ASSIGNMENT

Submitted To: Dr Faiza Faraz

Submitted By: Momina Shahid

Subject: Bio-Informatics

Class: BS–MLT

Semester: 8th (B)

Roll No: 22

MINHAJ UNIVERSITY LAHORE

Rhodothermus marinus strain PRQ 62B putative
adenylosuccinate lyase gene, partial cds; and Nqo7, Nqo6,
Nqo5, Nqo4, Nqo2, Nqo1, Nqo3, putative malate synthase,
and putative transcriptional regulator genes, complete cds
GenBank: AY972100.1
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LOCUS AY972100 12551 bp DNA linear BCT 27-SEP-2005

DEFINITION Rhodothermus marinus strain PRQ 62B putative adenylosuccinate lyase
gene, partial cds; and Nqo7, Nqo6, Nqo5, Nqo4, Nqo2, Nqo1, Nqo3,
putative malate synthase, and putative transcriptional regulator
genes, complete cds.
ACCESSION AY972100
VERSION AY972100.1
KEYWORDS .
SOURCE Rhodothermus marinus
ORGANISM Rhodothermus marinus
Bacteria; Bacteroidetes; Bacteroidetes Order II. Incertae sedis;
Rhodothermaceae; Rhodothermus.
REFERENCE 1 (bases 1 to 12551)
AUTHORS Melo,A.M., Lobo,S.A., Sousa,F.L., Fernandes,A.S., Pereira,M.M.,
Hreggvidsson,G.O., Kristjansson,J.K., Saraiva,L.M. and Teixeira,M.
TITLE A nhaD Na+/H+ antiporter and a pcd homologues are among the
Rhodothermus marinus complex I genes
JOURNAL Biochim. Biophys. Acta 1709 (1), 95-103 (2005)
PUBMED 16023073
REFERENCE 2 (bases 1 to 12551)
AUTHORS Melo,A.M.P., Saraiva,L.M. and Teixeira,M.
TITLE Direct Submission
JOURNAL Submitted (23-MAR-2005) Metalloproteins and Bioenergetics,
Instituto de Tecnologia Quimica e Biologica, Av. Republica, Apt
127, Oeiras 2781-901, Portugal
FEATURES Location/Qualifiers
source 1..12551
/organism="Rhodothermus marinus"
/mol_type="genomic DNA"
/strain="PRQ 62B"
/db_xref="taxon:29549"
CDS <1..296
/codon_start=3
/transl_table=11
/product="putative adenylosuccinate lyase"
/protein_id="AAY42994.1"
/translation="EGLSATHAAQQEADFRLYNSQRLLLMLIDKGLSREAAYDLVQPA
 AMQAWDEERPFYEIVRRHPAITKYLSPEEIDEAFNPEYHLRHVDEIFRRVGLE"
CDS 393..764
/note="NADH:quinone oxidoreductase subunit"
/codon_start=1
/transl_table=11
/product="Nqo7"
/protein_id="AAY42995.1"
/translation="MLTDFLPLFIMIVLAAGLAFSLLKLAEILGPHRPNLIKRMPYES
GMDPVGSARERYTVKFYLVAMIFIVFDVEIVFLYPWAVSYRDFLEAGAGLGVLAVVVF
FLIILAVGLLYDIKKGGLEFD"
CDS 918..1427
/note="NADH:quinone oxidoreductase subunit"
/codon_start=1
/transl_table=11
/product="Nqo6"
/protein_id="AAY42996.1"
/translation="MPMPMGLACCAIEMMAFAGPKYDVARFGSEAMRFSPRQADLMIV
AGWCSYKMAHAIRRVWDQMPDPKWCIAMGACASTGGMHRCYGVVQGVDNFLPVDVYIP
GCPPRPEAVLHALMDIQEKIRNEYSVALDYAKGEPRPPAPPVRPHVLSPEGDEPVAHE
VLHRPLKST"
CDS 1435..2127
/note="NADH:quinone oxidoreductase subunit"
/codon_start=1
/transl_table=11
/product="Nqo5"
/protein_id="AAY42997.1"
/translation="MAENERPKTHEALKFYFTPVDPPRGDELNPHAKATTYVPEVVEA
LKERFGDVIEEVELYAGEHTVRVRADKIVEVCRFLKEEQGFNYLADLGGIDRFTDEGR
FEVFYNLVSIERRKRIRLKVRVEEDNPVVPSVTSVYRAANWNERECYDMFGIRFEGHP
