LOCUS NC_006969 4367 bp DNA circular BCT 22-FEB-2010 DEFINITION Rhodococcus opacus B4 plasmid pKNR01, complete sequence. ACCESSION NC_006969 VERSION NC_006969.2 GI:226315872 DBLINK Project: 13791 KEYWORDS . SOURCE Rhodococcus opacus B4 ORGANISM Rhodococcus opacus B4 Bacteria; Actinobacteria; Actinobacteridae; Actinomycetales; Corynebacterineae; Nocardiaceae; Rhodococcus. REFERENCE 1 AUTHORS Na,K.S., Nagayasu,K., Kuroda,A., Takiguchi,N., Ikeda,T., Ohtake,H. and Kato,J. TITLE Development of a genetic transformation system for benzene-tolerant Rhodococcus opacus strains JOURNAL J. Biosci. Bioeng. 99 (4), 408-414 (2005) PUBMED 16233810 REFERENCE 2 AUTHORS Takarada,H., Sekine,M., Hosoyama,A., Yamada,R., Fujisawa,T., Omata,S., Shimizu,A., Tsukatani,N., Tanikawa,S., Fujita,N. and Harayama,S. TITLE Comparison of the complete genome sequences of Rhodococcus erythropolis PR4 and Rhodococcus opacus B4 JOURNAL Unpublished REFERENCE 3 (bases 1 to 4367) CONSRTM NCBI Genome Project TITLE Direct Submission JOURNAL Submitted (02-APR-2009) National Center for Biotechnology Information, NIH, Bethesda, MD 20894, USA REFERENCE 4 (bases 1 to 4367) AUTHORS Sekine,M., Hosoyama,A., Kosugi,H., Yamada,R., Matsuo,Y., Tsukatani,N., Fujisawa,T., Takarada,H., Omata,S., Kishi,E., Shimizu,A., Koga,C., Saito,S., Nakazawa,H., Sekigawa,T., Nishiko,R., Takeyama,M., Tanikawa,S., Tago,S., Fujita,N., Kato,J., Na,K.S., Ohtake,H., Nagayasu,K. and Harayama,S. TITLE Direct Submission JOURNAL Submitted (30-MAR-2009) Contact:Director-General Department of Biotechnology National Institute of Technology and Evaluation, NITE Genome Analysis Center (NGAC), Department of Biotechnology; 2-49-10 Nishihara, Shibuya-ku, Tokyo 151-0066, Japan URL :http://www.bio.nite.go.jp/ COMMENT PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from AP011119. On Apr 2, 2009 this sequence version replaced gi:62739041. Kato,J., Na,K., Ohtake,H. and Nagayasu,K. are at Department of Molecular Biotechnology, Hiroshima University. Rhodococcus opacus B-4 strain was isolated as a benzene-tolerant bacterium (Kyung-su Na et al 2005). The complete genome analysis of R. opacus B-4 was carried out by NITE. The genome analysis indicated that this strain has one linear chromosome, two linear plasmids pROB01, pROB02, and three circular plasmids pKNR, pKNR01, pKNR02. The nucleotide sequence of the linear plasmid pKNR01 was previously determined independently by Kato et al and was registered with the accession number AB193159, which is now merged with this record with the permission of Dr. Kato. The differences between the entry AB193159 and this record are as follows. 'A' was deleted between positions 2211 and 2212. 'T' was deleted between positions 2329 and 2330. 