LOCUS       NC_004307               4128 bp    DNA     linear   CON 10-MAR-2020
DEFINITION  Bifidobacterium longum NCC2705, complete sequence.
ACCESSION   NC_004307
VERSION     NC_004307.2
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN02603675
            Assembly: GCF_000007525.1
KEYWORDS    RefSeq.
SOURCE      Bifidobacterium longum NCC2705
  ORGANISM  Bifidobacterium longum NCC2705
            Bacteria; Actinobacteria; Bifidobacteriales; Bifidobacteriaceae;
            Bifidobacterium.
REFERENCE   1  (bases 1 to 4128)
  AUTHORS   Schell,M.A., Karmirantzou,M., Snel,B., Vilanova,D., Berger,B.,
            Pessi,G., Zwahlen,M.C., Desiere,F., Bork,P., Delley,M.,
            Pridmore,R.D. and Arigoni,F.
  TITLE     The genome sequence of Bifidobacterium longum reflects its
            adaptation to the human gastrointestinal tract
  JOURNAL   Proc. Natl. Acad. Sci. U.S.A. 99 (22), 14422-14427 (2002)
   PUBMED   12381787
  REMARK    Erratum:[Proc Natl Acad Sci U S A. 2005 Jun 28;102(26):9430]
REFERENCE   2  (bases 1 to 4128)
  AUTHORS   Schell,M.A., Karmirantzou,M., Snel,B., Vilanova,D., Berger,B.,
            Pessi,G., Zwahlen,M.-C., Desiere,F., Bork,P., Delley,M., Pridmore,D.
            and Arigoni,F.
  TITLE     Direct Submission
  JOURNAL   Submitted (21-JAN-2005) Bioscience, Nestle Research Center, P.O. Box
            44, Lausanne 26 1000, Switzerland
  REMARK    Sequence update by submitter
REFERENCE   3  (bases 1 to 4128)
  AUTHORS   Schell,M.A., Karmirantzou,M., Snel,B., Vilanova,D., Berger,B.,
            Pessi,G., Zwahlen,M.-C., Desiere,F., Bork,P., Delley,M., Pridmore,D.
            and Arigoni,F.
  TITLE     Direct Submission
  JOURNAL   Submitted (27-AUG-2002) Bioscience, Nestle Research Center, P.O. Box
            44, Lausanne 26 1000, Switzerland
COMMENT     ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 03/10/2020 04:53:57
            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)                     :: 1,902
            CDSs (total)                      :: 1,831
            Genes (coding)                    :: 1,773
            CDSs (with protein)               :: 1,773
            Genes (RNA)                       :: 71
            rRNAs                             :: 4, 4, 4 (5S, 16S, 23S)
            complete rRNAs                    :: 4, 4, 4 (5S, 16S, 23S)
            tRNAs                             :: 56
            ncRNAs                            :: 3
            Pseudo Genes (total)              :: 58
            CDSs (without protein)            :: 58
            Pseudo Genes (ambiguous residues) :: 0 of 58
            Pseudo Genes (frameshifted)       :: 25 of 58
            Pseudo Genes (incomplete)         :: 35 of 58
            Pseudo Genes (internal stop)      :: 5 of 58
            Pseudo Genes (multiple problems)  :: 7 of 58
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence was derived from
            AE014295.
            On Jan 21, 2005 this sequence version replaced NC_004307.1.
