LOCUS NC_014317 5611 bp DNA circular BCT 01-JUL-2010 DEFINITION Nitrosococcus watsoni C-113 plasmid pNWAT02, complete sequence. ACCESSION NC_014317 VERSION NC_014317.1 GI:300067537 DBLINK Project: 50331 KEYWORDS . SOURCE Nitrosococcus watsonii C-113 ORGANISM Nitrosococcus watsonii C-113 Bacteria; Proteobacteria; Gammaproteobacteria; Chromatiales; Chromatiaceae; Nitrosococcus. REFERENCE 1 (bases 1 to 5611) AUTHORS Lucas,S., Copeland,A., Lapidus,A., Cheng,J.-F., Bruce,D., Goodwin,L., Pitluck,S., Malfatti,S.A., Chain,P.S.G., Land,M., Hauser,L., Kyrpides,N., Ivanova,N., Cambell,M.A., Heidelberg,J.F., Klotz,M.G. and Woyke,T. CONSRTM US DOE Joint Genome Institute TITLE Complete sequence of plasmid2 of Nitrosococcus watsoni C-113 JOURNAL Unpublished REFERENCE 2 (bases 1 to 5611) CONSRTM NCBI Genome Project TITLE Direct Submission JOURNAL Submitted (30-JUN-2010) National Center for Biotechnology Information, NIH, Bethesda, MD 20894, USA REFERENCE 3 (bases 1 to 5611) AUTHORS Lucas,S., Copeland,A., Lapidus,A., Cheng,J.-F., Bruce,D., Goodwin,L., Pitluck,S., Malfatti,S.A., Chain,P.S.G., Land,M., Hauser,L., Kyrpides,N., Ivanova,N., Cambell,M.A., Heidelberg,J.F., Klotz,M.G. and Woyke,T. CONSRTM US DOE Joint Genome Institute TITLE Direct Submission JOURNAL Submitted (21-JUN-2010) US DOE Joint Genome Institute, 2800 Mitchell Drive B310, Walnut Creek, CA 94598-1698, USA COMMENT PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence is identical to CP002088. URL -- http://www.jgi.doe.gov JGI Project ID: 4082961 Source DNA and organism available from Martin G. Klotz (martin.klotz@louisville.edu) Contacts: Martin G. Klotz (martin.klotz@louisville.edu) Tanja Woyke (microbe@cuba.jgi-psf.org) Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-PGF 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). ##Metadata-START## investigation_type :: bacteria_archaea project_name :: Nitrosococcus watsoni C-113 collection_date :: N/A depth :: N/A alt_elev :: N/A country :: N/A num_replicons :: N/A ref_biomaterial :: N/A biotic_relationship :: Free living rel_to_oxygen :: Aerobe assembly :: N/A finishing_strategy :: N/A trophic_level :: Autotroph, Chemolithotroph environment :: Marine GOLD Stamp ID :: Gi05339 rel_to_oxygen :: Aerobe Motility :: Motile Temperature Range :: Mesophile Gram Staining :: gram- Diseases :: None Phenotypes :: Carbon sequestration ##Metadata-END## COMPLETENESS: full length. FEATURES Location/Qualifiers source 1..5611 /organism="Nitrosococcus watsonii C-113" /mol_type="genomic DNA" /strain="C-113" /db_xref="taxon:105559" /plasmid="pNWAT02" gene complement(31..1088) /locus_tag="Nwat_3188" /product="hypothetical protein" /pseudo /db_xref="GeneID:9389637" gene 1459..1935 /locus_tag="Nwat_3189" /db_xref="GeneID:9389636" CDS 1459..1935 /locus_tag="Nwat_3189" /inference="ab initio prediction:Prodigal:1.4" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_003762223.1" /db_xref="GI:300067538" /db_xref="GeneID:9389636" /translation="MKDPTKLKQKFWQAVEATPEDRREELLQLVQTFAVNAKQQPAHP LPTNLKEMRKLGIKLYPEFKQETGSTDSEKCLRQNWGEWLKAYNPKLDRDYMSLADIR KLDPQLLGRLKKQYKTDELHKFLPSLPLVNKQIANNMTDDERREIGRLNALYYTHV" gene 2022..2333 /locus_tag="Nwat_3190" /db_xref="GeneID:9389631" CDS 2022..2333 /locus_tag="Nwat_3190" /inference="ab initio prediction:Prodigal:1.4" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_003762224.1" /db_xref="GI:300067539" /db_xref="GeneID:9389631" /translation="MKTFWTDKEIENFLTRETRTVQLPEGRRRTVNCFHLTWRQLDGL LHYNIFSEEWYADHAEKIAQESRRFDFAQCFAWVIAYSFSDMKLLAYGGGIPSARAPL I" gene complement(2559..2840) /locus_tag="Nwat_3191" /db_xref="GeneID:9389632" CDS complement(2559..2840) /locus_tag="Nwat_3191" /inference="protein motif:TFAM:TIGR02607" /note="TIGRFAM: addiction module antidote protein, HigA family; PFAM: helix-turn-helix domain protein; KEGG: dma:DMR_43730 Xre family DNA-binding protein; SMART: helix-turn-helix domain protein" /codon_start=1 /transl_table=11 /product="plasmid maintenance system antidote protein, XRE family" /protein_id="YP_003762225.1" /db_xref="GI:300067540" /db_xref="InterPro:IPR001387" /db_xref="InterPro:IPR013430" /db_xref="GeneID:9389632" /translation="MSMKNPPHPGHCVKLDCLDPLGLSVTEGAKVLGVTRQALSNVIN GKAGISAEMAIRLSQAFGGTPDVWLRMQTAYALAQAKQKNIQVERFEHA" misc_feature complement(2643..2780) /locus_tag="Nwat_3191" /note="Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093" /db_xref="CDD:28977" misc_feature complement(order(2706..2711,2721..2723,2730..2732, 2763..2768)) /locus_tag="Nwat_3191" /note="sequence-specific DNA binding site [nucleotide binding]; other site" /db_xref="CDD:28977" misc_feature complement(2712..2714) /locus_tag="Nwat_3191" /note="salt bridge; other site" /db_xref="CDD:28977" gene complement(2858..3136) /locus_tag="Nwat_3192" /db_xref="GeneID:9389633" CDS complement(2858..3136) /locus_tag="Nwat_3192" /inference="protein motif:PFAM:PF05015" /note="PFAM: plasmid maintenance system killer; KEGG: ppd:Ppro_3837 plasmid maintenance system killer" /codon_start=1 /transl_table=11 /product="plasmid maintenance system killer" /protein_id="YP_003762226.1" /db_xref="GI:300067541" /db_xref="InterPro:IPR007711" /db_xref="GeneID:9389633" /translation="MIENFKDRRLKRLYERADRSKIQADLVDKVERILARLEQALVIE DMDLPGYRLHSLKGDLKGFWSVSISGNWRVIFRFENGKARDVEMIDYH" misc_feature complement(2861..3136) /locus_tag="Nwat_3192" /note="Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422" /db_xref="CDD:120640" gene