DLRRMYMPEDFEYHPLRKEFPLLGIPGSLPLPPQTPGGPLTYDPFARAHGYVPPPGFE
EPPAEDEEVSEH"
CDS 2140..3465
/note="NADH:quinone oxidoreductase subunit"
/codon_start=1
/transl_table=11
/product="Nqo4"
/protein_id="AAY42998.1"
/translation="MSTAPSLVGPDRHGLFNFWPRHNEAIYRRLETKHAWLEERHRPP
GGDGEPDPLEHEMILNIGPQHPATHGVLRCIVKLDGEVMEKCVLDLGYLHRGLEKVAE
HKTYQEFMPYTDRMDYLSPYSNNVAWCLAVEKVAGIEVPERAQWIRMIMCELARISSH
LLWLGVGLMDAGAVSVFLWAFKYREEIYSIFDEVCGARFTVSHSRIGGVASDLSPTAI
AMIRRFVEEFPEELAGWEKIINRNKIWIDRNEGIGVLTAEEAIELGVTGPNLRGSGVD
YDIRRFEPYLKYDEVDFNIPIRTEGDSLARYFVRMEEMKESVRIIRQCLERLPEGPIR
NDNAKLAYPSKEEVYYSMEGMIHDFLYTDVGVCPPKGAHSYHAIEAPKGELGFYIISD
GTGKPWRVRIKAPSFSNLQGLEYMMEGAMIGDMVILIGTIDPVMGEADK"
CDS 3485..4159
 /note="NADH:quinone oxidoreductase subunit"
/codon_start=1
/transl_table=11
/product="Nqo2"
/protein_id="AAY42999.1"
/translation="MADFVKKPVVPLPELHPEPQIPADQLFFTEEEKAKIARFKEQYL
EPAGAVMKTLWLAQEKFGFLPPEVLQLVADELGIPYAQVYGVATFYTQYYKEKKGKYV
LDVCTCFTCQVCGGYDILHYLEEKLGIHKGETTPDGLFTLQEVECLGACGSAPVLQVS
NGPYVHNLTPEKVDQLLEDLKQGKLPPFVSLTLPQDEAELGGNRRSDAEAVESYRTPP
VAHHTR"
CDS 5861..7192
/note="NADH:quinone oxidoreductase subunit"
/codon_start=1
/transl_table=11
/product="Nqo1"
/protein_id="AAY43000.1"
/translation="MATNGAQSKAGDWRNYKRVLLPPIRDLHRLEVYEAHGGYQTLRE
VLTSDRWDPKSVIEEVKKSKLRGRGGAGFPTGLKWSFMPPVDDRPRFLCCNGDESEPG
TFKDRQLMEFNPHQIFEGILIACYAMSVRTCYLYVRGEFARWIEHMERELEKLYAKGY
VGKNIMGTDFSADIVIHKGAGAYICGEESSLMESVEGKRAYPRIKPPFPAQRGLWGYP
TTINNVETLANVPLILRNGGEWFASIGAPNHPGPVLYGISGHVNRPGVYEYPTGMLIT
DLIYEVAGGIRGGKKLKAVIPGGSSTPPLRADMIDGVTMDAESLREAGSMMGTAGLLV
LDEDTDMVSWLRRVAHFYAHESCGQCTPCREGTGWLENILTRIEEGEGRLRDLDLLLD
LCDQMEGRTVCALADAAAWPVRYTILRFREEFEARCKPSLVPTGIDLTPTG"
CDS 7639..9369
/note="NADH:quinone oxidoreductase subunit"
/codon_start=1
/transl_table=11
/product="Nqo3"
/protein_id="AAY43001.1"
/translation="MPRITIDGTVYEFEGRPKLLQFCLDHGIELPHFCYHPALSIPAN
CRQCLVEVGMPVIDRETGKPKLDENGQPVIQFMPKLQTSCSLDMADGMVVKTHRTSEK
VARAQRDNLEFLLINHPLDCPICDQAGKCPLQIQAYKYGPEGSRFEFLKVHKPKRVKL
GPRVMLDAERCINCTRCVRFTDEISKSHQLTIIERGVKNYPITPPGVEFDDPYSMNVI
DLCPVGALTSIDARFKARPWEMSATPSITITNAKGSNCYYWVRDNLIVEITARANAAV
NGYWLPDEDRLDYHRFNENRPDGPEVRRDDRLVRVSWEEAYDRAAELLAGIDGRRILF
LGSAYATVEDNYLLKRLAEALGADTPVYIPHVEPGHGDGWLRTDDRTPNAQGCQRLGI
LPVDEALVRSRLESGEIQAIYVLEDDPVGSGLFTAEALADIPVILHYYNTTNQTLAVA
DVALPAATVVETVGTYVNCDGHAQRVRPAKTIRTVNRVLMREIGKSRLDQHGTPYDRW
YNEKHQVDCKPSWEILPEVAERLGHPLRYKGPKYIMQEIAETIPAFAGATYEAMGLEG
VRLAEIGAEV"
CDS complement(9475..11061)
/codon_start=1
/transl_table=11
/product="putative malate synthase"
/protein_id="AAY43002.1"
 /translation="MQGIEIRGARLPEAEQVLTPEALDFVAGLHREFNAVRKGLLARR
AEIWARLLEGARPDFLPHTRHVREGDWKVAPCPDDLQDRRVEITGPVDRKMMINALNS
GARVFMADFEDALSPTWENVVRGQKNLIDAVRRTLEYTSPEGKEYRLGEKLATLLVRP
RGWHLEERHVWIDGEPVSASLFDFGLYFFHNARELLERGSGPYFYLPKLESHLEARLW
NDVFNFAQDYLGIPRGTIRATVLIETILAALEMEEILYELRDHAAGLNAGRWDYIFSC
IKKFHATAPIFPDRAQVTMTVPFMYAYTELLVKTCHRRGAHAIGGMAAFIPSRRDPAV
