LOCUS       NZ_LR890330             6760 bp    DNA     circular CON 25-JUN-2023
DEFINITION  Escherichia coli strain MINF_1A isolate MINF_1A plasmid 5, complete
            sequence.
ACCESSION   NZ_LR890330
VERSION     NZ_LR890330.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMEA3357499
            Assembly: GCF_904863375.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1
  AUTHORS   Hawkey,J.
  TITLE     Direct Submission
  JOURNAL   Submitted (16-OCT-2020) THE UNIVERSITY OF MELBOURNE, 30 Flemington
            Rd, Australia
COMMENT     ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/25/2023 10:46:01
            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)                     :: 5,373
            CDSs (total)                      :: 5,250
            Genes (coding)                    :: 5,034
            CDSs (with protein)               :: 5,034
            Genes (RNA)                       :: 123
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 95
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 216
            CDSs (without protein)            :: 216
            Pseudo Genes (ambiguous residues) :: 0 of 216
            Pseudo Genes (frameshifted)       :: 72 of 216
            Pseudo Genes (incomplete)         :: 147 of 216
            Pseudo Genes (internal stop)      :: 32 of 216
            Pseudo Genes (multiple problems)  :: 33 of 216
            Pseudo Genes (short protein)      :: 4 of 216
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            LR890330.1.
            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..6760
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="MINF_1A"
                     /isolate="MINF_1A"
                     /isolation_source="swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="5"
                     /geo_loc_name="Australia"
                     /collection_date="2014-01"
     gene            join(5242..6760,1..347)
                     /locus_tag="JMV91_RS26520"
     CDS             join(5242..6760,1..347)
                     /locus_tag="JMV91_RS26520"
                     /EC_number="2.1.1.-"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006816428.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA];
                     GO:0008168 - methyltransferase activity [Evidence IEA];
                     GO:1904047 - S-adenosyl-L-methionine binding [Evidence
                     IEA]"
                     /GO_process="GO:0006306 - DNA methylation [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_021558993.1"
                     /translation="MQTELIKELNKVLKAFPQFWNGEELQRSMVSDAISQKQPDLIKAL
                     VDNEKVRSVYGVDIDGIFIFDFDKLCGLLKYKEYWANSFTKYRNKVGLTSEGKYLDYSS
                     DVVLDFPFKDCILEGGMTKENQGKDEIYYNEIIAMDEVDSLLSPKAFTNAKRYTKEGVK
                     ENITKFNDDENLIIKGNNLIALHSIKKLYAGKVKLIYIDPPYNTGSDSFKYNDRFNRST
                     WLTFMKNRLEVAKEMLSDDGFIFIQCDDNESAYLKVLCDSIFGEENYRNSIYWHRTYAG
                     KTVKSKLPWNTDTILFYSKKESSLLEPYTAELSAADIKSYNKDDFDGRGKYNTVSLQKT
                     SSPGPQTTYDYIDNTGKKWSCPEKGWRMTKEKLKALENDNRLYITDKTIREKYYLKERK