complement(4185..5066) /locus_tag="Nwat_3193" /db_xref="GeneID:9389634" CDS complement(4185..5066) /locus_tag="Nwat_3193" /inference="protein motif:PFAM:PF07042" /note="PFAM: TrfA family protein; KEGG: app:CAP2UW1_4480 hypothetical protein" /codon_start=1 /transl_table=11 /product="TrfA family protein" /protein_id="YP_003762227.1" /db_xref="GI:300067542" /db_xref="InterPro:IPR010751" /db_xref="GeneID:9389634" /translation="MDTYDPALQRRLESLEEAAKARQWKQTAEQPKSADIIQLPLWPE PARGVPNSTLRGALFAAIQGKNRQALKRAVLSAQNGIEIRFTGWQLDQSDLDVWEQVL HLARQHPLGTRCDFTAHAFLKSLGRSAGKPMHEWLKDVFARLAGAVVEITHNRKTYFG PLIEGGVRDEASGLYTLKLNPELVKLYGAGMWTAIDWKERQKLRRKPLALWLHGFYAS HAESYPMKLETLRLLSGSRTRDLWKFKQNLVKAFQELKAVGVIRNFEIRDGLVYVVNV PSASQQKHLRKPKPRKK" misc_feature complement(4251..5030) /locus_tag="Nwat_3193" /note="Replication initiator protein A; Region: RPA; cl02339" /db_xref="CDD:154863" gene complement(5102..5542) /locus_tag="Nwat_3194" /db_xref="GeneID:9389635" CDS complement(5102..5542) /locus_tag="Nwat_3194" /inference="ab initio prediction:Prodigal:1.4" /note="KEGG: met:M446_3915 hypothetical protein" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_003762228.1" /db_xref="GI:300067543" /db_xref="GeneID:9389635" /translation="MSYTLGEAAKAAGKSKTTIKRALDKGRISGKKNEIGEWEIEPVE LHRVYPKIEPGTVTAGIPESTPGNGALQARLDAAEREAALLREQHDRERRQLESTIED LRADRDQWRQQATALLPDQREKEARQQPTGGRIARAWAALTGKA" ORIGIN 1 aaaagctcca ttgcaccgcc atggaccgcg ctaccgctcc agctccgggc catcatcccg 61 gccccattcc cgtgcttgtt tccgcgcctt ttcttgagcc tgccggaact cctccaccag 121 tgccgcccgt ctttcggcct gcgcttgctc ctgcgccgga ctctccggcg gtccctgtgg 181 cggcgcttcc cagttaaaag cgggtccggc ctgccgcgcc ggggttggtg ggggttgcgg 241 tagtgtcggc ctgcgctgcg cggccatgtt ttcccgaaac tccgccacct taagccgaga 301 cgggtctgcc cgttgccggg tctgttcagc ggcaagggct tcttccacgg tggcgcgttg 361 ctgttccagc cacgacagcg cccgattacc gcgctctacc gcccggttgt gatcgccggc 421 gcgggtggac tggccccgcc gttccatggc cgtgaccgcc gggccaaggt gccgggtggc 481 ttcccggaaa atcccctgcg cctgcaaggt ccgggagtca atccggtctt tgaacccatg 541 gcgttctaat gcttggttga cgcactgcgc ccagttctcg cgccattgag ccaaggtggc 601 tttatcgttc cagctctggg gcttctgggc cttgaagccg ttccgggtca ggggccttgt 661 ggtgagcaaa atatgggcgt gaatgttgcg gctatcgcct ttttcatccg cgccgtgaat 721 atccacctgc gccgccatgc cccgccggat atagttttcc tcaacaaagc gatggagcaa 781 gcttcggttt tgttcaaggg tcagttcatg gggcagggcc acgatatttt cacgggccac 841 gcggctgtct ttgcgattct cggcctgctc ggcggcgttc cataaacggg cggactcttt 901 ggcccagtcc ggggcgcggg ccggggtcaa aatcgcatgg tctaaaacgc cgtggcggtt 961 ccggtagtcg tgggtttccc cggtgcgcgt gtccgtaatc tcaagcccgg cccggtaggc 1021 tgccgccgcc gtggcgctgc gcccggcgct ccggccaata tcccgatttt aaaatgataa 