Riboswitch 3D structures: Difference between revisions

From Proteopedia
Jump to navigationJump to search
Michal Harel (talk | contribs)
32,826 edits
New page: ==3D structures of riboswitch== Updated on {{REVISIONDAY2}}-{{MONTHNAME|{{REVISIONMONTH}}}}-{{REVISIONYEAR}} {{#tree:id=OrganizedByTopic|openlevels=0| *Adenine riboswitch **1y26, [[...
 
Normalize <br/> usage in #tree blocks
 
(10 intermediate revisions by 2 users not shown)
Line 3: Line 3:
Updated on {{REVISIONDAY2}}-{{MONTHNAME|{{REVISIONMONTH}}}}-{{REVISIONYEAR}}
Updated on {{REVISIONDAY2}}-{{MONTHNAME|{{REVISIONMONTH}}}}-{{REVISIONYEAR}}
{{#tree:id=OrganizedByTopic|openlevels=0|
{{#tree:id=OrganizedByTopic|openlevels=0|
*Adenine riboswitch
*Adenine riboswitch
 
**[[1y26]], [[4tzx]], [[4tzy]], [[4xnr]], [[5swd]], [[5swe]], [[5uza]], [[6vwt]], [[6vwv]] – VvAR + adenine – ''Vibrio vulnificus''
**[[1y26]], [[4tzx]], [[4tzy]], [[4xnr]], [[5swd]], [[5swe]], [[5uza]] – VvAR + adenine – ''Vibrio vulnificus''<br />
**[[5e54]] – VvAR  
**[[5e54]] – VvAR <br />
**[[3ivn]] – BsAR (mutant) – ''Bacillus subtilis''
**[[3ivn]] – BsAR (mutant) – ''Bacillus subtilis''<br />
**[[3la5]] - BsAR (mutant) + azacytosine
**[[3la5]] - BsAR (mutant) + azacytosine<br />
 
*Guanine riboswitch
*Guanine riboswitch
 
**[[1y27]] – BsGR residues 185-252 + guanine
**[[1y27]] – BsGR residues 185-252 + guanine<br />
**[[2g9c]], [[3fo4]], [[3fo6]], [[3ges]], [[3gog]], [[3rkf]] - BsGR (mutant) + guanine derivative
**[[2g9c]], [[3fo4]], [[3fo6]], [[3ges]], [[3gog]], [[3rkf]] - BsGR (mutant) + guanine derivative<br />
**[[3got]] - BsGR (mutant) + adenine derivative
**[[3got]] - BsGR (mutant) + adenine derivative<br />
**[[2xo1]] - BsGR  aptamer domain + adenine derivative
**[[2xo1]] - BsGR  aptamer domain + adenine derivative<br />
**[[3g4m]], [[3ger]] - BsGR  + guanine derivative
**[[3g4m]], [[3ger]] - BsGR  + guanine derivative<br />
**[[2xnz]], [[6ubu]], [[6uc7]], [[6uc8]], [[6uc9]] - BsGR  aptamer domain + guanine derivative
**[[2xnz]] - BsGR  aptamer domain + guanine derivative<br />
**[[2xo0]] - BsGR  aptamer domain + triazine derivative
**[[2xo0]] - BsGR  aptamer domain + triazine derivative<br />
**[[5c7u]], [[5c7w]] - BsGR + hypoxanthine
**[[5c7u]], [[5c7w]] - BsGR + hypoxanthine<br />
**[[2ees]], [[2eet]], [[2eeu]], [[2eev]], [[2eew]] - BsGR (mutant) + hypoxanthine
**[[2ees]], [[2eet]], [[2eeu]], [[2eev]], [[2eew]] - BsGR (mutant) + hypoxanthine<br />
**[[3gao]] - BsGR  + xanthine
**[[3gao]] - BsGR  + xanthine<br />
**[[2xnw]] – BsGR + Mn
**[[2xnw]] – BsGR + Mn<br />
**[[4fe5]], [[4fej]], [[4fel]], [[4fen]], [[4feo]], [[4fep]] – sGR + hypoxanthine – synthetic
**[[4fe5]], [[4fej]], [[4fel]], [[4fen]], [[4feo]], [[4fep]] – GR + hypoxanthine – synthetic<br />
**[[6p2h]] – sGR
 
