LOCUS       NZ_CP010086             4948 bp    DNA     linear   CON 05-DEC-2019
DEFINITION  Clostridium beijerinckii strain NCIMB 14988, complete genome.
ACCESSION   NZ_CP010086
VERSION     NZ_CP010086.2
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN03024437
            Assembly: GCF_000833105.2
KEYWORDS    RefSeq.
SOURCE      Clostridium beijerinckii
  ORGANISM  Clostridium beijerinckii
            Bacteria; Firmicutes; Clostridia; Clostridiales; Clostridiaceae;
            Clostridium.
REFERENCE   1  (bases 1 to 4948)
  AUTHORS   Little,G.T. and Minton,N.P.
  TITLE     Genome sequence of Clostridium beijerinckii strain 59B
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4948)
  AUTHORS   Little,G.T., Winzer,K. and Minton,N.P.
  TITLE     Direct Submission
  JOURNAL   Submitted (19-FEB-2016) Centre for Biomolecular Sciences, The
            University of Nottingham, University Park, Nottingham NG7 2RD,
            United Kingdom
  REMARK    Sequence update by submitter
REFERENCE   3  (bases 1 to 4948)
  AUTHORS   Little,G.T. and Minton,N.P.
  TITLE     Direct Submission
  JOURNAL   Submitted (01-DEC-2014) Centre for Biomolecular Sciences, The
            University of Nottingham, University Park, Nottingham NG7 2RD,
            United Kingdom
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: CLC Genomics Workbench v. 8.5.1; HGAP
            Genome Coverage                   :: 500x
            Sequencing Technology             :: PacBio RSII; 2xSMRT; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 12/05/2019 01:14:45
            Annotation Pipeline               :: NCBI Prokaryotic Genome
            Annotation Method                 :: Best-placed reference protein
            Annotation Software revision      :: 4.10
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA;
            Genes (total)                     :: 5,775
            CDSs (total)                      :: 5,627
            Genes (coding)                    :: 5,471
            CDSs (with protein)               :: 5,471
            Genes (RNA)                       :: 148
            rRNAs                             :: 17, 16, 16 (5S, 16S, 23S)
            complete rRNAs                    :: 17, 16, 16 (5S, 16S, 23S)
            tRNAs                             :: 93
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 156
            CDSs (without protein)            :: 156
            Pseudo Genes (ambiguous residues) :: 0 of 156
            Pseudo Genes (frameshifted)       :: 57 of 156
            Pseudo Genes (incomplete)         :: 95 of 156
            Pseudo Genes (internal stop)      :: 43 of 156
            Pseudo Genes (multiple problems)  :: 34 of 156
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence was derived from
            CP010086.
            On Feb 24, 2016 this sequence version replaced NZ_CP010086.1.
            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/
            workflow
            Annotation Pipeline (PGAP)
            set; GeneMarkS-2+
            repeat_region
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..4948
                     /organism="Clostridium beijerinckii"
                     /mol_type="genomic DNA"
                     /strain="NCIMB 14988"
                     /culture_collection="NCIMB:14988"
                     /db_xref="taxon:1520"
                     /country="United Kingdom:Staffordshire"
                     /lat_lon="52.77 N 2.05 W"
                     /collection_date="2009-11-01"
     gene            complement(1..939)
