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New reference sequences for Rnf complex
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- Bacteria and Archaea
- Sequences downloaded from UniProt for organisms, which are described
to contain the Rnf complex (Biegel et al. (2011) Cell Mol Life Sci, DOI:
10.1007/s00018-010-0555-8)
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@Waschina
Waschina committed Jun 14, 2022
1 parent 6cd3e5b commit 0bea241
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Showing 3 changed files with 1,634 additions and 23 deletions.
4 changes: 2 additions & 2 deletions dat/custom_pwy.tbl
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Expand Up @@ -34,8 +34,8 @@ THIAZOLE-SYN-GS1 thiazole biosynthesis I (facultative anaerobic bacteria) with t
F420-3-BIOSYN-ARCHAEA F420 Biosynthesis until 3 glutamine residues |THINGS|,|FRAMES|,|Generalized-Reactions|,|Pathways|,|Biosynthesis|,|Cofactor-Biosynthesis| |TAX-2157| RXN-21088,RXN-19229,RXN-19230,RXN-21089,1.5.99.9-RXN,RXN-8080,RXN-8081,RXN-8087 2.7.7.68,2.5.1.147,4.3.1.32,2.7.2.28,1.5.98.1,6.3.2.31,6.3.2.34,6.3.2.32 RXN-21089 2-phospho-L-lactate guanylyltransferase;5-amino-6-(D-ribitylamino)uracil-L-tyrosine 4-hydroxyphenyl transferase;7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase;2-phospho-L-lactate transferase;methylenetetrahydromethanopterin dehydrogenase;coenzyme F420-0:L-glutamate ligase;coenzyme F420-1:gamma-L-glutamate ligase;coenzyme gamma-F420-2:alpha-L-glutamate ligase
LDH-ETF-PWY Electron bifurcating LDH/Etf complex |Pyruvate-Degradation|,|THINGS|,|FRAMES|,|Generalized-Reactions|,|Pathways|,|Energy-Metabolism|,|Fermentation|,|Fermentation-to-Acids|,|Acetyl-CoA-Butyrate| |TAX-2| LDH-ETF 1.3.1.110 Electron bifurcating lactate dehydrogenase
H4SPT-SYN H4SPT-SYN Biosynthesis of tetrahydrosarcinapterin from tetrahydromethanopterin |THINGS|,|FRAMES|,|Generalized-Reactions|,|Pathways|,|Biosynthesis|,|Cofactor-Biosynthesis| |TAX-2157| RXN-11103 6.3.2.33 tetrahydrosarcinapterin synthase
NA-TRANSLOCATING-RNF Na(+)-translocating ferredoxin:NAD(+) oxidoreductase complex |THINGS|,|FRAMES|,|Generalized-Reactions|,|Pathways|,|Transport| |TAX-2| NA-TRANSLOCATING-RNF Na(+)-translocating ferredoxin:NAD(+) oxidoreductase complex
NA-F0F1ATPSYN Na(+)-translocating ATPase |THINGS|,|FRAMES|,|Generalized-Reactions|,|Pathways|,|Transport| |TAX-2759|,|TAX-2| NA-F0F1ATPSYNTHASE 7.2.2.1 Na(+)-translocating ATPase
NA-TRANSLOCATING-RNF Na(+)-translocating ferredoxin:NAD(+) oxidoreductase complex |THINGS|,|FRAMES|,|Generalized-Reactions|,|Pathways|,|Transport| |TAX-2157|,|TAX-2| NA-TRANSLOCATING-RNF Na(+)-translocating ferredoxin:NAD(+) oxidoreductase complex
NA-F0F1ATPSYN Na(+)-translocating ATPase |THINGS|,|FRAMES|,|Generalized-Reactions|,|Pathways|,|Transport| |TAX-2759|,|TAX-2|,|TAX-2157| NA-F0F1ATPSYNTHASE 7.2.2.1 Na(+)-translocating ATPase