**[[2b57]] – GR + purine derivative
*Guanidine riboswitch
*Guanidine riboswitch
 
**[[5nwq]], [[5ny8]], [[5nz3]], [[5nz6]], [[5o62]] – TfGNR + guanidine derivative – ''Thermobifida fusca''
**[[5nwq]] – TfGR + guanidine – ''Thermobifida fusca''<br />
**[[5o69]] – TfGNR + agmatine
**[[5nzd]] – TfGR + CDP derivative<br />
**[[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''
*Xanthine riboswitch
**[[7elp]], [[7elq]], [[7elr]], [[7els]] – XR + xanthine derivative – ''Ideonella''
*Thiamine pyrophosphate riboswitch
*Thiamine pyrophosphate riboswitch
 
**[[2gdi]] – TPPR + TPP – synthetic
**[[2gdi]] – TPPR + TPP – synthetic<br />
**[[2hoj]], [[2hok]], [[2hol]] – EcTPPR + TPP + metal ion – ''Escherichia coli''
**[[2hoj]], [[2hok]], [[2hol]] – EcTPPR + TPP + metal ion – ''Escherichia coli''<br />
**[[2hom]], [[8f4o]]– EcTPPR + TMP
**[[2hom]] – EcTPPR + TMP<br />
**[[2hoo]], [[2hop]] – EcTPPR + TPP analog
**[[2hoo]], [[2hop]] – EcTPPR + TPP analog<br />
**[[4nya]], [[4nyb]], [[4nyc]], [[7tdc]] – EcTPPR + pyrimidine derivative
**[[4nya]], [[4nyb]], [[4nyc]] – EcTPPR + pyrimidine derivative<br />
**[[4nyd]] – EcTPPR + hypoxanthine  
**[[4nyd]] – EcTPPR + hypoxanthine <br />
**[[4nyg]], [[7td7]], [[7tda]], [[7tdb]] – EcTPPR + thiamine derivative
**[[4nyg]] – EcTPPR + thyamine <br />
**[[2cky]], [[3d2g]], [[3d2v]], [[3d2x]] - TPPR + TPP analog – ''Arabidopsis thaliana''
**[[3d2g]], [[3d2v]], [[3d2x]] - TPPR + TPP analog – ''Arabidopsis thaliana''
*S-adenosylmethionine riboswitch or SAM riboswitch
 
**[[2gis]], [[4aob]], [[4b5r]], [[4l81]] – TtSAMR + SAM – ''Thermoanaerobacter tengcongensis''
*S-adenosylmethionine riboswitch
**[[3iqr]], [[2ydh]], [[2ygh]] - TtSAMR (mutant) + SAM
 
**[[3iqp]] - TtSAMR
**[[2gis]], [[4aob]], [[4b5r]] – TtSAMR + SAM – ''Thermoanaerobacter tengcongensis''<br />
**[[2qwy]], [[3e5c]], [[3e5e]], [[3e5f]], [[3iqn]] - SAMR + SAM – synthetic
**[[3iqr]], [[2ydh]], [[2ygh]] - TtSAMR (mutant) + SAM<br />
**[[4kqy]] – BsSAMR + SAM
**[[3iqp]] - TtSAMR<br />
**[[3v7e]] – BsSAMR + Ybxf + SAM
**[[5fjc]], [[5fk1]], [[5fk2]], [[5fk3]], [[5fk4]], [[5fk5]], [[5fk6]], [[5fkd]], [[5fke]], [[5fkf]], [[5fkg]], [[5fkh]] - TtSAMR + SAM + GTP<br />
**[[4oqu]] - SAMR + SAM - synthetic
**[[2qwy]], [[3e5c]], [[3e5e]], [[3e5f]], [[3iqn]] - SAMR + SAM – synthetic<br />
**[[6c27]] - SAMR + GTP – ''Enterococcus faecalis''
**[[4kqy]] – BsSAMR + SAM<br />
**[[6ues]], [[6wlq]], [[6wlr]] - MtSAMR – ''Mycobacterium tuberculosis''
**[[4oqu]] - SAMR + SAM - synthetic<br />
**[[6uet]] - MtSAMR + SAM
**[[6fz0]] - SAMR + SAM - ''Candidatus pelagibacter''<br />
**[[3gx5]], [[3gx6]], [[3gx7]] - TtSAMR + SAM
**[[6c27]] - SAMR + GTP – ''Enterococcus faecalis''<br />
**[[6laz]] - BaSAMR + U1 small nuclear ribonucleoprotein + GTP + SAM analog – ''Bifidobacterium angulatum''
 
