Riboswitch 3D structures

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
(New page: ==3D structures of riboswitch== Updated on {{REVISIONDAY2}}-{{MONTHNAME|{{REVISIONMONTH}}}}-{{REVISIONYEAR}} {{#tree:id=OrganizedByTopic|openlevels=0| *Adenine riboswitch **1y26, [[...)
Current revision (08:09, 11 August 2024) (edit) (undo)
 
(7 intermediate revisions not shown.)
Line 6: Line 6:
*Adenine riboswitch
*Adenine riboswitch
-
**[[1y26]], [[4tzx]], [[4tzy]], [[4xnr]], [[5swd]], [[5swe]], [[5uza]] – VvAR + adenine – ''Vibrio vulnificus''<br />
+
**[[1y26]], [[4tzx]], [[4tzy]], [[4xnr]], [[5swd]], [[5swe]], [[5uza]], [[6vwt]], [[6vwv]] – VvAR + adenine – ''Vibrio vulnificus''<br />
**[[5e54]] – VvAR <br />
**[[5e54]] – VvAR <br />
**[[3ivn]] – BsAR (mutant) – ''Bacillus subtilis''<br />
**[[3ivn]] – BsAR (mutant) – ''Bacillus subtilis''<br />
Line 18: Line 18:
**[[2xo1]] - BsGR aptamer domain + adenine derivative<br />
**[[2xo1]] - BsGR aptamer domain + adenine derivative<br />
**[[3g4m]], [[3ger]] - BsGR + guanine derivative<br />
**[[3g4m]], [[3ger]] - BsGR + guanine derivative<br />
-
**[[2xnz]] - BsGR aptamer domain + guanine derivative<br />
+
**[[2xnz]], [[6ubu]], [[6uc7]], [[6uc8]], [[6uc9]] - BsGR aptamer domain + guanine derivative<br />
**[[2xo0]] - BsGR aptamer domain + triazine derivative<br />
**[[2xo0]] - BsGR aptamer domain + triazine derivative<br />
**[[5c7u]], [[5c7w]] - BsGR + hypoxanthine<br />
**[[5c7u]], [[5c7w]] - BsGR + hypoxanthine<br />
Line 24: Line 24:
**[[3gao]] - BsGR + xanthine<br />
**[[3gao]] - BsGR + xanthine<br />
**[[2xnw]] – BsGR + Mn<br />
**[[2xnw]] – BsGR + Mn<br />
-
**[[4fe5]], [[4fej]], [[4fel]], [[4fen]], [[4feo]], [[4fep]] – GR + hypoxanthine – synthetic<br />
+
**[[4fe5]], [[4fej]], [[4fel]], [[4fen]], [[4feo]], [[4fep]] – sGR + hypoxanthine – synthetic<br />
 +
**[[6p2h]] – sGR <br />
 +
**[[2b57]] – GR + purine derivative<br />
*Guanidine riboswitch
*Guanidine riboswitch
-
**[[5nwq]] – TfGR + guanidine – ''Thermobifida fusca''<br />
+
**[[5nwq]], [[5ny8]], [[5nz3]], [[5nz6]], [[5o62]] – TfGNR + guanidine derivative – ''Thermobifida fusca''<br />
-
**[[5nzd]] – TfGR + CDP derivative<br />
+
**[[5o69]] – TfGNR + agmatine <br />
 +
**[[5nzd]] – TfGNR + CDP derivative<br />
 +
**[[7mlw]] – GNR + guanidine – ''Burkholderia''<br />
 +
**[[6hbt]], [[6hbx]], [[6hc5]] – GNR + guanidine II + inhibitor – ''Gloeobacter violaceus''<br />
 +
**[[5t83]] – GNR + guanidine – ''Sulfobacillus acidophilus'' <br />
 +
**[[5ndh]], [[5ndi]], [[5nef]], [[5neo]], [[5nep]], [[5neq]], [[5nex]], [[5nom]] – GNR + guanidine derivative – ''Gloeobacter violaceus'' <br />
 +
**[[5vj9]], [[5vjb]] – GNR + guanidine – ''Pseudomonas aeruginosa'' <br />
 +
 