NERALAEVRKDKEREAGQGFDGTWVAHPDLVPVAEEVFNRYLGDRPHQKDRLREDVQV
TADDLLDFRVPGGRITEGGLRNNVSVALQYLNQWFSGNGAAAIFNLMEDAATAEIARA
QLWQWVHREARLDDGRPITPELYAQVREEELAKLGGRDTAHYREAAEVLDDLVLSGSF
VEFLTLPAYERLLQLEMVPG"
CDS 11176..12009
/codon_start=1
/transl_table=11
/product="putative transcriptional regulator"
/protein_id="AAY43003.1"
/translation="MATRKPGRARTGEPTGVRALERGLRLLEELGSGEALSLSELARR
TELTPSTTYRLLETLRRRHFVDWDEHSGLWRIGLRAYQIGQAFCHPNSLSSLALEAMQ
RLVARVNETVNLAVLDGAEAVYIQQVESRQMLRMFTQLGARVPLHCTGVGKVLLAWRS
EEEVRQLLGPEPLAAFTPHTLTRVDAVLQELERVRRLGYAIDREEREIGVRCLAAPVR
DATGRVVAALSLSAPAVRLPERRLAELAPVVLETTRELSLRLGWQPETEPLPVDQSSP
T"
ORIGIN
1 ctgaaggtct atccgcaacg catgcggcgc aacaggaagc tgactttcgg ctctacaaca
61 gccagcgcct gctgctgatg ctgatcgaca aaggcctgag ccgcgaggcg gcctacgacc
121 tggtgcaacc ggccgccatg caggcctggg acgaagagcg gccgttctac gagatcgtgc
181 gtcggcaccc ggccatcacg aagtaccttt cgccggaaga aatcgacgag gccttcaacc
241 cggaatacca cctgcgccac gtggacgaaa tcttccggcg cgtcgggctg gaataggcct
301 tatttttaaa gaatccgaca aacattgacg gattcccccc gcttcggtac tttggtacgt
361 ttgaaggtgc actcggacac gcgtagaccg ccatgctgac cgatttcctt ccgctgttta
421 tcatgatcgt gctggccgcc gggctggcct tttcgctgct caagctggcc gagatcctgg
481 ggccgcaccg gcccaatctc atcaagcgca tgccctacga aagcggcatg gacccggtgg
541 gatcggcccg cgagcgctac acggtgaagt tctatctggt ggccatgatc ttcatcgtgt
601 tcgacgtgga aatcgttttc ctgtacccgt gggccgtcag ctatcgggat tttctggaag
661 ccggtgcggg cctgggcgtg ctggcggtcg ttgtgttttt cctgatcatt ctggccgtcg
721 gcctgctcta cgacatcaag aaaggcggac tggaattcga ctgaaagtgg ccgtcgaaac
781 agcccgtgcc ctggctcatt aaacccgtcc gggtcaagcc ttgaaaccga ccgatttgcc
841 ccatgctgga tctacgtgaa gggtttctga cgacgcggct ggacgtgctg ctgaactggg
901 cgcgttccaa ctcgctcatg cccatgccga tgggcctggc ctgctgcgcc atcgagatga
961 tggcctttgc agggccgaag tacgacgtgg cccgcttcgg aagcgaggcc atgcgctttt
1021 cgccccgcca ggccgacctg atgatcgtgg cgggctggtg ctcctacaag atggcccatg
1081 ccattcggcg tgtgtgggac cagatgcccg atcccaagtg gtgcattgcc atgggcgcct
1141 gcgcttcgac gggcggcatg caccgctgct acggcgtggt ccagggcgtc gacaacttcc
1201 tgccggtcga cgtctacatt ccgggctgcc cgccccgtcc ggaggccgtc ctgcacgcgt
1261 tgatggatat tcaggagaag atccggaacg agtactcggt ggcgctggac tacgcgaaag
1321 gcgagccgcg tccgcctgcc ccaccggtgc gtccgcacgt cctgtcgccg gaaggagacg
1381 aaccggtggc gcacgaagtg ttgcaccggc cgctgaagtc gacctgaagc tgccatggcg
1441 gaaaacgaac gtccgaaaac gcacgaagcg ctgaagttct acttcacgcc cgtcgatccg
1501 ccccgtgggg atgagctgaa cccccacgcc aaggcgacca cctacgtgcc cgaggtggtg
1561 gaagccctga aggagcgctt cggcgacgtg atcgaggagg tggagctgta cgcgggcgag
1621 catacggtgc gcgtccgcgc cgacaaaatc gtcgaggtat gtcgctttct gaaggaagaa
1681 cagggcttca actacctggc cgacctgggc ggcatcgacc gcttcaccga cgaggggcgc
1741 tttgaggtgt tctataacct ggtttccatc gagcggcgca agcgcatccg cctgaaggtg
1801 cgcgtcgaag aagacaaccc ggtggtgcct tcggtgacgt ccgtctaccg ggcggccaac
1861 tggaacgaac gtgaatgcta cgacatgttc ggcattcgct tcgaagggca cccggacctg
