LOCUS       CP001656                5914 bp    DNA     linear   BCT 10-SEP-2019
DEFINITION  Paenibacillus sp. JDR-2 chromosome, complete genome.
ACCESSION   CP001656
VERSION     CP001656.1
DBLINK      BioProject: PRJNA20399
            BioSample: SAMN00000047
KEYWORDS    .
SOURCE      Paenibacillus sp. JDR-2
  ORGANISM  Paenibacillus sp. JDR-2
            Bacteria; Firmicutes; Bacilli; Bacillales; Paenibacillaceae;
            Paenibacillus.
REFERENCE   1  (bases 1 to 5914)
  AUTHORS   Lucas,S., Copeland,A., Lapidus,A., Glavina del Rio,T., Tice,H.,
            Bruce,D., Goodwin,L., Pitluck,S., Chertkov,O., Brettin,T.,
            Detter,J.C., Han,C., Larimer,F., Land,M., Hauser,L., Kyrpides,N.,
            Ovchinnikova,G., Shanmugam,K.T., Ingram,L.O. and Preston,J.
  CONSRTM   US DOE Joint Genome Institute
  TITLE     Complete sequence of Paenibacillus sp. JDR-2
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5914)
  AUTHORS   Lucas,S., Copeland,A., Lapidus,A., Glavina del Rio,T., Tice,H.,
            Bruce,D., Goodwin,L., Pitluck,S., Chertkov,O., Brettin,T.,
            Detter,J.C., Han,C., Larimer,F., Land,M., Hauser,L., Kyrpides,N.,
            Ovchinnikova,G., Shanmugam,K.T., Ingram,L.O. and Preston,J.
  CONSRTM   US DOE Joint Genome Institute
  TITLE     Direct Submission
  JOURNAL   Submitted (30-JUN-2009) US DOE Joint Genome Institute, 2800 Mitchell
            Drive B310, Walnut Creek, CA 94598-1698, USA
COMMENT     ##Metadata-START##
            Organism Display Name :: Paenibacillus sp. JDR-2
            GOLD Stamp ID         :: Gi02023
            Greengenes ID         :: 270979
            Isolation Site        :: Sweet gum stem wood buried in surface soil
            Oxygen Requirement    :: Aerobe
            Cell Shape            :: Rod-shaped
            Sporulation           :: Sporulating
            Temperature Range     :: Mesophile
            Temperature Optimum   :: 30 C
            Gram Staining         :: gram+
            Biotic Relationship   :: Free living
            Diseases              :: None
            Habitat               :: Host, Wood
            Phenotypes            :: Methylglucuronoxylan utilization
            ##Metadata-END##
            URL -- http://www.jgi.doe.gov
            JGI Project ID: 4043135
            Source DNA and bacteria available from James Preston
            (jpreston@ufl.edu)
            Contacts: James Preston (jpreston@ufl.edu)
            David Bruce (microbe@cuba.jgi-psf.org)
            Annotation done by JGI-ORNL and JGI-PGF
            Finishing done by JGI-LANL
            Finished microbial genomes have been curated to close all gaps with
            greater than 98% coverage of at least two independent clones. Each
            base pair has a minimum q (quality) value of 30 and the total error
            rate is less than one per 50000.
            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).