1081 atcgccacca gcctttaact ctattcgcgg cccgccgcga acccaaaggg gggtcctttc 1141 aggggggaag gttcccggcg gctgcgccgc cttattgtcg tccccgaagg ggcggcaatc 1201 gcaccatgtt gctggcaaca tgtaaatgcc cttaatggaa tttaaacccc cggctccacg 1261 gttcgttttc gggccgccgt tatttttaag tgaatcgggg ccgagtgtag ccctcgccct 1321 ttccaagacg caagcccaat acctcacctc caaacacagg ggcaatttcc gtgcgcggga 1381 tagccaaaaa atattgacaa ggggtaaacc gattctttat gggaaacact gaaataaccc 1441 gcaacccaag aggatggatt gaaagaccct actaaattaa agcagaaatt ctggcaggcc 1501 gtcgaagcaa ctcccgaaga ccgccgtgaa gaacttcttc aacttgtaca gacattcgcg 1561 gtaaacgcca aacaacaacc agcgcatcct ctgccgacca atctaaaaga aatgcgcaag 1621 ctggggataa aactctaccc cgagttcaaa caggagacgg gaagcacgga ttcagaaaaa 1681 tgtctgcgcc agaactgggg cgaatggctc aaagcatata atccaaagct ggaccgtgac 1741 tatatgagcc tagcggacat aaggaagctt gatccgcaat tattaggaag actaaaaaaa 1801 caatataaaa cagatgaatt gcataaattt ttaccaagcc ttcccttggt caataagcaa 1861 atagctaaca atatgacaga cgatgaaagg agagaaattg gaagattaaa tgccctatat 1921 tacacacacg tataattttt tactctacag gatattttcc atccaaaaac accgatattt 1981 ttttcttgcg gcaaagtttt atttgcccgt aatctgaaag gatgaaaact ttttggaccg 2041 acaaggaaat tgaaaacttt ctgacgcgag aaacccgcac cgtgcagttg ccggaaggca 2101 ggcggcgaac cgtaaactgt ttccatctta catggcgcca gctcgacggg ttgctgcatt 2161 acaatatctt tagcgaagaa tggtatgccg atcatgccga gaaaatcgct caagaaagcc 2221 gccgctttga cttcgcgcag tgtttcgcct gggtgatcgc ctacagcttt tcagatatga 2281 aactcctggc ctatggcggg ggcataccct ccgctcgagc gcccctcatc taatcaaaat 2341 attcaggcac gttcagtcat tttcccgcca gctattcgca tttttcagca agtaaatttg 2401 ccgccttcgg cgacgttttt tacttccatt ttgaagtacc gcgccgcctt ttgtcataag 2461 ctcgcgccat tattttccgg caacttcaaa caggttttcg tattgtcgtt tatcacgcaa 2521 tcgaaacctt tccggtgggc ttcatatttt tcccttttct aggcatgttc aaaccgctcc 2581 acctgaatat ttttctgctt ggcctgcgcc agtgcgtaag ccgtttgcat tctcagccaa 2641 acatccggcg taccgccaaa cgcttgggaa agccgaatag ccatttcagc ggaaatcccc 2701 gccttaccgt taatcacatt gctgagcgcc tgccgggtca cgccaagcac tttagcccct 2761 tccgtcacgg aaaggccaag cgggtccaga caatccagct tcacacaatg gccgggatgg 2821 ggtgggtttt tcatagacat agctatttcc tttcaagcta gtggtaatca atcatttcaa 2881 catcacgggc tttgccgttt tcaaaacgaa aaattacgcg ccaattccct gaaatgctga 2941 cactccaaaa accttttaaa tcccctttaa ggctatgcaa acgataaccg ggcaaatcca 3001 tatcctcaat gacaagcgct tgctccagcc gcgctaaaat acgttccacc ttatcgacca 3061 aatcagcctg tatcttgctg cggtctgccc gttcgtaaag gcgttttaac cttcggtcct 3121 tgaagttttc tatcataccc tatctgtaaa gcgtcaatag ccgcttgtca aacaaaaacg 3181 gttgtaatgg cgtccgctga cgcggacaag tggcgttttg cggggcgctc gccgcccccg 3241 cacccccggc aggtattgat gccacagtga taaccggata aggtcagcaa tgcggtacag 3301 actgaggagc ccatgaccgc ccacggtgat aacaccacct aagcccggcg