LOCUS       NC_004307               4476 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 4476)
  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 4476)
  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 4476)
  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..4476
                     /organism="Bifidobacterium longum NCC2705"
                     /mol_type="genomic DNA"
                     /strain="NCC2705"
                     /db_xref="taxon:206672"
     gene            complement(1..1044)
                     /locus_tag="BL_RS06445"
                     /old_locus_tag="BL0533"
                     /db_xref="GeneID:1021990"
     CDS             complement(1..1044)
                     /locus_tag="BL_RS06445"
                     /old_locus_tag="BL0533"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_003833666.1"
                     /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_011068530.1"
                     /db_xref="GeneID:1021990"
                     /translation="MVGMRDVAKAAGVSLSTVSLVVNNTGYVSADMRAKVESAMRQLNY
                     IPNELARNLYRNRTNTIGVIMPTIAHPFFSTLTAHLQREFAARDLKTLLCSTADTDKGE
                     SEYIDMLQRHMMDGIIMAAHTEHPADYWTSIHRPIVAFDRTLGEGVPVVRSDHEQGGRL
                     IARQLIDSGARHVVLVGGPRSQFAEGTTFPTIRYHLTVERLLAEAGIACDYVEAGTVAD
                     IAAHEATACAIFEQYPDVDAIVGSDVVASVALQEASRRGIEVPADLQVIAYDGTLMAET
                     AGKRLTAIRQDFPAIAAALAVRMDSQIAADGGPASPSKNDSASDVDTQPTPEEVIPVAL
                     IPGETTR"
     gene            complement(1108..2745)
                     /locus_tag="BL_RS06450"
                     /old_locus_tag="BL0534"
                     /db_xref="GeneID:1022446"
     CDS             complement(1108..2745)
                     /locus_tag="BL_RS06450"
                     /old_locus_tag="BL0534"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015713226.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="gnl|TC-DB|J9W1F3|2.A.1.2.93"
                     /protein_id="WP_011068531.1"
                     /db_xref="GeneID:1022446"
                     /translation="MLEPYVRPGIDDRPDLDKALSPEDKAAVARLAIKDRRRPPEASAD
                     QPEAQAVRLAAAGSSAAAAAAASVDAPAPDLSSAYLDMRDPMVAANGQRPTAVQISRLN
                     WGFFVASILAGAPWAALNTIAMPNAVARLFDYDTASAISVTINPSTGRPLPVATDLVVP
                     LAVLVVVGVVASMFAMPLVSALSDRTRIPLGRRTPWMVAGGVLCALITLILGQNIGIIV
                     LCIFWVFLQFAYAMLSVPLTSAISERVPDKFRPRIERWHGIGVMLGQALGVCMGALGVM
                     FNSFAPFSYTAVLFAVSGIATVLILPKEPSSAEQPNQLFDRSQVLDQLRPPAHAPEFSR
                     VFAARTCMMAGVGLTGVFLWYLVRFWVYGKAVVLTSAPLTIPAGFLIAGMAVATLIGAA
                     LASWAAGPISERIEEKNIPVARVVAGACLLYAAGLALAWGLGVWSTGTARENGMLLFAL
                     ISGFAFGVYDSLGLELVMDSLPDPRRAGHDLGIYALANSAGLALAAIIGALLVNAFEHS
                     FGYYLLFPSAIVMVLLAGIVTLTTKSAE"
     gene            complement(2950..4476)
                     /locus_tag="BL_RS06455"
                     /old_locus_tag="BL0536"
                     /db_xref="GeneID:1023144"
     CDS             complement(2950..4476)
                     /locus_tag="BL_RS06455"
                     /old_locus_tag="BL0536"
                     /EC_number="2.4.1.7"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015438242.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="GH13|GH13_18"
