Riboswitch 3D structures: Difference between revisions

**[[1y26]], [[4tzx]], [[4tzy]], [[4xnr]], [[5swd]], [[5swe]], [[5uza]], [[6vwt]], [[6vwv]] – VvAR + adenine – ''Vibrio vulnificus''

**[[5e54]] – VvAR  

**[[3ivn]] – BsAR (mutant) – ''Bacillus subtilis''

**[[3la5]] - BsAR (mutant) + azacytosine

**[[1y27]] – BsGR residues 185-252 + guanine

**[[2g9c]], [[3fo4]], [[3fo6]], [[3ges]], [[3gog]], [[3rkf]] - BsGR (mutant) + guanine derivative

**[[3got]] - BsGR (mutant) + adenine derivative

**[[2xo1]] - BsGR  aptamer domain + adenine derivative

**[[3g4m]], [[3ger]] - BsGR  + guanine derivative

**[[2xnz]], [[6ubu]], [[6uc7]], [[6uc8]], [[6uc9]] - BsGR  aptamer domain + guanine derivative

**[[2xo0]] - BsGR  aptamer domain + triazine derivative

**[[5c7u]], [[5c7w]] - BsGR + hypoxanthine

**[[2ees]], [[2eet]], [[2eeu]], [[2eev]], [[2eew]] - BsGR (mutant) + hypoxanthine

**[[3gao]] - BsGR  + xanthine

**[[2xnw]] – BsGR + Mn

**[[4fe5]], [[4fej]], [[4fel]], [[4fen]], [[4feo]], [[4fep]] – sGR + hypoxanthine – synthetic

**[[6p2h]] – sGR  

**[[2b57]] – GR + purine derivative

**[[5nwq]], [[5ny8]], [[5nz3]], [[5nz6]], [[5o62]] – TfGNR + guanidine derivative – ''Thermobifida fusca''

**[[5o69]] – TfGNR + agmatine  

**[[5nzd]] – TfGNR + CDP derivative

**[[7mlw]] – GNR + guanidine – ''Burkholderia''

**[[6hbt]], [[6hbx]], [[6hc5]] – GNR + guanidine II + inhibitor – ''Gloeobacter violaceus''

**[[5t83]] – GNR + guanidine – ''Sulfobacillus acidophilus''  

**[[5ndh]], [[5ndi]], [[5nef]], [[5neo]], [[5nep]], [[5neq]], [[5nex]], [[5nom]] – GNR + guanidine derivative – ''Gloeobacter violaceus''  

**[[5vj9]], [[5vjb]] – GNR + guanidine – ''Pseudomonas aeruginosa''  

**[[7elp]], [[7elq]], [[7elr]], [[7els]] – XR + xanthine derivative – ''Ideonella''

**[[4nya]], [[4nyb]], [[4nyc]], [[7tdc]] – EcTPPR + pyrimidine derivative

**[[4nyd]] – EcTPPR + hypoxanthine  

**[[4nyg]], [[7td7]], [[7tda]], [[7tdb]] – EcTPPR + thiamine derivative

**[[4kqy]] – BsSAMR + SAM

**[[3v7e]] – BsSAMR + Ybxf + SAM

**[[4oqu]] - SAMR + SAM - synthetic

**[[6c27]] - SAMR + GTP – ''Enterococcus faecalis''

**[[6ues]], [[6wlq]], [[6wlr]] - MtSAMR – ''Mycobacterium tuberculosis''

**[[6uet]] - MtSAMR + SAM

**[[3gx5]], [[3gx6]], [[3gx7]] - TtSAMR + SAM  

**[[6laz]] - BaSAMR + U1 small nuclear ribonucleoprotein + GTP + SAM analog – ''Bifidobacterium angulatum''

**[[6las]], [[6lax]] - BaSAMR + U1 small nuclear ribonucleoprotein + SAM

**[[6lau]] - BaSAMR + U1 small nuclear ribonucleoprotein + SAH

**[[7eaf]] – CsSAMR + SAM  – ''Caldanaerobacter subterraneus''

**[[6hag]] - SAMR + SAH – ''proteobacteria'' - NMR

**[[6ymk]] – RoSAM/SAH + adenosine derivative + cytidine derivative – ''Roseobacter''

**[[6ylb]], [[6ymm]] – RoSAM/SAH + SAM

**[[6ymi]] – RoSAM/SAH + AMP

**[[6yl5]], [[6yml]] – RoSAM/SAH + SAH

**[[6ymj]] – RoSAM/SAH + adenosine

**[[6tb7]], [[6tf1]], [[6tf2]], [[6tf3]], [[6tfe]], [[6tfg]], [[7d7y]] – CkNADR + ATP derivative – ''Candidatus koribacter''