 +
*Xanthine riboswitch
 +
 
 +
**[[7elp]], [[7elq]], [[7elr]], [[7els]] – XR + xanthine derivative – ''Ideonella''<br />
*Thiamine pyrophosphate riboswitch
*Thiamine pyrophosphate riboswitch
-
**[[2gdi]] – TPPR + TPP – synthetic<br />
+
**[[2gdi]] – TPPR + TPP – synthetic
-
**[[2hoj]], [[2hok]], [[2hol]] – EcTPPR + TPP + metal ion – ''Escherichia coli''<br />
+
**[[2hoj]], [[2hok]], [[2hol]] – EcTPPR + TPP + metal ion – ''Escherichia coli''
-
**[[2hom]] – EcTPPR + TMP<br />
+
**[[2hom]], [[8f4o]]– EcTPPR + TMP
-
**[[2hoo]], [[2hop]] – EcTPPR + TPP analog<br />
+
**[[2hoo]], [[2hop]] – EcTPPR + TPP analog
-
**[[4nya]], [[4nyb]], [[4nyc]] – EcTPPR + pyrimidine derivative<br />
+
**[[4nya]], [[4nyb]], [[4nyc]], [[7tdc]] – EcTPPR + pyrimidine derivative<br />
**[[4nyd]] – EcTPPR + hypoxanthine <br />
**[[4nyd]] – EcTPPR + hypoxanthine <br />
-
**[[4nyg]] – EcTPPR + thyamine <br />
+
**[[4nyg]], [[7td7]], [[7tda]], [[7tdb]] – EcTPPR + thiamine derivative<br />
-
**[[3d2g]], [[3d2v]], [[3d2x]] - TPPR + TPP analog – ''Arabidopsis thaliana''
+
**[[2cky]], [[3d2g]], [[3d2v]], [[3d2x]] - TPPR + TPP analog – ''Arabidopsis thaliana''
-
*S-adenosylmethionine riboswitch
+
*S-adenosylmethionine riboswitch or SAM riboswitch
-
**[[2gis]], [[4aob]], [[4b5r]] – TtSAMR + SAM – ''Thermoanaerobacter tengcongensis''<br />
+
**[[2gis]], [[4aob]], [[4b5r]], [[4l81]] – TtSAMR + SAM – ''Thermoanaerobacter tengcongensis''
-
**[[3iqr]], [[2ydh]], [[2ygh]] - TtSAMR (mutant) + SAM<br />
+
**[[3iqr]], [[2ydh]], [[2ygh]] - TtSAMR (mutant) + SAM
-
**[[3iqp]] - TtSAMR<br />
+
**[[3iqp]] - TtSAMR
-
**[[5fjc]], [[5fk1]], [[5fk2]], [[5fk3]], [[5fk4]], [[5fk5]], [[5fk6]], [[5fkd]], [[5fke]], [[5fkf]], [[5fkg]], [[5fkh]] - TtSAMR + SAM + GTP<br />
+
**[[2qwy]], [[3e5c]], [[3e5e]], [[3e5f]], [[3iqn]] - SAMR + SAM – synthetic
-
**[[2qwy]], [[3e5c]], [[3e5e]], [[3e5f]], [[3iqn]] - SAMR + SAM – synthetic<br />
+
**[[4kqy]] – BsSAMR + SAM<br />
**[[4kqy]] – BsSAMR + SAM<br />
 +
**[[3v7e]] – BsSAMR + Ybxf + SAM<br />
**[[4oqu]] - SAMR + SAM - synthetic<br />
**[[4oqu]] - SAMR + SAM - synthetic<br />
-
**[[6fz0]] - SAMR + SAM - ''Candidatus pelagibacter''<br />
 