FEATURES             Location/Qualifiers
     source          1..5914
                     /organism="Paenibacillus sp. JDR-2"
                     /mol_type="genomic DNA"
                     /strain="JDR-2"
                     /db_xref="taxon:324057"
     gene            complement(1..1791)
                     /locus_tag="Pjdr2_3596"
     CDS             complement(1..1791)
                     /locus_tag="Pjdr2_3596"
                     /inference="protein motif:PFAM:PF06580"
                     /note="PFAM: histidine kinase internal region; histidine
                     kinase HAMP region domain protein; SMART: histidine kinase
                     HAMP region domain protein; KEGG: bha:BH3447 two-component
                     sensor histidine kinase"
                     /codon_start=1
                     /transl_table=11
                     /product="gnl|TC-DB|B3XQE5|9.B.33.1.2"
                     /protein_id="ACT02228.1"
                     /db_xref="InterPro:IPR003660"
                     /db_xref="InterPro:IPR010559"
                     /translation="MPRRLSIFNKIAFTIVLLLVPVVLLYGYSNRIATGVVEEQMRSSS
                     LSKLVFFMDQMDGTMENLSMFPVILSDDPHIRDFLSPASGEPESGLLKEQARVTEKLGL
                     QSVSSSWSNDLTFAFPEKNLVLSSNIYLNGSEVQSRGRKIKEDWTYERDSSRGYPIDTF
                     VREIGVPAAAVKVGDAEAVIQVRFPIQNISDMLDVYKKENRGDPFLLRSSEEPVRNSTH
                     AETASAKVIQELGHGSLGQSGQRILKMDGQTYLVSYAKSRQLGWYLVDYVPVERIVAPI
                     IQARNWFYGSIAFLVLIGLLASVLLYRNVQIPLSKMIAGVKRMKGGDLSWRIGYKANNE
                     FDELIRHYNEMAGQIQRLIEDIYSEKLRSREATLKQLQSQIHPHFLYNSLFFIINSAMM
                     EDRDSVISMSENLAEFYRYTTRVDNQLSTVGEELDFVRHYLNIHTLRMGRLAYEMEVPD
                     VLLEEPLPRLTLQPIVENAIVHGIESRIGGGRIVITGRQEGDYNLLEIADNGAGMTGEE
                     RLRLEALLVEKEMGDEIGCGTWNVHQRLQGRFGKGSGLRFRHAADGEGLVVTIAWLKSK
                     ANAKALDGNRLEGETEWPSS"
     sig_peptide     complement(1708..1791)
                     /locus_tag="Pjdr2_3596"
                     /note="Signal predicted by SignalP 3.0 HMM (Signal peptide
                     probability 0.808) with cleavage site probability 0.374 at
                     residue 28"
     gene            complement(1797..3116)
                     /locus_tag="Pjdr2_3597"
     CDS             complement(1797..3116)
                     /locus_tag="Pjdr2_3597"
                     /inference="protein motif:PFAM:PF01547"
                     /note="PFAM: extracellular solute-binding protein family 1;
                     KEGG: rfr:Rfer_0954 extracellular solute-binding protein"
                     /codon_start=1
                     /transl_table=11
                     /product="gnl|TC-DB|O51923|3.A.1.1.7"
                     /protein_id="ACT02229.1"
                     /db_xref="InterPro:IPR006059"
                     /translation="MKRLQLLQTGWAGLLVVAALAGCSNSPAKPPGAAENEKPGEGLQG
                     RTITFVTGSHPWVDVIKPLIPQFEKETGINVRIQGYFEDQLTQKLTVQFTARSETPDVF
                     MYRPLQEGKLFFQSGWLEPLDAYARQDAGYDLGDFSPQSIRSSTVDGKLAGIPIVTEQQ
                     ILYYRKDLLKKAGIGVPATIDALEEAAEKLNHPEQGVYGFVARGQRSPLVTQVSSFLYS
                     EGGDFIKNGKAAINSPEAIKAFETYGGLLRNYGPPNAINMSWPQASAFFAQGKAALYTD
                     ANSIYRALDTEESKVRGNVGFAPFPSGTKGSMPYNITSWGLAINPKSPNKEAAWAFIKW
                     ASGKSVMLLTQQAGNPGPRSSVWKDPRGTIGFPEELAAVYQQTINGGVDHDRPQTVDVA