1921 cggcggatgt acatgccgga ggacttcgaa taccatccgc tccgcaagga atttccgctg
1981 ctgggcattc cgggctcatt gcccctgccg ccccagacgc cgggcggccc gctgacctac
2041 gacccgtttg cccgggcgca cggctatgtg ccgccaccgg gcttcgagga gcctccggcc
2101 gaagacgagg aagtctccga gcactgagta aaaccgacca tgagcacggc gccaagcctt
2161 gtaggacccg accgtcacgg cctgttcaac ttctggcccc gccacaacga ggccatctat
2221 cgccggctgg aaaccaagca cgcctggctg gaagagcggc atcgtccacc gggcggcgac
2281 ggggagcccg acccgctcga acacgagatg atcctcaaca tcgggcccca gcatccggcc
2341 acgcacggcg tgctccggtg catcgtcaag ctcgacggcg aggtcatgga aaagtgcgtg
2401 ctcgacctgg gctacctgca ccggggcctg gaaaaggtgg ccgagcacaa gacctaccag
2461 gagttcatgc cctataccga ccgcatggac tacctgtcgc cctactccaa caacgtggcc
2521 tggtgccttg ccgtcgagaa agtggccggc atcgaggtgc ccgagcgggc ccagtggatc
2581 cgcatgatca tgtgcgaact ggcccgcatc tccagccacc tgctctggct gggcgtgggc
2641 ctgatggacg ccggtgccgt gtcggtcttc ctctgggcct tcaagtatcg cgaggagatc
2701 tacagcatct tcgacgaagt gtgcggggcc cgcttcaccg tctcgcacag ccgcatcggc
2761 ggcgtggcct cggacctgtc gccgacggcc atcgccatga tccgccgctt cgtggaagag
2821 tttcccgaag aactggccgg ctgggaaaag atcatcaacc gcaacaagat ctggatcgac
2881 cgtaacgagg gcatcggcgt cctgaccgcc gaagaagcca tcgaactggg cgttacgggc
2941 cctaacctgc gcgggagcgg cgtcgattac gacatccgcc gcttcgagcc ctatctgaag
3001 tacgacgagg tggacttcaa catccccatt cgcaccgagg gcgacagcct ggcccggtac
3061 ttcgtgcgga tggaggaaat gaaggaaagc gtgcggatca tccgccagtg cctggagcgg
3121 ctgcccgaag gccccatccg taacgacaac gccaagctgg cctacccctc caaggaggag
3181 gtctactact ccatggaggg catgatccac gactttctct acaccgacgt gggcgtctgc
3241 ccgcccaaag gcgcccacag ctaccacgcg atcgaggccc ccaagggcga gctgggcttc
3301 tacatcatct cggacggcac gggcaagccg tggcgcgtgc gcatcaaagc gcccagcttt
3361 tcgaacctgc agggcctcga atacatgatg gaaggcgcca tgatcggcga catggtgatc
3421 ctgatcggga ccatcgaccc ggtcatgggc gaagccgaca agtaacgacc aaccgggaag
3481 cccgatggct gactttgtca aaaaaccggt cgtccccctg ccggagctgc atccggagcc
3541 gcagattccg gccgaccagc ttttcttcac ggaggaagaa aaggccaaaa tcgcccgctt
3601 caaggagcag tacctggagc cggccggggc cgtgatgaaa acgctctggc tggcccagga
3661 aaaattcggc tttctgccgc cggaggtgct tcagctggta gccgacgaac tgggcattcc
3721 ctatgcccag gtttacggcg tggccacctt ctacacccag tactacaagg aaaagaaagg
3781 caagtacgtg ctggacgtct gcacctgctt cacctgccag gtgtgcggtg gctacgacat
3841 cctgcactac ctcgaagaaa agctgggcat ccacaaaggc gagacgacgc cggacgggct
3901 gttcacgctg caggaggtgg aatgcctggg cgcgtgcggc tcggcaccgg tcttgcaggt
3961 atccaacggg ccgtacgtgc acaacctgac gccggaaaaa gtcgatcaac tgctggagga
4021 tctgaaacag ggcaaactgc cgcccttcgt ctcgcttacg ttgccccagg acgaggcgga
4081 gctgggcggc aaccggcgtt cggacgccga agccgtcgag tcgtaccgga ccccgccggt
4141 cgcccaccac acgcgctgag ccgtatggag gcggtgcaga catatcgctg gacgcgcgag
4201 gccttcgaaa aactggccga agtcgggctc attgaacccg acgcccgcct cgaactcatc
4261 gacggcgaaa tcctccagaa aatgagcccg caatccagcc ggcatgcgac ggccgtgctc