**[[6c27]] - SAMR + GTP – ''Enterococcus faecalis''<br />
**[[6c27]] - SAMR + GTP – ''Enterococcus faecalis''<br />
 +
**[[6ues]], [[6wlq]], [[6wlr]] - MtSAMR – ''Mycobacterium tuberculosis''<br />
 +
**[[6uet]] - MtSAMR + SAM<br />
 +
**[[3gx5]], [[3gx6]], [[3gx7]] - TtSAMR + SAM <br />
 +
**[[6laz]] - BaSAMR + U1 small nuclear ribonucleoprotein + GTP + SAM analog – ''Bifidobacterium angulatum''<br />
 +
**[[6las]], [[6lax]] - BaSAMR + U1 small nuclear ribonucleoprotein + SAM<br />
 +
**[[6lau]] - BaSAMR + U1 small nuclear ribonucleoprotein + SAH<br />
 +
**[[7eaf]] – CsSAMR + SAM – ''Caldanaerobacter subterraneus''<br />
-
*S-adenosylhomocysteine riboswitch
+
S-adenosylhomocysteine riboswitch or SAH riboswitch
-
**[[3npn]], [[3npq]] – SAHR + SAH – ''Ralstonia solanacearum''<br />
+
**[[3npn]], [[3npq]] – SAHR + SAH – ''Ralstonia solanacearum''
-
**[[6hag]] - SAMR + SAH – proteobacteria - NMR<br />
+
**[[6hag]] - SAMR + SAH – ''proteobacteria'' - NMR<br />
 +
 
 +
*SAM/SAH riboswitch
 +
 
 +
**[[6ymk]] – RoSAM/SAH + adenosine derivative + cytidine derivative – ''Roseobacter''<br />
 +
**[[6ylb]], [[6ymm]] – RoSAM/SAH + SAM<br />
 +
**[[6ymi]] – RoSAM/SAH + AMP<br />
 +
**[[6yl5]], [[6yml]] – RoSAM/SAH + SAH<br />
 +
**[[6ymj]] – RoSAM/SAH + adenosine<br />
 +
*NAD+ riboswitch
 +
**[[6tb7]], [[6tf1]], [[6tf2]], [[6tf3]], [[6tfe]], [[6tfg]], [[7d7y]] – CkNADR + ATP derivative – ''Candidatus koribacter''<br />
 +
**[[6tf0]], [[6tff]], [[6tfh]] – CkNADR + NAD<br />
 +
**[[8gxc]], [[8hb1]], [[8hb8]], [[8i3z]] – SmNADR II + NMN<br />
 +
**[[8gxb]], [[8hba]] – SmNADR II + NAD<br />
 +
**[[8hb3]] – SmNADR II + NR<br />
 +
**[[7d7w]], [[7d7x]], [[7d7z]], [[7d81]], [[7d82]] – AbNADR + NAD - ''Acidobacteriaceae bacterium''<br />
 +
**[[7d7v]] – AbNADR + NAD + U1 small nuclear ribonucleoprotein<br />
*Lysine riboswitch
*Lysine riboswitch
-
**[[3dis]] – TmKR – ''Thermotoga maritima''<br />
+
**[[3d0u]] – TmKR ligand-binding domain + Lysine – ''Thermotoga maritime''
-
**[[3d0u]] – TmKR ligand-binding domain + Lysine <br />
+
-
**[[3dil]], [[3dim]], [[3dio]], [[3dix]], [[3diy]], [[3diz]], [[3dj2]] – TmKR + Lys <br />
+
-
**[[3dj0]], [[3dir]] – TmKR + Lys derivative<br />
+
-
**[[3dig]] – TmKR + Cys derivative<br />
+
-
**[[3diq]] – TmKR + homoArg <br />
+
**[[4erj]] – TmKR + aminocaproic acid<br />
**[[4erj]] – TmKR + aminocaproic acid<br />
**[[4erl]] – TmKR + Lys + Gly<br />
**[[4erl]] – TmKR + Lys + Gly<br />
-
**[[3d0x]] - KR - synthetic<br />
 
