RNA 3D Hub //

Equivalence class NR_all_42241.5 Current

#IFEStandardized nameMoleculeOrganismSourceRfamTitleMethodRes. Å#NTsDate
17TZS|1|X (rep)TPP riboswitch (THI element)RNA (80-MER)Escherichia coliBacteriaRF00059Crystal structure of the E. coli thiM riboswitch in complex with quinoxalin-6-ylmethanamine (compound 17)X-ray diffraction2.21802022-05-25
22GDI|1|XTPP riboswitchRF00059Crystal structure of thiamine pyrophosphate-specific riboswitch in complex with thiamine pyrophosphateX-ray diffraction2.05802006-07-04
32GDI|1|YTPP riboswitchRF00059Crystal structure of thiamine pyrophosphate-specific riboswitch in complex with thiamine pyrophosphateX-ray diffraction2.05802006-07-04
47TZS|1|YTPP riboswitch (THI element)RNA (80-MER)Escherichia coliBacteriaRF00059Crystal structure of the E. coli thiM riboswitch in complex with quinoxalin-6-ylmethanamine (compound 17)X-ray diffraction2.21802022-05-25
57TDA|1|ATPP riboswitch (THI element)thiM TPP riboswitch RNA (80-MER)Escherichia coliBacteriaRF00059Crystal structure of the E. coli thiM riboswitch in complex with thiamine pyrophosphate, manganese ionsX-ray diffraction2.25802022-02-16
67TDB|1|ATPP riboswitch (THI element)thiM riboswitch RNA (83-MER)Escherichia coliBacteriaRF00059Crystal structure of the E. coli thiM riboswitch in complex with thiamine bisphosphonate, manganese ionsX-ray diffraction2.56802022-02-16
74NYA|1|ATPP riboswitch (THI element)thiM TPP riboswitchEscherichia coliBacteriaRF00059Crystal structure of the E. coli thiM riboswitch in complex with 5-(azidomethyl)-2-methylpyrimidin-4-amineX-ray diffraction2.65802014-06-04
82HOJ|1|Athi-box riboswitchRF00059Crystal structure of an E. coli thi-box riboswitch bound to thiamine pyrophosphate, manganese ionsX-ray diffraction2.5792006-09-19
97TDC|1|ATPP riboswitch (THI element)thiM riboswitch RNA (83-MER)Escherichia coliBacteriaRF00059Crystal structure of the E. coli thiM riboswitch in complex with thiamine bisphosphonate, calcium ionsX-ray diffraction2.46802022-02-16
107TZR|1|XTPP riboswitch (THI element)RNA (80-MER)Escherichia coliBacteriaRF00059Crystal structure of the E. coli thiM riboswitch bound to N-methyl-1-(quinoxalin-6-yl)methanamine (compound 16)X-ray diffraction2.7802022-05-25
112HOL|1|Athi-box riboswitchRF00059Crystal structure of an E. coli thi-box riboswitch bound to thiamine pyrophosphate, barium ionsX-ray diffraction2.9792006-09-19
122HOM|1|Athi-box riboswitchRF00059Crystal structure of an E. coli thi-box riboswitch bound to thiamine monophosphateX-ray diffraction2.89802006-09-19
134NYC|1|ATPP riboswitch (THI element)thiM TPP riboswitchEscherichia coliBacteriaRF00059Crystal structure of the E. coli thiM riboswitch in complex with thieno[2,3-b]pyrazin-7-amineX-ray diffraction3.15802014-06-04
147TZR|1|YTPP riboswitch (THI element)RNA (80-MER)Escherichia coliBacteriaRF00059Crystal structure of the E. coli thiM riboswitch bound to N-methyl-1-(quinoxalin-6-yl)methanamine (compound 16)X-ray diffraction2.7802022-05-25
154NYD|1|ATPP riboswitch (THI element)thiM TPP riboswitchEscherichia coliBacteriaRF00059Crystal structure of the E. coli thiM riboswitch in complex with hypoxanthineX-ray diffraction2.9802014-06-04
167TZT|1|ATPP riboswitch (THI element)RNA (79-MER)Escherichia coliBacteriaRF00059Crystal structure of the E. coli thiM riboswitch in complex with N1,N1-dimethyl-N2-(quinoxalin-6-ylmethyl)ethane-1,2-diamine (linked compound 37)X-ray diffraction2.96792022-05-25
174NYB|1|ATPP riboswitch (THI element)thiM TPP riboswitchEscherichia coliBacteriaRF00059Crystal structure of the E. coli thiM riboswitch in complex with (4-(1,2,3-thiadiazol-4-yl)phenyl)methanamineX-ray diffraction3.1802014-06-04
187TZU|1|ATPP riboswitch (THI element)RNA (79-MER)Escherichia coliBacteriaRF00059Crystal structure of the E. coli thiM riboswitch bound to 1-(4-(piperazin-1-yl)pyridin-3-yl)-N-(quinoxalin-6-ylmethyl)methanamine (linked compound 38)X-ray diffraction2.87792022-05-25
192HOO|1|Athi-box riboswitchRF00059Crystal structure of an E. coli thi-box riboswitch bound to benfotiamineX-ray diffraction3832006-09-19
207TD7|1|ATPP riboswitch (THI element)thiM riboswitch RNA (78-MER)Escherichia coliBacteriaRF00059Crystal structure of an E. coli thiM riboswitch bound to thiamine, manganese ionsX-ray diffraction2.95782022-02-16
214NYA|1|BTPP riboswitch (THI element)thiM TPP riboswitchEscherichia coliBacteriaRF00059Crystal structure of the E. coli thiM riboswitch in complex with 5-(azidomethyl)-2-methylpyrimidin-4-amineX-ray diffraction2.65802014-06-04
222HOK|1|Athi-box riboswitchRF00059Crystal structure of an E. coli thi-box riboswitch bound to thiamine pyrophosphate, calcium ionsX-ray diffraction3.2782006-09-19
234NYG|1|ATPP riboswitch (THI element)thiM TPP riboswitchEscherichia coliBacteriaRF00059Crystal structure of the E. coli thiM riboswitch in complex with thiamineX-ray diffraction3.05792014-06-04
242HOP|1|Athi-box riboswitchRF00059Crystal structure of an E. coli thi-box riboswitch bound to pyrithiamineX-ray diffraction3.3762006-09-19

