LOCUS       NC_008764               6459 bp    DNA     circular BCT 11-JAN-2007
DEFINITION  Polaromonas naphthalenivorans CJ2 plasmid pPNAP08, complete
            sequence.
ACCESSION   NC_008764
VERSION     NC_008764.1  GI:121583582
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  JOURNAL   Unpublished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="InterPro:IPR010522"
                     /db_xref="GI:121583583"
                     /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="InterPro:IPR005094"
                     /db_xref="GI:121583585"
                     /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="InterPro:IPR008687"
                     /db_xref="GI:121583586"
                     /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
//