- 
-
*Glutamine riboswitch
 
- 
-
**[[5ddp]] – QR + glutamine – human<br />
 
-
**[[5ddq]], [[5ddr]] – SeQR + glutamine – ''Synechococcus elongatus''<br />
 
-
**[[5ddo]] – SeQR + U1 small nuclear ribonucleoprotein<br />
 
*FMN riboswitch
*FMN riboswitch
-
**[[3f2q]], [[3f2t]], [[3f2w]], [[3f2x]], [[3f2y]], [[3f30]], [[3f4e]] – FnFMNR + FMN – ''Fusobacterium nucleatum''<br />
+
**[[6wjr]], [[6wjs]] - FnFMNR – ''Fusobacterium nucleatum''<br />
-
**[[2yie]] - FnFMNR aptamer domain + FMN<br />
+
**[[3f2q]], [[3f2t]], [[3f2w]], [[3f2x]], [[3f2y]], [[3f30]], [[3f4e]] – FnFMNR + FMN
-
**[[3f4g]], [[3f4h]] – FnFMNR + flavin derivative<br />
+
**[[2yie]] - FnFMNR aptamer domain + FMN
-
**[[2yif]] - FnFMNR + GTP<br />
+
**[[3f4g]], [[3f4h]] – FnFMNR + flavin derivative
-
**[[6dn1]], [[6dn2]], [[6dn3]] - FnFMNR + RNA<br />
+
**[[2yif]] - FnFMNR + GTP
-
**[[5c45]], [[5kx9]], [[6bfb]] - FnFMNR + inhibitor<br />
+
**[[6bfb]] – FnFMNR + inhibitor<br />
*Pre-queosine riboswitch
*Pre-queosine riboswitch
-
**[[3fu2]], [[3k1v]] – BsQ1R + queosine<br />
+
**[[3fu2]], [[3k1v]] – BsPreq1R + queosine
-
**[[3gca]] – TtQ0R + queosine<br />
+
**[[3gca]] – TtPreq1R + queosine
-
**[[3q50]], [[3q51]] – TtQ1R aptamer domain + queosine<br />
+
**[[3q50]], [[3q51]] – TtPreq1R aptamer domain + queosine
-
**[[4jf2]], [[5d5l]] – Q1R + GTP + deaza-aminomethyl guanine – ''Lactobacillus rhamnosus''<br />
+
**[[4jf2]] – Preq1R + GTP + deaza-aminomethyl guanine – ''Lactobacillus rhamnosus''<br />
-
**[[4rzd]] – Q1R + GTP + deaza-aminomethyl guanine – ''Faecalibacterium prausnitzii''<br />
+
**[[6vuh]], [[6vui]] – CsPreq1 <br />
-
 
+
**[[6e1s]], [[6e1t]], [[6e1u]], [[6e1v]], [[6e1w]], [[7e9e]], [[7e9i]] – CsPreq1 + probe<br />
-
*C-di-GMP riboswitch
+
**[[6xkn]], [[6xko]] – Preq1 + GTP + guanine derivative – ''Faecalibacterium prausnitzii''<br />
-
 
+
**[[7rex]], [[8fb3]] – Preq1 + guanine derivative – ''Carnobacterium antarcticum''<br />
-
**[[3irw]], [[3mxh]] – VcGMPR + C-di-GMP + GTP + U1 small nuclear ribonucleoprotein – ''Vibrio cholerae''<br />
+
**[[2miy]] – Preq1 + guanine derivative – ''Streptococcus pneumoniae'' - NMR<br />
-
**[[3iwn]], [[4yb1]] – VcGMPR + C-di-GMP + U1 small nuclear ribonucleoprotein<br />
+
**[[8fza]] – EcPreq1 III <br />
-
**[[3mum]], [[3mur]], [[3mut]] - VcGMPR (mutant) + C-di-GMP + U1 small nuclear ribonucleoprotein<br />
+
**[[2l1v]] – EcPreq1 I + PreQ1 - NMR <br />
-
**[[3muv]] - VcGMPR (mutant) + C-di-AMP + U1 small nuclear ribonucleoprotein<br />
+
C-di-GMP riboswitch
-
**[[3q3z]] - GMPR + C-di-GMP – ''Clostridium acetobutylicum''<br />
+
**[[3ucu]], [[3ucz]] – hGMPR + GpG <br />
 +
**[[3ud3]], [[3ud4]] – hGMPR + GpA <br />
 +
**[[3irw]], [[3mxh]] – VcGMPR + C-di-GMP + GTP + U1 small nuclear ribonucleoprotein – ''Vibrio cholerae''
 +
**[[3iwn]] – VcGMPR + C-di-GMP + U1 small nuclear ribonucleoprotein
 +
**[[3mum]], [[3mur]], [[3mut]] - VcGMPR (mutant) + C-di-GMP + U1 small nuclear ribonucleoprotein
 +
**[[3muv]] - VcGMPR (mutant) + C-di-AMP + U1 small nuclear ribonucleoprotein
 +
**[[3q3z]] - GMPR + C-di-GMP – ''Clostridium acetobutylicum''
**[[4qk8]], [[4qka]] – GMPR + GTP – ''Thermoanaerobacter pseudethanolicus''<br />
**[[4qk8]], [[4qka]] – GMPR + GTP – ''Thermoanaerobacter pseudethanolicus''<br />
**[[4qk9]] – GMPR + guanosine derivative – ''Thermovirga lienii''<br />
**[[4qk9]] – GMPR + guanosine derivative – ''Thermovirga lienii''<br />
-
**[[4yaz]], [[4yb0]] – GMPR + C-di-GMP - ''Geobacter''<br />
 
