccttc gggaagcgtg gcgctttctc
      241 atagctcacg ctgttggtat ctcagttcgg tgtaggtcgt tcgctccaag ctgggctgtg
      301 tgcacgaacc ccccgttcag cccgaccgct gcgccttatc cggtaactat cgtcttgagt
      361 ccaacccggt aagacacgac ttatcgccac tggcagcagc cattggtaac tgatttagag
      421 gagtttgtct tgaagttatg cacctgttaa ggctaaactg aaagaacaga ttttggtgac
      481 tgcgctcctc caagccagtt accttggttc aaagagttgg tagctcagcg aaccttgaga
      541 aaaccaccgt tggtagcggt ggtttttctt tatttatgag atgatgaatc aatcggtcta
      601 tcaagtcaac gaacagctat tccgttgaca aaaaaacaag atctgtacat attcaaaaaa
      661 aacaacggat tgacccaatg gcacagaacc cgtttaaagc actaaatatc aatattgaca
      721 agattgagtc tgctctgacg cagaatggcg tcacaaacta ttcctctaat gtaaaaaacg
      781 aaagagaaac tcacatatct ggcacatata aaggaataga cttcttaata aaactaatgc
      841 catcaggcgg aaataccact atcggaagag cgtctgggca aaataacact tactttgatg
      901 aaatcgcctt gattataaaa gaaaactgtt tgtattcaga cacaaagaac tttgaataca
      961 ccattccaaa attcagtgat gatgacaggg caaatctatt tgaatttctt tctgaagagg
     1021 ggataacaat aacagaagat aataataacg atcctaattg taaacaccaa tatattatga
     1081 ccaccagcaa tggtgacagg gtcagggcaa aaatttacaa gcgcggctct attcaattcc
     1141 aaggaaaata ccttcaaatc gcgagtttga ttaacgattt catgtgctca atactaaaca
     1201 tgaaagagat tgtcgaacaa aaaaataaag aatttaatgt tgacataaaa aaagaaacta
     1261 ttgagtccga gttgcatagc aaactaccaa aaagcatcga taaaatccat gaagatatca
     1321 aaaaacagct atcatgctcg ctaataatga aaaaaataga tgtcgaaatg gaagattact
     1381 caacatactg cttctctgca ttaagagcca tagaaggctt tatatatcaa atacttaatg
     1441 atgtttgcaa tccatcatca tcaaagaacc ttggcgaata cttcactgaa aacaaaccca
     1501 aatatataat cagagaaata caccgagaaa ctataaatgg tgaaatagcg gaagttttgt
     1561 gtgaatgcta cacttactgg catgagaaca ggcatggttt gtttcatatg aaaccaggaa
     1621 tagctgacac gaagacaatt aacaaattag aatcaatcgc aatcatcgat accgtttgcc
     1681 aattaataga tggtggcgta gctaggttga aattatgaaa aaagataaaa aatatcaaat
     1741 agaagcaata aaaaataaag ataaaacttt atttattgtc tatgctactg atatttatag
     1801 cccgagcgaa tttttctcaa aaatcgaatc cgacttgaag aaaaagaaaa gcaagggtga
     1861 tgtttttttt gatttaataa ttcctaacgg tggaaaaaaa gatcgttacg tctatacgtc
     1921 atttaatggc gagaagtttt caagttacac attaaacaaa gttacgaaaa ctgatgaata
     1981 taatgattta tctgagctct cggcttcgtt ctttaaaaaa aactttgata agatcaacgt
     2041 aaaccttcta tccaaagcca catcatttgc tttgaaaaaa ggcattccaa tataatatca
     2101 agccagaaga catttaccat aacgtctcat tacgcgcacc gccaaaacgc gctgaacgcg
     2161 attctgacgc agacaccgca aaaagagatg ttttccccgg ggtaaaccgg aaaaatgcgt
     2221 caggatcgct ttcagctcac tgcatagcta tgcatgaaag tgaatggcga tcggtttggg
     2281 ggcttacggc gttcataccg tctgttttcg acagtttctc tccgggaagt taatctgcca
     2341 taagcctgga taacagggca cggtgatact ccgtaatagc gatcagcacc tccgcatact
     2401 ctctgtcccc gacacgcttg ccgtcgataa agagtttttt ctgcaacgcc cccagtcgca
     2461 taacttcttt cagcacccgg tcatcagtca gtgagttaac tttcttaccg agagctgccg
     2521 cccgtaaaaa accagaaacg gtcttgccgc attcagcagc cctttttctg atttcctggt
     2581 cttcttctgc cgtcagacga acagggcgac tgatagcccg cctgcgcgta ttacttccac
     2641 ttcgttttgt cataaaacat ggctccgtat ctgacatggg gtgtcggggc gaagccctga
     2701 ccagggtaat tgtaatagcg tgcatgtatg cgcggtataa caattgcaca tcctgtcctg
     2761 tcagcaagct cgaattaccg acaaaggcac ggcagttttt tggcagtgac agtattgtca
     2821 ggcagaaata cccgtcaaag cgtcagacgg cagaataccg gcggtaaaac agtcgaaaag
     2881 tggtacgcga tataatcaca caacgcagat gacagacaga acggagaaaa cgaaaagatg
     2941 aacaagcagc agcaagctgt actcaacatg gcaggattca taaaaagcca gagcctgacg
     3001 ctgctcgaaa agctggacgc actcgatgct gacgaacagg ctgccatgtg tgagaagctg
     3061 cacgaactcg cagaagaact ccagaacagc atccagacac gctttgaagt agaaaatagc
     3121 acagagagat aactctcagg acaggatgcc gaacggcaca acagagcgta aggagaaaat
     3181 gtcacataag gcgctcttcc gcttcctcgc tcactgactc gctacgctcg gtcgttcgac
     3241 tgcggcgagc ggtgtcagct cactcaaaag cggtaatacg gttatccaca gaatcagggg
     3301 ataaagccgg aaagaacat
//