            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/
            Annotation Pipeline (PGAP)
            set; GeneMarkS-2+
            repeat_region
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..4128
                     /organism="Bifidobacterium longum NCC2705"
                     /mol_type="genomic DNA"
                     /strain="NCC2705"
                     /db_xref="taxon:206672"
     gene            complement(<1..1525)
                     /locus_tag="BL_RS00545"
                     /old_locus_tag="BL0105"
                     /db_xref="GeneID:1022296"
     CDS             complement(<1..1525)
                     /locus_tag="BL_RS00545"
                     /old_locus_tag="BL0105"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_003834253.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="GH32"
                     /protein_id="WP_008782652.1"
                     /db_xref="GeneID:1022296"
                     /translation="MTDFTPETPVLTPIHDHAAELAKAEAGVAEMAANRNNRWYPKYHI
                     ASNGGWINDPNGLCFYKGRWHVFYQLHPYGTQWGPMHWGHVSSTDMLNWKREPIMFAPS
                     LEQEKDGVFSGSAVIDDNGDLRFYYTGHRWANGHDNTGGDWQVQMTALPDNDELTSATK
                     QGMIIDCPTDKVDHHYRDPKVWKTGDTWYMTFGVSSADKRGQMWLFSSKDMVRWEYERV
                     LFQHPDPDVFMLECPDFFPIKDKDGNEKWVIGFSAMGSKPSGFMNRNVSNAGYMIGTWE
                     PGGEFKPETEFRLWDCGHNYYAPQSFNVDGRQIVYGWMSPFVQPIPMEDDGWCGQLTLP
                     REITLGDDGDVVTAPVAEMEGLREDTLDHGSITLDMDGEQIIADDAEAVEIEMTIDLAA
                     STAERAGLKIHATEDGAYTYVAYDDQIGRVVVDRQAMANGDRGYRAAPLTDAELASGKL
                     DLRVFVDRGSVEVYVNGGHQVLSSYSYASEGPRAIKLVAESGSLKVDSLKLHHMKSIGL
                     E"
     gene            complement(1536..2873)
                     /locus_tag="BL_RS00550"
                     /old_locus_tag="BL0106"
                     /db_xref="GeneID:1022295"
     CDS             complement(1536..2873)
                     /locus_tag="BL_RS00550"
                     /old_locus_tag="BL0106"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012577172.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="gnl|TC-DB|P30000|2.A.1.5.3"
                     /protein_id="WP_011067958.1"
                     /db_xref="GeneID:1022295"
                     /translation="MASATKSAWKNPSYLQSSFGIFMFFCSWGIWWSFFQRWLISGVGL
                     TNAEVGTIYSINSLATLVIMFVYGVIQDQLGIKRKLVIVVSVIAACVGPFVQFVYAPMI
                     LAGGTTRWIGALIGSIVLSAGFMSGCSLFEAVTERYSRKFGFEYGQSRAWGSFGYAIVA
                     LCAGFLFNINPLINFWVGSAFGPGMLLVYAFWVPAEQKEELKKETDPNAAPTNPSLKEM
                     VAVLKMPTLWVLIVFMLLTNTFYTVFDQQMFPTYYANLFPTEEIGNATYGTLNGFQVFL
                     ESAMMGVVPIIMKKIGVRNALLLGATVMFLRIGLCGVFHDPVTISIVKLFHSIEVPLFC
                     LPAFRYFTLHFDTKLSATLYMVGFQIASQVGQVIFSTPLGAFHDKMAQILPNNDMGSRV
                     TFWVISAIVLCALIYGFFVIKHDDQEVGGDPFYTDKQLRQMEAAKA"
     gene            complement(3088..4128)
                     /locus_tag="BL_RS00555"
                     /old_locus_tag="BL0107"
                     /db_xref="GeneID:1022294"
