LOCUS NC_008764 6459 bp DNA circular BCT 06-JAN-2010 DEFINITION Polaromonas naphthalenivorans CJ2 plasmid pPNAP08, complete sequence. ACCESSION NC_008764 VERSION NC_008764.1 GI:121583582 DBLINK Project:13418 KEYWORDS . SOURCE Polaromonas naphthalenivorans CJ2 ORGANISM Polaromonas naphthalenivorans CJ2 Bacteria; Proteobacteria; Betaproteobacteria; Burkholderiales; Comamonadaceae; Polaromonas. REFERENCE 1 (bases 1 to 6459) AUTHORS Copeland,A., Lucas,S., Lapidus,A., Barry,K., Detter,J.C., Glavina del Rio,T., Hammon,N., Israni,S., Dalin,E., Tice,H., Pitluck,S., Sims,D.R., Brettin,T., Bruce,D., Han,C., Tapia,R., Brainard,J., Schmutz,J., Larimer,F., Land,M., Hauser,L., Kyrpides,N., Kim,E., Madsen,E.L. and Richardson,P. CONSRTM US DOE Joint Genome Institute TITLE Complete sequence of plasmid pPNAP08 of Polaromonas naphthalenivorans CJ2 JOURNAL Unpublished REFERENCE 2 (bases 1 to 6459) CONSRTM NCBI Genome Project TITLE Direct Submission JOURNAL Submitted (10-JAN-2007) National Center for Biotechnology Information, NIH, Bethesda, MD 20894, USA REFERENCE 3 (bases 1 to 6459) AUTHORS Copeland,A., Lucas,S., Lapidus,A., Barry,K., Detter,J.C., Glavina del Rio,T., Hammon,N., Israni,S., Dalin,E., Tice,H., Pitluck,S., Sims,D.R., Brettin,T., Bruce,D., Han,C., Tapia,R., Brainard,J., Schmutz,J., Larimer,F., Land,M., Hauser,L., Kyrpides,N., Kim,E., Madsen,E.L. and Richardson,P. CONSRTM US DOE Joint Genome Institute TITLE Direct Submission JOURNAL Submitted (21-DEC-2006) US DOE Joint Genome Institute, 2800 Mitchell Drive B100, Walnut Creek, CA 94598-1698, USA COMMENT PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000537. URL -- http://www.jgi.doe.gov JGI Project ID: 4000361 Source DNA and bacteria available from Eugene L. Madsen (elm3@cornell.edu) Contacts: Eugene L. Madsen (elm3@cornell.edu) Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford 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). COMPLETENESS: full length. FEATURES Location/Qualifiers source 1..6459 /organism="Polaromonas naphthalenivorans CJ2" /mol_type="genomic DNA" /strain="CJ2" /db_xref="taxon:365044" /plasmid="pPNAP08" gene complement(89..922) /locus_tag="Pnap_5004" /db_xref="GeneID:4686046" CDS complement(89..922) /locus_tag="Pnap_5004" /note="PFAM: replication C family protein; KEGG: sty:HCM1.221 putative replication protein" /codon_start=1 /transl_table=11 /product="replication C family protein" /protein_id="YP_973994.1" /db_xref="GI:121583583" /db_xref="InterPro:IPR010522" /db_xref="GeneID:4686046" /translation="MKPKQNLDHIRHEPGHVLAPGLFRSLKKGDYKRLKLDIAYEFGK GERLEFKGAEPLGVPELRILQGLIGMAGPNGLLLTPEPKTESGQQLRLLLETKFDAIE