**[[6tf0]], [[6tff]], [[6tfh]] – CkNADR + NAD

**[[8gxc]], [[8hb1]], [[8hb8]], [[8i3z]]  – SmNADR II + NMN

**[[8gxb]], [[8hba]] – SmNADR II + NAD

**[[8hb3]] – SmNADR II + NR

**[[7d7w]], [[7d7x]], [[7d7z]], [[7d81]], [[7d82]] – AbNADR + NAD - ''Acidobacteriaceae bacterium''

**[[7d7v]] – AbNADR + NAD + U1 small nuclear ribonucleoprotein

**[[4erj]] – TmKR + aminocaproic acid

**[[4erl]] – TmKR + Lys + Gly

**[[6wjr]], [[6wjs]] - FnFMNR – ''Fusobacterium nucleatum''

**[[6bfb]] – FnFMNR + inhibitor

**[[4jf2]] – Preq1R + GTP + deaza-aminomethyl guanine – ''Lactobacillus rhamnosus''

**[[6vuh]], [[6vui]] – CsPreq1  

**[[6e1s]], [[6e1t]], [[6e1u]], [[6e1v]], [[6e1w]], [[7e9e]], [[7e9i]] – CsPreq1 + probe

**[[6xkn]], [[6xko]] – Preq1 + GTP + guanine derivative – ''Faecalibacterium prausnitzii''

**[[7rex]],  [[8fb3]] – Preq1 + guanine derivative – ''Carnobacterium antarcticum''

**[[2miy]] – Preq1 + guanine derivative – ''Streptococcus pneumoniae'' - NMR

**[[8fza]] – EcPreq1 III  

**[[2l1v]] – EcPreq1 I + PreQ1 - NMR <br/><br/>C-di-GMP riboswitch

**[[3ucu]], [[3ucz]] – hGMPR + GpG  

**[[3ud3]], [[3ud4]] – hGMPR + GpA  

**[[4qk8]], [[4qka]] – GMPR + GTP – ''Thermoanaerobacter pseudethanolicus''

**[[4qk9]] – GMPR + guanosine derivative – ''Thermovirga lienii''

**[[6wlt]], [[6wlu]] – VcGlyR

**[[6wll]], [[6wlm]] – FnGlyR

**[[6qn3]] – GlnR II + Gln – ''Prochlorococcus''

**[[4lck]] – sTBR + tRNA-Gly + ribosomal protein YBXF – synthetic

**[[4mgn]] – sTBR + tRNA-Gly  

**[[6ufm]] – TBR + tRNA – ''Mycolicibacterium smegmatis''

**[[6ufg]], [[6ufh]] – MtTBR + tRNA  

**[[6pom]] – BsTBR + tRNA-Gly – Cryo EM

**[[7kd1]] – SmTHFR – Streptococcus mutans

**[[6q57]] – SmTHFR + pterin derivative  

**[[7wia]], [[7wib]] – MlTHFR – ''Mesorhizobium loti''  

**[[7wie]] – MlTHFR + 7DG

**[[7wii]] – MlTHFR + NPR

**[[7wif]] – MlTHFR + H4B<br/><br/> <br/>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  

**[[6n2v]] – MnR + Mn – ''Xanthomonas oryzae''

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

**[[6vmy]], [[8fw4]] – BsCoR  

**[[8sa2]], [[8sa3]], [[8sa4]], [[8sa5]], [[8sa6]] – BsCoR – Cryo EM

**[[6n5k]], [[6n5n]], [[6n5o]], [[6n5p]], [[6n5q]], [[6n5s]], [[6n5t]], [[6wtl]], [[6wtr]] – hYdaO/mRNA  

**[[4y1i]] – LlYYR + Mn – ''Lactobacillus lactis''

**[[4y1j]] – LlYYR (mutant) + Mn

**[[6cb3]], [[6cc1]], [[6cc3]] – LlYYR + GTP

**[[4y1m]] – EcYYR  

**[[6dnr]] – SlPRPPR + GTP + cytidine phosphate – ''Syntrophothermus lipocalidus''

**[[6dlq]], [[6dls]], [[6dlt]] – SlPRPPR + GTP + cytidine phosphate + PRP

**[[6dlr]] – SlPRPPR + cytidine phosphate + PRP

**[[6ck5]] – TmPRPPR + PRPP – ''Thermoanaerobacter mathranii''

**[[6ck4]] – TmPRPPR (mutant) + G4P

**[[6dme]], [[6dmd]], [[6dmc]] – SaPPGPPR + GTP + cytidine phosphate + guanine tetraphosphate – ''Sulfobacillus acidophilus''

**[[4znp]] – PFIR + AICAR – synthetic

**[[4rum]] – NiCoR + Co – synthetic

**[[4xw7]], [[4xwf]] – ZMPR + AICAR – ''Actinomyces odontolyticus''  

**[[6od9]] – FuZTP – ''Fusobacterium ulcerans''

**[[6wzr]], [[6wzs]] – FuZTP + pyridine derivative

**[[5btp]] – FuZTPR + AICAR  

**[[3sk4]], [[3ski]], [[3skl]], [[3skt]], [[3skz]], [[3slm]], [[3slq]] – DgR + guanosine derivative

**[[7tzr]], [[7tzs]], [[7tzt]], [[7tzu]] – EcThR + quinoxaline derivative