Riboswitch 3D structures: Difference between revisions

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**[[4fe5]], [[4fej]], [[4fel]], [[4fen]], [[4feo]], [[4fep]] – sGR + hypoxanthine – synthetic<br />
**[[4fe5]], [[4fej]], [[4fel]], [[4fen]], [[4feo]], [[4fep]] – sGR + hypoxanthine – synthetic<br />
**[[6p2h]] – sGR <br />
**[[6p2h]] – sGR <br />
**[[2b57]] – GR + purine derivative<br />


*Guanidine riboswitch
*Guanidine riboswitch
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**[[2gdi]] – TPPR + TPP – synthetic<br />
**[[2gdi]] – TPPR + TPP – synthetic<br />
**[[2hoj]], [[2hok]], [[2hol]] – EcTPPR + TPP + metal ion – ''Escherichia coli''<br />
**[[2hoj]], [[2hok]], [[2hol]] – EcTPPR + TPP + metal ion – ''Escherichia coli''<br />
**[[2hom]] – EcTPPR + TMP<br />
**[[2hom]], [[8f4o]] – EcTPPR + TMP<br />
**[[2hoo]], [[2hop]] – EcTPPR + TPP analog<br />
**[[2hoo]], [[2hop]] – EcTPPR + TPP analog<br />
**[[4nya]], [[4nyb]], [[4nyc]], [[7tdc]] – EcTPPR + pyrimidine derivative<br />
**[[4nya]], [[4nyb]], [[4nyc]], [[7tdc]] – EcTPPR + pyrimidine derivative<br />
**[[4nyd]] – EcTPPR + hypoxanthine <br />
**[[4nyd]] – EcTPPR + hypoxanthine <br />
**[[4nyg]], [[7td7]], [[7tda]], [[7tdb]]  – EcTPPR + thiamine derivative<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 or SAM riboswitch
*S-adenosylmethionine riboswitch or SAM riboswitch


**[[2gis]], [[4aob]], [[4b5r]] – TtSAMR + SAM – ''Thermoanaerobacter tengcongensis''<br />
**[[2gis]], [[4aob]], [[4b5r]], [[4l81]] – TtSAMR + SAM – ''Thermoanaerobacter tengcongensis''<br />
**[[3iqr]], [[2ydh]], [[2ygh]] - TtSAMR (mutant) + SAM<br />
**[[3iqr]], [[2ydh]], [[2ygh]] - TtSAMR (mutant) + SAM<br />
**[[3iqp]] - TtSAMR<br />
**[[3iqp]] - TtSAMR<br />
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**[[2qwy]], [[3e5c]], [[3e5e]], [[3e5f]], [[3iqn]] - SAMR + SAM – synthetic<br />
**[[2qwy]], [[3e5c]], [[3e5e]], [[3e5f]], [[3iqn]] - SAMR + SAM – synthetic<br />
**[[4kqy]] – BsSAMR + SAM<br />
**[[4kqy]] – BsSAMR + SAM<br />
**[[3v7e]] – BsSAMR + Ybxf + SAM<br />
**[[4oqu]] - sSAMR + SAM <br />
**[[4oqu]] - sSAMR + SAM <br />
**[[6fz0]] - SAMR + SAM - ''Candidatus pelagibacter''<br />
**[[6fz0]] - SAMR + SAM - ''Candidatus pelagibacter''<br />
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**[[6ues]], [[6wlq]], [[6wlr]] - MtSAMR - ''Mycobacterium tuberculosis''<br />
**[[6ues]], [[6wlq]], [[6wlr]] - MtSAMR - ''Mycobacterium tuberculosis''<br />
**[[6uet]] - MtSAMR + SAM<br />
**[[6uet]] - MtSAMR + SAM<br />
**[[3gx5]], [[3gx6]], [[3gx7]] - SAMR + SAM - tengcongensis<br />
**[[6laz]] - BaSAMR + U1 small nuclear ribonucleoprotein + GTP + SAM analog – ''Bifidobacterium angulatum''<br />
**[[6laz]] - BaSAMR + U1 small nuclear ribonucleoprotein + GTP + SAM analog – ''Bifidobacterium angulatum''<br />
**[[6las]], [[6lax]] - BaSAMR + U1 small nuclear ribonucleoprotein + SAM<br />
**[[6las]], [[6lax]] - BaSAMR + U1 small nuclear ribonucleoprotein + SAM<br />
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**[[6tb7]], [[6tf1]], [[6tf2]], [[6tf3]], [[6tfe]], [[6tfg]], [[7d7y]] – CkNAD + ATP derivative – ''Candidatus koribacter''<br />
**[[6tb7]], [[6tf1]], [[6tf2]], [[6tf3]], [[6tfe]], [[6tfg]], [[7d7y]] – CkNAD + ATP derivative – ''Candidatus koribacter''<br />
**[[6tf0]], [[6tff]], [[6tfh]] – CkNAD + NAD<br />
**[[6tf0]], [[6tff]], [[6tfh]] – CkNAD + NAD<br />
**[[8gxc]], [[8hb1]], [[8hb8]], [[8i3z]]  – SmNAD II + NMN<br />
**[[8gxb]], [[8hba]] – SmNAD II + NAD<br />
**[[8hb3]] – SmNAD II + NR<br />
**[[7d7w]], [[7d7x]], [[7d7z]], [[7d81]], [[7d82]] – AbNAD + NAD - ''Acidobacteriaceae bacterium''<br />
**[[7d7w]], [[7d7x]], [[7d7z]], [[7d81]], [[7d82]] – AbNAD + NAD - ''Acidobacteriaceae bacterium''<br />
**[[7d7v]] – AbNAD + NAD + U1 small nuclear ribonucleoprotein<br />
**[[7d7v]] – AbNAD + NAD + U1 small nuclear ribonucleoprotein<br />
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**[[6e1s]], [[6e1t]], [[6e1u]], [[6e1v]], [[6e1w]], [[7e9e]], [[7e9i]] – CsPreq1 + probe<br />
**[[6e1s]], [[6e1t]], [[6e1u]], [[6e1v]], [[6e1w]], [[7e9e]], [[7e9i]] – CsPreq1 + probe<br />
**[[6xkn]], [[6xko]] – Preq1 + GTP + guanine derivative – ''Faecalibacterium prausnitzii<''br />
**[[6xkn]], [[6xko]] – Preq1 + GTP + guanine derivative – ''Faecalibacterium prausnitzii<''br />
**[[7rex]] – Preq1 + guanine derivative – ''Carnobacterium antarcticum''<br />
**[[7rex]], [[8fb3]] – Preq1 + guanine derivative – ''Carnobacterium antarcticum''<br />
**[[2miy]] – Preq1 + guanine derivative – ''Streptococcus pneumoniae'' - NMR<br />
**[[8fza]] – EcPreq1 III <br />
**[[2l1v]] – EcPreq1 I + PreQ1 - NMR <br />