                     /locus_tag="LF65_RS27485"
                     /old_locus_tag="LF65_05627"
                     /db_xref="GeneID:31666306"
     CDS             complement(1..939)
                     /locus_tag="LF65_RS27485"
                     /old_locus_tag="LF65_05627"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_003433308.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="STP|PfkB"
                     /protein_id="WP_041900614.1"
                     /db_xref="GeneID:31666306"
                     /translation="MNNNVFCIGELLIDMVCVDNKGLKNGEKFEKKAGGAPANVAASIC
                     KLEGNAYFLGQVGNDFFGKHLVELLKSLNINTDMTVERGSTTIALVGIDANGERNFDFL
                     RGSDGEYSFDNIDLSKISNSDIIHFGSATGFLDGELKKTYFKLLEYAKSNNIYVSFDPN
                     YRDALITQDKLELFVEDCVKFLRYSNFTKLSDEELYLITKEKDIESAVNKLHEIGVKVV
                     TVTLGSKGTYLSVNGKNEVIPSIKIKQVDSTGAGDAFVGAVLRQVSDIDDKESISFDRW
                     KEIVSFANKVGAITCTNYGAIASMPTLNELN"
     gene            complement(932..2389)
                     /locus_tag="LF65_RS27490"
                     /old_locus_tag="LF65_05628"
                     /db_xref="GeneID:31666307"
     CDS             complement(932..2389)
                     /locus_tag="LF65_RS27490"
                     /old_locus_tag="LF65_05628"
                     /EC_number="3.2.1.26"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012061159.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="GH32"
                     /protein_id="WP_041900615.1"
                     /db_xref="GeneID:31666307"
                     /translation="MPNPKSYQEINQNLNNYYSNKETSIWRNNFHIEMPFGLINDPNGL
                     SYYDNKFYIFYQWNPFGCEHKTKHWGLVTTTNFINFTKPKIALKPQDWFDRNGCYSGCA
                     LIKDNELKLYYTGNVKGPNGERESYQCLATCNKDGIIDKHGVIIDKQPNGYTAHFRDPY
                     VFIEDDTYYMILGVQSEDLKGRALIYESIDSVKWNLLGELKTDMKHFGYMWECPNIISI
                     SKGKHAFIFSPQGLEKEELKNQNLYQSGYVIGELDIKSVELKNHSRFKELDMGFDFYAP
                     QIFNHNGKNIMVGWIGMPDRDSEYPTYENGWMYSLTMPRVLEYKNNVLYQKPINEMRNL
                     RETQLIDIKGLTLNKYNLALESRSIEIMMSIEVEDIESTEVKFKFNDEYILITYDNKRQ
                     LCTVDRSNMNIGGKGIRKFKLNSSKELKMNVFIDNSVMEIYYQDGLEVTTLTYYPKSEG
                     LELQIRNDSKITINELNMWNLRSVKYE"
     gene            complement(2411..3403)
                     /locus_tag="LF65_RS27495"
                     /old_locus_tag="LF65_05629"
                     /db_xref="GeneID:31666308"
     CDS             complement(2411..3403)
                     /locus_tag="LF65_RS27495"
                     /old_locus_tag="LF65_05629"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017212311.1"
                     /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_041900617.1"
                     /db_xref="GeneID:31666308"
                     /translation="MDRKVTIQDIANMVNVSKSSVSRYLNNGYVSEENAKKIKEAIEKT
                     GFETNFFAKRLKTKKSRLVGIVIPRIDSVTIGKVLTGINKKLMENDYQGIILISELDIE
                     KELANINSLYQQGVDGIIINSMAITKKHIQLISRLSIPTIFTGQKNEFTNYIKIDDYEA
                     GKILGSYFKSKGHKNIVFLGVNEWDIAVGVDRKNGFIDAVKKDNPDCNVQFVETDFSFT
                     NAYSKASQILEYKPTAIVCATDNICLGVLRYLHESNIKVPEEISVAGFGGYDIGSVSYP
                     TLTTVAFDYELIGIKAAQGILDLIEGKELEENKDTSLKLIERESVGGIN"
     gene            complement(3593..4948)
                     /locus_tag="LF65_RS27500"
                     /old_locus_tag="LF65_05630"
                     /db_xref="GeneID:31666309"
     CDS             complement(3593..4948)
                     /locus_tag="LF65_RS27500"