**[[6las]], [[6lax]] - BaSAMR + U1 small nuclear ribonucleoprotein + SAM
*S-adenosylhomocysteine riboswitch
**[[6lau]] - BaSAMR + U1 small nuclear ribonucleoprotein + SAH
 
**[[7eaf]] – CsSAMR + SAM  – ''Caldanaerobacter subterraneus''
**[[3npn]], [[3npq]] – SAHR + SAH – ''Ralstonia solanacearum''<br />
* S-adenosylhomocysteine riboswitch or SAH riboswitch
**[[6hag]] - SAMR + SAH – proteobacteria - NMR<br />
**[[3npn]], [[3npq]] – SAHR + SAH – ''Ralstonia solanacearum''
 
**[[6hag]] - SAMR + SAH – ''proteobacteria'' - NMR
*SAM/SAH riboswitch
**[[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
*NAD+ riboswitch
**[[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
*Lysine riboswitch
*Lysine riboswitch
 
**[[3d0u]] – TmKR ligand-binding domain + Lysine – ''Thermotoga maritime''
**[[3dis]] – TmKR – ''Thermotoga maritima''<br />
**[[4erj]] – TmKR + aminocaproic acid
**[[3d0u]] – TmKR ligand-binding domain + Lysine <br />
**[[4erl]] – TmKR + Lys + Gly
**[[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 />
**[[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
 
**[[6wjr]], [[6wjs]] - FnFMNR – ''Fusobacterium nucleatum''
**[[3f2q]], [[3f2t]], [[3f2w]], [[3f2x]], [[3f2y]], [[3f30]], [[3f4e]] – FnFMNR + FMN – ''Fusobacterium nucleatum''<br />
**[[3f2q]], [[3f2t]], [[3f2w]], [[3f2x]], [[3f2y]], [[3f30]], [[3f4e]] – FnFMNR + FMN
**[[2yie]] - FnFMNR aptamer domain + FMN<br />
**[[2yie]] - FnFMNR aptamer domain + FMN
**[[3f4g]], [[3f4h]] – FnFMNR + flavin derivative<br />
**[[3f4g]], [[3f4h]] – FnFMNR + flavin derivative
**[[2yif]] - FnFMNR + GTP<br />
**[[2yif]] - FnFMNR + GTP
**[[6dn1]], [[6dn2]], [[6dn3]] - FnFMNR + RNA<br />
**[[6bfb]] – FnFMNR + inhibitor
**[[5c45]], [[5kx9]], [[6bfb]] - FnFMNR + inhibitor<br />
 
*Pre-queosine riboswitch
*Pre-queosine riboswitch
 
**[[3fu2]], [[3k1v]] – BsPreq1R + queosine
**[[3fu2]], [[3k1v]] – BsQ1R + queosine<br />
**[[3gca]] – TtPreq1R + queosine
**[[3gca]] – TtQ0R + queosine<br />
**[[3q50]], [[3q51]] – TtPreq1R aptamer domain + queosine
**[[3q50]], [[3q51]] – TtQ1R aptamer domain + queosine<br />
**[[4jf2]] – Preq1R + GTP + deaza-aminomethyl guanine – ''Lactobacillus rhamnosus''
**[[4jf2]], [[5d5l]] – Q1R + GTP + deaza-aminomethyl guanine – ''Lactobacillus rhamnosus''<br />
**[[6vuh]], [[6vui]] – CsPreq1
**[[4rzd]] – Q1R + GTP + deaza-aminomethyl guanine – ''Faecalibacterium prausnitzii''<br />
**[[6e1s]], [[6e1t]], [[6e1u]], [[6e1v]], [[6e1w]], [[7e9e]], [[7e9i]] – CsPreq1 + probe
 
