LOCUS       ACXX02000002            5864 bp    DNA     linear   BCT 14-MAR-2011
DEFINITION  Ruminiclostridium papyrosolvens DSM 2782 ctg64, whole genome shotgun
            sequence.
ACCESSION   ACXX02000002
VERSION     ACXX02000002.1
DBLINK      BioProject: PRJNA33587
            BioSample: SAMN00002727
KEYWORDS    WGS; GSC:MIGS:2.1; NONCONTIGUOUS_FINISHED.
SOURCE      Ruminiclostridium papyrosolvens DSM 2782
  ORGANISM  Ruminiclostridium papyrosolvens DSM 2782
            Bacteria; Firmicutes; Clostridia; Clostridiales;
            Hungateiclostridiaceae; Ruminiclostridium.
REFERENCE   1  (bases 1 to 5864)
  AUTHORS   Lucas,S., Copeland,A., Lapidus,A., Cheng,J.-F., Goodwin,L.,
            Pitluck,S., Misra,M., Chertkov,O., Detter,J.C., Han,C., Tapia,R.,
            Land,M., Hauser,L., Kyrpides,N., Ivanova,N., Pagani,I., Mouttaki,H.,
            He,Z., Zhou,J., Hemme,C.L. and Woyke,T.
  TITLE     The Non-contiguous Finished genome of Clostridium papyrosolvens
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5864)
  AUTHORS   Lucas,S., Copeland,A., Lapidus,A., Glavina del Rio,T., Tice,H.,
            Bruce,D., Goodwin,L., Pitluck,S., Larimer,F., Land,M.L.,
            Mouttaki,H., He,Z., Zhou,J. and Hemme,C.L.
  CONSRTM   US DOE Joint Genome Institute (JGI-PGF)
  TITLE     Direct Submission
  JOURNAL   Submitted (20-JUL-2009) US DOE Joint Genome Institute, 2800 Mitchell
            Drive B310, Walnut Creek, CA 94598-1698, USA
REFERENCE   3  (bases 1 to 5864)
  AUTHORS   Lucas,S., Copeland,A., Lapidus,A., Cheng,J.-F., Goodwin,L.,
            Pitluck,S., Misra,M., Chertkov,O., Detter,J.C., Han,C., Tapia,R.,
            Land,M., Hauser,L., Kyrpides,N., Ivanova,N., Pagani,I., Mouttaki,H.,
            He,Z., Zhou,J., Hemme,C.L. and Woyke,T.
  TITLE     Direct Submission
  JOURNAL   Submitted (11-JAN-2011) US DOE Joint Genome Institute, 2800 Mitchell
            Drive B310, Walnut Creek, CA 94598-1698, USA
COMMENT     ##MIGS-Data-START##
            investigation_type       :: bacteria_archaea
            project_name             :: Clostridium papyrosolvens DSM 2782
            collection_date          :: Missing
            lat_lon                  :: 57.162143 -2.719417
            depth                    :: Missing
            alt_elev                 :: Missing
            country                  :: United Kingdom
            environment              :: Mud
            num_replicons            :: Missing
            ref_biomaterial          :: DSM 2782, ATCC 35413, NCIB 11394
            biotic_relationship      :: Free living
            trophic_level            :: Chemoorganotroph
            rel_to_oxygen            :: Anaerobe
            isol_growth_condt        :: Missing
            sequencing_meth          :: WGS
            assembly                 :: Newbler v. 2.3 (pre-release)
            finishing_strategy       :: Finished
            GOLD Stamp ID            :: Gi02584
            Type Strain              :: Yes
            Greengenes ID            :: 15957
            Isolation Site           :: estuarine sediment, River Don,
            Source of Isolate        :: Christopher L. Hemme (hemmecl@ou.edu)
            Cell Shape               :: Rod-shaped
            Motility                 :: Motile
            Sporulation              :: Sporulating
            Temperature Range        :: Mesophile
            Temperature Optimum      :: 25C
            Gram Staining            :: Gram-
            ##MIGS-Data-END##
            ##Genome-Assembly-Data-START##
            Finishing Goal           :: Noncontiguous Finished
            Current Finishing Status :: Noncontiguous Finished
            Assembly Method          :: Newbler v. 2.3
            Genome Coverage          :: 30x
            Sequencing Technology    :: 454; Illumina
            ##Genome-Assembly-Data-END##
            URL -- http://www.jgi.doe.gov
            JGI Project ID: 4085558
            Source DNA and Organism available from Christopher L. Hemme
            (hemmecl@ou.edu)
            Contacts: Christopher L. Hemme (hemmecl@ou.edu)
            David Bruce (microbe@cuba.jgi-psf.org)
            Whole genome sequencing and draft assembly at JGI-PGF
            Annotation by JGI-ORNL
            The JGI and collaborators endorse the principles for the
            distribution and use of large scale sequencing data adopted by the
            larger genome sequencing community and urge users of this data to
            follow them. It is our intention to publish the work of this
            project in a timely fashion and we welcome collaborative
            interaction on the project and analysis.