'G' at position 2719 replaced 'C'. This work was supported by New Energy and Industrial Technology Development Organization (NEDO). Please visit our web site. URL:http://www.bio.nite.go.jp/ DOGAN ; Database of Genomes Analyzed at NITE The database contains genome sequence data, physical maps and the genomic and proteomic data of the microorganisms analyzed. URL:http://www.bio.nite.go.jp/dogan/Top The microbial genomic DNA clones used for the sequencing project are available through the NBRC. URL:http://www.nbrc.nite.go.jp/e/index.html. COMPLETENESS: full length. FEATURES Location/Qualifiers source 1..4367 /organism="Rhodococcus opacus B4" /mol_type="genomic DNA" /strain="B4" /db_xref="taxon:632772" /plasmid="pKNR01" gene complement(join(4254..4367,1..285)) /locus_tag="ROP_pKNR01-00060" /db_xref="GeneID:7803028" CDS complement(join(4254..4367,1..285)) /locus_tag="ROP_pKNR01-00060" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002784547.1" /db_xref="GI:226315876" /db_xref="GeneID:7803028" /translation="MGDAAGDRHRRVGRSGRGFEHPEHNGLGLDDPLTFGSDLFSGSK LNMRECQFSFEFGDPTGGLGRPLHMVMNRVVNRVGRGGSVRVQSSSQQVVDPNRPALL RFDRTGQLACLNAAEQGCPTDPCTPSRLGQ" gene complement(367..648) /locus_tag="ROP_pKNR01-00010" /db_xref="GeneID:7803030" CDS complement(367..648) /locus_tag="ROP_pKNR01-00010" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002784548.1" /db_xref="GI:226315873" /db_xref="GeneID:7803030" /translation="MKPRDGRRDDAQFDLFNHLRKWTYSAHQSFEGDGQSWLDEVTEV AEEFHDKLLSCRLDPMPTQLIHDLAADCAVWTWETMHTGIVTSAENSSS" gene complement(912..1178) /gene="repB" /locus_tag="ROP_pKNR01-00020" /db_xref="GeneID:3354728" CDS complement(912..1178) /gene="repB" /locus_tag="ROP_pKNR01-00020" /codon_start=1 /transl_table=11 /product="replication protein RepB" /protein_id="YP_227548.1" /db_xref="GI:62739042" /db_xref="GeneID:3354728" /translation="MGAAERVMRRTQTAQELADKFGVSKSTIKRLVAEDRGDYIARAQ ERRKKAVELRKQGLKYRQIADQMNISTGSVGTLIRQARIHGEMD" misc_feature complement(927..>1046) /gene="repB" /locus_tag="ROP_pKNR01-00020" /note="Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cl01055" /db_xref="CDD:197420" gene complement(1178..2092) /gene="repA" /locus_tag="ROP_pKNR01-00030" /db_xref="GeneID:3354727" CDS complement(1178..2092) /gene="repA" /locus_tag="ROP_pKNR01-00030" /codon_start=1 /transl_table=11 /product="replication protein RepA" /protein_id="YP_227549.1" /db_xref="GI:62739043" /db_xref="GeneID:3354727" /translation="MTAAVDAWLDRWRFKYPHATDDYVRDGQWPQPRAEALTRRYIAA RTPSIRLGLVLDVDDDQAQWAARNADLPDPTVMTINPATEHAHLWWLLESPVYTLQAA RQGPLRLYDRVNQGLIASVVGADQGYAQQLTQNPIHPHWTTVWGPSDPYSLKGLAKAL GDRFPAPPDYGRKTQVRTETGRNVELFDRTREWAYREIRKQNYPSITVWRQMVTDFTA LTNFTLDANDGIGPMSRAEAEQIGKSVAHWTHRTFTAAEFSKIQARRGKVSSSAKTEA VRKNATAPRPKLKKVDRSALFAAAEGTD" misc_feature complement(1610..2002) /gene="repA" /locus_tag="ROP_pKNR01-00030" /note="Replicase family; Region: Replicase; pfam03090" /db_xref="CDD:111931" misc_feature complement(1340..1579) /gene="repA" /locus_tag="ROP_pKNR01-00030" /note="Primase C terminal 1 (PriCT-1); Region: PriCT_1; pfam08708" /db_xref="CDD:149687" gene 3257..3841 /locus_tag="ROP_pKNR01-00040" /db_xref="GeneID:7803031" CDS 