                     EIGKQIDNFWHDIGNLNRVSDVAFIDGQKTEKLMQRIISLASKENDIVLDFHLGSGTSA
                     AAAHKMGRRYIGIEQMDYINEITVPRLQKVIEGEQGGISKDVNWQGSGSFVYVELVELN
                     AYFIHEIQKAQSTEELEKLFAVMKTEAYLNYQVALENVLSAEYEVDGILHKVAFSELEL
                     HEQKQLLIEILDKNQLYVNVSDMEDSDLNISESDKAFTRSFYGME"
                     /name="site-specific DNA-methyltransferase"
     gene            352..2988
                     /locus_tag="JMV91_RS26525"
     CDS             352..2988
                     /locus_tag="JMV91_RS26525"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012443154.1"
                     /GO_function="GO:0005524 - ATP binding [Evidence IEA];
                     GO:0003677 - DNA binding [Evidence IEA]; GO:0016787 -
                     hydrolase activity [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DEAD/DEAH box helicase family protein"
                     /protein_id="WP_052512605.1"
                     /translation="MAKKPKSAGREKLLFNKLKQFDEPGLFHDNYQTPDYIQANLKDIL
                     RPYQHSALRYLHYTQRKRDDALLHYRHLLFHMATGAGKTMVMAGTILYLFKEFGYQNFI
                     FFVHTDAIIQKTRENLLNPQSPKYLFSHELEIDGEKITIAPVDIFPSVPERNTIYLKLS
                     TIHKMHDELNSYRENSITYEDLKEIPLVLLGDEAHHFNAGTKARGKSKTSPENEEQTWE
                     RTIENILDLRPDNRLFEFTATIDLANKDIGQKYRDKVVYQYDLKQFMSDGYSKKVMLLE
                     ANQNDSDKMLDAVLLSQYRKLTAADHGITGFKPVILFKSNKIAISKAKQEEFSQLIAAM
                     TPESIRRHLANKKLQLSSDTSIWHKVIQRYADSDLVTVTGQIQEDFNDFNLLNVNKSDL
                     LEENPVLLNTLEEVDNPVRAVFAVAKVNEGWDVLNLYDIVRISEQASSSKTSTDSEAQL
                     IGRGARYYPFIYDGQRSFTRRFDNSTKDLSVLEQLHYHTINEPAYIKTLHASLEQADID
                     VHQDGGGTVEHARLKEDFKKSAVYQAGKLYFNEVEEIERSSRNWETYSLETRFEIQYQI
                     ACEESLDNLTGTKGGIIKPEPLVLDERFYRKAMQRISFYALDNLKRFFPKLTGIREFIR
                     SDAYLGKLKITVSVPQSLDFTTVPAKDKLHLLENVLLRISENVRRNDQKVKGTYRFISQ
                     PVKEVIKDYSLHIDPSVAINQKITAAPTIGKKWYVYDNAILNQLEHRLIKMLEAFMPKL
                     KARYDDIYVLRNDEQSTRFKLTEFGGVRGFMPDFIMILTRHSDNTYWQVFLEPKGDDRL
                     LDDAWKERMLETLNDRERIVIDENEHVRLVGIKFFANSQMDVFVSDMQNKLNDGESLET
                     SSLSLPL"
                     /name="DEAD/DEAH box helicase family protein"
     gene            complement(3390..3503)
                     /locus_tag="JMV91_RS26985"
     CDS             complement(3390..3503)
                     /locus_tag="JMV91_RS26985"
                     /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="replication initiation protein"
                     /protein_id="WP_071588254.1"
                     /translation="MHEPPVQPDRCALSGNYRLESNPVRHDLSPLAAATGN"
                     /name="replication initiation protein"
     gene            complement(4168..4362)
                     /locus_tag="JMV91_RS26530"
     CDS             complement(4168..4362)
                     /locus_tag="JMV91_RS26530"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041627.1"
                     /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_001041631.1"