                     /protein_id="WP_011068532.1"
                     /db_xref="GeneID:1023144"
                     /translation="MKNKVQLITYADRLGDGTLSSMTDILRTRFDGVYDGVHILPFFTP
                     FDGADAGFDPIDHTKVDERLGSWDDVAELSKTHNIMVDAIVNHMSWESKQFQDVLEKGE
                     ESEYYPMFLTMSSVFPNGATEEDLAGIYRPRPGLPFTHYKFAGKTRLVWVSFTPQQVDI
                     DTDSDEGWEYLMSIFDQMAASHVSYIRLDAVGYGAKEASTSCFMTPKTFKLISRLREEG
                     VKRGLEILIEVHSYYKKQVEIASKVDRVYDFALPPLLLHSLFTGHVEPVAHWTEIRPNN
                     AVTVLDTHDGIGVIDIGSDQLDRSLKGLVPDEDVDNLVNTIHANTHGESQAATGAAASN
                     LDLYQVNSTYYSALGCNDQHYLAARAVQFFLPGVPQVYYVGALAGRNDMELLRRTNNGR
                     DINRHYYSTAEIDENLERPVVKALNALAKFRNELSAFDGEFSYEVDGDTSITFRWTAAD
                     GASTAALTFEPGRGLGTDNATPVASLAWSDAAGDHETHDLLANPPIADID"
ORIGIN
        1 tcaccgggtg gtttcgccgg ggatgagggc tacggggatg acttcttcgg gagtgggttg
       61 ggtgtcaacg tccgaagcgc tatcgttctt ggacggagag gcggggccac cgtcggcggc
      121 gatctgtgag tccatgcgga cggcgagcgc ggcggcgatg gccgggaagt cctgtcgaat
      181 cgcggtcagg cgtttgccgg cggtttcggc catgagagtg ccgtcatagg cgatgacttg
      241 cagatcagca ggcacctcga taccccgtcg tgaggcttcc tgcaatgcca cggatgccac
      301 cacatcggag ccgacgatgg cgtcgacatc aggatactgt tcgaaaatgg cgcatgcggt
      361 ggcttcgtgg gcggcgatgt cggccacggt gccggcttcg acataatcgc aggcaatgcc
      421 ggcctcagcc agcagacgct cgacggtgag atggtagcga atcgtgggga aagtggtgcc
      481 ttccgcgaac tgggaacgcg ggccaccaac gagcaccacg tggcgcgcgc cggaatcgat
      541 gagctggcgc gcaatcagac ggcctccctg ttcatgatca gaccggacga ccggcacacc
      601 ctcaccgagc gtgcggtcga aagcgacaat tggccgatgg atggaggtcc agtagtcggc
      661 cggatgctcg gtgtgggccg ccatgatgat gccgtccatc atgtgccgct ggagcatgtc
      721 gatgtactcg ctctcgccct tgtctgtatc ggcggtggag cagagcaggg ttttgaggtc
      781 gcgcgcggcg aactcgcgct gcagatgcgc ggtgagtgtg gagaagaacg ggtgggcgat
      841 ggtcggcatg atcacgccga tggtgttggt gcggtttcgg tagaggttgc gggccagctc
      901 gttgggaatg tagttgagct ggcgcatcgc ggactcgact ttggcacgca tatcggccga
      961 gacgtagccg gtgttgttga ccaccaacga aacggtgctt aaggacaccc ctgccgcttt
     1021 ggctacgtcg cgcatgccga ccatggtttt gctcccctgc gagtactgga ctggatcact
     1081 gctgaccagt gtactcgaac cggtttatta ttcggcagat ttggtggtga gggtgacgat
     1141 tccggccagc agcaccatga cgatggcgga cgggaagagc aggtaatagc cgaagctatg
     1201 ctcgaaggcg ttcaccagta gcgcgccgat gatggcggcg agcgccagac cggccgagtt
     1261 ggcgagcgca taaatgccga ggtcgtggcc ggctcggcgc gggtcgggca aagagtccat
     1321 caccagttca agtccgagcg aatcatagac gccaaaggcg aatccggaaa tcaacgcaaa
     1381 cagcagcatg ccgttttcac gggcagtgcc ggtggaccag acgccaaggc cccatgcgag
     1441 cgccaaacca gcggcataca gcaggcaggc accggccacc acacgggcca cgggaatgtt
     1501 cttttcctcg attcgctcgg aaatcggccc ggcggcccag gaggcgagcg cggcaccgat
     1561 caatgtggcc acagccatac cggcaatgag gaatccggcc ggaatggtca gcggcgcgga
     1621 cgtaagtacc acggccttgc cataaaccca gaaacgtacg agataccaca gaaacacacc
     1681 ggtcagccca acaccggcca tcatgcacgt acgggcggcg aacacccggg agaactcggg
     1741 agcgtgggcc ggcgggcgca attggtcaag tacctgactg cggtcaaaaa gctggttcgg
     1801 ctgctcagcg ctagaaggct ccttgggcag aatcaatacg gtggcaatac cggacactgc
     1861 aaatagcacg gcggtgtaac taaacggcgc aaacgaattg aacatcacac caagcgcacc