-
*C-di-AMP riboswitch
+
*Glycine riboswitch
-
**[[4w90]], [[4w92]] – VBsAMPR + C-di-AMP + U1 small nuclear ribonucleoprotein<br />
+
**[[6wlt]], [[6wlu]] – VcGlyR<br />
-
**[[3muv]] – AMPR + C-di-AMP + U1 small nuclear ribonucleoprotein - synthetic<br />
+
**[[3owi]], [[3oww]], [[3owz]] – VcGlyR + glycine
-
**[[4qk8]] – AMPR + C-di-AMP + GTP - ''Thermoanaerobacter pseudethanolicus''<br />
+
**[[3ox0]], [[3oxe]], [[3oxj]], [[3oxm]] – VcGlyR + GDP + cytidine cyclic phosphate
-
**[[4qk8]], [[4qka]] – AMPR + C-di-AMP + GTP - ''Thermoanaerobacter pseudethanolicus''<br />
+
**[[3oxb]], [[3oxd]] – VcGlyR (mutant) + GDP + cytidine cyclic phosphate
-
**[[4qlm]], [[4qln]] – AMPR + C-di-AMP - ''Thermoanaerobacter tengcongensis''<br />
+
**[[6wll]], [[6wlm]] – FnGlyR<br />
-
**[[4qk9]] – AMPR + C-di-AMP + GTP derivative - ''Thermovirga lienii''<br />
+
**[[3p49]] – FnGlyR + U1 small nuclear ribonucleoprotein + glycine
-
*Glycine riboswitch
+
*Glutamine riboswitch
-
**[[3owi]], [[3oww]], [[3owz]] – VcGlyR + glycine<br />
+
**[[6qn3]] – GlnR II + Gln – ''Prochlorococcus''<br />
-
**[[3ox0]], [[3oxe]], [[3oxj]], [[3oxm]] – VcGlyR + GDP + cytidine cyclic phosphate<br />
+
-
**[[3oxb]], [[3oxd]] – VcGlyR (mutant) + GDP + cytidine cyclic phosphate<br />
+
-
**[[3p49]] – FnGlyR + U1 small nuclear ribonucleoprotein + glycine<br />
+
*M-Box riboswitch
*M-Box riboswitch
-
**[[3pdr]] – BsMBR + Mn<br />
+
**[[3pdr]] – BsMBR + Mn
-
**[[2qbz]] – BsMBR + Mg<br />
+
*T-Box riboswitch
*T-Box riboswitch
Line 130: Line 153:
**[[4lck]] – sTBR + tRNA-Gly + ribosomal protein YBXF – synthetic<br />
**[[4lck]] – sTBR + tRNA-Gly + ribosomal protein YBXF – synthetic<br />
**[[4mgn]] – sTBR + tRNA-Gly <br />
**[[4mgn]] – sTBR + tRNA-Gly <br />
 +
**[[6ufm]] – TBR + tRNA – ''Mycolicibacterium smegmatis''<br />
 +
**[[6ufg]], [[6ufh]] – MtTBR + tRNA <br />
 +
**[[6pom]] – BsTBR + tRNA-Gly – Cryo EM<br />
*Tetrahydrofolate riboswitch
*Tetrahydrofolate riboswitch
-
**[[3suh]], [[3sux]] – EsTHFR + THF derivative – ''Eubacterium siraeum''<br />
+
**[[3suh]], [[3sux]] – EsTHFR + THF derivative – Eubacterium siraeum
-
**[[3suy]] - EsTHFR + cytidine cyclic phosphate<br />
+
**[[3suy]] - EsTHFR + cytidine cyclic phosphate
-
**[[4lvv]], [[4lvx]], [[4lvw]], [[4lvy]], [[4lvz]], [[4lw0]] – THFR + purine derivative – synthetic<br />
+
**[[4lvv]], [[4lvx]], [[4lvw]], [[4lvy]], [[4lvz]], [[4lw0]] – THFR + purine derivative – synthetic
-
**[[3sd3]] – THFR (mutant) + pteridine derivative – synthetic<br />
+
**[[3sd3]] – THFR (mutant) + pteridine derivative – synthetic 
 +
**[[1qa4]], [[1qa5]] – NEF anchor domain – NMR
 +
**[[7kd1]] – SmTHFR – Streptococcus mutans<br />
 +
**[[6q57]] – SmTHFR + pterin derivative <br />
 +
**[[7wia]], [[7wib]] – MlTHFR – ''Mesorhizobium loti'' <br />
 +
**[[7wie]] – MlTHFR + 7DG<br />
 +
**[[7wii]] – MlTHFR + NPR<br />
 +
**[[7wif]] – MlTHFR + H4B<br />
 +
 