     CDS             complement(3088..4128)
                     /locus_tag="BL_RS00555"
                     /old_locus_tag="BL0107"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011067959.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DBD-Pfam|LacI,DBD-SUPERFAMILY|0036955"
                     /protein_id="WP_011067959.1"
                     /db_xref="GeneID:1022294"
                     /translation="MVTMKEIANKAGVSVSTVSLVLNGRDEGRVKSKIADNVRAIATKL
                     GYQSNPLASSLRTGRTHILGFISEEVATTPYAGGMILGAQTAASQFGYMLITVSTDGEN
                     SESEEIAALKRYGTDGFLYAKMSNRITHVPSSLAKTPLVLVDATDSLGKIPSVEPDEFQ
                     IGYDATTRLVKAGCARIAYVGCLEPLIAQDDRLEGYQAALRDAGLDYDDHLVVNVLNNG
                     PALTAVSDLFDAEHPDGFFCFNDARAWYVYECAARRGLTVGKDISVVGVDNHRVFAETL
                     EPMLTTVELPHFEMGYWAVAKLVSIIEGRSMDDVSWPATTAPLPPIDAPIPAKIHCTLI
                     EKTSVK"
ORIGIN
        1 gcttcaggga atccaccttg agactaccgg actcggcgac gagcttgatg gcgcgcgggc
       61 cttcggaggc gtaggagtag gagctcagca cttggtggcc accgttgacg tagacctcca
      121 cggagccgcg atccacgaac acgcgcaggt ccagcttgcc ggaggccagt tcggcgtcgg
      181 tcagtggggc ggcgcggtag ccgcgatcgc cgttggccat ggcctgacga tccaccacca
      241 cgcggccgat ctggtcgtca taagccacgt aggtgtaggc accgtcctca gtggcgtgaa
      301 tcttcagacc cgcacgctcg gcagtggagg cagccaagtc gatggtcatt tcgatttcca
      361 cggcctcggc gtcgtcggcg atgatctgct cgccatccat gtcgagtgtg atcgaaccat
      421 ggtcgagggt atcctcgcgc aggccttcca tttcggcgac cggcgcggtg accacgtcgc
      481 cgtcatcacc aagagtgatc tcgcgcggca gggtgagctg gccacaccag ccgtcatcct
      541 ccatgggaat cggctgcacg aacgggctca tccagccata gacgatctga cggccgtcca
      601 cattgaagga ctgcggggcg tagtagttgt ggccgcaatc ccacaggcgg aactcggttt
      661 ccggcttgaa ttcgccgccc ggctcccacg tgccgatcat gtagccggcg ttgctgacgt
      721 tgcggttcat gaagccgctg ggcttggacc ccatggcgga gaagccaatg acccacttct
      781 cgttgccgtc cttgtctttg atggggaaga agtcggggca ttcgagcatg aacacatccg
      841 gatccgggtg ctggaagagc acgcgctcgt attcccagcg gaccatgtcc ttggaggaga
      901 acagccacat ctggccgcgc ttgtccgcag aggagacacc gaaggtcatg taccaggtgt
      961 cgccggtctt ccagaccttc gggtcgcggt agtggtggtc gaccttgtcg gtcgggcagt
     1021 cgatgatcat gccctgcttg gtggcggagg tgagctcgtc attgtccggc agcgcggtca
     1081 tctgcacttg ccagtcgccg ccggtgttgt cgtggccgtt ggcccaacgg tggccggtgt
     1141 agtagaagcg aaggtctccg ttgtcgtcga tgacggcaga accggagaac acgccgtcct
     1201 tctcctgctc tagagacggt gcgaacatga tgggctcgcg cttccagttg agcatatcgg
     1261 tggaggagac gtggccccag tgcatcggac cccactgggt gccgtagggg tgcagctggt
     1321 agaacacgtg ccagcggccc ttgtagaagc acaggccgtt cgggtcgttg atccagccac
     1381 cgttggaggc gatgtgatac ttcgggtacc agcggttgtt gcgattggcg gccatctcag
     1441 ccacgccggc ttcggctttt gccagttcag cagcgtggtc gtggatgggg gtgagaacag
     1501 gggtttcagg agtgaagtca gtcatggctg tcctttcagg ccttggcggc ttccatctgg
     1561 cgaagctgct tgtcggtgta gaacgggtcg ccgccgactt cctgatcatc atgcttgatg
     1621 acgaagaagc cgtaaatcag tgcgcacagc acgatggcag agatgaccca gaaggtcacg