**[[6xkn]], [[6xko]] – Preq1 + GTP + guanine derivative – ''Faecalibacterium prausnitzii''
*C-di-GMP riboswitch
**[[7rex]], [[8fb3]] – Preq1 + guanine derivative – ''Carnobacterium antarcticum''
 
**[[2miy]] – Preq1 + guanine derivative – ''Streptococcus pneumoniae'' - NMR
**[[3irw]], [[3mxh]] – VcGMPR + C-di-GMP + GTP + U1 small nuclear ribonucleoprotein – ''Vibrio cholerae''<br />
**[[8fza]] – EcPreq1 III
**[[3iwn]], [[4yb1]] – VcGMPR + C-di-GMP + U1 small nuclear ribonucleoprotein<br />
**[[2l1v]] – EcPreq1 I + PreQ1 - NMR <br/><br/>C-di-GMP riboswitch
**[[3mum]], [[3mur]], [[3mut]] - VcGMPR (mutant) + C-di-GMP + U1 small nuclear ribonucleoprotein<br />
**[[3ucu]], [[3ucz]] – hGMPR + GpG
**[[3muv]] - VcGMPR (mutant) + C-di-AMP + U1 small nuclear ribonucleoprotein<br />
**[[3ud3]], [[3ud4]] – hGMPR + GpA
**[[3q3z]] - GMPR + C-di-GMP – ''Clostridium acetobutylicum''<br />
**[[3irw]], [[3mxh]] – VcGMPR + C-di-GMP + GTP + U1 small nuclear ribonucleoprotein – ''Vibrio cholerae''
**[[4qk8]], [[4qka]] – GMPR + GTP – ''Thermoanaerobacter pseudethanolicus''<br />
**[[3iwn]] – VcGMPR + C-di-GMP + U1 small nuclear ribonucleoprotein
**[[4qk9]] – GMPR + guanosine derivative – ''Thermovirga lienii''<br />
**[[3mum]], [[3mur]], [[3mut]] - VcGMPR (mutant) + C-di-GMP + U1 small nuclear ribonucleoprotein
**[[4yaz]], [[4yb0]] – GMPR + C-di-GMP - ''Geobacter''<br />
**[[3muv]] - VcGMPR (mutant) + C-di-AMP + U1 small nuclear ribonucleoprotein
 
**[[3q3z]] - GMPR + C-di-GMP – ''Clostridium acetobutylicum''
*C-di-AMP riboswitch
**[[4qk8]], [[4qka]] – GMPR + GTP – ''Thermoanaerobacter pseudethanolicus''
 
**[[4qk9]] – GMPR + guanosine derivative – ''Thermovirga lienii''
**[[4w90]], [[4w92]] – VBsAMPR + C-di-AMP + U1 small nuclear ribonucleoprotein<br />
**[[3muv]] – AMPR + C-di-AMP + U1 small nuclear ribonucleoprotein - synthetic<br />
**[[4qk8]] – AMPR + C-di-AMP + GTP - ''Thermoanaerobacter pseudethanolicus''<br />
**[[4qk8]], [[4qka]] – AMPR + C-di-AMP + GTP - ''Thermoanaerobacter pseudethanolicus''<br />
**[[4qlm]], [[4qln]] – AMPR + C-di-AMP - ''Thermoanaerobacter tengcongensis''<br />
**[[4qk9]] – AMPR + C-di-AMP + GTP derivative - ''Thermovirga lienii''<br />
 
*Glycine riboswitch
*Glycine riboswitch
 
**[[6wlt]], [[6wlu]] – VcGlyR
**[[3owi]], [[3oww]], [[3owz]] – VcGlyR + glycine<br />
**[[3owi]], [[3oww]], [[3owz]] – VcGlyR + glycine
**[[3ox0]], [[3oxe]], [[3oxj]], [[3oxm]] – VcGlyR + GDP + cytidine cyclic phosphate<br />
**[[3ox0]], [[3oxe]], [[3oxj]], [[3oxm]] – VcGlyR + GDP + cytidine cyclic phosphate
**[[3oxb]], [[3oxd]] – VcGlyR (mutant) + GDP + cytidine cyclic phosphate<br />
**[[3oxb]], [[3oxd]] – VcGlyR (mutant) + GDP + cytidine cyclic phosphate
**[[3p49]] – FnGlyR + U1 small nuclear ribonucleoprotein + glycine<br />
**[[6wll]], [[6wlm]] – FnGlyR
 