                     /translation="MNKQQQTALNMARFIKSQSLTLLEKLDALDADEQAAMCERLHELA
                     EELQNSIQIRFEAESETGT"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          4003..4088
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="8.58e-38"
     Typing          4399..4497
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.0"
                     /coverage="100.0"
                     /evalue="1.35e-41"
     Typing          4622..4877
                     /name="MOBF"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="92.248"
                     /coverage="89.0"
                     /evalue="2.69e-98"
     Typing          complement(3432..3985)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.075"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 gctttgtcta cgttgaacta gtggaactga acgcttactt catacatgaa atccagaaag
       61 cgcagtccac ggaagaactc gaaaaactct ttgccgtgat gaagacagag gcatatctca
      121 actatcaggt ggctctggaa aatgtgctgt ccgctgagta cgaagtggat gggatcctcc
      181 ataaggtagc attcagtgaa ctggaactgc atgagcagaa gcagcttttg attgaaatcc
      241 tagataagaa ccagctctac gtgaatgtct ctgatatgga ggacagcgac ctgaacattt
      301 cagagagtga taaagccttt acccgcagct tctacggaat ggagtgacgg catggcgaag
      361 aaaccgaagt cagcaggtag agagaagctg ctgtttaaca agctgaagca gttcgatgaa
      421 ccaggactgt tccacgataa ctatcagacg ccggactata ttcaggcaaa cctgaaagat
      481 atcctgcgtc cctatcagca cagcgcactg cgttacctgc attacacgca acgtaaacgt
      541 gatgacgcgc ttctgcatta ccgtcacctg ctgtttcaca tggcaaccgg tgcagggaaa
      601 acgatggtta tggcaggaac gatactctat ctatttaaag agttcgggta tcagaacttc
      661 atctttttcg tacataccga cgcgattatc cagaaaacgc gagagaacct acttaacccg
      721 caatcgccga agtacctgtt cagtcatgag ctggaaatcg acggggaaaa aatcaccatc
      781 gcaccggtag atatattccc gtccgtaccg gaacgcaaca cgatttacct caagctctcg
      841 actatccata agatgcacga tgagctgaac agctatcgag agaacagcat tacctacgag
      901 gatttaaaag aaatcccgct tgtgctactc ggtgacgagg cgcatcactt caacgccggc
      961 accaaagcta gaggcaagtc gaaaacctca ccggagaacg aggagcagac ttgggagcgt
     1021 acgattgaga acatcctcga cctgcgaccg gataaccgcc tgttcgagtt caccgctacc
     1081 attgaccttg caaacaaaga tatcggacag aaataccgtg acaaggtggt atatcagtat
     1141 gatctgaagc agttcatgtc agacggttac tcgaaaaagg tcatgctgtt ggaagcaaac
     1201 cagaacgaca gcgacaagat gctcgatgcg gtactgttaa gccagtaccg taaactgacg
     1261 gcagcagatc acggcatcac cggctttaaa ccggtcattc tgttcaagtc gaataagatt
     1321 gcgatatcaa aggcgaagca ggaggagttt tcgcaactga ttgccgccat gacacctgag
     1381 agcatcagac gtcatctggc taacaaaaaa ctccagctca gctctgacac cagtatctgg
     1441 cataaagtga ttcagcgtta cgctgacagt gatttagtga cggtgactgg acaaattcag
     1501 gaggacttta acgactttaa cctgctgaac gtcaacaagt cagacctgct ggaggaaaac
     1561 cccgtcctgc tgaatacact ggaagaagtc gataatccag tgagagccgt ctttgctgtc
     1621 gcgaaggtga atgaaggctg ggacgtactt aacctctacg atattgttcg cataagcgag
     1681 caggcgagca gcagcaaaac cagcacggac agcgaagcgc agcttattgg gcgaggtgcg
     1741 cgttactacc cgttcattta tgacggtcaa cgtagcttca cccgccgttt tgataacagt
     1801 acgaaggatt tgagcgtact ggagcaactg cactatcaca ccatcaatga accggcgtac
