LOCUS       NC_013199               4633 bp    DNA     linear   CON 17-FEB-2020
DEFINITION  Lactobacillus rhamnosus Lc 705, complete sequence.
ACCESSION   NC_013199
VERSION     NC_013199.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMEA2272728
            Assembly: GCF_000026525.1
KEYWORDS    RefSeq; complete genome.
SOURCE      Lactobacillus rhamnosus Lc 705
  ORGANISM  Lactobacillus rhamnosus Lc 705
            Bacteria; Firmicutes; Bacilli; Lactobacillales; Lactobacillaceae;
            Lactobacillus.
REFERENCE   1
  AUTHORS   Kankainen,M., Paulin,L., Tynkkynen,S., von Ossowski,I., Reunanen,J.,
            Partanen,P., Satokari,R., Vesterlund,S., Hendrickx,A.P., Lebeer,S.,
            De Keersmaecker,S.C., Vanderleyden,J., Hamalainen,T., Laukkanen,S.,
            Salovuori,N., Ritari,J., Alatalo,E., Korpela,R.,
            Mattila-Sandholm,T., Lassig,A., Hatakka,K., Kinnunen,K.T.,
            Karjalainen,H., Saxelin,M., Laakso,K., Surakka,A., Palva,A.,
            Salusjarvi,T., Auvinen,P. and de Vos,W.M.
  TITLE     Comparative genomic analysis of Lactobacillus rhamnosus GG reveals
            pili containing a human- mucus binding protein
  JOURNAL   Proc. Natl. Acad. Sci. U.S.A. 106 (40), 17193-17198 (2009)
   PUBMED   19805152
REFERENCE   2  (bases 1 to 4633)
  AUTHORS   Paulin,L.G.
  TITLE     Direct Submission
  JOURNAL   Submitted (02-JUL-2008) Paulin L.G., Institute of Biotechnology,
            University of Helsinki, PObox 56 (Viikinkaari 4), 00014 Helsinki,
            FINLAND
COMMENT     ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/17/2020 14:47:54
            Annotation Pipeline               :: NCBI Prokaryotic Genome
            Annotation Method                 :: Best-placed reference protein
            Annotation Software revision      :: 4.11
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA;
            Genes (total)                     :: 2,921
            CDSs (total)                      :: 2,842
            Genes (coding)                    :: 2,714
            CDSs (with protein)               :: 2,714
            Genes (RNA)                       :: 79
            rRNAs                             :: 5, 5, 5 (5S, 16S, 23S)
            complete rRNAs                    :: 5, 5, 5 (5S, 16S, 23S)
            tRNAs                             :: 61
            ncRNAs                            :: 3
            Pseudo Genes (total)              :: 128
            CDSs (without protein)            :: 128
            Pseudo Genes (ambiguous residues) :: 0 of 128
            Pseudo Genes (frameshifted)       :: 92 of 128
            Pseudo Genes (incomplete)         :: 24 of 128
            Pseudo Genes (internal stop)      :: 21 of 128
            Pseudo Genes (multiple problems)  :: 8 of 128
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence was derived from
            FM179323.
            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/
            Annotation Pipeline (PGAP)
            set; GeneMarkS-2+
            repeat_region
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..4633
                     /organism="Lactobacillus rhamnosus Lc 705"
                     /mol_type="genomic DNA"
                     /strain="Lc 705"
                     /db_xref="taxon:568704"
     gene            1..1794
                     /locus_tag="LC705_RS01460"
                     /old_locus_tag="LC705_00312"
     CDS             1..1794