3257..3841 /locus_tag="ROP_pKNR01-00040" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002784549.1" /db_xref="GI:226315874" /db_xref="GeneID:7803031" /translation="MTTPRCPRCDREIESNTSAVHGRGRPRKWCSDECRKLASEERRA AERGIVAVELRERVVEVEKVVHRPATTAASIDRVLDDDQALQKLLNTLRHRIKEGTYR PNRDPGTAMWMLQRLTAPVADLLAQIHSSAGTTPPMDPAQAVRTVLHSPRSCRAVLEG LERMARSGELDGGQHTATLIALDRLVARTRRQSR" gene 3936..4118 /locus_tag="ROP_pKNR01-00050" /db_xref="GeneID:7803029" CDS 3936..4118 /locus_tag="ROP_pKNR01-00050" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002784550.1" /db_xref="GI:226315875" /db_xref="GeneID:7803029" /translation="MMDLDAQVAVLRDQLNALGRQVREVTEAAGEQDKPDVVDALADV RMHLNDAAAVLGDVIV" ORIGIN 1 gtcgacgacc tgctggctgc tggactgcac ccggacagac ccgccccgcc cgaccctgtt 61 cacgaccctg ttcatgacca tgtgcagcgg ccgcccgagg ccgcccgtcg gatcaccgaa 121 ctcgaacgag aactggcact cgcgcatgtt cagcttgctg ccgctgaaca ggtcgctgcc 181 gaacgtgagc gggtcatcca agcccaggcc gttgtgctcc ggatgctcga agccgcgccc 241 agaccggccg actcgccgat gccggtcgcc ggcggcgtcg cccacaccaa cccaccgccg 301 gctgaagaac cgccggccac cctttcaccc gatcggcggg cggaaccggg caatcccctg 361 acctggctac gaagacgaat tctcggctga ggtcacgatt cccgtgtgca tcgtttccca 421 cgtccacact gcgcagtcgg ccgcgaggtc atggatcagt tgggtaggca tcgggtcgag 481 gcggcacgaa agaagcttgt cgtggaattc ctccgccacc tcggtgacct catcgagcca 541 gctctgtccg tcgccctcga agctttgatg cgcggagtac gtccactttc tcaggtggtt 601 gaacagatca aactgcgcgt cgtcccggcg gccgtcacgt ggtttcaccg gccgatgctt 661 acgaggttcc ggtgttgcgg caggtggttt cggtttcgcg ggtggtgtct tccggggtgg 721 aggtgtccgg gcgggggcat gccaccggca cggccccttg cctccggttg cgataatgca 781 ttgtgtccca tcatctttga gcgccccgca ttggcgttcc ggagcatgtg tcgggcacac 841 atcgcggcct gccaaggctg gatgaccgca taggtcacca gttctggtct gtccgatgca 901 ttgcaacggt ttcagtccat ctcgccgtgt atgcgggcct gacggatcaa cgttcccacc 961 gagccagtcg agatgttcat ctggtcggcg atctgccggt acttcaaacc ttgtttgcgc 1021 agttccacag ccttcttgcg gcgttcctgc gcacgagcga tgtagtcgcc tcggtcttcg 1081 gcgacgagcc gtttgatggt gcttttcgag acgccgaact tgtcagccaa ctcctgcgcg 1141 gtctgcgtgc gacgcatcac gcgttctgca gcacccatca gtccgtcccc tctgctgctg 1201 cgaacagtgc cgatcgatcg accttcttga gcttcggccg cggcgcggtg gcgttcttcc 1261 gtaccgcttc cgtttttgcg ctgctgctca ctttgccgcg gcgtgcctgg attttcgaga 1321 actcggcggc ggtgaaggtg cggtgggtcc agtgggcgac tgatttgccg atctgctcgg 1381 cctcggcccg actcatgggg ccgatcccgt cgttggcgtc gagggtgaag ttggtcaggg 1441 cggtgaagtc ggtgaccatc tgccgccaca cagtgatcga cgggtagttc tgtttccgga 1501 tctcgcggta ggcccattcc cgggtgcggt cgaacagttc gacgttccgg cccgtttcgg 1561 tcctgacctg tgtcttgcgg ccgtagtccg gtggggcggg gaaacggtca ccgagcgctt 1621 ttgcgaggcc tttgagcgag tacggatccg agggacccca gaccgtcgtc cagtgcgggt 1681 ggatcgggtt ctgggtgagc tgctgcgcgt agccctgatc ggcgccgacc accgaggcga 1741 tcagcccctg gttcacccgg tcgtagagcc gcagcgggcc ctgtcgggct gcctggaggg 1801 tgtagaccgg gctttcgagc agccaccaca ggtgcgcgtg ctcggtcgcg ggattgatcg 1861 tcatcacggt cggatcgggc agatccgcgt