*C-di-GMP riboswitch
*C-di-GMP riboswitch


**[[3ucu]], [[3ucz]] – hGMPR + GpG <br />
**[[3ud3]], [[3ud4]] – hGMPR + GpA <br />
**[[3irw]], [[3mxh]] – VcGMPR + C-di-GMP + GTP + U1 small nuclear ribonucleoprotein – ''Vibrio cholerae''<br />
**[[3irw]], [[3mxh]] – VcGMPR + C-di-GMP + GTP + U1 small nuclear ribonucleoprotein – ''Vibrio cholerae''<br />
**[[3iwn]], [[4yb1]] – VcGMPR + C-di-GMP + U1 small nuclear ribonucleoprotein<br />
**[[3iwn]], [[4yb1]] – VcGMPR + C-di-GMP + U1 small nuclear ribonucleoprotein<br />
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**[[7kd1]] – SmTHFR – Streptococcus mutans<br />
**[[7kd1]] – SmTHFR – Streptococcus mutans<br />
**[[6q57]] – SmTHFR + pterin derivative <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
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**[[4frg]], [[4frn]], [[4gma]], [[4gxy]] – CoR + aptamer domain – ''Marine metagenome''<br />
**[[4frg]], [[4frn]], [[4gma]], [[4gxy]] – CoR + aptamer domain – ''Marine metagenome''<br />
**[[6vmy]] – BsCoR <br />
**[[6vmy]]. [[8fw4]] – BsCoR <br />
**[[8sa2]], [[8sa3]], [[8sa4]], [[8sa5]], [[8sa6]] – BsCoR – Cryo EM<br />


*YdaO riboswitch
*YdaO riboswitch
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**[[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 />


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**[[5ndh]], [[5ndi]], [[5nef]], [[5neo]], [[5nep]], [[5neq]], [[5nex]], [[5nom]] – TpR + guanidine derivative – ''Gloeobacter violaceus'' <br />
**[[5ndh]], [[5ndi]], [[5nef]], [[5neo]], [[5nep]], [[5neq]], [[5nex]], [[5nom]] – TpR + guanidine derivative – ''Gloeobacter violaceus'' <br />
**[[5vj9]], [[5vjb]] – TpR + guanidine – ''Pseudomonas aeruginosa'' <br />
**[[5vj9]], [[5vjb]] – TpR + guanidine – ''Pseudomonas aeruginosa'' <br />
**[[5ny8]], [[5nz3]], [[5nz6]], [[5o62]] – TfTpR + guanidine derivative<br />
**[[5o69]] – TfTpR + agmatine <br />
*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 <br />
}}
}}


[[Category: Topic Page]]
[[Category: Topic Page]]

Revision as of 11:17, 1 November 2023

3D structures of riboswitch3D structures of riboswitch

Updated on 01-November-2023

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

Michal Harel
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