            (http://www.genome.gov/page.cfm?pageID=10506376).
            Aberdeenshire, Scotland
FEATURES             Location/Qualifiers
     source          1..5864
                     /organism="Ruminiclostridium papyrosolvens DSM 2782"
                     /mol_type="genomic DNA"
                     /submitter_seqid="ctg64"
                     /strain="DSM 2782"
                     /isolation_source="estuarine sediment from River Don"
                     /type_material="type strain of Ruminiclostridium
                     papyrosolvens"
                     /db_xref="taxon:588581"
                     /country="United Kingdom: Aberdeenshire, Scotland"
     gene            1..1677
                     /locus_tag="Cpap_3318"
     CDS             1..1677
                     /locus_tag="Cpap_3318"
                     /inference="protein motif:TFAM:TIGR02474"
                     /note="KEGG: cce:Ccel_1245 pectate lyase; TIGRFAM: pectate
                     lyase; PFAM: Pectic acid lyase; Dockerin type 1"
                     /codon_start=1
                     /transl_table=11
                     /product="PL10|PL10_1"
                     /protein_id="EGD48891.1"
                     /db_xref="InterPro:IPR002105"
                     /db_xref="InterPro:IPR012669"
                     /db_xref="InterPro:IPR018242"
                     /db_xref="InterPro:IPR018247"
                     /translation="MQKSIKIQIPKVLYITMLVFVLSLVLLIPKQTFASTPDWKSVFKN
                     SDTWFGSSEGIALADSIVQYQLSDGGWRKDMTTSNSGSWGKSTIDNDTTTSQIKVLAKT
                     YNQTKNTKYLTACQKGIDLLLNGQYSNGGWPQVFNDAGTYHAHITYNDNAMIHVMNLLT
                     EVSKKSGDYTFIDSTRASRASSAIQKGIQCILNTQIIVNGVKTAWCQQHDEVTLKPASA
                     RAYELPSNCTSESVSIVNYLKGISNPGTEITNAINSAVNWFAQVKILGIKVIDTGNDRI
                     VVNDTTAPPIWARFYEIGTDKAIFVDRDGSIHFQLSEISQERRTGYAWYGDWPKNLVKD
                     IVIPTPEPIPDGQYIKALTVSDTSNAADWSVQSNLQVGDTVYGDRTFKFTQIPQSLAGA
                     EWIRTACDSKLYSADEASFTAKSDITVYVALDTRLTGIPAWFGSWTKTDETLSTDNAVT
                     YNLYKKDFTVGSNVVLGTNGTSSSVVNYTVIVKPKSEQVILNGDVNRDGAVDALDFALV
                     KRYLLTGAEEGMDLHSADVNNDNSVNAIDLALIKSYILNLN"
     sig_peptide     1..105
                     /locus_tag="Cpap_3318"
                     /note="Signal predicted by SignalP 3.0 HMM (Signal peptide
                     probabilty 0.667) with cleavage site probability 0.667 at
                     residue 35"
     gene            1697..3361
                     /locus_tag="Cpap_3319"
     CDS             1697..3361
                     /locus_tag="Cpap_3319"
                     /inference="protein motif:PFAM:PF01095"