**[[3p49]] – FnGlyR + U1 small nuclear ribonucleoprotein + glycine
*Glutamine riboswitch
**[[6qn3]] – GlnR II + Gln – ''Prochlorococcus''
*M-Box riboswitch
*M-Box riboswitch
 
**[[3pdr]] – BsMBR + Mn
**[[3pdr]] – BsMBR + Mn<br />
**[[2qbz]] – BsMBR + Mg<br />
 
*T-Box riboswitch
*T-Box riboswitch
 
**[[4lck]] – sTBR + tRNA-Gly + ribosomal protein YBXF – synthetic
**[[4lck]] – sTBR + tRNA-Gly + ribosomal protein YBXF – synthetic<br />
**[[4mgn]] – sTBR + tRNA-Gly  
**[[4mgn]] – sTBR + tRNA-Gly <br />
**[[6ufm]] – TBR + tRNA – ''Mycolicibacterium smegmatis''
 
**[[6ufg]], [[6ufh]] – MtTBR + tRNA
**[[6pom]] – BsTBR + tRNA-Gly – Cryo EM
*Tetrahydrofolate riboswitch
*Tetrahydrofolate riboswitch
 
**[[3suh]], [[3sux]] – EsTHFR + THF derivative – Eubacterium siraeum
**[[3suh]], [[3sux]] – EsTHFR + THF derivative – ''Eubacterium siraeum''<br />
**[[3suy]] - EsTHFR + cytidine cyclic phosphate
**[[3suy]] - EsTHFR + cytidine cyclic phosphate<br />
**[[4lvv]], [[4lvx]], [[4lvw]], [[4lvy]], [[4lvz]], [[4lw0]] – THFR + purine derivative – synthetic
**[[4lvv]], [[4lvx]], [[4lvw]], [[4lvy]], [[4lvz]], [[4lw0]] – THFR + purine derivative – synthetic<br />
**[[3sd3]] – THFR (mutant) + pteridine derivative – synthetic 
**[[3sd3]] – THFR (mutant) + pteridine derivative – synthetic<br />
**[[1qa4]], [[1qa5]] – NEF anchor domain – NMR
 
**[[7kd1]] – SmTHFR – Streptococcus mutans
*Fluoride riboswitch
**[[6q57]] – SmTHFR + pterin derivative
 
**[[7wia]], [[7wib]] – MlTHFR – ''Mesorhizobium loti''
**[[3vrs]] – TpR + Mn + K + F – ''Thermotoga petrophila''<br />
**[[7wie]] – MlTHFR + 7DG
**[[4en5]] – TpR + Mg + Tl + F <br />
**[[7wii]] – MlTHFR + NPR
**[[4enc]] – TpR + Mg + K + F <br />
**[[7wif]] – MlTHFR + H4B<br/><br/> <br/>Fluoride riboswitch
**[[4ena]] – TpR + Mg + Cs + GTP + F <br />
* [[3vrs]] – TpFR + Mn + K + F – ''Thermotoga petrophila''
**[[4enb]] – TpR + Mg + Ir + K + GTP + F <br />
* [[4en5]] – TpFR + Mg + Tl + F  
**[[5kh8]] – R - synthetic - NMR<br />
* [[4enc]] – TpFR + Mg + K + F  
 
* [[4ena]] – TpFR + Mg + Cs + GTP + F  
* [[4enb]] – TpFR + Mg + Ir + K + GTP + F  
*Manganese riboswitch
**[[6n2v]] – MnR + Mn – ''Xanthomonas oryzae''
*Cobalamine riboswitch
*Cobalamine riboswitch
 