INULIN-DEGRADATION-EXO Inulin degradation(11xFru,1xGlc) (extracellular) |Polymer-Degradation|,|Degradation|,|Carbohydrates-Degradation|,|POLYSACCHARIDES-DEG|,|THINGS|,|FRAMES|,|Generalized-Reactions|,|Pathways|,|Glycan-Pathways|,|Glycan-Degradation| 3.2.1.153-RXN,1-KESTOTRIOSE-ABC-TRANSPORT,RXN-1841 3.2.1.153,,3.2.1.80 3.2.1.153 fructan beta-(2,1)-fructosidase;1-Kestotriose ABC-Transporter;fructan beta-fructosidase
TYR-DEG-4HPAC L-Tyrosine degradation to 4-hydroxyphenylacetate via tyramine |THINGS|,|FRAMES|,|Generalized-Reactions|,|Pathways|,|Degradation| |TAX-2| TYROSINE-DECARBOXYLASE-RXN,RXN-5821,1.2.1.53-RXN 4.1.1.25,1.4.3.4,1.2.1.53 tyrosine decarboxylase;monoamine oxidase;4-hydroxyphenylacetaldehyde dehydrogenase
PYR-ACCOA-FROX Pyruvate-ferredoxin oxidorectase to acetyl-CoA |Pyruvate-Degradation|,|THINGS|,|FRAMES|,|Generalized-Reactions|,|Pathways|,|Energy-Metabolism|,|Fermentation|,|Fermentation-to-Acids|,|Acetyl-CoA-Butyrate| |TAX-2| pyr.ferredoxin-OXIDO pyruvate:ferredoxin oxidoreductase
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66 changes: 66 additions & 0 deletions dat/seq/Archaea/user/a24abd9c6f7376577f002dfccf961db1.fasta
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>UniRef90_Q12W77 Ion-translocating oxidoreductase complex subunit C n=3 Tax=Methanococcoides TaxID=2225 RepID=Q12W77_METBU
MTNVYVMEKIPEKIIIPLKQHDGCLCTPLVNKGDMVSMGQKIGECECYDSAAVHSSVCGE
VISIEKAANPNGTKVNSVIIKPTEDVECVDFTPVKDVSASKLVDVIKDAGIVEHYGTPTH
KVLRPEGKQIDTVLINATSSEWIGGHYDTSAQYASQMIDALKLLMKAAGASKGAVVLRND
DLESINAFDHLRVDGKLLTVAPLMGKRKLSYYFKDMGSDIIVVSQERIYGQKILDLLTYN
LTGRRVSFCCDPTDVGVAICGVKSAKALYDAVHEGRPYIETVVSVSGKVNSPKKILVKIG
TPFKDVIDACGGYMGDTGKLIANGAVTGVAQYTDDVPVTKMTTSITVLSADEVIRDVSID
CTHCARCVDVCPVDLIPSRITAFADQGRFDECRQMNILNCVECGRCSAVCPSKIHLLQLI
RYAKNSIENAYEDLSSKESPANLKLGCGCSGGN
>UniRef90_Q12W79 Ion-translocating oxidoreductase complex subunit G n=2 Tax=Methanococcoides TaxID=2225 RepID=Q12W79_METBU
MTDSNKDIVIIIGKLVLISVIASALLAVAFVPTNEQLKKNYAEARTSTLAEIMPSAAEFE
AVYGDTVINDEGDKEILYYRAKDSSGNLVGYAFFRKQVGAQGLIEVAGGVDSSFNAITGI
GIMAHTETPGLGSKIADDPFKSQFTNVKVADLSLSKSGGAIDSITGATISSQAVIDALNE
QVGDIKVAEA
>UniRef90_Q12W80 Ion-translocating oxidoreductase complex subunit E n=2 Tax=Methanococcoides TaxID=2225 RepID=Q12W80_METBU
MDPLSEFIRGITKDNPIFGLVLGLCPTLAVTTSIDNAIGMSAGTAFVLICSNLMVSGLRK
QIPASVRLPIFILIIATFVSIVKMVMEAYFPPMYAALGVFIPLIVVNCIIIGRAEAYANK
NNMFYSLIDALGSSAGFLLVLVLIGGIRELLGTGGIAIFGTQLVSIPINPITFMILSPGA
FLTIGILMAIVNHRRAKKLARGG
>UniRef90_Q12W81 Ion-translocating oxidoreductase complex subunit A n=6 Tax=Methanococcoides TaxID=2225 RepID=Q12W81_METBU
MAADVSLFQIFMDGVFIKNFLIIQFLGLCSFVGVTKDTKSAAGMSGAVIFVMTLAATVSF
LIYNFVLVPLKLEFLDLISFIVVIAALVQLVEFVVRKNVPSLYRSLGIYLPLITTNCAVL
GVVLLNVLNEYSFIQSVVFGVSAGIGYALVMLMMSGIRERTTLVNVPSSMRGLPHAFLIA