4321 ctggtagccg aggcgctgcg ctcggtcttt gcttcgccgg cctacacagt ccgtgtgcag
4381 ttgccgctgg cgctgggtcc ctacagtgaa cccgagcccg acgtagccgt cgtcgagggc
4441 acgccgcgcc ggtatcgcga tgcacatcct tcgacggcgg tgctggtggt ggaggtagcc
4501 gatgcctcgc tgcagttcga ccgcacgcgc aaggcctcgc tctacgcccg cgccggcatt
4561 cccgaatact ggatcgtcaa cctcctcgac ggtgtgctcg aagtccatcg ccagcccgaa
4621 ggcgacgcct atcgggaacg tctggtgctg ccgtctcagg agcgggtgcg gccgctggcc
4681 cggccggagg tggaaattgc ggtagccgaa ctgttgccct gacatggagg cggtgcagac
4741 atatcgctgg acgcgcgagg ccttcgaaaa actggccgaa gtcgggctca ttgaacccga
4801 cgcccacctc gaactcatcg acggcgaaat cctccagaaa atgagcccgc aatccagccg
4861 gcatgcgacg gccgtgctcc tggtagccga ggcgctgcgc tcggtctttg cctcgccggc
4921 ctacacaatc cgcgtgcagt tgccgctggc gctgggtccc tacagtgagc ccgagcctga
4981 cgtggccgtc gtcgaaggcg cgccgcgccg gtatcgcgat gcgcatcctt cgacggcggt
5041 gctggtggtg gaggtggccg acgcttcgct ggcgttcgac cgcacgcgca aggctgcgct
5101 ctacgcccgc gccggcatcc ccgaatactg gatcgtcaac ctcctcgacg gcgtgctcga
5161 agtccatcgc cagcccgaag gcgatactta ccgggaacgt ctggtgctgc cgtctcagga
5221 gcgggtgcgg ccgctggccc ggccggacgc ggagatcacg gtagccgaac tgttgccctg
5281 acatggaggc ggtgcagaca tatcgctgga cgcgtgaggc cttcgaaaaa ctggccgaag
5341 tcgggctcat tgaacccgac gcccgcctcg aactcatcga cggcgaaatc ctccagaaaa
5401 tgagcccgca aagcgcccgc cattttgctg cggtgcttaa agtagaagaa gcgctgcgcg
5461 cgtttttggc cccggttacg tggtacgggt tcggggtccg ctggcactgg gtctctacag
5521 cgagcccgag cccgacgtgg ccgtcgtcga aggcaccatc gacgactacg tcgaggcgca
5581 tccttcgtcg gcggtgctgg tggtggaggt ggccgacgct tcgctggcgt tcgatcgcac
5641 acgcaaggcc gcgctctacg cccgcgccgg catccccgaa tactggatcg tcaacctcct
5701 cgacggcgtg ctcgaagtct accgtcggcc cgaaaacgac acctaccagc agcgcatggt
5761 gctggcaccg catgaacaga ttgcgcccct ggcgcggccc ggggctttcc ttgaagttgc
5821 ccggttgttt cctgaatctc gcgcttaacc tgctgtgcat atggcgacga acggagccca
5881 gagtaaagcc ggagactggc ggaattacaa gcgggtgctg ctcccgccca ttcgggatct
5941 gcaccggctg gaagtctacg aagcgcacgg gggctaccag accctgcgcg aagtgctgac
6001 ctccgaccgg tgggatccca agtcggtcat cgaagaggtc aaaaagagca agctacgcgg
6061 acggggcggc gccggctttc ctacggggct gaagtggagc ttcatgccgc cggtggacga
6121 tcggccccgc ttcctgtgct gcaacggcga cgaaagcgag ccgggcacgt tcaaggaccg
6181 ccagctcatg gagttcaatc cccaccagat tttcgagggg attctgatcg cctgctacgc
6241 catgtcggtg cgcacgtgct acctgtacgt gcgcggcgaa tttgcccggt ggatcgagca
6301 catggagcgg gagctggaaa agctctacgc caaaggttac gtggggaaga acattatggg
6361 cacggacttc tcggccgaca tcgtgatcca caagggagcc ggggcctaca tctgcggcga
6421 ggagtccagc ctgatggagt cggtcgaggg caagcgggcc tacccgcgca tcaagccgcc
6481 gtttccggcc cagcggggcc tctggggcta ccccaccacg atcaacaacg tggagacgct
6541 ggcgaacgtc ccgctcattc tgcgcaacgg cggcgagtgg tttgcgtcca tcggcgcgcc
6601 caaccatccc ggtccggtgc tctacggtat ttcgggccac gtcaaccgcc ccggcgtcta
6661 cgaatacccc accggcatgc tgatcaccga cctgatctac gaggtggccg gtggcatccg