     1861 atcaaaacac tgcacgcctc tctggagcag gcggacattg acgtgcatca ggatggcgga
     1921 ggtacggttg aacacgccag attgaaagaa gactttaaaa agtccgccgt gtatcaggcg
     1981 ggtaagctgt actttaacga agtggaagag attgagagaa gcagccgaaa ctgggaaacc
     2041 tactcgctgg aaacacgctt tgaaatacag tatcagatcg cttgcgagga gtcgctggac
     2101 aacctgacag gcacaaaggg ggggatcata aaaccggaac cactggtact ggacgagcgt
     2161 ttttaccgca aggcgatgca aagaatcagc ttttacgcgc tagataacct gaaacgcttc
     2221 ttcccgaaac tgacaggtat tcgggagttc atacgcagtg acgcctatct tggtaagctg
     2281 aaaatcaccg tcagcgtacc gcagtcactg gatttcacca ccgtaccggc aaaagataag
     2341 ctgcacctac tggaaaacgt tttgctgcgt atctcagaga atgtgcgtcg caatgaccag
     2401 aaggtaaaag gcacgtaccg atttatcagc cagccggtga aagaggtgat taaagattac
     2461 agtttgcata ttgacccgtc ggtagccatt aaccagaaaa tcaccgccgc tcccaccatt
     2521 ggtaaaaaat ggtacgtgta cgataatgcg atactaaatc agcttgagca tcgtctgata
     2581 aaaatgctgg aagcattcat gccgaagcta aaagcgcgtt atgacgatat ttacgtactg
     2641 cgtaacgacg agcagtcaac gcgctttaag ctcacggagt tcggcggcgt gcgtgggttt
     2701 atgccagatt tcatcatgat actgacgcgc cattcagaca acacttactg gcaggtgttc
     2761 cttgaaccga agggggatga ccgtctgctg gatgacgcat ggaaagaacg gatgctcgaa
     2821 acactgaatg acagggagcg cattgtaatt gatgaaaatg agcacgtcag actggttggg
     2881 attaaattct ttgccaatag ccagatggac gtttttgtca gcgacatgca gaacaagctg
     2941 aatgatggag aatcgctcga aacctcctcg ctctccctac cactgtaagt cacgacaata
     3001 aaataacgga gcattacgct ccgttatttt attgttatct cgaactacct cccagggagg
     3061 tgatgattgc tcctgtaatg gttgcattgt ttgttcttgc tgttgcgaat cattagtttt
     3121 gaatggtggt taaaaaccgt tcgctatgtt tatgcctggg ggggggatga gggggaaaag
     3181 attcaaggat cctcttgtga tccttttttt ctgcgcgtaa tctgcagcct gtaaacgaaa
     3241 aaaccaccct ggcaggtggt ttttcgaagg ttagctaatc ctggcagatt atctaaccgg
     3301 gtaactggct tggaggagcg cagtcaccaa aatctgttct ttcagtttag ccttaacagg
     3361 tgcataactt caagacaaac tcctctaaat cagttaccag tggctgctgc cagtggcgat
     3421 aagtcgtgtc ttaccgggtt ggactcaaga cgatagttac cggataaggc gcagcggtcg
     3481 ggctgaacgg ggggttcgtg cacacagccc agcttggagc gaacgaccta caccgaaccg
     3541 agataccaac agcgtgagct atgagaaagc gccacgcttc ccgaagggag aaaggcggac
     3601 aggtatccgg taagcggcag ggtcggaaca ggagagcgca cgagggagct tccaggggga
     3661 aacgcctggt atctttatag tcctgtcggg tttcgccgac tctgacttga gcgtcgattt
     3721 ttgtgatgct cgtcaggggg gcggagccta tggaaaaacg ccagcggcgc ggcctttttc
     3781 cggttcctgc tcttttgctc acatgttctt tccggcctta tcccctgatt cggtggataa
     3841 tctaattact gtctttgcgt gagttgatac cgctcgccgc agccgaacga ccgagcgtag
     3901 cgagtcagtg agcgaggaag cggaagagcg tcggaagttg cattttctcc ttacgcatct
     3961 gtgcggcatt tcacatcggt tatggtgtac ttttcataca atctgcactg atgccgcata
     4021 gttaagccag tatacactcc gctatcgcta cgtgactggg tcatggctgc gccccgacac
     4081 ccgctaaaac cccctgacgc gccctgacgg gcttgtctgc tgacgaaaac gcccacggga
     4141 aagccgtgac cgcctccgtc agcttcgtta tgttcctgtt tcactttcgg cctcaaagcg
     4201 aatctggatg ctgttctgga gttcttctgc gagttcgtgc agtcgttcgc acatggccgc
     4261 ctgttcgtcg gcatccagag catccagttt ttcaagcagt gtcaggctct ggcttttgat