TNALVVKGSYRALAKTIGYADIENTKNIQESIERLWGVSVIARKGGKHMGFRLLSEYA SDDADGRLYVALNPVLARAILGEAQHCRISLDEVRALKTDPARLMHQRLCGWIDIGKS GKTTIETLCGYIWLDEATPEAMKKRKQAVRRALKEMEALGWKVTEYINGKFEITRPEI G" gene complement(912..1751) /locus_tag="Pnap_5005" /db_xref="GeneID:4686047" CDS complement(912..1751) /locus_tag="Pnap_5005" /note="KEGG: sfx:S2721 putative DNA helicase" /codon_start=1 /transl_table=11 /product="putative DNA helicase" /protein_id="YP_973995.1" /db_xref="GI:121583584" /db_xref="GeneID:4686047" /translation="MTIDILHAFEHQPPPLDFVLPGLLAGTVGSLVSPGGAGKSMLAM ELAILVTCGQDIAGITDGKKYPCGDVAFLAAEDPAVAIQQRLYALGKQIPDPDIRMHV AERLAIEPLLGKQPDIANPEWAAYIKAMAEGKRLMFLDTLRRFHSKEENDSGQMAEVL GRMEAITAATGCAIVFLHHSSKAAAMNGQGDQQQASRGSSVLVDNIRWQMFLAGMNAA EAKKFGVDEELKGYWVRDGVSKQNYGPPYGERWLRRGEGGVLVQGKLEAKPPAKKGGR NEA" gene complement(2033..4519) /locus_tag="Pnap_5006" /db_xref="GeneID:4686048" CDS complement(2033..4519) /locus_tag="Pnap_5006" /note="PFAM: Relaxase/mobilization nuclease family protein; KEGG: bxe:Bxe_A3938 hypothetical protein" /codon_start=1 /transl_table=11 /product="relaxase/mobilization nuclease family protein" /protein_id="YP_973996.1" /db_xref="GI:121583585" /db_xref="InterPro:IPR005094" /db_xref="GeneID:4686048" /translation="MHIKFLPHGTGVGQDAIDYLLGEEDHKGEIRASVEVWRGNPQLT GKLIDSLKTVHRYTSGVINFSPEDAPTDEEIGIVLDEFERTAFSGLERDQYDFCAVVH RESNGGIHIHTIIPRVELTTGKAMNIAPPGWEYTFDPLRDAFNHEKGWARPDDPSRAR LVQQGKAKPEWKSGADKKIVVTDYLTKLVANNVVTDRQGVLKALGELGEITRTTDKSV SIKLEGTNKAIKLQGLLYASDFSPRTIRKVAEEAASRPAGRGRPDEAAARAARQELEN AVQRRAGYNRERYPAPRPRTDLSAPSDAAAAPLDAALADPGQRLPGVVDDGQRQPVEL VDGQPGTTESDELRADPATADGSVLQESSRAEAVQISEPVSEQVKIKKAAYGTVFEPG FKQFAERPSVEPAAGIGGLPDVSSLLVATQWPGASKFLSGAARHNLVRHGGPGAGSVR WERGSDRPTEGEGGTINDRARKIADEAIDQAKRAARATAGALGRCADAAGRAIDAIGR ACRKADAAAPVIKANMDAELDRFKSDISLSDYAQAEFGYELVKKESSASSKVLKVGGD KIIVTRQKDGHDVYFSTGDASDCGSIVDFLQNRKRVNLGEVRKELRQWLPSSKKPSVK RPQRPPERAVATSKDRTEVLRQWATMKPYSASYLTDERRLDPQIIEAFGVRQDSHGNA CIAHRDASGVLGWESKNKGFTGFAAGGTRNVSFTRLNDGPITRLVLTEAAIDAMSFAQ LRHEPGTAYMSTGGTQLSQAQREQIAQIMGKYAVPVVLAMDKDEAGEKMAREIAAMAP ESVQTLREVPEGAKDWNEALQAKQRAMPKP" gene complement(4522..4893) /locus_tag="Pnap_5007" /db_xref="GeneID:4686049" CDS complement(4522..4893) /locus_tag="Pnap_5007" /note="PFAM: mobilisation protein" /codon_start=1 /transl_table=11 /product="mobilisation protein" /protein_id="YP_973997.1" /db_xref="GI:121583586" /db_xref="InterPro:IPR008687" /db_xref="GeneID:4686049" /translation="MPKYPAREPLVLLPCRLPASLVARFAERAREQGVTLSDVLRAHL TVDEAKPLGKAVPRKRAGLAKVSGADPKLLRQLVGMGNNLNQIAKLANIASKTAQPMA MVELLITLKGIEKSLEKLSES" gene complement(5172..5627) /locus_tag="Pnap_5008" /db_xref="GeneID:4686050" CDS