tacgtgcggc ccactgcgcc tggtcgtcgt 1921 ccacgtcgag caccaagccc aacctgatcg acggggtgcg ggccgcaatg tagcggcggg 1981 tgagcgcctc cgcgcgcggc tgcggccact gcccgtcccg gacgtagtca tccgtcgcgt 2041 gcgggtattt gaaccgccag cggtccaacc aggcgtcaac agcagcggtc atgaccgcca 2101 agctagggcc ggatctgtac cgatcggggg aggcgcgccg caaattattt aagagtctcg 2161 ctagcaaacc atgtcaggtg ttgcggtggg ttccgggtaa acctccaccc gaattattta 2221 agagtctcgc tagctaagcc ctatctgatg ctgcgcgggg ggtccttcgc actgaatctc 2281 aaaggtggcc ggctgaattt cgtcgcgcga aaacctccct ggacagttct ggaattcagc 2341 aagaggtgtg tctgaacttc ggtgtttttt tggggggtga ctccagcggg gtgggcacaa 2401 cgcgaacaga gaccttgtgt gtacgacggc gggaggtaag tcgggtacgg ctcggactgc 2461 ggtagagcaa ccgtcgaatc gatttcgagc agagcgagca gagcaagata ttccaaaact 2521 ccggggttcc tcggcggcct cccccgtctg tttgctcaac cgagggagac ctggcggtcc 2581 cgcgtttccg gacgcgcggg accgcctacc gctcgagcac cccgagagcg acggaggctc 2641 ccgggacccc gcccgtgcgg agagcaagat aggcacttac ctgacgtaag tgaggagtga 2701 cggtgcgcga gcggtcgcgc accgttggtg ttgtttcggg cggagcaaga tggagactta 2761 ggtgccctaa gtcgtcggag cccggttcgg ggcgctgcgc tgggccggtg gaacctggtg 2821 agcgcttaca gcgtcgggca gatgcgcgaa ctgtccgatc acctcccaca ggcaccggtg 2881 cagatctgcg gctgcccggg actcgggtgc ggtaacagtg tccgattccg gagaccacga 2941 gatctgtggg tcgatgtgag agacggcgcg gctcaatccg cgcgcccatt cccgcagacc 3001 ggtgtcatcg acgaacgggt cccaggcgcg gatccacgcc gacaacgccg gccaccgcag 3061 ttcgtcactc accaccgaac acctcaacac gtctccgact ttgctagaga tccgatctgt 3121 tgccgtcatc cgcgagtagt gaaagttccg agcaagcctc gttcgaacag gcacaaccag 3181 ccatacaccg acacacctct tgcactcagg agtgaataga gggctatttt cgcgcgacga 3241 aattaggatc gcggctatga cgacaccgcg atgcccccgc tgtgaccgcg agatcgagag 3301 caacaccagc gccgtgcacg gtcgcggccg gccgcgaaag tggtgctcgg acgagtgccg 3361 caaactcgcc tcggaggaac gccgcgcggc cgaacgcggc atcgtcgcgg tggagttgcg 3421 cgagcgggtg gtcgaggtcg agaaggtggt gcaccggccg gccacgacgg ctgcatccat 3481 cgaccgcgta ctcgacgacg accaggcgct gcagaaactg ttgaacacgc tgcggcaccg 3541 catcaaggaa ggcacctacc gacccaaccg tgaccctggg actgcaatgt ggatgctgca 3601 gagactcacg gctcccgtgg ccgatctgct cgcccagatc cactccagcg ccggcaccac 3661 cccgcccatg gatccggcgc aggccgtgcg aacggtgctc cactcgccac gctcatgccg 3721 cgcggtcctg gaaggcctcg aacggatggc ccgctccggt gagctcgacg gcggccagca 3781 caccgccact ctgatagctc tcgacaggct cgtagcccgc acccggcggc agagccggta 3841 gaaaacgggc tgccgcggca ccgctgcgcg ctgccttgcc accgaaaaca agttcgccga 3901 catgcccgca agcttcagac cgaaggagtg atcgcatgat ggatctagac gcacaggtag 3961 ccgtattgcg cgatcagttg aacgccctcg gccgccaggt ccgcgaagtc acagaggccg 4021 ccggcgagca ggacaagccc gacgtcgtcg acgccctggc cgacgtgcgc atgcacctca 4081 acgacgccgc cgcagtcctc ggggacgtga tcgtatgacc gcacaggtaa ccgaagatcg 4141 acacctgtgc gcgtggtgtg ggcagcacat gaacatgtgc gcccacactg atggccatgc 4201 ccccggacac ccctgaccac gacgcccgcc tgaacagcca acggccccgg tggtcactgt 4261 ccgaggcggc taggcgtaca ggggtcagtc gggcaaccct gctccgccgc attgaggcag 4321 gcaagctgcc cggtgcggtc aaaacggagg agagctggtc tattggg //