     1921 catgcacacg ccaagcgctt ggccgagcat cacaccgatg ccatgccagc gttcgatgcg
     1981 agggcggaac ttgtcgggca cccgttcgct gatggcgctg gtcaacggca cggaaagcat
     2041 cgcataggcg aactgtagga acacccagaa aatacaaagc acaatgatgc cgatattctg
     2101 ccccagaatc agcgtgatca gcgcgcacag cacgccaccc gccaccatcc acggggtacg
     2161 gcggcccaga ggaatacgtg tgcggtcgga cagcgcggag accaagggca tcgcgaacat
     2221 ggaggccacc acgccaacga ccaccagcac ggccagaggc accaccaagt cagtggcgac
     2281 gggcagcgga cggccggtgg acggattgat ggtgaccgat atggcagaag cggtgtcgta
     2341 gtcgaacaaa cgcgccacgg cgttgggcat ggcgatggtg ttcaacgccg cccaaggcgc
     2401 gccggccaga atcgaagcca cgaaaaagcc ccaattaaga cgggaaatct gaacagcggt
     2461 gggtcgctga ccattggcgg cgaccatcgg atcgcgcata tcgagatatg cagacgacag
     2521 atcaggcgca ggggcatcca cgctggccgc ggcagcggca gcagccgacg aaccggcggc
     2581 cgccagacgc acggcctggg cctcgggctg gtcggcggat gcctcgggcg ggcgacgacg
     2641 gtccttgatg gccagtcggg ctacggctgc cttgtcttcg gggctcaggg ccttgtcgag
     2701 atccgggcgg tcgtcaatac ccgggcgcac gtacggttcc aacatgttgc tgctctttct
     2761 ttgctctcat caccggcggg aggtaccggc cagctccgac tgagcatgac ccgcaacccc
     2821 gccacatgca aaaccgcccg agcgcactag cttcagtgca ctgcgggcgg tttgttttcc
     2881 atgaacccag cttacgccgg gcgcactact tggagcgcgc acagcggagt gacgtttatg
     2941 ggccaacggt tagtcgatat cggcaatcgg cgggttggcg agcagatcgt gggtttcgtg
     3001 gtcgccggcg gcatcgctcc aggcaaggct ggcgaccggg gtggcgttgt ctgtgccgag
     3061 gccgcgtccg ggctcgaagg tgagggcggc cgtggacgcg ccgtcggcgg cggtccagcg
     3121 gaaggtgatg gacgtgtcgc catcgacctc gtagctgaac tcgccatcga atgcagacag
     3181 ctcgttgcgg aacttggcca gggcgttcag ggccttgacc accgggcgtt cgaggttttc
     3241 atcgatttcg gcggtggagt agtagtggcg gttgatgtcg cggccgttgt tggtgcggcg
     3301 cagcagttcc atgtcgttgc ggccggcgag cgcgcccacg tagtagacct gcggcacgcc
     3361 cggcaggaag aactgcacgg cgcgggcggc caagtagtgc tggtcgttgc agccgagggc
     3421 cgagtagtac gtggagttga cctggtagag gtcgaggttg gacgcggcgg caccggtggc
     3481 ggcctgggat tcgccgtggg tgttggcatg gatggtgttg accaggttgt cgacgtcctc
     3541 gtcgggcacg aggcccttga gggagcggtc gagctggtcg gagccgatgt cgatcacgcc
     3601 gatgccatcg tgcgtatcga gcacggtgac ggcgttgttc gggcggatct cggtccagtg
     3661 ggccacgggt tcgacgtgac cggtgaacag cgagtgcaga agcagcggcg gcagggcgaa
     3721 atcgtagacg cggtccacct tggaggcgat ctccacctgc ttcttgtaat agctgtgaac
     3781 ctcgatgagg atttcaaggc cgcgcttgac gccctcctcg cgcagacggg agatgagctt
     3841 aaaggtcttg ggggtcatga agcagctggt gctggcttcc ttggcgccat agccgacggc
     3901 gtcgaggcgg atgtagctga cgtgagaggc ggccatctgg tcgaaaatcg acatgaggta
     3961 ttcccagccc tcgtcggaat cggtgtcaat atcaacctgc tgcggggtga agctcaccca
     4021 gaccaagcgc gtcttgccgg cgaacttgta gtgggtgaac ggcaggcccg gacgcggacg
     4081 gtagatgccg gccaggtcct cttcggtggc gccgttcggg aacacggagc tcatggtcag
     4141 aaacatcggg taatactcgg attcctcacc tttttcaagc acatcttgga actgcttgga
     4201 ttcccaactc atgtggttga cgatggcgtc gaccatgatg ttgtgggtct tggagagttc
     4261 ggcgacgtcg tcccagctgc cgagacgttc gtcgactttg gtatggtcga tcgggtcgaa
     4321 gcctgcatcc gcaccatcga acggagtgaa gaacggcagg atatgcacgc cgtcatacac
     4381 gccgtcgaag cgggtgcgca ggatgtcggt catcgagcta agagtgccat cgccgagacg
     4441 atcggcgtat gtgatgagtt gcactttgtt tttcat
//