complement(5172..5627) /locus_tag="Pnap_5008" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_973998.1" /db_xref="GI:121583587" /db_xref="GeneID:4686050" /translation="MYIREQGKKVQLLRSPYDPEKKRCVQKLAHSFPRSYSYSSTELD TYLSAEQIADLSDDEKKELTEWLTVRSDKNLAESRKSSITMTPYYADQLADNISSDVV DLSEKQADKIWDAMDKLAKAMRKAGYKKPAVKAAPGAQAGSADQPSLTL" ORIGIN 1 ctcttgaagg cgggaacgat aaacaggggg ttggggaacg ataaacaggg ggttggggaa 61 cgataaacag gggttggcgg ataaataatt atccgatttc tggtcgtgta atctcgaatt 121 tcccattgat atattccgtc actttccagc ccagagcctc catctctttc agtgcgcgcc 181 tcactgcttg tttgcgcttt ttcatggctt ctggggtggc ttcatcgagc cagatgtacc 241 cgcaaagcgt ctcaatcgtc gtcttgccgg actttcctat gtcgatccag ccgcagagtc 301 tttgatgcat caatcgcgct ggatcggtct ttaaggccct tacctcgtcc aggctgatcc 361 tgcaatgctg ggcctcgccc aagatcgccc tggccagcac aggattcagt gcaacataca 421 accggccgtc cgcgtcgtcg gacgcgtatt cagaaagcaa gcgaaacccc atgtgttttc 481 cgccctttcg tgcgatgaca gatacccccc aaagacgttc gattgattcc tgaatgtttt 541 tggtgttttc aatatctgcg tagccaatgg tcttggccag cgcccggtaa gaccctttaa 601 ccaccaatgc gtttgtctcg atcgcgtcaa atttggtttc cagtagcaaa cgcaattgct 661 ggccggattc ggttttcggc tctggcgtca gcagtaggcc attgggtcca gccatgccaa 721 tcagtccttg caaaatgcgc agttcgggca ctccaagggg ttcagccccc ttgaactcaa 781 gccgctcacc cttgccgaat tcataggcaa tatcgagctt caaccgtttg taatcacctt 841 ttttgaggct gcgaaacagt ccaggcgcca gtacgtgccc tggctcgtgc cggatatggt 901 caagattttg tttaggcttc attgcgcccg cctttttttg ctgggggttt ggcttcgagt 961 ttgccctgca ccagcacccc gccctccccc cggcgaagcc accgctcgcc gtagggcgga 1021 ccgtaattct gcttgctcac gccgtccctg acccagtaac ccttcagctc ttcatccacc 1081 ccaaattttt tggcctcggc ggcgttcatc ccggccaaaa acatctgcca cctgatgttg 1141 tccacgagta ccgagctgcc gcgtgaagcc tgttgctggt ccccctggcc gttcatcgcg 1201 gccgctttgg atgagtggtg cagaaaaaca attgcgcagc ctgtggcggc tgtaatcgcc 1261 tccatgcgcc ccagcacctc ggccatctgc cccgagtcgt tttcttcttt cgagtgaaag 1321 cgcctaagcg tgtcgagaaa catcaggcgc ttgccctctg ccatggcctt gatgtacgcc 1381 gcccactcag ggtttgcaat gtcgggctgc ttgccaagca atggctcaat ggccagccgc 1441 tcggccacgt gcatgcggat gtctggatcg gggatttgct tgccaagagc gtacaggcgc 1501 tgctgtatcg caactgcggg atcctccgca gcgagaaatg caacgtcacc acaaggatat 1561 tttttcccgt cagtaatgcc cgcgatgtct tggccgcagg tcaccagaat cgccaattcc 1621 atcgcaagca tggacttgcc cgctccacca ggcgaaacca gcgaacccac ggtaccggcc 1681 agcaggccgg gaaggacaaa atccagcggt ggtggctgat gttcgaatgc gtgcagaata 1741 tcaatcgtca tgactcgctc tctctcttta cagttgaaat ttggttgagt tatggcagtc 1801 ccgcggctcg ccacaagccg cgggacaccc ctattctttg tcgttgcagc gatcgatggc 1861 cgcttgcagt cttcccgctg taacccgtcc agcgcgttcc atcacctgat cctgttgttc 1921 agcgctcagg tctttccacc actcgggcat gggggtcaaa agcgttgact cttctccagc 1981 gaatgcctcg