                     AAREQVGKIVQMVIMGETEIRQSADQANAALQALLDEEAE"
     sig_peptide     complement(3015..3116)
                     /locus_tag="Pjdr2_3597"
                     /note="Signal predicted by SignalP 3.0 HMM (Signal peptide
                     probability 0.843) with cleavage site probability 0.418 at
                     residue 34"
     gene            complement(3365..4264)
                     /locus_tag="Pjdr2_3598"
     CDS             complement(3365..4264)
                     /locus_tag="Pjdr2_3598"
                     /inference="protein motif:PFAM:PF01022"
                     /note="PFAM: regulatory protein ArsR; SMART: regulatory
                     protein ArsR; KEGG: bha:BH1869 hypothetical protein"
                     /codon_start=1
                     /transl_table=11
                     /product="DBD-Pfam|HTH_5,DBD-SUPERFAMILY|0043095"
                     /protein_id="ACT02230.1"
                     /db_xref="InterPro:IPR001845"
                     /translation="MLSTNAESLMVYEALASEVRLKIIDKLFERERHVKELASEMFLSS
                     AVISGHIRKLEQAGIVGSKMKRIDGGTYKYCYIKSEFLQIKLSPNVSSSLSFHGLSVPI
                     GHYTDYEAWPTCGVATTDKMIGQYDNPACFMDPERVNAGILWLARGWVEYKIPNYLYKD
                     QRLHEIEISFEIGSEAPRVNENWPSDIHFSLNGKSLGVWTSPGDFGKTRGRLTPDWWSS
                     DVNQYGLLKVLRVKENGSYIDGLKISDVGLRDIGTGAINWTFRIAAEDTGRGRGGLTLY
                     GRGFGNYDQDIVFRSFYV"
     gene            4403..5914
                     /locus_tag="Pjdr2_3599"
     CDS             4403..5914
                     /locus_tag="Pjdr2_3599"
                     /EC_number="3.2.1.55"
                     /inference="protein motif:PRIAM:3.2.1.55"
                     /note="PFAM: alpha-L-arabinofuranosidase domain protein;
                     KEGG: bha:BH1861 alpha-L-arabinofuranosidase"
                     /codon_start=1
                     /transl_table=11
                     /product="GH51"
                     /protein_id="ACT02231.1"
                     /db_xref="InterPro:IPR010720"
                     /translation="MTIRSSMLIDKNFTVSPVDPRVYGSFIEHLGRAVYGGIYDPEHPT
                     ADESGFRQDAIEAIKALQVPIIRYPGGNFVSGYNWEDGVGPKSERKRLLELAWWTTETN
                     EVGTNEFADWAKLVGSDVMMAVNLGTRGMDAARNLVEYCNHPGGTYWSDLRISHGYKEP
                     HRFKTWCLGNEMDGPWQIGAKTAVEYGRLANETAKVMKWVDPSIELVACGSSSSGMSTF
                     ADWEATVLDLTYDQVDYLSLHTYYNNNNNDTANFLAKSLDMDQFIDSVAAICDYVKAKK
                     RSKKTIMLSLDEWNVWNTIGTSRADERWQIAPPEFEDVYTHEDALAVGCFLITLLKHAD
                     RVKMACIAQLINVIAPIMTETNGAIWLQTTYYPFLHASNFGRGTVLQANISSPKYDSKD
                     FTDVPYLEAISVFDEEQGLITVFAVNRHLEEQMELSLDLRSFGEVSVIEHIVMESEDLK
                     ATNTKSNPRNVVPHAGGRTTADNGSVQAILGKASWNVIRLQTKKG"
ORIGIN
        1 ttaagagctg ggccattccg tttcaccctc caaccgattt ccatccaatg ccttggcatt
       61 tgctttactc ttcagccacg ctatggtaac gacaagacct tctccatccg ctgcatgccg
      121 gaaacgaagc cccgagcctt ttccgaaccg gccttgcagc cgctgatgca cgttccaggt
      181 accgcatccg atctcgtctc ccatttcctt ctcgactagc agcgcttcca gccgaagccg
      241 ttcctcgccg gtcatccccg ctccgttatc ggcaatttca agtaggttgt aatccccctc
      301 ttgccttccg gtaatgacga tgcgtcctcc gccgatccgg ctttcaatcc cgtgcacaat
      361 cgcattctcg acgatcggct gcaaggtaag acggggaaga ggctcttcca gcaggacatc
      421 gggcacttcc atctcgtagg ctagccttcc catccttagc gtatggatgt tcaggtaatg
      481 ccggacgaaa tccagctcct ctcccaccgt cgacaactga ttgtctaccc tggtcgtata