 +
Fluoride riboswitch
-
*Fluoride riboswitch
+
[[3vrs]] – TpFR + Mn + K + F – ''Thermotoga petrophila''<br />
 +
[[4en5]] – TpFR + Mg + Tl + F <br />
 +
[[4enc]] – TpFR + Mg + K + F <br />
 +
[[4ena]] – TpFR + Mg + Cs + GTP + F <br />
 +
[[4enb]] – TpFR + Mg + Ir + K + GTP + F <br />
-
**[[3vrs]] – TpR + Mn + K + F – ''Thermotoga petrophila''<br />
+
*Manganese riboswitch
-
**[[4en5]] – TpR + Mg + Tl + F <br />
+
 
-
**[[4enc]] – TpR + Mg + K + F <br />
+
**[[6n2v]] – MnR + Mn – ''Xanthomonas oryzae''<br />
-
**[[4ena]] – TpR + Mg + Cs + GTP + F <br />
+
-
**[[4enb]] – TpR + Mg + Ir + K + GTP + F <br />
+
-
**[[5kh8]] – R - synthetic - NMR<br />
+
*Cobalamine riboswitch
*Cobalamine riboswitch
-
**[[4frg]], [[4frn]], [[4gma]], [[4gxy]] – CoR + aptamer domain – ''Marine metagenome''<br />
+
[[4frg]], [[4frn]], [[4gma]], [[4gxy]] – CoR + aptamer domain – Marine metagenome<br />
 +
**[[6vmy]], [[8fw4]] – BsCoR <br />
 +
**[[8sa2]], [[8sa3]], [[8sa4]], [[8sa5]], [[8sa6]] – BsCoR – Cryo EM<br />
 +
 
 +
*YdaO riboswitch
 +
 
 +
**[[6n5k]], [[6n5n]], [[6n5o]], [[6n5p]], [[6n5q]], [[6n5s]], [[6n5t]], [[6wtl]], [[6wtr]] – hYdaO/mRNA <br />
 +
 
-
*yybp-ykoy riboswitch
+
* yybp-ykoy riboswitch
**[[4y1i]] – LlYYR + Mn – ''Lactobacillus lactis''<br />
**[[4y1i]] – LlYYR + Mn – ''Lactobacillus lactis''<br />
**[[4y1j]] – LlYYR (mutant) + Mn<br />
**[[4y1j]] – LlYYR (mutant) + Mn<br />
 +
**[[6cb3]], [[6cc1]], [[6cc3]] – LlYYR + GTP<br />
**[[4y1m]] – EcYYR <br />
**[[4y1m]] – EcYYR <br />
-
*ykkc riboswitch
+
* PRPP riboswitch
-
**[[5u3g]] – TpR + gusanidine – ''Dikeya dadantii''<br />
+
**[[6dnr]] – SlPRPPR + GTP + cytidine phosphate – ''Syntrophothermus lipocalidus''<br />
-
 