acaaattcaa gaatttgagc atcagtaatc atcggttcct ccttatggtt 2041 tgggcattgc ccgttgtttg gcttgtagcg cttcgttcca gtctttggca ccctcaggga 2101 cctccctgag ggtttgaacg ctctcagggg ccattgcagc gatttctcgg gccatctttt 2161 cgccggcctc atccttgtcc attgccagca caacagggac agcgtacttg cccatgatct 2221 gcgcgatctg ctcgcgctgc gcctggctca gctgcgtccc acctgtgctc atgtacgccg 2281 tgcctggctc gtgcctgagc tgcgcgaagc tcatggcatc gatcgccgct tcggtcaaca 2341 ccagcctggt gattggccca tcgttcagcc tggtaaagct cacattgcgc gtgccgcccg 2401 ctgcaaagcc cgtgaagcct ttatttttgg attcccagcc cagcacccca cttgcatcgc 2461 gatgagcaat gcaggcgttc ccatggctgt cctggcgaac gccgaacgcc tcaatgattt 2521 gcggatcgag gcggcgctcg tccgtcagat aggacgcgct gtaaggcttc atcgtggccc 2581 actggcgcag tacctcagtc cgatcctttg aagtcgccac agccctctct ggcggcctct 2641 ggggccgctt gactgaaggc ttcttggagc taggcagcca ctgcctcaat tccttccgca 2701 cctcgcctaa gttgaccctt ttgcggtttt gcaaaaagtc cacgatcgag ccgcagtcgc 2761 tggcgtcgcc agtgctgaaa tacacatcgt ggccatcctt ttggcgcgta acaataattt 2821 tgtcgccgcc caccttcagc accttggagc tggcgctgct ctcttttttc accagctcat 2881 aaccgaactc ggcttgcgcg tagtcggata aagaaatatc cgatttaaag cggtctagtt 2941 ctgcgtccat gttggccttt atgactggag cagctgcgtc agcttttcta cacgctctgc 3001 caattgcgtc aattgctcgg cctgctgcgt ctgcacaccg gccaagcgct ccagctgttg 3061 cgcgtgctgc tcgcttagcc tggtcaattg cttcgtcagc aatctttcta gctctgtcat 3121 ttatcgttcc tccttcgcct tcagttgggc gatcgcttcc tctctcccat cgcactgatc 3181 cggcgccagg tcctccgtgt ctgaccaagt tatgacgtgc agcacccgac aaaaatttcg 3241 aagctccagg ccattgcgta gccacaagga ggctggacac gtccggcaag ccgccgattc 3301 cggcggcggg ttcgacactt ggccgctctg caaactgctt aaaaccgggc tcaaaaactg 3361 ttccatacgc tgcctttttt atcttgactt gttcactcac tggctcgctt atttgcactg 3421 cctctgccct gctggactct tgcaaaactg atccgtcagc cgttgcaggg tcagctcgta 3481 actcatcact ttctgttgtg cctggctgac cgtccaccag ctccacaggc tggcgctggc 3541 catcatcaac aacgccaggc aggcgctggc caggatcggc caaagcagca tccagcggag 3601 ccgctgcagc gtcgcttggt gcagagaggt cagttcttgg ccgtggtgct ggatagcgct 3661 cgcggttgta gccagcgcgt cgctggacag cgttttcaag ctcttggcgt gctgctctag 3721 ctgctgcttc gtcaggtcgt ccacggcctg ctggtctgct tgcagcttct tctgcaactt 3781 ttctgatagt tcttgggctg aaatcactgg catacaaaag tccttgtagt tttatcgcct 3841 tattggttcc ttcgagcttt attgatacgg acttgtcagt ggtgcgtgta atttcaccaa 3901 gttcacctaa tgctttaagc acaccctgac ggtcggtgac aacgttattg gcgacaagtt 3961 ttgtcaaata gtccgtcaca actatttttt tatccgctcc agacttccat tcgggcttgg 4021 cttttccctg ctgaacaagc ctcgcacggc tcggatcgtc aggccgcgcc cacccttttt 4081 catgattgaa agcgtcccgc agcgggtcaa aggtgtactc ccaacctggc ggcgcgatgt 4141 tcatggcttt gccggtggtg agttcgactc taggaataat cgtatggatg tgaatcccgc 4201 cattgctttc gcggtgcaca acggcgcaaa