6721 cgggggtaaa aagctcaagg ccgtcatccc gggcggaagc tccacgccgc ccctgcgggc
6781 cgacatgatc gacggcgtga ccatggacgc cgagtcgctg cgcgaggccg gctcgatgat
6841 gggcacggct ggcctgctcg tgctcgacga agacaccgac atggtctcgt ggctgcggcg
6901 cgtggctcac ttttacgcgc acgaaagctg cggccagtgc acgccctgcc gcgagggcac
6961 cggctggctc gaaaacatcc tcacgcgcat cgaagaaggc gaaggccgtc tgcgcgacct
7021 ggacctgctg ctggacctgt gcgatcagat ggaaggccgc acggtctgcg ccctggccga
7081 cgctgccgcc tggcccgtac gctacaccat ccttcgcttc cgcgaggagt tcgaggccag
7141 gtgcaagccc agccttgtcc cgacgggcat cgatctgacg ccaaccggtt gaatccatgc
7201 gctacgcctc ctacccgcct tcgctgaacg acctgctctt cgaggagacg gtgcgggcac
7261 tcctgcccga cctcggagag gcggccatgc gcatgcggtt ggacgagctg cccaaatttc
7321 tggacccgga cttcgtcgag cggcgcatga accagttgca ccgctaccgg gcctgggcca
7381 tggcgggcat gattttcggc tttctggcca tcgtgctcct gctggtggcg gccatctttc
7441 gccttgcgtt gcccgactac gtgctgtttc cgacctcgtt tctgtcgctt tccgctccct
7501 actgggggtt tcggtatgcc cggctgggct atttcctgta cgcctaccga atgctcaacc
7561 actttgtcta cgacctgatc gtttataaag actaccgtcc ggcgctccat cagttgaccg
7621 accaaacctg aacgcaccat gccccggatt accatagacg gcacggttta cgaattcgaa
7681 gggcggccca agctgctgca gttctgcctc gatcacggca tcgagctgcc ccacttctgc
7741 taccacccgg ccctgtcgat cccggccaac tgtcgccagt gcctggtgga ggtgggcatg
7801 ccggtcatcg accgggagac tggcaagcca aagctcgacg aaaacggcca gcccgtcatt
7861 cagttcatgc ccaagctcca gacgagctgc tcgctcgaca tggccgacgg gatggtcgtc
7921 aaaacgcatc gcaccagcga gaaggtggcg cgcgcccagc gcgacaacct ggaatttctg
7981 ctgatcaacc acccgctcga ctgcccgatc tgcgatcagg ccggcaaatg cccgctccag
8041 attcaggcct acaagtatgg gcccgaaggc tcccgcttcg agtttctcaa ggtgcacaaa
8101 cccaagcggg tgaagctggg cccccgggtc atgctcgatg ccgagcggtg catcaactgc
8161 acgcgctgcg tacgcttcac cgatgagatt tccaagagcc accagcttac catcatcgag
8221 cgcggggtca aaaactatcc gatcacgccg cccggcgtgg agttcgacga tccctactcc
8281 atgaacgtga tcgatctgtg cccggtgggc gcgctgacgt ccatcgacgc ccgcttcaag
8341 gcgcgtccct gggagatgag cgccacgcct tcgatcacga tcacgaacgc gaagggctcc
8401 aactgctact actgggtgcg cgacaacctg atcgtcgaga tcacggcgcg cgccaatgcg
8461 gccgtcaacg gctactggct ccccgacgag gaccggctcg actatcaccg cttcaacgaa
8521 aaccggccgg acggccccga ggtgcgtcgc gacgatcggc tcgtgcgcgt gagctgggaa
8581 gaagcctacg accgggcggc cgagctgctt gcgggcatcg acggccgccg cattctgttt
8641 ctgggttcgg cctacgcgac cgtcgaagac aactacctgc tcaagcgact ggccgaggcg
8701 ctgggagccg acacgcccgt gtacatcccc cacgtcgagc ccggccacgg cgacggctgg
8761 ctccgcaccg acgaccgcac ccccaatgcg cagggctgcc agcgactggg catcctgccc
8821 gtcgacgaag cgctcgtgcg gagtcgcctc gaaagcggcg aaatccaggc catctacgtg
8881 ctcgaagacg atccggtcgg ctcgggcctc ttcacggccg aggcgctggc cgacattccc
8941 gtcatcctgc attactacaa cacgaccaac cagacgctgg ctgtggccga cgtggcgctc
9001 ccggccgcca cggtggtcga gaccgtcggt acctacgtca actgcgacgg ccacgcccag
9061 cgcgtgcgtc cggctaaaac catccgcacg gtcaaccgcg tgctgatgcg ggagatcggc
