LOCUS       NC_010487               3565 bp    DNA     circular CON 01-JUN-2024
DEFINITION  Escherichia coli SMS-3-5 plasmid pSMS35_3, complete sequence.
ACCESSION   NC_010487
VERSION     NC_010487.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN02604066
            Assembly: GCF_000019645.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli SMS-3-5
  ORGANISM  Escherichia coli SMS-3-5
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3565)
  AUTHORS   Fricke,W.F., Wright,M.S., Lindell,A.H., Harkins,D.M.,
            Baker-Austin,C., Ravel,J. and Stepanauskas,R.
  TITLE     Insights into the environmental resistance gene pool from the genome
            sequence of the multidrug-resistant environmental isolate
            Escherichia coli SMS-3-5
  JOURNAL   J Bacteriol 190 (20), 6779-6794 (2008)
   PUBMED   18708504
REFERENCE   2  (bases 1 to 3565)
  AUTHORS   Fricke,W.F., Wright,M.S., Lindell,A.H., Harkins,D.M.,
            Baker-Austin,C., Ravel,J. and Stepanauskas,R.
  TITLE     Direct Submission
  JOURNAL   Submitted (14-MAR-2008) J. Craig Venter Institute, 9712 Medical
            Center Dr, Rockville, MD 20850, USA
COMMENT     ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_000019645.1-RS_2024_06_01
            Annotation Date                   :: 06/01/2024 01:33:08
            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)                     :: 5,037
            CDSs (total)                      :: 4,920
            Genes (coding)                    :: 4,705
            CDSs (with protein)               :: 4,705
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 215
            CDSs (without protein)            :: 215
            Pseudo Genes (ambiguous residues) :: 0 of 215
            Pseudo Genes (frameshifted)       :: 93 of 215
            Pseudo Genes (incomplete)         :: 155 of 215
            Pseudo Genes (internal stop)      :: 48 of 215
            Pseudo Genes (multiple problems)  :: 64 of 215
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP000974.1.
            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..3565
                     /organism="Escherichia coli SMS-3-5"
                     /mol_type="genomic DNA"
                     /strain="SMS-3-5"
                     /db_xref="taxon:439855"
                     /plasmid="pSMS35_3"
     gene            112..711
                     /locus_tag="ECSMS35_RS25805"
                     /old_locus_tag="EcSMS35_D0001"
     CDS             112..711
                     /locus_tag="ECSMS35_RS25805"
                     /old_locus_tag="EcSMS35_D0001"
                     /inference="COORDINATES: protein motif:HMM:NF025179.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="GNVR domain-containing protein"
                     /protein_id="WP_157905520.1"
                     /translation="MSIILFVVLSLILSSIFLLINKNKINIKYELNMIANSPSMIINCG
                     SDFYCKANIIQSIINNKSKSITSNIDERGKKIILSWAGDDRYKPLVTAEVNAIHKAIDD
                     WYIQDYKTYKSIVNNQDSNYINGTETYAKVALLTKINTAGEKNFISINDEIVNKKYKPA
                     LIMALTLIIAVIFSFSYHIIKRSILEYKNKLNRSFY"
                     /name="GNVR domain-containing protein"
     gene            <1054..1473
                     /locus_tag="ECSMS35_RS28665"
                     /old_locus_tag="EcSMS35_D0002"
                     /pseudo=""
     CDS             <1054..1473
                     /locus_tag="ECSMS35_RS28665"
                     /old_locus_tag="EcSMS35_D0002"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012477181.1"
                     /GO_function="GO:0004803 - transposase activity [Evidence
                     IEA]"
                     /note="internal stop; incomplete; partial in the middle of
                     a contig; missing N-terminus; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="IS1 family transposase"
                     /name="IS1 family transposase"
     gene            complement(2419..2610)
                     /locus_tag="ECSMS35_RS25820"
     CDS             complement(2419..2610)
                     /locus_tag="ECSMS35_RS25820"
                     /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            3029..3187
                     /locus_tag="ECSMS35_RS30195"
     CDS             3029..3187
                     /locus_tag="ECSMS35_RS30195"
                     /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="replication initiation protein"
                     /protein_id="WP_071819240.1"
                     /translation="MHEPPVQSDCCALSGNYRLESNPERHDKTPLAAAIGIWFTERRGV
                     YKHTQSS"