Release history

Release4.0
Date2025-08-13

Parents

This classParent classesRelease idIntersectionAdded to this classOnly in parent

Children

This class Descendant classesRelease idIntersectionOnly in this classAdded to child

Instances are ordered to put similar structures near each other. Select one instance to see its 3D structure. Selecting two or more instances will show their superposition, but only chains with identical numbers of observed nucleotides will superpose well. Large structures are slow to display; this tool is not designed for that.

#SViewPDBTitleMethodResolution#NTs
14NYG|1|ACrystal structure of the E. coli thiM riboswitch in complex with thiamineX-RAY DIFFRACTION3.0579
22HOP|1|ACrystal structure of an E. coli thi-box riboswitch bound to pyrithiamineX-RAY DIFFRACTION3.376
32HOO|1|ACrystal structure of an E. coli thi-box riboswitch bound to benfotiamineX-RAY DIFFRACTION383
47TZT|1|ACrystal structure of the E. coli thiM riboswitch in complex with N1,N1-dimethyl-N2-(quinoxalin-6-ylmethyl)ethane-1,2-diamine (linked compound 37)X-RAY DIFFRACTION2.9679
57TZU|1|ACrystal structure of the E. coli thiM riboswitch bound to 1-(4-(piperazin-1-yl)pyridin-3-yl)-N-(quinoxalin-6-ylmethyl)methanamine (linked compound 38)X-RAY DIFFRACTION2.8779
67TD7|1|ACrystal structure of an E. coli thiM riboswitch bound to thiamine, manganese ionsX-RAY DIFFRACTION2.9578
74NYC|1|ACrystal structure of the E. coli thiM riboswitch in complex with thieno[2,3-b]pyrazin-7-amineX-RAY DIFFRACTION3.1580
84NYB|1|ACrystal structure of the E. coli thiM riboswitch in complex with (4-(1,2,3-thiadiazol-4-yl)phenyl)methanamineX-RAY DIFFRACTION3.180
94NYD|1|ACrystal structure of the E. coli thiM riboswitch in complex with hypoxanthineX-RAY DIFFRACTION2.980
107TDA|1|ACrystal structure of the E. coli thiM riboswitch in complex with thiamine pyrophosphate, manganese ionsX-RAY DIFFRACTION2.2580
117TDB|1|ACrystal structure of the E. coli thiM riboswitch in complex with thiamine bisphosphonate, manganese ionsX-RAY DIFFRACTION2.5680
127TDC|1|ACrystal structure of the E. coli thiM riboswitch in complex with thiamine bisphosphonate, calcium ionsX-RAY DIFFRACTION2.4680
132HOJ|1|ACrystal structure of an E. coli thi-box riboswitch bound to thiamine pyrophosphate, manganese ionsX-RAY DIFFRACTION2.579
142HOL|1|ACrystal structure of an E. coli thi-box riboswitch bound to thiamine pyrophosphate, barium ionsX-RAY DIFFRACTION2.979
152HOK|1|ACrystal structure of an E. coli thi-box riboswitch bound to thiamine pyrophosphate, calcium ionsX-RAY DIFFRACTION3.278
162HOM|1|ACrystal structure of an E. coli thi-box riboswitch bound to thiamine monophosphateX-RAY DIFFRACTION2.8980
172GDI|1|XCrystal structure of thiamine pyrophosphate-specific riboswitch in complex with thiamine pyrophosphateX-RAY DIFFRACTION2.0580
187TZR|1|XCrystal structure of the E. coli thiM riboswitch bound to N-methyl-1-(quinoxalin-6-yl)methanamine (compound 16)X-RAY DIFFRACTION2.780
197TZS|1|XCrystal structure of the E. coli thiM riboswitch in complex with quinoxalin-6-ylmethanamine (compound 17)X-RAY DIFFRACTION2.2180
204NYA|1|ACrystal structure of the E. coli thiM riboswitch in complex with 5-(azidomethyl)-2-methylpyrimidin-4-amineX-RAY DIFFRACTION2.6580
217TZS|1|YCrystal structure of the E. coli thiM riboswitch in complex with quinoxalin-6-ylmethanamine (compound 17)X-RAY DIFFRACTION2.2180
227TZR|1|YCrystal structure of the E. coli thiM riboswitch bound to N-methyl-1-(quinoxalin-6-yl)methanamine (compound 16)X-RAY DIFFRACTION2.780
234NYA|1|BCrystal structure of the E. coli thiM riboswitch in complex with 5-(azidomethyl)-2-methylpyrimidin-4-amineX-RAY DIFFRACTION2.6580
242GDI|1|YCrystal structure of thiamine pyrophosphate-specific riboswitch in complex with thiamine pyrophosphateX-RAY DIFFRACTION2.0580

Heat map of mutual geometric discrepancy, in Angstroms per nucleotide. The ordering in the heat map is the same as in the table. The colorbar ranges from 0 to the maximum observed discrepancy. Click above the diagonal to select a range of structures, below the diagonal to select two structures.


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