                     /locus_tag="LC705_RS01460"
                     /old_locus_tag="LC705_00312"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005714409.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="gnl|TC-DB|P11162|4.A.3.1.1"
                     /protein_id="WP_005714797.1"
                     /translation="MQVIVKRLEKHQALFEKISRNIYLMAIKDGFLAAMPIILFSSIFI
                     LLSNIPPLIGIKVPVDLNAWFNKIYNYTMGFVGFYVAGTTAKALTGSMNQRIKGGRFLN
                     NTSTMMASMVGFMLLAIGTTSKGNFLPTFFGTQGILSAFVAAFVTVWVYKFCVERDLTI
                     KMPKEVPGAISQNFRDIIPFGAATLIFSLIDVASRAALKVPFSAIIATVLAPVFKGAET
                     YPGMMFIWFLIPMFWFLGVHGPSVVKPALESALFGNTTANLDLFKAGNFPYHALTENFG
                     NFVGELGGTGATFIVPFLFMFFMKSKQLKAIGKASFIPVMFAVNEPLLFGAPIILNPYF
                     LIPFVLAPVVNVVIGKAFIDFHIMRGFMYFMSWALPGPIGAFIDTNFQWTSLLLMAILL
                     TVDALIYMPFIKAYDAELLEQEAAVDAGTATAAATAGASEVTAEADAATAQEFPEPEEV
                     KQAETAKQEEANQNPAAGKKLDHELKVLVLCAGGGTSEQLANALTEGAKEYHEPIVASA
                     GAYGSHHDILPNYDLVVLAPQVRTYYSDLKHDTDRLGIKLVATKGQQYIALTRDPEKAL
                     DFIVENYKDVEKKPQDSSDSK"
     gene            1848..2717
                     /locus_tag="LC705_RS01465"
                     /old_locus_tag="LC705_00313"
     CDS             1848..2717
                     /locus_tag="LC705_RS01465"
                     /old_locus_tag="LC705_00313"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005691319.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="PRD domain-containing protein"
                     /protein_id="WP_014571077.1"
                     /translation="MLLKVKQVYNNNAVLVDVGNGKEAILQGKGIGFSKRKGDDVDPKA
                     SSEILYLNDTQVKNHFTSLLKDVPIDIVVATFGVIGMAKKKYHYPVLNYIYVTLTDHVF
                     QMYKRLTAGKYQASPAPDIRDRYPLPYQIAADARRQLNHDLGVQFPEAEIKNIALHFIN
                     AKGVDGELDPTVTLTARVNAIVTQVFAKYGLNRNFANQNYFDRLMIHLQYLVERLNTNE
                     QDEADLGPEIGQDFRRLYPKSFTIATEICTELEKALQIKLNENEHVYFIIHIQRLIQEP
                     QTLPPEYP"
     gene            2818..3183
                     /locus_tag="LC705_RS01470"
                     /old_locus_tag="LC705_00314"
     CDS             2818..3183
                     /locus_tag="LC705_RS01470"
                     /old_locus_tag="LC705_00314"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005691321.1"
                     /note="catalyzes the phosphorylation of incoming sugar
                     substrates concomitant with their translocation across the
                     cell membrane; protein IIA transfers a phosphoryl group to
                     IIB which then transfers the phosphoryl group to the sugar;
                     IIC forms the translocation channel for the sugar uptake;
                     Derived by automated computational analysis using gene
                     prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="gnl|TC-DB|Q045H4|4.A.3.1.3"
                     /protein_id="WP_005691321.1"
                     /translation="MATKEEISMTGFAIVAYAGDAKTDLIEALNEARKGNFEHARSLVK
                     EARQSIDDAHNEQTKLLSKEAGGENMDVTFIMVHGQDTLMTTMMLLDTISFTIDEYERL
                     AAIEKQLGIALPTNDIH"
     gene            3209..4633
                     /gene="lacG"
                     /locus_tag="LC705_RS01475"
                     /old_locus_tag="LC705_00315"
     CDS             3209..4633
                     /gene="lacG"