      541 ccggtaaaac tcggccagat tttccgacat cgaaataacc gaatcccggt cctccatcat
      601 cgcggagttg ataataaaga acagcgagtt atacaagaaa tgaggatgaa tctgcgattg
      661 cagctgctta agcgtcgctt ccctggatct tagcttttcg ctgtaaatat cttcgatcaa
      721 ccgctgaatc tggccggcca tttcgttgta atgccggatc agctcgtcaa attcattatt
      781 agccttatag ccgatccgcc aggacaaatc gccgcccttc atccgtttga caccggctat
      841 catcttggac agcggaatct gaacattgcg gtagagcaga acggaggcca gcaatccgat
      901 taaaaccagg aaagcgattg aaccgtagaa ccagttcctg gcctgaataa tgggagccac
      961 aatccgttcg acgggcacgt aatcaaccag ataccagcct aattggcgcg acttcgcata
     1021 actgaccaga tacgtttgtc catccatctt caagatccgt tgaccgcttt gtccgaggct
     1081 accgtgacca agctcctgaa tgaccttggc ggaagcggtt tccgcatgcg tgctgttgcg
     1141 gacaggctcc tcgctagagc gtaacaaaaa cgggtcgccc cggttctcct tcttgtacac
     1201 atcaagcatg tcgctaatat tctggatggg aaaacggacc tgaataacgg cttccgcgtc
     1261 cccaaccttt acggcagcag caggaacacc gatttcgcgg acaaaggtat cgatcggata
     1321 accgcgcgag ctgtcccgct cgtaagtcca atcctccttg atctttctcc cccgcgactg
     1381 gacttcgctg ccgtttaagt aaatgttcga ggagagtacg agatttttct ccggaaaagc
     1441 aaaggttaga tcgttggacc atgagctgga tacgctttga agtcccagct tttccgtaac
     1501 tctggcctgc tccttcagca agccgctttc cggttcgcct gaagcaggag acagaaaatc
     1561 gcggatatga ggatcatcgc ttaagatgac cgggaacatc gacagatttt ccatcgttcc
     1621 atccatttga tccataaaga agacaagctt actcaagctg gacgagcgca tttgttcttc
     1681 cacaacgccg gttgcaatcc ggttcgaata accgtatagc agcacaacgg gcacaagcag
     1741 caggacaata gtgaaagcta tcttgttgaa aatcgacagt cggcgcggca tcttggttac
     1801 tccgcttcct catcaaggag agcctgcaga gcggcattgg cctgatcggc cgattgccgg
     1861 atctccgtct ctcccatgat gaccatttgt acgattttgc ctacctgctc gcgtgctgcc
     1921 gctacgtcaa cggtctgagg ccggtcgtga tcgactcctc cgttaatcgt ttgttggtat
     1981 acggctgcta attcttccgg gaagccaatc gtgcccctcg gatccttcca taccgacgat
     2041 cttggtccgg gattgcccgc ttgctgggta agcagcataa cggactttcc gcttgcccat
     2101 ttaataaacg cccatgccgc ctctttattc ggcgatttcg ggttgatggc aagcccccag
     2161 gacgtaatgt tgtacggcat ggaacctttt gtccccgaag gaaacggcgc aaagccgaca
     2221 tttccccgaa ctttcgactc ttccgtatca agcgcgcggt agatcgaatt ggcatcggta
     2281 taaagcgcgg ccttcccttg cgcaaaaaaa gcgcttgcct gaggccatga catgttgatt
     2341 gcattaggcg gcccgtaatt tcgaagcaga ccgccatagg tctcgaaggc tttgatcgct
     2401 tccggagaat taatggctgc tttgccgttc ttgataaagt cgccgccttc ggagtacaga
     2461 aacgacgaga cctgcgtcac tagcggactc cgctgtcctc tggctacaaa gccgtagacg
     2521 ccttgctccg gatgattcag cttctctgcc gcttcttcaa gcgcatcgat ggtagcggga
     2581 accccaattc ccgctttctt cagcaaatct ttgcggtaat acaatatttg ttgctccgtc
     2641 acgatcggaa tgcctgccag tttgccgtct accgttgaag aacggatgga ttgcggcgag
     2701 aaatcgccta aatcgtatcc cgcatcctga cgggcataag catcaagcgg ttcaagccag
     2761 ccgctctgga agaacagctt tccttcctgc agcggccggt acatgaacac atccggcgtt
     2821 tccgagcgtg ccgtgaattg taccgtcagc ttctgtgtca gctgatcttc aaaatagccc
     2881 tggatccgca cgttaatgcc ggtttccttc tcgaactggg gaattaacgg cttaatgacg
     2941 tcaacccagg gatgggatcc ggttacgaac gttatcgttc ggccctgtaa tccctctccg
     3001 ggcttttcgt tctctgctgc gcccggcggt tttgccggac tgttactgca tccggctaat
     3061 gctgcaacga ccaataatcc ggcccatccg gtctgtaaga gctgcagcct tttcatgcct
     3121 tactctactc tccttcaagc ggaatcggcc ttgcctcaag aagcaacgtc gatttgcgtc
     3181 gaaaaatttt attaagcatc cttaacatta ctggatcgcg ggtttagacg atataacgaa