9121 aaaagccgcc tggatcagca cggcacgccc tacgaccgct ggtacaacga aaagcaccag
9181 gtggactgca agccgagctg ggaaatcctg cccgaggtgg ccgaacggct gggccatccg
9241 ctccgctaca aggggccgaa gtacatcatg caggagatcg ccgaaacgat cccggccttc
9301 gccggtgcca cctacgaggc gatgggcctg gagggcgtcc ggcttgccga gatcggcgcc
9361 gaggtgtagg cccgtccgct caccgaaaaa agcaaccccg tgcgcagaaa cgcacggggt
9421 tttttcatta cctcaagccc attccgtcaa ggggcgcaag caccacggcc gcgatcagcc
9481 cggcaccatc tccagctgga gcaggcgttc gtaggccggc agcgtcagga attcgacgaa
9541 ggaaccggac agcaccaggt cgtcgagcac ctcggccgcc tcgcggtaat gggccgtgtc
9601 gcgcccgccc agtttcgcca gctcttcttc gcgcacctgc gcgtacagct caggcgtgat
9661 gggccggccg tcgtccagac gcgcctcgcg gtggacccat tgccagagct gcgcgcgggc
 9721 gatctcggcc gtggccgcat cctccatcag attgaagatc gcggccgctc cgttgcccga
9781 gaaccactgg ttcaggtact gcaacgccac gctcacgttg ttgcgcaggc cgccttcggt
9841 gatgcgcccg cccggcaccc ggaagtccag cagatcgtcg gccgtcacct gcacatcctc
9901 ccgcaaccgg tccttctggt gcggccgatc gcccagatag cggttgaaca cctcctcggc
9961 caccggtacc agatcgggat gggccaccca ggtgccgtcg aagccctgtc cggcctcccg
10021 ttccttgtcc ttccgcactt cggccagcgc gcgctcgttg accgccggat cgcgccgcga
10081 gggaatgaag gcggccatgc cgccgatggc atgtgcgccg cgccggtggc aggttttcac
10141 cagcaattcc gtgtaggcat acatgaacgg tacggtcatc gtcacctgcg cccggtccgg
10201 aaagatgggc gccgtcgcgt ggaatttctt gatgcaactg aagatgtagt cccagcgccc
10261 ggcattcagt ccggcggcat gatcccgcag ttcgtaaagg atttcctcca tttccagcgc
10321 ggccaggatc gtctcgatca gcacggtggc ccggatcgtc ccgcgcggga tgcccaagta
10381 atcctgcgca aaattgaata cgtcgttcca gagccgcgct tccagatggc tttccagctt
10441 cggcagatag aaatacggtc cgcttccccg ctccaggagt tctcgggcgt tgtggaaaaa
10501 gtacaggcca aaatcaaaga gggaggcgct gacgggctcg ccgtcgatcc acacgtgccg
10561 ctcttccaga tgccacccgc gcggccgcac cagcaatgtg gccagcttct ctcccagccg
10621 gtactccttc ccctccggcg aagtgtattc cagcgtgcgg cgcacggcgt cgatcaggtt
10681 cttctggccg cgcaccacgt tttcccaggt gggcgagagc gcatcctcga agtcggccat
10741 aaagacccgc gccccggagt tcagcgcatt gatcatcatc ttgcgatcca ccggcccggt
10801 gatctccaca cgccggtcct gcagatcgtc cggacagggt gccaccttcc agtcgccctc
10861 gcggacgtgc cgcgtgtgcg gcagaaaatc gggacgcgct ccttcgagca gccgcgccca
10921 gatctccgcc cggcgggcca gcagcccctt gcgcaccgca ttgaactcgc ggtgcagtcc
10981 ggccacaaag tccagtgctt cgggcgtcag cacctgttcg gcttcgggca gccgcgcgcc
11041 tcgaatctcg atgccttgca tgggtccctc cagaaatggt tgccggttgc gctgctccaa
11101 acttacaact tcctcttgac tttgtcaata gacgaaatta atttccatta aacgaaaaac
11161 aaaatcaaac cgatcatggc cacgcgaaaa cccggacgtg cccgcaccgg tgagccgacc
11221 ggggtgcggg cgctggaacg cgggctgcgc ctgctcgaag agctgggcag cggcgaagcg
11281 ctctcgctgt ccgaactggc gcgacgtacc gagctgacgc cgagcaccac ctatcgactg
11341 ctggagacgt tgcggcggcg acactttgtc gactgggacg agcactccgg cctctggcgc
11401 atcgggctac gggcctatca gatcggccag gccttctgtc atccgaacag cctttcgtcg
11461 ctggcgctgg aggccatgca acggctggtg gcccgcgtca acgagacggt caacctggcg