                     /note="PFAM: Pectinesterase; Dockerin type 1; KEGG:
                     cce:Ccel_1246 pectinesterase"
                     /codon_start=1
                     /transl_table=11
                     /product="CE8"
                     /protein_id="EGD48892.1"
                     /db_xref="GO:0030599"
                     /db_xref="InterPro:IPR000070"
                     /db_xref="InterPro:IPR002105"
                     /db_xref="InterPro:IPR018040"
                     /db_xref="InterPro:IPR018242"
                     /db_xref="InterPro:IPR018247"
                     /translation="MKRERVLHLVLILVFVLQTMAGSVFMSEVGAVSYDMVVAKDGSGN
                     YTTVQAAINSVPSNSSTRTTIYIKNGTYKEKINISSSKINISMIGQSKAGTILTYNDAA
                     STPKSSGGTLGTTGSASVTIAGAGFQAENITFENSYNEAANGSSQAVAVLAKADKMIFK
                     GCSFKGNQDTLYANGDARRQYYYNCYIEGDVDFIFGSANAVFDSCEIFSLNRSGGCVTA
                     PSTKANQKGYLIYKCKLTSSSGPKSIYLGRPWIPSSDTTQTTPKVLYRECELGAHIADG
                     GWTVMSGNNPANYEMWEYKNTGAGANTSRKQLPSSKAAEYTVEKFLSGSDGWNPNANEN
                     IPVPIPDGQYIKSLVVNDTQNAANWSVQSNLKVGDLVYGDRTYKFTQLPQKLTGSEWIR
                     TACDSKMYSADEASFTAKADITVYVGIDNRTTNILGWLNGWTATGDTLVSDNNSVAYNL
                     YKKDFTANSPVTLGFNGASASTVNYVIIVKSKTSDVLSGDVNEDGTVSALDFALLRKYL
                     LTGIADGINLTAADVNSDGDINAIDYAMLKSYLLNGN"
     gene            3393..5864
                     /locus_tag="Cpap_3320"
     CDS             3393..5864
                     /locus_tag="Cpap_3320"
                     /inference="protein motif:PFAM:PF00404"
                     /note="PFAM: Dockerin type 1; KEGG: cth:Cthe_0246
                     carbohydrate-binding family 6 protein"
                     /codon_start=1
                     /transl_table=11
                     /product="CE12|PL11_1|PL11"
                     /protein_id="EGD48893.1"
                     /db_xref="GO:0030599"
                     /db_xref="InterPro:IPR002105"
                     /db_xref="InterPro:IPR018242"
                     /db_xref="InterPro:IPR018247"
                     /translation="MLRKVFLGFLISVMLITCCSFQQGISAATARQMENLDRGVVAVKV
                     SSGVYISWRVLGTETADVTYNLYRDSVKLTNISGASNYVDKSGTMSSKYSVSAVINGNE
                     QAMSSEVNVWGSNYLQIPLQIPNGGTTPDGVAYTYSANDCSVGDLDGDGQYEIVLKWDP
                     SNAKDNSQSGYTGNVYIDAYKMNGKRLWRIDLGKNIRAGAHYTQFMVYDLDGDGKAEIA
                     CKTSDGTKDGMGNVIGNAGADYRNSSGYILTGSEYLSIFEGATGKALYTGNYEPARGTV
                     SGWGDSYGNRVDRFLGCIAYLDGVHPSLVMCRGYYTRTVLVAYDWNGSTLTKRWTFDSN
                     SSGNSRYAGQGNHNLSVADVDEDGKDEIVYGSCTIDDSGKGLYTTDLRHGDSMHLGDLN