+
**[[6dlq]], [[6dls]], [[6dlt]] – SlPRPPR + GTP + cytidine phosphate + PRP<br />
-
*PRPP riboswitch
+
**[[6dlr]] – SlPRPPR + cytidine phosphate + PRP<br />
-
 
+
**[[6ck5]] – TmPRPPR + PRPP – ''Thermoanaerobacter mathranii''<br />
-
**[[6ck5]] – TmPRR + PRPP – ''Thermoanaerobacter mathranii''<br />
+
**[[6ck4]] – TmPRPPR (mutant) + G4P<br />
-
**[[6ck4]] – TmPRR + PPGPP<br />
+
-
**[[6dnr]] – SlPRR + GTP + cytidine phosphate – ''Syntrophothermus lipocalidus''<br />
+
-
**[[6dlq]], [[6dls]], [[6dlt]] – SlPRR + GTP + cytidine phosphate + PRPP<br />
+
-
**[[6dlr]] – SlPRR + cytidine phosphate + PRPP<br />
+
* PPGPP riboswitch
* PPGPP riboswitch
Line 175: Line 215:
*PFI riboswitch
*PFI riboswitch
-
**[[4znp]] – TpR + AICAR – synthetic<br />
+
**[[4znp]] – PFIR + AICAR – synthetic<br />
-
*NICO riboswitch
+
*NiCo riboswitch
-
**[[4rum]] – TpR + Co – synthetic<br />
+
**[[4rum]] – NiCoR + Co – synthetic<br />
*ZMP riboswitch
*ZMP riboswitch
-
**[[4xw7]], [[4xwf]] – TpR + AICAR – ''Actinomyces odontolyticus'' <br />
+
**[[4xw7]], [[4xwf]] – ZMPR + AICAR – ''Actinomyces odontolyticus'' <br />
*ZTP riboswitch
*ZTP riboswitch
-
**[[5btp]] – TpR + AICAR – ''Fusobacterium ulcerans'' <br />
+
**[[6od9]] – FuZTP – ''Fusobacterium ulcerans''<br />
 +
**[[6wzr]], [[6wzs]] – FuZTP + pyridine derivative<br />
 +
**[[5btp]] – FuZTPR + AICAR <br />
-
*Guanidine riboswitch
+
*Deoxyguanosine riboswitch
 +
 
 +
**[[3sk4]], [[3ski]], [[3skl]], [[3skt]], [[3skz]], [[3slm]], [[3slq]] – DgR + guanosine derivative<br />
 +
 
 +
*ThiM riboswitch
 +
 
 +
**[[7tzr]], [[7tzs]], [[7tzt]], [[7tzu]] – EcThR + quinoxaline derivative <br />
 +
**[[3k0j]] – EcThR + thiamine pyrophosphate
-
**[[5t83]] – TpR + guanidine – ''Sulfobacillus acidophilus'' <br />
 
-
**[[5ndh]], [[5ndi]], [[5nef]], [[5neo]], [[5nep]], [[5neq]], [[5nex]], [[5nom]] – TpR + guanidine derivative – ''Gloeobacter violaceus'' <br />
 
-
**[[5vj9]], [[5vjb]] – TpR + guanidine – ''Pseudomonas aeruginosa'' <br />
 
}}
}}
[[Category: Topic Page]]
[[Category: Topic Page]]

Current revision

3D structures of riboswitch

Updated on 11-August-2024

S-adenosylhomocysteine riboswitch or SAH riboswitch

C-di-GMP riboswitch

  Fluoride riboswitch

3vrs – TpFR + Mn + K + F – Thermotoga petrophila
4en5 – TpFR + Mg + Tl + F
4enc – TpFR + Mg + K + F
4ena – TpFR + Mg + Cs + GTP + F
4enb – TpFR + Mg + Ir + K + GTP + F

4frg, 4frn, 4gma, 4gxy – CoR + aptamer domain – Marine metagenome


Proteopedia Page Contributors and Editors (what is this?)

Michal Harel

Retrieved from "http://52.214.119.220/wiki/index.php/Riboswitch_3D_structures"
Personal tools