TMLSMAFVNYFGVIPL
>UniRef90_Q12W82 Ion-translocating oxidoreductase complex subunit B n=3 Tax=Methanococcoides TaxID=2225 RepID=Q12W82_METBU
MSLITLIIQAMATLGGLGLVIGIMLIAASRMFKVETNPLVEEVVEILPGANCGACGYAGC
ADFAEKVVAEDAPLDGCPVGGFDTAKEIGAIIGQEVSESEKEYPYVRCGGGIRCVDRFDY
VGIEDCTAVIMLSDGEKGCNYGCMGRGTCVRACPFGAISINENRLPSVNKNLCTSCGLCL
AACPNDILMFAKDSEQVHVQCNSHDKGKAVKAVCEVGCIGCKICEKNCPEDAIKVTNFLA
EVDQDKCTACGICVEKCPQNCIEMR
>UniRef90_Q8TSX9 Ion-translocating oxidoreductase complex subunit B n=8 Tax=Methanosarcina TaxID=2207 RepID=RNFB_METAC
MSSVLINSIAVLAGLGFAVGVMLVIASKVFKIDSNPLIDDVASLLPGANCGGCGFAGCAA
CAEAIVEQGAPVNSCPVGGFEVAKQIGALLGQEVTESEKEFPFVRCQGGNQHCTTLYDYH
GVENCKVALMLCDSRKGCTYGCLGLGTCVQACQFGALSMGEDGFPVVNKALCTSCGNCIA
ACPNGVLTFARDSEKVHVLCRSHDKGKDVKAVCEVGCIGCKKCEKECPAGAIRVTEFLAE
IDQEKCTACGACVAICPQKAIELR
>UniRef90_Q8TSY0 Ion-translocating oxidoreductase complex subunit A n=8 Tax=Methanosarcina TaxID=2207 RepID=RNFA_METAC
MVKMAESLFTIFLEGVFIKNFLLIQFLGLCSFVGVTKDLKSASGMSGAVVFVMAMAATVS
FALYNFILVPLKLEFLRTIAFIVVIAALVQLVEFIVRKHVPALYRSLGIYLPLITTNCAV
LGAVLLNVMNDYDLAQSVVFGVAAGLGYTVAMLMMAAIRERSDLVEVPKSVGRGVTYAFF
IATIMSMSFVNFFGVIPLE
>UniRef90_Q8TSY1 Ion-translocating oxidoreductase complex subunit E n=8 Tax=Methanosarcina TaxID=2207 RepID=RNFE_METAC
MYPHRRADMNPISEFIRGITKDNPTFGLVLGLCPTLAVTTSVENGIGMAMGTLFVLVGSN
MMVSAIRKGIPGTVRLPVEIIVIATFVTIVDMVMEAFTPDLYTSLGVFIPLIVVNCIVIG
RAEAYALKNGVFYSIIDALGEGTGFLLVLILIGGIRELLGTGIIDPFGMTLINLSGVINP
AMFMTMSPGAFLTIAVLMTIVNYRRQQKAAKGG
>UniRef90_Q8TSY2 Ion-translocating oxidoreductase complex subunit G n=8 Tax=Methanosarcina TaxID=2207 RepID=RNFG_METAC
MSDSKEITKVIVTMVVISAVAAALLALTYTPTQAQLKLLQAEQQKEAMKEILPQAADFEP
VTGSEVDDDGNPVVLYYKGVDSSGNVVGYVVERNQVGAQGMIQLLAGISSDFSTITGFQV
MKHSETPGLGALITTPEFQGQFVDLPVADTSLTKNGGQVDAISGATISSQAVVDALHSAV
DYVSAQEG
>UniRef90_Q8TSY3 Ion-translocating oxidoreductase complex subunit D n=8 Tax=Methanosarcina TaxID=2207 RepID=RNFD_METAC
MTSFTVSPPPHIKKKIFIKNLIWSRIVALLPISAAAVYFFGFAALGNIIASILGAVGIEF
VIQKAFNKKLTIMDGNAIYLGLLLALICPPTLPAWMIFIGGAFAVGVGKHAFGGIGSYTF
HPSLAAWVFLSLAWAQDMLPGTIPILSSFSDLILENGAGFLTDVSPILVLLAGVILILVK
YIEWRIPLSYLLTTVILALVLGDPLAYVVSGTFLLGVFFIATETVTSPVTQNGRIVYGIL
CGFLTVIYGYFSGNYVWGTLYALLLSNAVAPFIELKTLPKPMGGVANE
>UniRef90_Q8TSY4 Ion-translocating oxidoreductase complex subunit C n=9 Tax=Methanosarcina TaxID=2207 RepID=RNFC_METAC
MKRSLHSKEVANLSDVIKIDKLPEKAIIPMRQHDGIACAPLVKKGAEVIVGQKLGECEGS
DLAYVHSPFCGTVNSIELMPNPSGKRILSVVLTPSECAQTVDFVPEKDAPPSRLIEIIKE
AGIVEYYEKPTYLALKPGKRIDTLLMNATFPLITHAYLSSLDKVLEGFKLMLEASGISRG
VIVLRADDKESIKAFKNAKVDGKPLTVAPIVGMRHADYYLEDVEDQIIVVAAGKITYTPT
MMNLLSANVMGRKLPLGYEPPDVHVVVCGVKSAKAVYDAINEGKPYLESAVTVTGAVNNP
KTVIVKFGTPIKDVIEACGGYKGEPGKVIVNGSMGGVAVYTDEAPVVKNTVGIVVQTEAE
VLRDEATVCIHCARCVDVCPMNLLPGRIAAMADMGMFDRCREYFALNCIECGECAVVCPA
KRHLVQLIRYSKLQIMNQKNETVEATE
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