     3241 tactaaacat tgataacgaa tcctaaagat cggctttacc tattattgcc tgtccttgca
     3301 ttaatcactc caaacggcaa agagaaagag gccgcagcaa tcgcggcctc tttcgtaagt
     3361 ttatttatac ataaaaactt ctaaaaacaa tatcttggtc gtagttgcca aagccccttc
     3421 cgtatagggt tagtcctccc cgtccgcgtc ccgtatcttc cgccgcaatg cggaatgtcc
     3481 agttgattgc acccgttccg atatctctaa gacctacgtc cgatattttc aagccgtcga
     3541 tatacgagcc gttctccttg acccggagaa ccttcaagag gccgtattga ttaacatcgc
     3601 tggaccacca atccggggtc agtcttcccc ttgttttccc gaaatctccc ggacttgtcc
     3661 atacgccaag cgatttgccg ttgagactga aatggatatc cgacggccaa ttctcattga
     3721 cgcgaggggc ttcggagccg atttcgaagg aaatctcgat ttcgtgcagc cgttggtcct
     3781 tatagagata attaggaatt ttatattcca cccagcctct tgcaagccac aggattcccg
     3841 cgttcaccct ctccgggtcc atgaagcagg ccggattatc gtactgcccg atcatcttat
     3901 ccgtggttgc tacaccgcag gttggccatg cctcatagtc ggtgtagtga ccgatcggca
     3961 cggacagacc atgaaagctt aatgacgaag aaacattggg agacagcttg atctgaagaa
     4021 actcagactt gatataacaa tacttataag tacctccgtc gatccgcttc attttgctgc
     4081 cgacgattcc cgcctgctca agcttgcgga tatggccgct gatgaccgcg ctgcttagaa
     4141 acatttcgga ggcaagctcc ttcacatggc gctccctctc aaataattta tcgataattt
     4201 ttaaacgtac ctcgcttgcc agcgcttcat aaaccattaa tgattccgca ttggttgata
     4261 gcatcatttc acctcagtag gattttgttt tttcaaaatc ctgaaactta ttcttgtctg
     4321 ctaataccta ttatggtacg aatattatag gatttcaacc atacggattt tgtttttccc
     4381 taattctaaa ggaggctttt ctatgactat tcgttccagc atgcttattg acaagaattt
     4441 taccgtctcc cctgttgatc cccgtgtata cggttccttt attgaacact taggccgtgc
     4501 cgtatacggc ggcatttatg acccggaaca tccgacagct gatgagagcg gcttccggca
     4561 agatgccatt gaggccatta aagctctgca agtacctatt atccgctacc cgggcggcaa
     4621 ctttgtatcg ggttacaatt gggaagacgg cgtaggtcca aagagcgagc ggaaacgtct
     4681 gcttgagctg gcctggtgga cgacggaaac caacgaggta ggcactaacg aattcgcgga
     4741 ttgggccaag ctggttggct ccgatgttat gatggcggtt aatctaggca cgcggggaat
     4801 ggatgcggca agaaatcttg ttgaatactg caatcatcct ggcggtactt attggagcga
     4861 tctgcggatc tctcacggct acaaggagcc tcaccgcttc aaaacctggt gcctcggcaa
     4921 cgagatggac ggtccgtggc agattggcgc aaagacagcc gttgaatacg gacggctcgc
     4981 taatgaaacc gcaaaggtaa tgaaatgggt tgacccgtcg atcgagcttg ttgcctgcgg
     5041 cagctcaagc agcggcatga gcaccttcgc agactgggaa gcaacggtgc ttgatcttac
     5101 ttacgatcaa gtggactacc tgtctctcca tacctactac aataacaaca ataacgatac
     5161 ggcgaacttc ttggccaaat cgctcgatat ggaccaattc atcgacagcg tagccgcgat
     5221 ctgcgattat gtaaaagcaa aaaaacgcag caaaaaaacg atcatgcttt cgctcgacga
     5281 atggaatgta tggaacacca tcggcacaag ccgcgccgac gagcgttggc agattgctcc
     5341 tccggagttc gaggatgtgt acacgcacga ggatgctctt gcggttggct gcttcctgat
     5401 cacgctgctt aagcatgcgg accgtgtcaa aatggcttgc atcgcccaat taattaacgt
     5461 tatcgctccg attatgaccg agacgaacgg tgcgatctgg ctgcaaacga cctactatcc
     5521 gttcctgcat gcctcgaact tcggacgggg tacggtgctg caagccaata tctcctcgcc
     5581 gaaatacgat tccaaggact ttaccgacgt tccgtatctc gaagcgatca gcgtcttcga
     5641 cgaagagcag ggtctgatca cggtgtttgc ggttaaccgc catctggaag agcaaatgga
     5701 gcttagcctg gacctccgca gctttggcga ggtaagcgta atcgaacaca tcgtcatgga
     5761 aagcgaggat ttgaaagcaa ccaacaccaa atccaatcct cgtaatgtcg ttccgcatgc
     5821 cgggggccgc actacggcag ataacggcag cgttcaagcg atcctgggta aagcctcctg
     5881 gaacgtgatt cgcctgcaga cgaaaaaagg ataa
//