                     PNRPGLEVWSCHEDTAGNGGVGASFRDAKTGSVIFKFGASKDVGRACSADLTAQYPGEE
                     VWAAGSPLYSCTGQNIGSAPSQKNFAIWWDGDELRELLDGTSITKYGGGTLLSAVDCAS
                     NNGTKSTPCLQADILGDWREEAVWRTSDNKYLNIYTTTDLTSRRIYTLMHNAVYRLGIA
                     WQNVAYNQPPHTGFFLGSGMATPPQPSIYLAGGKPVTIDGKLIKALAVNDTENSGDWSI
                     QQNLQVGDVVYGDRTYKFTQVPQELTGCEWIRTACDSKIYSADEATFTAKSDITVYTGL
                     DTRAASIPDWLKGWTFTGKTLISDNSSVDYNLYKKDYTANSLVTLGTNGASASLVNYVV
                     IVKPQAAEFLLGDANGDGEVNSLDYAMLKSYLLEKISLSQEAMKAVDFNNDNTIDSIDL
                     ALFRKNLLEVL"
ORIGIN
        1 atgcaaaaaa gtattaaaat tcaaattcca aaggtgttgt acataacaat gctggttttt
       61 gttttatcat tagttttatt gattcctaaa cagacatttg cttcaacccc ggactggaag
      121 agtgtattta aaaactcaga cacatggttt ggcagttcag aaggaattgc actggcagac
      181 agtatagttc agtaccagct ttcagacgga ggctggagaa aagatatgac aacaagtaat
      241 agcgggtcct ggggcaaatc tactatagac aatgatacaa ccacttctca gataaaagtt
      301 ctggcaaaga cttacaatca gaccaaaaat acaaagtatc ttacggcttg ccaaaaaggt
      361 attgaccttt tacttaacgg acagtattcc aacggtggct ggccacaggt attcaacgat
      421 gcaggaacct atcatgcaca tattacctac aatgataatg caatgattca cgttatgaac
      481 ttattaaccg aggtatcaaa aaagtcaggg gattatacct tcatagactc caccagagcc
      541 tcaagagcaa gcagcgcaat tcaaaaaggt attcaatgca tattaaacac acaaataatt
      601 gtcaatggtg taaagacggc atggtgtcag cagcatgacg aagtgactct gaaaccggca
      661 agtgcaagag catatgaatt accttctaat tgtaccagcg agagtgttag tatagtaaat
      721 tacctcaaag gaatcagcaa cccgggtaca gaaataacaa atgccatcaa ctctgccgtt
      781 aactggtttg cacaggttaa aatacttgga attaaagtaa ttgacacagg gaatgacaga
      841 atagttgtca acgatactac ggcgccgcca atatgggcac gtttttatga aataggtacc
      901 gacaaggcta tttttgttga ccgtgacggt tccattcatt ttcaattgtc agaaataagt
      961 caggaaagaa gaaccggtta tgcttggtat ggggattggc ccaaaaatct ggttaaggat
     1021 atcgttatac ccacacctga accgattcct gacggtcaat atatcaaagc actgactgtc
     1081 agcgatacga gtaatgccgc agattggtct gttcaaagca atttacaggt gggggataca
     1141 gtatacgggg acagaacctt taaattcact caaattcctc aaagtcttgc aggtgctgaa
     1201 tggattagaa cagcatgtga ttcgaagcta tattcagctg atgaagcctc ctttactgca
     1261 aaatcggata taactgttta tgtggcactg gacacaaggc ttacaggaat acccgcctgg
     1321 tttggaagtt ggacaaaaac cgacgaaaca ttaagcacag ataatgccgt aacatataac
     1381 ctttataaaa aggattttac tgtcggttca aatgtagtac ttggcactaa tggaacgtcc
     1441 tcaagtgtgg ttaattatac cgtaatcgta aaacctaaat cagaacaagt gattctcaat
     1501 ggtgacgtaa acagagatgg agcagtagat gccttggatt ttgcactggt caaaaggtac
     1561 ttactgacag gagcagaaga gggaatggat ttacattctg ccgatgtaaa taatgataac
     1621 tctgtaaatg caattgattt ggcacttatt aagagttata ttttgaactt aaactgatat