                     /locus_tag="LC705_RS01475"
                     /old_locus_tag="LC705_00315"
                     /EC_number="3.2.1.85"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005691323.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="GH1"
                     /protein_id="WP_005691323.1"
                     /translation="MTSLLNRVQSLPKGFVWGGATAAYQVEGATKVDSKGKTMWDDYLK
                     AQGRFSPDPASDFYHLYPEDIELAKLYGLNAIRVSIAWTRIFPDGYGEPNQAGVAYYHR
                     LFKCCLDNGITPYVSLHHFDSPKTLFDDGDWLNRKNIDYFVDYVDFCFKEFPEVKNWFT
                     INELISLAFSQYIQGNFPPNHHFDVTSAIQAQHNELLAHARVVNLFKEKGYQGRIGLIH
                     VLQPVYPYPDTPANEHAAALEDAFMNRFLLDGTFKGEYTPETMALINELLKANHAKLEI
                     EPGDMDVLKQASTQNDYFGMNYYQPSFVAAYEGESTNSFNGTGEKGTSSFKFQGVGQHV
                     KNPDVPTTDWDWNIYPAGMYDMLKRVAREYPNSKTIYITENGLGYKDKYEGIGNLIEDD
                     KRIDFIDQHVAALLKARSEGVDVQGYFVWSLQDQFSWANGYNKRYGLFYVNFETQAREI
                     KKSALWFRELGKTLKN"
ORIGIN
        1 atgcaagtca ttgttaaacg acttgagaaa catcaggcgt tgtttgaaaa aatctcgcgt
       61 aatatttacc tgatggccat taaagatggt tttctggcag caatgccgat tattctgttc
      121 tccagtattt tcattctatt atcaaatatt ccgccactga ttgggattaa ggttccagtt
      181 gatctcaacg catggttcaa taagatttat aactacacaa tgggttttgt tggtttttat
      241 gttgccggga cgacagccaa ggccttaact ggatcgatga atcaacgaat taaaggtggg
      301 cgctttctca acaatacgtc aacgatgatg gcttcaatgg taggattcat gctgttggcg
      361 attggcacca ccagtaaagg caacttctta ccaacattct ttggcacaca agggattttg
      421 tctgcctttg ttgcagcgtt tgtgactgtt tgggtctaca aattctgtgt tgaacgtgat
      481 ttgaccatca agatgcctaa agaagtgcct ggagccattt cccagaactt ccgtgatatt
      541 attccgttcg gtgctgcaac tttaattttt tcactcattg atgttgcctc acgtgcggcg
      601 ttgaaagtgc cattcagtgc tattattgcg actgtgcttg cgcctgtctt taaaggtgct
      661 gagacatatc ctggcatgat gtttatttgg ttcttaatcc cgatgttctg gttcttgggc
      721 gtacacggac catcagttgt caagccagct cttgaatcag cattgtttgg gaacaccacc
      781 gccaatttgg acttgtttaa ggccggaaac tttccatatc atgcactgac cgaaaatttt
      841 ggtaactttg ttggtgaact tggtggtacc ggggcgacct ttattgtccc gtttctattc
      901 atgtttttca tgaaatcaaa acaattaaaa gcgattggta aagcatcatt tatccccgtt
      961 atgttcgcgg tcaatgaacc actgctgttc ggtgcaccaa tcatcttgaa tccttacttc
     1021 ttaattccgt ttgttttggc cccagtcgtt aatgttgtaa ttgggaaggc gtttattgat
     1081 ttccatatca tgagaggctt tatgtacttc atgtcgtggg cattgcctgg gccgattggt
     1141 gcattcatcg ataccaattt ccagtggact tctttgctgc ttatggcaat tttgctaact
     1201 gtggatgcgc tgatctatat gccatttatt aaagcgtacg atgctgaact gcttgaacaa
     1261 gaagctgctg tcgatgccgg cactgcaacc gctgcagcaa ctgctggtgc aagtgaagtt
     1321 acagctgaag cagatgcagc aacggcacaa gaattcccag aaccggaaga ggtaaagcag
     1381 gctgaaacag ctaagcaaga ggaagctaat caaaatccag ctgcaggaaa gaaactcgat
     1441 catgagttga aagtattagt gctatgtgct ggtggtggta caagcgaaca attagccaat
     1501 gccttgactg aaggcgctaa agagtatcat gaaccaatcg ttgccagtgc aggtgcatat
     1561 ggctcacatc atgatatttt gccaaactat gatctggttg ttctggcacc acaagttcga
     1621 acctactaca gtgacttaaa gcatgatacg gatcgtttgg ggattaaact tgttgcaact
     1681 aaaggtcaac aatatatagc cttaacgcgt gatcctgaaa aggcattgga ttttattgtt
     1741 gaaaattata aggatgtcga aaagaaacca caagatagtt cagattcaaa gtaaatatgt
     1801 tgacttaatt taaaatcaag cgaaaagaaa ggtaaggcgg tgtatcgatg ttgctaaagg
     1861 tcaagcaagt ctataacaat aatgctgtac ttgtagacgt tggcaacggt aaagaggcga