                     /old_locus_tag="LF65_05630"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017212312.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="gnl|TC-DB|P05306|4.A.1.2.9"
                     /protein_id="WP_041900619.1"
                     /db_xref="GeneID:31666309"
                     /translation="MKEQIVAKEILENIGGKENIKSVEHCATRLRLILNDKEKINEKAI
                     ENIDGVKGQFFSAAQYQIILGTGFVNKVYDVIVGQNSDLVTGNNKEEAYSQMTLIQKIS
                     RTFGDVFVPIIPVLVATGLFMGLRGLLTNLGVQMNENFVLFTQVLTDTAFAFLPALVAW
                     STMKKFGGTPVIGIVIGLMLVSPSLPNAYAVAAGTATPINLTILGLNIPVVGYQGSVLP
                     ALVLGIIAAKTQKALKKVVPDVLDLIVTPFITLLFSMVLGLLIVGPIMHNAEQLIFGAI
                     KGFMGLPFGLGGLVVGGVHQLIVVTGVHHALNALEVELLSSTGKDAFNAMITCGIVAQG
                     AAALAVAVKTKDKKKRSLYISSAIPAFLGITEPAIFGVNLRFIKPFIFGCAGGAVGGML
                     SGIFHLAGTGMGITALPGMLLYVNNLGSYILVNVVAIAVAFCLTLFFFKPEE"
ORIGIN
        1 ttaatttaat tcgtttagtg tcggcattga ggctatagcc ccgtagttgg tgcatgttat
       61 tgcacctacc ttatttgcaa atgaaactat ctctttccat ctatcaaaac ttatactctc
      121 tttgtcatca atatcggata cctgccttaa tactgctcca acaaatgcat ctcccgcacc
      181 agtggaatct acttgcttaa tttttataga tggtattact tcattttttc cattaacact
      241 taagtatgtg cccttagacc ctaaagtaac cgttacaacc ttaactccaa tttcatgtaa
      301 cttgttaaca gcgctttcta tatctttttc ttttgttatt aaatataatt cttcatcact
      361 tagtttcgta aagttactgt atctcaagaa tttaacacaa tcctcaacaa acaactctaa
      421 cttgtcttga gtgattagtg catcgcggta attaggatca aatgatacat atatgttatt
      481 agatttcgca tattctaata gtttaaaata tgtctttttt aactctccat ctaaaaatcc
      541 cgttgcagac ccaaaatgaa ttatatctga attacttatc tttgataaat ctatattatc
      601 aaacgaatat tccccatcac tacctcttag gaagtcaaag ttacgttcac catttgcatc
      661 aattccaact aatgcaattg ttgtacttcc tctttctaca gtcatatcag tatttatatt
      721 caagcttttt agcagctcaa ctaaatgctt accaaaaaaa tcattaccta cttgtcctaa
      781 aaaataagca ttaccttcta atttacaaat actcgccgct acatttgctg gtgctccacc
      841 tgcttttttc tcaaatttct ctccattttt taaaccttta ttatctacac aaaccatatc
      901 aattaaaagt tccccaatgc aaaaaacatt attattcata cttcacactc cttaagttcc
      961 acatatttag ctcattaatt gtaattttgc tatcatttct tatttgaagt tctaatcctt
     1021 cactcttagg gtaatatgtt aatgttgtta cttctaatcc atcttgataa tatatttcca
     1081 tcacagaatt gtcaatgaat acattcattt ttagttcttt tgaagaattt aatttgaatt
     1141 ttcttatgcc ttttccgcca atattcatat tacttctatc aactgtacat agttgtcttt
     1201 tattatcata tgttatcaga atatattcgt cattaaattt aaatttaact tctgtagatt
     1261 caatatcctc aacttctata ctcatcatta tttctattga acgagactct aaagctaaat
     1321 tgtacttatt caaagttaac cctttaatat ctattaattg agtttctctt aaatttctca
     1381 tttcattaat gggcttttga taaaggacat tattcttata ctctaaaact ctaggcatag
     1441 ttaatgaata catccatcca ttctcatacg tcgggtattc agagtcccta tctggcattc
     1501 ctatccatcc aaccattata tttttaccat tatgattaaa tatttgcgga gcataaaaat
     1561 caaatcccat atctaattct ttaaatctgc tatgattttt aagctcaaca ctctttatat
     1621 ctagctcacc aattacatat cctgactgat ataaattttg atttttcaat tcttcttttt
     1681 ctaaaccttg tggcgaaaat ataaatgcat gtttgccttt acttatactt attatattag
     1741 gacattccca catgtatcca aagtgcttca tatcggtttt taactcacca agcaagttcc
     1801 atttaactga atctattgat tcataaatta aagctcttcc ttttaaatct tcactttgaa
     1861 cacctaatat catgtaataa gtgtcatctt ctataaatac gtatggatct ctaaaatgag
     1921 ctgtatatcc gtttggttgt ttatctataa ttactccatg tttatctatt attccatctt
     1981 tattacaagt ggctaagcac tgatatgact ctctttcacc atttggacct tttacgtttc
     2041 ctgtgtagta taactttaac tcattatctt taatcaatgc acaccctgaa tagcatccat
