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 JDR-2 JOURNAL Unpublished REFERENCE 2 (bases 1 to 5914) AUTHORS Lucas,S., Copeland,A., Lapidus,A., Glavina del Rio,T., Tice,H., Bruce,D., Goodwin,L., Pitluck,S., Chertkov,O.,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 //