     1921 ttcttcaggg gaaaggaatt ggtttcagca agcgtaaagg tgatgacgtt gatccaaaag
     1981 cgagttcgga aatactttat ctaaatgata cgcaagtcaa aaatcacttt acatctttac
     2041 tcaaagatgt accgattgac attgttgttg ctacatttgg tgtgatcgga atggcaaaaa
     2101 agaagtatca ctatccggtt ttgaactata tttatgtcac acttacggac cacgtctttc
     2161 agatgtataa acgattgact gccggcaaat atcaagctag tccagcgcct gacatccgtg
     2221 atcgttaccc gttgccttac cagatcgcag ccgatgcgcg ccgacagctt aaccatgatc
     2281 ttggcgttca gtttcctgaa gccgaaatta agaatattgc cttacatttt attaatgcaa
     2341 agggagtgga tggcgaactg gatccgaccg tgaccctgac ggcgcgcgtc aatgcaatcg
     2401 tgacacaagt atttgctaaa tatgggttaa atcgcaattt tgctaatcaa aattacttcg
     2461 atcggctaat gattcatttg caataccttg ttgaacgttt aaataccaat gagcaagacg
     2521 aggctgacct tggtccggaa attggtcagg acttcaggcg cctttatccc aaatcgttta
     2581 cgatcgcaac tgaaatttgt acggagctgg aaaaagcctt acaaattaag ctcaacgaaa
     2641 acgagcatgt gtactttatt atccatattc aacggctcat ccaagaaccg caaacacttc
     2701 cgcctgaata tccatagccg tgggtgggag tttagaaagt aatcttggct tagagcgatt
     2761 taggcttaag aaatcgctgc tagcgtagag gattttcaaa ccaagggagg aattttgatg
     2821 gcaaccaaag aagagatttc aatgaccggt tttgcaattg ttgcttatgc cggtgatgcg
     2881 aaaaccgatt taattgaagc attgaacgag gctcgtaaag gcaacttcga acatgcccgc
     2941 tcacttgtta aagaagcgcg tcaaagtatc gatgacgccc ataatgaaca aaccaaactg
     3001 cttagtaaag aggcaggcgg cgagaatatg gatgttactt tcatcatggt tcatggccaa
     3061 gatacgctaa tgaccacgat gatgctgcta gatacgatta gtttcacgat tgatgagtat
     3121 gaacgactgg cggcaattga aaaacaatta ggcattgcat tgccaacaaa cgatatccat
     3181 taaagtatca aacgaaagga gtatcattgt gacaagttta ttgaatcgcg ttcaatcact
     3241 gcctaaaggt tttgtttggg gtggagcgac tgctgcttat caggtagaag gcgccaccaa
     3301 ggtagacagt aaaggcaaaa ccatgtggga tgactatctg aaagctcaag gcagattttc
     3361 gcctgaccca gccagtgatt tttatcatct ttatccagaa gatattgaac tcgccaagct
     3421 ctatgggttg aatgctattc gggtttcgat tgcctggaca cggatcttcc cagatggtta
     3481 cggtgaacct aatcaagctg gggtcgcata ctatcatcgt ttgtttaagt gctgccttga
     3541 taacggcatt accccgtatg tttcgctgca tcacttcgat tcacctaaaa cgctgttcga
     3601 tgatggggat tggctgaacc gtaagaatat agactatttt gtcgattatg tcgatttttg
     3661 ctttaaagaa tttccggaag ttaagaactg gttcaccatc aatgagctca tctcgttagc
     3721 cttttcgcaa tacattcaag gcaacttccc gccaaatcat cactttgatg ttaccagtgc
     3781 tattcaagcg cagcacaacg aactgttagc ccatgcgcgc gtggtcaact tgtttaagga
     3841 aaaaggctat caaggacgaa tcggattgat tcatgtgctg cagccggtat atccgtaccc
     3901 ggatacacca gctaatgagc atgctgcggc acttgaagat gccttcatga atcggttcct
     3961 gctggatggt acgtttaaag gcgaatatac gcccgaaacg atggcgttga tcaatgaatt
     4021 gctgaaggcc aaccatgcca agcttgaaat cgaaccaggc gatatggatg tgttgaagca
     4081 agcgtccacg caaaatgatt actttggcat gaattactat caaccttctt ttgttgctgc
     4141 ctacgaaggt gaaagcacaa attcgtttaa tggtaccggc gaaaaaggga ccagttcctt
     4201 taagttccaa ggggttggcc agcacgtcaa aaatccggat gtgccgacga ctgattggga
     4261 ctggaatatt tatccggctg gcatgtacga catgctcaaa cgagtagctc gcgaatatcc
     4321 aaatagcaag acgatttaca ttactgaaaa tggccttggt tataaggata agtatgaagg
     4381 cattggcaac ctcattgaag atgacaaacg catcgatttt attgatcaac atgttgctgc
     4441 gttactaaaa gcccgcagtg aaggcgttga tgtccaaggt tacttcgttt ggtcgctgca
     4501 ggatcaattt tcatgggcca atgggtataa caaacgatat gggttattct atgtcaactt
     4561 tgaaacccaa gcgcgcgaaa ttaagaagag cgcactgtgg tttagagaat taggtaaaac
     4621 cttaaaaaat taa
//