     2101 ttctatcaaa ccaatcttgt ggttttaacg ctattttagg cttagtaaag ttaatgaaat
     2161 ttgttgttgt tactaatccc cagtgctttg ttttatgctc acatccaaat ggattccatt
     2221 gatagaatat ataaaactta ttgtcgtaat aacttaatcc atttgggtca ttgatcagac
     2281 caaacggcat ctcaatgtga aagttgtttc gccatatact cgtttcttta ttactgtaat
     2341 aattatttaa attttggttt atttcctggt atgattttgg gtttggcatc tttcctcttc
     2401 tcctattaat ttaattaatc ccacccacac tttctctttc tattagcttc aaggaagtat
     2461 ccttattctc ttctaactct tttccctcta ttaaatctag gattccttga gctgctttta
     2521 taccaatcaa ttcataatca aaagctactg ttgtaagtgt agggtatgaa acacttccta
     2581 tatcatatcc tccaaatcca gctactgaaa tttcttctgg aactttaata ttactttcat
     2641 gcaaatatct aagtactcct aaacaaatat tatcagttgc acaaactatt gctgtgggct
     2701 tatattctaa tatctggcta gccttactgt atgcattagt aaatgaaaaa tcagtttcaa
     2761 caaattgaac attacaatct ggattatctt tcttcacagc gtcaatgaat ccatttttac
     2821 gatccacgcc tactgctatg tcccattcat ttactcctaa aaatactata tttttgtgcc
     2881 ccttagattt aaaatagctt ccaagtattt ttcctgcttc ataatcatct atttttatat
     2941 aattagtaaa ctcatttttt tgtcctgtaa atatagttgg aatactaagc ctgctaatta
     3001 attgaatatg ctttttagta atagccatag aattaatgat tattccatca actccttgct
     3061 gataaaggct attgatattt gctagttctt tttctatatc tagttcgctg atcaagataa
     3121 ttccttgata atcattttcc attaattttt tattgatacc agttaatact ttgcctattg
     3181 taacagaatc gattctagga attacaattc caactaatct acttttttta gtctttaatc
     3241 tctttgcaaa aaaattagtt tcaaatccgg tcttttcaat cgcttctttt atctttttag
     3301 cattttcttc gctcacgtat ccattattca aatatctaga aacactactc tttgaaacat
     3361 taaccatatt agcaatatct tgaattgtga cttttcgatc catattatcc tccatatatg
     3421 ttttatataa atattattat atatcattaa tacatattat tgaaaagata acttataaac
     3481 ttatacggat attaatatat aaaatatatc tttatatagc ttgatagatt tagcaagcaa
     3541 aattatccct actaaatcta tctataattc atctaaatat tttttattat tcctattctt
     3601 ctggcttgaa gaagaacaat gttaagcaaa aagcaacagc tatagctaca acgttaacta
     3661 aaatgtaact tccaagattg ttcacatata atagcatacc tggtaatgct gtaattccca
     3721 ttcctgtacc tgctagatga aatattcctg aaagcatccc tccaactgcc cctcctgcac
     3781 atccaaatat aaatggtttt atgaatctta agttaacacc aaatattgct ggttcagtaa
     3841 tacctaaaaa tgctggaatt gctgatgaaa tatataatga gcgcttcttt ttatcttttg
     3901 ttttgacggc tactgctaaa gctgccgcac cttgtgctac aataccacaa gttatcattg
     3961 cattaaatgc atcttttcct gtgctagata gtaattcaac ttctaaagca tttaatgcat
     4021 ggtgaactcc agtaacaact ataagttgat gtactcctcc tacaactagt ccacctaaac
     4081 caaatggaag ccccatgaat cctttgattg ctccaaatat taattgctca gcattatgca
     4141 taattggccc aactattaat aatcccagta ccattgaaaa taataatgta ataaatgggg
     4201 ttactattag atccaataca tctggaacca ctttcttaag tgccttttga gttttagctg
     4261 caataattcc taatactaat gctggcaaca cagacccttg atatccaact acaggaatgt
     4321 ttaatcctag tatagttaga ttaattggag ttgctgttcc cgctgctaca gcataagcat
     4381 ttggtaaact cggtgataca agcattaatc ctattactat acctattact ggtgtacctc
     4441 caaacttttt catggttgac catgcaacta atgctggtaa aaatgcaaaa gcagtatctg
     4501 ttaatacttg agtaaagaga acaaaattct cattcatttg aactcctaga tttgttaaaa
     4561 gacctcttag tcccataaac aaacctgttg caactaatac tggtattata ggtacaaata
     4621 catctccaaa agttctagat attttttgaa ttaatgtcat ttggctataa gcttcctctt
     4681 tattatttcc agttactaag tcagaatttt gtccaactat gacatcataa actttattta
     4741 caaatcctgt tccaagaatt atttggtatt gcgctgccga gaaaaattgt ccttttacac
     4801 catcaatatt ttcaatagct ttttcattta ttttttcctt atcattaagt ataagtctta
     4861 atctagttgc acaatgttct actgatttta tattttcttt tccaccaata ttctctagaa
     4921 tttcttttgc tactatttgt tccttcat
//