     1681 gagggaggga caacagatga aaagagagag agttcttcat ttagttttga ttcttgtttt
     1741 tgtgcttcaa accatggcag gctcagtttt tatgtctgaa gtgggtgcgg tgtcctatga
     1801 catggttgtt gcaaaggacg gaagcggtaa ttatactacg gtacaggctg ctataaacag
     1861 cgtgccgtcc aacagttcaa ccagaacaac catatacatt aaaaacggta catacaaaga
     1921 aaaaattaat atttcttcat ccaaaattaa tatttccatg ataggacaaa gtaaagcagg
     1981 cacgatttta acttataatg atgcagcaag caccccgaaa tcttcaggcg gaacattagg
     2041 tactacggga agtgccagtg ttaccattgc aggagcaggt tttcaggctg agaacataac
     2101 ttttgaaaat tcgtacaatg aagcggccaa tggaagcagt caggctgtgg ctgttcttgc
     2161 taaagcagac aaaatgatat tcaagggctg ttccttcaaa ggaaatcagg acactctgta
     2221 tgcaaacggt gacgctcgca ggcagtatta ctacaactgt tatatagagg gagatgtgga
     2281 ttttatcttt ggctcggcaa atgctgtatt tgacagctgt gaaatttttt ccctcaacag
     2341 aagcggagga tgtgttacgg cgcccagtac aaaggcaaat caaaagggct atcttatata
     2401 caagtgtaaa ctgacaagca gttcaggtcc caaatccatt tatttgggaa gaccttggat
     2461 tcccagttcc gacactactc aaacaacacc aaaggtttta tacagggaat gcgaactagg
     2521 cgcacatatt gctgacgggg gatggactgt tatgtcgggc aacaatcctg caaactatga
     2581 aatgtgggag tataaaaata ccggtgcagg cgcaaatacc tccagaaaac agctgccttc
     2641 ctcaaaggca gcagagtata cagtggagaa attcctttca gggtcggacg gttggaatcc
     2701 caatgcaaat gaaaatatcc ctgtgccaat tcctgacggc caatatataa agtcattggt
     2761 tgtaaatgat actcaaaatg ccgcaaactg gtctgttcag tcaaatttga aggtgggaga
     2821 cttagtatac ggtgacagga catataagtt tacacagctt ccacagaagc ttacaggttc
     2881 cgaatggata aggactgctt gcgactccaa aatgtactcg gctgatgaag cctcttttac
     2941 ggcaaaagca gatataacgg tttatgttgg tattgataac agaacgacaa atattctggg
     3001 ttggctgaac ggttggactg ccaccgggga taccttggtg agtgataaca attcggttgc
     3061 ttacaattta tacaaaaagg attttactgc aaattctccg gtgacattgg gatttaacgg
     3121 agcatccgca agtaccgtaa actatgtgat tatcgtaaaa tcaaaaacat cggatgtctt
     3181 atcaggtgat gtaaatgagg atggaacggt aagtgccttg gactttgcgt tactgagaaa
     3241 gtacttattg acagggatag ctgacggtat aaatttaaca gccgctgatg tgaatagcga
     3301 cggtgatata aatgctatag attacgctat gttaaaaagc tatttgttaa atggtaatta
     3361 acaaaaacaa gtttagaagg agggatttaa ttatgttaag aaaggtgttt ctgggctttt
     3421 taattagtgt aatgctgata acttgttgta gttttcaaca agggatatca gctgcaacgg
     3481 cacgtcagat ggaaaatctg gacaggggtg tagtagcagt taaagtcagc agtggcgttt
     3541 atataagttg gcgtgtattg ggtactgaaa cagctgatgt aacctataat ctttaccggg
     3601 actcagtaaa gctgactaac atatcaggtg caagtaatta tgttgacaag tcaggtacta
     3661 tgagttcaaa gtactctgta agtgcagtaa taaacggtaa cgaacaggca atgtcatcgg
     3721 aagtaaacgt atggggaagc aattatctgc aaattcccct ccagattccc aatggaggaa