     1681 cgggatccca tgtcgttgtt cggcagaatc tgagccatct tgtcgtggaa ggcacccaga
     1741 ggggtcgaga agatgacctg acccacttgg gaagcgatct ggaagcccac catgtacagc
     1801 gtggcagaga gcttggtgtc gaagtgcaga gtgaagtagc ggaatgccgg caggcagaac
     1861 agcggcactt cgatggagtg gaacagcttg acgatggaga tggtgaccgg gtcgtggaac
     1921 acgccgcaca agccgatgcg caggaacatc acggtagcgc cgagcagcag agcgttgcgc
     1981 acgccgatct tcttcatgat gatcgggacc acgcccatca ttgcggactc aaggaagacc
     2041 tggaaaccgt tcagggtgcc gtaggtggcg ttgccgattt cttcagtggg gaagaggttg
     2101 gcgtagtagg tcgggaacat ctgctgatcg aacacggtgt agaaggtgtt ggtcagcagc
     2161 atgaagacga tgagcaccca cagggtcggc atcttgagaa cggcgaccat ttccttgagg
     2221 gacgggttgg tgggggctgc gttcgggtcg gtttccttct tgagctcttc cttctgctcg
     2281 gccgggaccc agaaggcgta cacgaggagc atgccagggc cgaatgcgga gccgacccag
     2341 aagttgatca gcgggttgat gttgaacagg aagccggcgc acagcgccac gatggcgtaa
     2401 ccgaaggagc cccaagcacg ggactggcca tattcgaaac cgaatttacg ggagtagcgt
     2461 tcggtgacgg cctcgaacag ggagcagccg gacatgaagc cggcagacag aacgatggag
     2521 ccgatgagtg cgccgatcca gcgggtggtg ccaccggcga ggatcatcgg ggcgtaaacg
     2581 aattggacga atgggccaac gcaggcggcg attaccgaga ctacgatgac gagcttgcgc
     2641 ttgatgccga gctgatcctg aatcacgccg tacacaaaca tgatgaccag ggtggccagc
     2701 gagttgatgg agtagatggt gccgacttca gcattggtca atccaacgcc tgagatgagc
     2761 cagcgctgga agaaggacca ccagatgccc caggagcaga agaacatgaa gatgccgaaa
     2821 gagctctgca gataggaagg attcttccat gcagacttgg ttgcacttgc cataatcatc
     2881 ctttgattac tacttggttg gttattggtt atgtaacgct tctgctcggg cggccgtgcc
     2941 tttgtagaag ttgttatgta gtaattatta tgcgacgtca atcgatttac gtcaatcgat
     3001 tgacgtaaat cggcgtgtcg tacctgttcg acacgcaaaa aggcctccgt gctggacgga
     3061 ggccttgaga aatcgtgtgg gactcggcta cttcaccgag gtcttttcga tcagcgtgca
     3121 gtggatcttc gccggaatcg gcgcgtcaat cggcggcagg ggagcggtgg tcgctggcca
     3181 tgagacgtcg tccatcgagc gtccttcgat aatcgacacc agcttggcca cggcccagta
     3241 gcccatctcg aaatgtggca gttccacagt ggtgagcatc ggttccagcg tttcggcgaa
     3301 cacgcgatgg ttgtccacgc cgaccacgga gatgtccttg ccgaccgtga gtcctcggcg
     3361 tgcggcgcat tcgtacacat accaggcgcg ggcatcgttg aagcagaaga atccgtccgg
     3421 atgctcggca tcgaacaaat cgctgactgc ggtcagtgcc ggcccgttgt tgagcacatt
     3481 gacgaccaga tgatcgtcat agtcgaggcc ggcgtccctg agcgccgcct gatagccttc
     3541 caaacgatcg tcctgcgcaa tcagcggctc caagcaaccc acataggcga tacgtgcgca
     3601 tccggcctta accaatctgg tggtggcgtc gtagccgatt tggaactcgt ccggttccac
     3661 gctcgggatt ttgccaagcg agtcggtggc atccaccaac accagtggcg tcttggccag
     3721 cgaggaaggc acatgggtga tgcggttcga catcttggcg tacagaaagc cgtcggtgcc
     3781 gtatcgcttg agtgcggcga tttcctcgct ctcgctgttc tcgccgtcgg tgctcacggt
     3841 gatgagcata tagccgaact ggcttgcagc ggtctgcgcg cccagaatca taccgccggc
     3901 gtacggggtg gtggccacct cctcactgat gaaaccgagg atgtgcgtcc tgcctgtacg
     3961 cagcgaactg gccagcggat tcgactggta gccgagcttg gtggcgatgg cgcgcacatt
     4021 gtccgcaatt ttggacttta cgcgcccctc gtcgcgtccg ttgagcacca gcgataccgt
     4081 agagacggaa acccccgcct tgttcgcgat ttccttcatc gtaaccat
//