                     /name="replication initiation protein"
     Typing          2848..3374
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atttatttat ttaagctata atttaataac tattgttggt atataaaaat ggaaaacaat
       61 tcacctgata ttgatatcat cgagttattt ctttttctta agaaaaaaat cgtgagtatt
      121 attttgtttg ttgttttatc attgatttta tcatctattt tcttgctgat aaacaaaaac
      181 aaaataaata taaagtacga attaaacatg atcgctaatt cgccaagcat gattattaac
      241 tgtgggtctg acttttattg taaagcgaat atcatacaat caatcataaa caataaaagc
      301 aagtctataa catcaaatat agatgaaaga ggaaaaaaaa taatcctgtc atgggctggt
      361 gatgaccgtt acaaacccct ggttaccgct gaagtaaacg ctatccataa agctattgat
      421 gactggtaca tccaagatta taaaacttat aaaagcatag ttaacaacca ggacagcaac
      481 tatataaatg gcactgaaac atatgcaaaa gttgcattat taacaaaaat aaacactgcc
      541 ggagaaaaaa acttcatttc aataaatgat gaaatagtga ataaaaagta taaaccagct
      601 ttaattatgg ctctaacgtt aattatagcc gttatctttt ccttctcgta tcatataata
      661 aaaagatcta tacttgaata taaaaataag ttaaacaggt ctttttatta gcctgtaacg
      721 attaataacc ttattctagc aacatccgtt acacgccaga tgcagaaaag cccgctaata
      781 gcgggcctcc cgataaacct caagtgaata agggcagtca gttctatttc ttacccttcc
      841 attgcctaac tgattctccg tggcactggg ccaactgcag cagtttttat tcccatgagg
      901 aatccgattg gtcacctcgc gatctccatt ttttaagata cacacataat ttcattagac
      961 catctacagc tgactgatgc cataactcac ctttagcatg aagattctag gtgatgactc
     1021 taattagttg aatctaatgt ataatacagg ctttcttcgc ctgttgccca tgctgatatg
     1081 gcgcttatct gcgagcttga tgagcaatgg agctacattg gcagtaaagc ccggcaacac
     1141 tggctctggt acgcgtacaa caccaaaaca ggcggtgtat tggcctacac gtttggttcc
     1201 cgaaccgatt aaacgtgtcg gaagctactg gcactgctta cacccttcaa catcggcatg
     1261 ctcaccagcg atgacttggg cagctatggc cgggtggtgc cgaagaataa gcatctgacc
     1321 ggcaaaatat tcacccaacg cattgagcgt aataatctga cgctacgcac ccgcattaag
     1381 cggttggctc gtaaaacaat ctgcttctca cgctcagttg agatccacga aaaagtgatc
     1441 ggagcggtta tcgaaaaaca catgttctac taattggatg cactatcaga ttctgaaccg
     1501 tgggtatata agtctgcatt tcagcttcat caatcccgtt ttttttgctg aatccattta
     1561 ccaatatcct gtccatacgt tactaaagaa aataatatat gcggagtgag tcatcatgcg
     1621 cctaatttac cataacatcc gttgcccgca ccgcctgaga ggcgctgagg gcgtttctga
     1681 cgggaaaccg gtaaaacagg caacaaacca cccgaaaacc cgccagaaac gcgcaggctc
     1741 tgtttttacg gcatgcatga gtatgcacgc aagtgcatag cgcggaaatt cacgccattc
     1801 agccggggta agtcctgttt ccgatgttct ttttatccga aaacggtgaa cggggacgca
     1861 atttattgcg tggccgtgag gcgttgccgg cacagccgga aaaaccgttt tcagcacgtt
     1921 caggaagggg ggcggatgta caaatggcac agaggatgga actgacgtaa aagtgacgta
     1981 tgagctgaag gaatgatgta aaagtgatgt aaaagtgatg caaaagtgtt gtaaaagtga
     2041 tgtataggct gaaggaatga tgcaaaagtg atgtaaaagt gttgtaaaag tgatgtatga
     2101 actgaaggag caatgtaatt ctgtagtcag gaagaataac ccgttcatgc aggcatgaac
     2161 gatacagtga ggaacgcttt ttttgtcacg atctcccctt aacctgcgta aatcacccgc
     2221 catggttgat tatttttcaa cctcaaaatg gtcatacacc taacgcagct gcgattgtca
     2281 tcgcaacttc atgaaaaata aataaaaaag aaaaaataaa gggattctgg gtattaccgg
     2341 ggtaataata ttaagcgcca ggacaatgaa aattaaggcg atgccggtat tactccggta
     2401 atacccagaa cggagccatt acgcaccgtc ctgctgctca ttcaggcgcg ctgacaggct
     2461 tcggtaaagg cgttccgcat cctcatggag tttctcgcag aaatcagcct catgatccag
     2521 atccagctca ttaagcctgt ccagaagaag cagggactga tcctggataa atttagccat
     2581 gttaacggct gtcttttgtt gtttgttcat gaaggccccg gcgcgaaagt gcttactgta
     2641 cgttctgatg gttttccgct tcctcgctca ttcgctcact ccgttcggtc atgagtctgc
     2701 ggcgagcgga gggaagataa gcagataacg taacggtaag cataacgaaa gctaaggaca
     2761 agagcgaaaa ggccacgccc cgccggggcg tttttccata ggctccgccc ccctgacaag
     2821 catcacgaaa tctgacgctc aaatcagtgg tggcgaaacc cgacaggact ataaagatac
     2881 caggcgtttc cccctgatgg ctccctcgtg cgctctcctg ttcctgcctt tcggtttacc
     2941 ggtgtcactc cgctgttatg gccgcgttta tctcattcca cgcctgacac tcagttccgg
     3001 gtaggcagtt cgctccaagc tggactgtat gcacgaaccc cccgttcagt ccgactgctg
     3061 cgccttatcc ggtaactatc gtcttgagtc caacccggaa agacacgaca aaacgccact
     3121 ggcagcagcc attggtatct ggtttacgga gcggagaggc gtgtacaagc atacacagag
     3181 ttcttgaagt gttgacctga ctacggctac actggaagga cagatttggt cactgcgctc
     3241 cgtttaagcc agttaccacg gttcagaaac ttgccggttt cctgaacctt cgaaaaacca
     3301 ccttgccggg tggttttttc gttttcagac caagagatta cggctgtaac acaaggatct
     3361 caagaagatc ttaaaatatg tggaaaggat acaggctgat aacaactctc tccatagaca
     3421 tgaccgaaca aaaaacaaac aaaagaaatt gattttagga gttttctcac acctaaataa
     3481 taggtaaaat gttttttatt tgattggatt ttaaaatgaa atatactaaa tcggcgaaaa
     3541 tattcatcac ggctatttta atttt
//