cttgctcacc 3361 tccctttctg gagcaaggcc gggcaaaggg atgaaaaacc cgacaagcaa gaaaaacccc 3421 tttcccttgt gtctggaagg gtcctcaaaa ggccatattc gccccgtagg gctgttattg 3481 gatgatgacc gctacccttg tagcgcctag ccccttaaaa cgtctctaca agctccctgt 3541 gcgctctgag ggatattcaa aggcactact ctctccccac gctttccctg ccaagccttt 3601 tttaggctat cggccagctc tatctttccc ccgtcaaggg tggcgggcga aaaatcgcgg 3661 agggtccgcg ttagcggaaa ccgctgtttt tggcaccgcc aagcaaagcg gcccttggac 3721 ggcctgctaa aaaatagcct gtcatcaggg gttcagggct tttcgcctga acccctgcct 3781 tccggcgagg aggggggaat tgaccgcgct agcgggcaag gggggcaacg cccccggtca 3841 aaagggaaca attccgagcg tgagcgaggg ccttttgcaa gcgtcagcgc gcagcgccga 3901 caggcgcgaa ggacgaagcc ccaaattgca aagttatcca cagcctgact cgcccgcgcg 3961 gattaaatat agattaagaa aagattagtg aaaaaacaaa aatcgcgtaa gcgattgaaa 4021 ataaatggat aatgggcggt tttttttgga cctgcctacc tcgaactacg tgcctgccta 4081 cctcgaacta cgtgcctacc tacctcgaac tacgtgccta cctacctcga actacgtgcc 4141 tgcctacctc gaactacgtg cctacctacc tctaacaccg tgcgttattt tttacggggt 4201 ttaggcttgc gcaaatgctt ttgctggctg gcgcttggca cgttcaccac atagacaagc 4261 ccgtctctga tttcaaaatt acgaatcacg cccacggctt tgagctcctg aaaagctttg 4321 accaagtttt gcttgaactt ccataaatcc cttgtccggc tgccactcag caggcgtaaa 4381 gtttccagtt tcatcggata cgattcggca tgactggcgt aaaaaccatg caaccatagc 4441 gccaaaggtt tacggcgtaa cttctggcgt tccttccaat caatcgctgt ccacatccct 4501 gcgccatata atttgactaa ttcaggattc aatttcaggg tatagagtcc gctagcctca 4561 tctcttacgc ccccttcaat caaaggacca aagtaggttt ttctgttatg tgtaatttca 4621 acgacggctc ctgccaatcg cgcaaaaaca tcctttagcc actcatgcat gggcttcccg 4681 gcactacgtc caagagattt caaaaaagca tgagccgtaa aatcgcagcg cgttccaagc 4741 gggtgctgcc gcgccaagtg caatacttgc tcccacacat ccaaatccga ttgatccagt 4801 tgccagcctg taaagcgaat ctcgataccg ttttgagccg atagcactgc acgtttaagc 4861 gcttgccgat tcttgccctg aatggccgcg aacaacgcgc cccgcaaggt ggaattgggc 4921 acacctcgcg ccggttctgg ccacagggga agctggataa tgtcggcgct tttgggctgc 4981 tctgctgtct gtttccactg gcgggccttg gccgcttctt ccaaagattc aaggcggcgc 5041 tgcaaggcgg gatcgtatgt gtccatgggc ttatcctttc tgctgatttc agtagggcca 5101 tttatgcctt gcctgtcaat gctgcccatg cacgggcgat tcggccccct gtcggctgct 5161 ggcgggcttc cttttcccgc tgatcgggca gtaacgccgt ggcttgctgc cgccactggt 5221 cccggtcagc tcgtaaatcc tcaatagtgc tttccagttg ccgccgctcc cggtcatgtt 5281 gttcccgcag caaggccgct tcccgctctg ccgcgtcaag ccgcgcctgt aatgccccgt 5341 taccgggtgt actttctggt atgcctgccg tcactgtacc gggttctatt ttgggataaa 5401 cccggtgcag ttctacaggc tcgatttccc attctcctat ttcattcttt tttcctgaaa 5461 tacggccctt atcaagcgcc cgcttgatag ttgttttgct ctttcctgct gcttttgcag 5521 cttctccaag ggtataactc ataggggttg cgtgtcgttc cgttaagggt ttcccttatc 5581 tgttacccct gtacctctat caagtcaata a //