     3781 cgacacctga cggagtggca tatacatata gtgccaatga ctgcagtgtt ggggatttgg
     3841 acggggacgg acaatatgaa attgttttga aatgggaccc ttcaaatgca aaggacaact
     3901 cacaaagcgg atatacgggg aatgtataca tagatgcata taaaatgaac ggtaaacgtt
     3961 tatggagaat tgaccttgga aaaaatatcc gtgcaggtgc ccattataca caatttatgg
     4021 tatacgattt agatggcgac ggtaaagcgg aaatagcatg taaaacttca gacggaacca
     4081 aagacggtat gggaaatgta ataggaaatg caggtgcgga ctaccgtaat tcttctggat
     4141 atatactgac aggttctgaa tacctgagca tatttgaagg tgccacaggt aaggcgcttt
     4201 acacaggaaa ctatgagcca gcccgaggta ctgtttccgg ttggggagat tcatatggca
     4261 atcgagttga ccgttttctg ggatgtattg catatctgga tggtgtgcac ccaagtcttg
     4321 ttatgtgcag gggatactac acaaggacag tgttggttgc ctacgactgg aacggctcaa
     4381 ccttaaccaa acgttggact ttcgacagca acagcagcgg taattcccgt tatgccggac
     4441 aaggcaacca caatcttagt gtagctgatg tggatgagga cggaaaggac gagattgtct
     4501 atggctcctg taccattgat gattcaggaa agggactgta cactacagat ttaagacacg
     4561 gagattcaat gcatctgggg gaccttaacc ccaaccgacc gggccttgaa gtctggtcct
     4621 gccatgagga taccgcaggc aacggaggag tcggtgcgtc cttccgcgat gctaagacgg
     4681 gaagtgtgat ttttaagttt ggggcatcca aagatgtggg aagggcgtgt tcggcagatt
     4741 tgaccgcaca atatcccggt gaggaggtat gggcggcagg ctcacctttg tacagctgta
     4801 ccggacaaaa catcggttct gcaccttccc agaagaattt tgcgatatgg tgggacggag
     4861 atgaacttcg tgagctttta gacggtacaa gcatcactaa atacggtgga ggaacattgc
     4921 tttcggcagt agactgtgca tccaacaacg gcacaaagtc cactccctgt ctacaggcgg
     4981 atatattggg tgactggagg gaagaggctg tatggagaac ctccgataac aaatacttaa
     5041 atatttatac aaccacagac ttaacaagca ggcgtattta taccttgatg cacaatgctg
     5101 tatacagatt gggaatagcc tggcagaatg tagcatataa ccagcctccc catacaggct
     5161 ttttcttagg aagtggcatg gcaacacctc cgcagccttc tatatatctg gcaggaggta
     5221 aacctgttac tattgacggt aaactgataa aggcgttagc agtaaatgat accgaaaatt
     5281 ccggtgactg gtcaatccaa caaaatctgc aggttgggga tgtggtgtac ggtgacagga
     5341 catataaatt tacacaggtt cctcaggagc ttacgggttg tgaatggata aggacggcat
     5401 gtgattccaa aatatattct gccgatgaag ccacttttac ggcaaaatca gatataacgg
     5461 tttatacggg cttggataca agagctgcaa gtattccgga ttggctgaag ggatggactt
     5521 tcacagggaa aaccttgata agtgataaca gctctgttga ctacaaccta tataaaaaag
     5581 attatactgc aaattctctt gtaactcttg gcacaaacgg tgcctctgca agcttggtaa
     5641 actatgttgt tatcgtaaag ccacaggcag cagagttcct tttaggtgat gcaaatggtg
     5701 acggtgaggt aaattctctt gattatgcca tgctcaagtc ataccttctg gaaaagataa
     5761 gtttgtcaca ggaagccatg aaggccgttg attttaataa tgataataca atagattcta
     5821 ttgatttggc tttgttcaga aagaatttat tggaagtctt ataa
//