aatcgtattg atctctttca agtccggaga 4261 atgcagtgcg ttcaaattca tccagcacaa tgccaatttc ttcatccgtt ggcgcatctt 4321 caggagaaaa attaattacc ccagacgtgt agcggtgaac agttttaagg ctgtcgatca 4381 attttccagt cagttgcgga ttgccgcgcc agacttccac gctggcgcga atctcgccct 4441 tgtgatcttc ttcaccgagc aaataatcaa tggcatcttg tccaacgcct gtgccatggg 4501 gcaaaaattt gatgtgcatg gtcagctttc actaagcttt tctaagcttt tctcaatgcc 4561 tttgagcgtg atcaaaagct caaccatggc catcggttgc gccgttttgc tggcaatatt 4621 ggccaatttt gcgatttgat ttaggttgtt tcccatcccg acaagctgcc gcagcagctt 4681 gggatctgct cctgaaacct tcgccaagcc cgcccttttt cttggtactg ccttgcccaa 4741 aggcttggcc tcgtccactg tcagatgtgc gcggagcaca tccgacaggg tgacgccctg 4801 ctctctcgca cgctcagcga agcgcgctac cagacttgcg ggcaaccggc aaggcagtag 4861 tacgagcggt tctctggctg ggtattttgg cattttgtat tgtattggct gttaattttt 4921 catccgctta gcggatgagg acttagcagg gtctggggtg caaccccagc aagccccgta 4981 tacaaaaacc gcttggcggt tttgtatacg ggtaggcttg ctaaaggtat caaattttgg 5041 cgatattgtt gagttgaaaa acatggtaac aggtatttcc atccggtgcc agaattcggg 5101 ctccaggctt cgcctctctc cctacggtcg attcaccggg cggtagggag gaggaggttt 5161 tcggggatcc ttcaaagggt caaggatggc tgatctgcgc tcccggcctg ggctcctggt 5221 gccgctttga ctgctggctt tttgtagcct gctttgcgca tcgccttggc cagcttgtcc 5281 atagcatccc agattttgtc ggcttgtttt tctgacaagt ccacgacatc ggatgaaata 5341 ttatccgcca actggtctgc atagtagggc gtcatggtaa tgctgctctt gcgcgactct 5401 gctagatttt tatccgacct tacggttagc cactcagtca gctccttttt ctcatcatcg 5461 gataggtctg ctatctgctc agcggataaa tatgtatcca attcggtaga gctataggaa 5521 tacgatcttg gaaatgaatg agccagcttc tggacgcagc gtttcttttc cgggtcatac 5581 ggtgatcgga gaagctggac ttttttgcct tgttcgcgga tatacattgg atactcctaa 5641 aattgttgat atgcctatat tctatcatgt agttggataa aatagttaat gttgtcattg 5701 tatttttcta tccaataatt ggatgttata gtatccaact attggattat gctttatccg 5761 actattggat aaaattgttt cacgtgaaac aataggaaat tatccgacta taaccgctag 5821 aattttatcc aactatcgga tagatttgca tccaaatgta aatgatgata ttttatccga 5881 cgtctgataa aatttatcca atagttggat aaatttttat cctatatagt gcgttgtttt 5941 tctatcctat agtcggatat atttttatct atagtcggat agttttgttt cacgtgaaac 6001 aatagaaaac tatccaatag ttggataaaa atctatttgt ctataaatga caaatgttac 6061 aattttggat tgatttttat ccaataatcg gatagtattt tatccaaaaa tagctggata 6121 attaaacacc atttaatatg atgtaaaatc atccaataat tggatagaat tttatctgtt 6181 gttttttaga taatatttca tccgctagtt ggatagaatt ctttcagact aggtgatttt 6241 cgttaatttg cttaaaaaat aggcaacaac cggcctatgc aatgcacccg cccgccacct 6301 cttcctccct accgcccggt gaatgacgcg aagcggcaga ggcgaagcct ggagcccgaa 6361 ttttggtgtt tggcaaggcc agtcgagcgc taaaagcgcg ctggctgtgc tgcgcatgtg 6421 gatgatcttg gatagatcat ggatgaaccc cgtttttcg //