     4321 aaatcgcgcc atattcagcg cagtttgttg ttgtttgttc accttccgtt gttctccgtc
     4381 agttccgggt gtcgggggga ccctgagcag gtggtaattg taagacgttg cgggcgacgg
     4441 tattacaatt gcacatcctg tcctgtttct ttaggacgta tcatggcaca gcatatcaac
     4501 tgataaataa tccctgtgca gtgcagccgc tgttgcataa aatttcgctc tgcgtcgagt
     4561 gtttcttaat caataattcc gctgatactc cggaaaaacg cgagtctgtt ctcatgcctg
     4621 aaatgcccac accccacgca aaaacaagtt tttgctgatt tttctttata aatagagagt
     4681 tatgacaaat tagttcttct tgctctcttt gtgatattta aaaaagcggt gttggcgcag
     4741 ctacaacacc gcgccgacac cgctttttag gggtggtact gactattttc ataaaaaaca
     4801 tcatcttata ttaggggtgc tgctagcggc gcggtgtgtt tttttacagg acgcccctgg
     4861 gggcgctgct aggggtgtct gttcagatat gtagcaatga gtcagggatt cacgaactga
     4921 aaatgtccga aaatgtgtct catgggtact gtatgcgccc aaaccgatcg tcattcactt
     4981 tcatgcatag ctatgcagtg agctgaaagt gatcctgacg catttttccg gtttaccccg
     5041 gggaaaacat ctctttttgc ggtgtttgcg gcagaatcgc gttcagcgcg ttttagcggt
     5101 gcgcgcaaga gcgtttatgt taaatactac tcgttctggt gcattttccc gcaactgaat
     5161 ccaactcatc gctgttgggt tccagcgccg aacgctatac cttacaatca ttccaatatt
     5221 taacagtcat aaggccatga catgcagacc gaattaataa aagaacttaa caaggtttta
     5281 aaagcgttcc cgcaattctg gaatggagag gaattacaac gttcaatggt gagtgacgct
     5341 atcagtcaaa agcagccaga tcttatcaag gcattagtcg ataatgaaaa agtccgctct
     5401 gtttatggtg tggatattga tggcattttt atctttgatt ttgacaaatt atgtggtctt
     5461 ctaaaataca aagaatattg ggctaatagc tttactaaat accggaacaa agtgggatta
     5521 actagcgaag gtaaatacct tgattacagt tctgatgtgg tgctggattt tcctttcaag
     5581 gattgtattc ttgaaggtgg aatgaccaaa gaaaatcagg gaaaagatga gatttattat
     5641 aatgaaatca tagcaatgga tgaagttgac tctttgcttt ctcccaaggc gttcactaat
     5701 gctaagcgat ataccaaaga gggggtaaaa gaaaatatca ctaaatttaa cgatgatgaa
     5761 aatttaataa ttaagggaaa caatctcatt gcactacatt caataaaaaa actttacgca
     5821 ggaaaagtaa agttaattta tatagacccg ccttacaata cagggagtga tagctttaag
     5881 tataatgatc gattcaatcg ctcaacatgg ttgacattca tgaaaaatag gcttgaggtg
     5941 gctaaagaaa tgctttccga tgatggcttt atttttattc aatgcgatga taatgaatca
     6001 gcatatctta aagttttatg tgattcaatt tttggagaag agaattatag aaactcaatc
     6061 tattggcata gaacctacgc agggaaaact gtaaaaagta agttgccatg gaatacagat
     6121 acaatattgt tttattctaa aaaagaaagt tcattattag agccatatac agcagaactt
     6181 agtgctgctg acattaaatc ctataacaag gatgattttg atggaagggg taaatacaac
     6241 actgttagct tgcaaaaaac aagctctcca gggccgcaaa caacttatga ttatatagat
     6301 aatacaggta agaaatggag ttgccctgaa aaagggtgga gaatgacaaa ggaaaagtta
     6361 aaggctttgg aaaacgacaa taggctatat atcactgaca aaacaatacg agaaaaatat
     6421 tatcttaaag aaagaaaaga gatcgggaaa caaatagata atttttggca tgacattggg
     6481 aatttaaata gggtttccga tgttgctttt attgatggac aaaaaactga aaaattaatg
     6541 caacggataa ttagccttgc ttccaaagaa aatgatatcg tcttggactt tcatctcggc
     6601 agcggaacta gcgcagcagc agcccataaa atgggacgtc gctatatcgg tattgagcag
     6661 atggattaca tcaatgagat caccgtgcca cgtttgcaaa aagtcattga gggtgagcag
     6721 ggaggtatct caaaagacgt caactggcag gggagcggca
//