11521 gtgctcgacg gtgccgaggc cgtctacatt cagcaggtcg aaagccgtca gatgctgcgc
11581 atgttcacgc agctgggcgc ccgcgtgccg ctgcactgca cgggggtcgg gaaggtgctg
11641 ctggcctggc gttcggaaga agaagtgcgg cagttgctgg gacccgaacc gctggcggcc
11701 ttcacgccgc acacgctgac ccgggtggac gctgtgctgc aggaactgga acgggtgcgc
11761 cggctgggct acgcgatcga ccgggaggag cgagaaatcg gcgtgcgctg tctggctgcg
11821 ccggtacgtg acgcgacagg ccgtgtggtg gcggcgctca gcctctcggc gccggccgta
11881 cggcttccgg agcgccgcct ggccgagctg gccccggtcg tgctggagac cacccgggaa
11941 ctgtcgctgc ggctgggctg gcagccggag acggagccgc tcccggtgga tcagtccagc
12001 cccacctgaa agcgggcgcg caggcgctgc acgtgcaggg ccagcgcgtt gcgcagttcg
12061 tagacgtctt cgtagagcct gtggtatcgc tcggtcgtca tgtacggagc cgtgcgcagt
12121 tcggcgagcg cctccagcgc ccggttggcc gtactcagcg cgtggcgtgc gcacacgatg
12181 ttgccgccga gcgtttcgcg ctcgtagccc agcaggtgtc cctcggccag ttccagcggg
12241 atctgggcca ggctggcgca gaagtgtacc agcgcgctgg tcttgagcgt gccgggcagc
12301 cggttggccc attcctgcac ggtgtcggcc agctgacgcg cccgggccat cagcgtctgg
12361 caggcctgtg cttcgggcag caacgtctcc tcctcttccc cgaagagggt ctccccttcg
12421 aaaaagaagc gttcttcgcg ggcccgcagc agcccgtcga tggccctcgg cgctccagcc
 12481 gcgctcttgc agaaaagccc gaaggcgcgt tcttccaggc acgcaccctg attcggaaga
12541 cgccaccttt t

Abstract
The NADH:menaquinone oxidoreductase (Nqo) is one of the enzymes present in the respiratory
chain of the thermohalophilic bacterium Rhodothermus marinus. The genes coding for the R.
marinus Nqo subunits were isolated and sequenced, clustering in two operons [nqo1 to nqo7 (nqoA)
and nqo10 to nqo14 (nqoB)] and two independent genes (nqo8 and nqo9). Unexpectedly, two genes
encoding homologues of a NhaD Na+/H+ antiporter (NhaD) and of a pterin-4α-
carbinolamine dehydratase (PCD) were identified within nqoB, flanked by nqo13 and nqo14. Eight
conserved motives to harbour iron–sulphur centres are identified in the deduced primary structures,
as well as two consensus sequences to bind nucleotides, in this case NADH and FMN. Moreover, the
open-reading-frames of the putative NhaD and PCD were shown to be co-transcribed with the other
complex I genes encoded by nqoB. The possible role of these two genes in R. marinus complex I is
discussed.

Concluding remarks
Based on the above results, genetic evidence for the presence of a type I NADH:quinone
oxidoreductase in the respiratory chain of the microaerophilic bacterium R. marinus was provided,
adding this complex to the small number of bacterial complexes I so far described. Although the
genomic organisation of its encoding genes in two putative operons and two independent genes is not
unusual, the presence of pcd and nhaD putative genes among nqo genes is unique. Furthermore, it
was clearly shown that the URFs found in nqoA, and the accessory genes in nqoB form single
transcriptional units with the canonical flanking nqo genes.