* [[4frg]], [[4frn]], [[4gma]], [[4gxy]] – CoR + aptamer domain – Marine metagenome
**[[4frg]], [[4frn]], [[4gma]], [[4gxy]] – CoR + aptamer domain – ''Marine metagenome''<br />
**[[6vmy]], [[8fw4]] – BsCoR
 
**[[8sa2]], [[8sa3]], [[8sa4]], [[8sa5]], [[8sa6]] – BsCoR – Cryo EM
*yybp-ykoy riboswitch
*YdaO riboswitch
 
**[[6n5k]], [[6n5n]], [[6n5o]], [[6n5p]], [[6n5q]], [[6n5s]], [[6n5t]], [[6wtl]], [[6wtr]] – hYdaO/mRNA
**[[4y1i]] – LlYYR + Mn – ''Lactobacillus lactis''<br />
* yybp-ykoy riboswitch
**[[4y1j]] – LlYYR (mutant) + Mn<br />
**[[4y1i]] – LlYYR + Mn – ''Lactobacillus lactis''
**[[4y1m]] – EcYYR <br />
**[[4y1j]] – LlYYR (mutant) + Mn
 
**[[6cb3]], [[6cc1]], [[6cc3]] – LlYYR + GTP
*ykkc riboswitch
**[[4y1m]] – EcYYR
 
* PRPP riboswitch
**[[5u3g]] – TpR + gusanidine – ''Dikeya dadantii''<br />
**[[6dnr]] – SlPRPPR + GTP + cytidine phosphate – ''Syntrophothermus lipocalidus''
 
**[[6dlq]], [[6dls]], [[6dlt]] – SlPRPPR + GTP + cytidine phosphate + PRP
*PRPP riboswitch
**[[6dlr]] – SlPRPPR + cytidine phosphate + PRP
 
**[[6ck5]] – TmPRPPR + PRPP – ''Thermoanaerobacter mathranii''
**[[6ck5]] – TmPRR + PRPP – ''Thermoanaerobacter mathranii''<br />
**[[6ck4]] – TmPRPPR (mutant) + G4P
**[[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
 
**[[6dme]], [[6dmd]], [[6dmc]] – SaPPGPPR + GTP + cytidine phosphate + guanine tetraphosphate – ''Sulfobacillus acidophilus''
**[[6dme]], [[6dmd]], [[6dmc]] – SaPPGPPR + GTP + cytidine phosphate + guanine tetraphosphate – ''Sulfobacillus acidophilus''<br />
 
*PFI riboswitch
*PFI riboswitch
 
**[[4znp]] – PFIR + AICAR – synthetic
**[[4znp]] – TpR + AICAR – synthetic<br />
*NiCo riboswitch
 
**[[4rum]] – NiCoR + Co – synthetic
*NICO riboswitch
 
**[[4rum]] – TpR + Co – synthetic<br />
 
*ZMP riboswitch
*ZMP riboswitch
 
**[[4xw7]], [[4xwf]] – ZMPR + AICAR – ''Actinomyces odontolyticus''  
**[[4xw7]], [[4xwf]] – TpR + AICAR – ''Actinomyces odontolyticus'' <br />
 
*ZTP riboswitch
*ZTP riboswitch
**[[6od9]] – FuZTP – ''Fusobacterium ulcerans''
**[[6wzr]], [[6wzs]] – FuZTP + pyridine derivative
**[[5btp]] – FuZTPR + AICAR
*Deoxyguanosine riboswitch
**[[3sk4]], [[3ski]], [[3skl]], [[3skt]], [[3skz]], [[3slm]], [[3slq]] – DgR + guanosine derivative
*ThiM riboswitch
**[[7tzr]], [[7tzs]], [[7tzt]], [[7tzu]] – EcThR + quinoxaline derivative
**[[3k0j]] – EcThR + thiamine pyrophosphate


**[[5btp]] – TpR + AICAR – ''Fusobacterium ulcerans'' <br />
*Guanidine riboswitch
**[[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]]

Latest revision as of 15:43, 29 March 2026

3D structures of riboswitch

Updated on 29-March-2026

Proteopedia Page Contributors and Editors (what is this?)

Michal Harel, Openfox

Retrieved from "https://proteopedia.org/index.php?title=Riboswitch_3D_structures&oldid=4433733"