#IFECompound(s)RNA source organismTitleMethodResolutionDate
12D2K|1|D+ 2D2K|1|C+ 2D2K|1|A+ 2D2K|1|B (rep)5'-R(*UP*CP*CP*CP*(A2M)P*GP*UP*CP*CP*AP*CP*CP*G)-3', 5'-R(*CP*GP*GP*UP*GP*AP*GP*AP*AP*GP*GP*G)-3', 5'-R(*GP*GP*CP*AP*GP*AP*GP*AP*AP*AP*CP*AP*CP*AP*CP*GP*A)-3', 5'-R(*UP*CP*GP*UP*GP*GP*UP*AP*UP*AP*UP*UP*AP*CP*CP*UP*GP*CP*C)-3'Crystal Structure of a minimal, native (U39) all-RNA hairpin ribozymeX-RAY DIFFRACTION2.652005-11-01
23I2R|1|C5'-R(*UP*CP*GP*UP*GP*GP*UP*AP*CP*AP*UP*UP*AP*CP*CP*UP*GP*CP*C)-3'Crystal structure of the hairpin ribozyme with a 2',5'-linked substrate with N1-deazaadenosine at position A9X-RAY DIFFRACTION2.82009-11-03
33I2U|1|C5'-R(*UP*CP*GP*UP*GP*GP*UP*AP*CP*AP*UP*UP*AP*CP*CP*UP*GP*CP*C)-3'Crystal structure of the haiprin ribozyme with a 2',5'-linked substrate and N1-deazaadenosine at position A10X-RAY DIFFRACTION2.82009-11-03
43I2Q|1|C5'-R(*UP*CP*GP*UP*GP*GP*UP*AP*CP*AP*UP*UP*AP*CP*CP*UP*GP*CP*C)-3'Crystal structure of the hairpin ribozyme with 2'OMe substrate strand and N1-deazaadenosine at position A9X-RAY DIFFRACTION2.92009-11-03
53CQS|1|C19-mer ribozyme strandA 3'-OH, 2',5'-phosphodiester substitution in the hairpin ribozyme active site reveals similarities with protein ribonucleasesX-RAY DIFFRACTION2.82008-05-20
63CR1|1|CRNA (5'-R(*UP*CP*GP*UP*GP*GP*UP*CP*CP*AP*UP*UP*AP*CP*CP*UP*GP*CP*C)-3')crystal structure of a minimal, mutant, all-RNA hairpin ribozyme (A38C, A-1OMA) grown from MgCl2X-RAY DIFFRACTION2.252008-08-26
73I2S|1|C5'-R(*UP*CP*GP*UP*GP*GP*UP*AP*CP*AP*UP*UP*AP*CP*CP*UP*GP*CP*C)-3'Crystal structure of the hairpin ribozyme with a 2'OMe substrate and N1-deazaadenosine at position A10X-RAY DIFFRACTION2.752009-11-03
83GS8|1|D+ 3GS8|1|C+ 3GS8|1|A+ 3GS8|1|BRNA (5'-R(*UP*CP*CP*CP*AP*GP*UP*CP*CP*AP*CP*CP*GP*U)-3'), RNA (5'-R(*CP*GP*GP*UP*GP*AP*GP*AP*AP*GP*GP*G)-3'), RNA (5'-R(P*GP*GP*CP*AP*GP*AP*GP*AP*AP*AP*CP*AP*CP*AP*CP*GP*A)-3'), RNA (5'-R(*UP*CP*GP*UP*GP*GP*UP*AP*CP*AP*UP*UP*AP*CP*CP*UP*GP*CP*C)-3')An all-RNA hairpin ribozyme A38N1dA38 variant with a transition-state mimic substrate strandX-RAY DIFFRACTION2.852009-04-21
91ZFV|1|D+ 1ZFV|1|C+ 1ZFV|1|A+ 1ZFV|1|B5'-R(*UP*CP*CP*CP*AP*GP*UP*CP*CP*AP*CP*CP*G)-3', 5'-R(*CP*GP*GP*UP*GP*AP*AP*AP*AP*GP*GP*G)-3', 5'-R(*GP*GP*CP*AP*GP*AP*GP*AP*AP*AP*CP*AP*CP*AP*CP*GP*A)-3', 5'-R(*UP*CP*GP*UP*GP*GP*UP*AP*CP*AP*UP*UP*AP*CP*CP*UP*GP*CP*C)-3'The structure of an all-RNA minimal Hairpin Ribozyme with Mutation G8A at the cleavage siteX-RAY DIFFRACTION2.42006-02-14
104G6R|1|D+ 4G6R|1|C+ 4G6R|1|A+ 4G6R|1|BLoop A Substrate strand, Loop A Ribozyme strand, Loop B Ribozyme Strand, Loop B S-turn strandMinimal Hairpin Ribozyme in the Transition State with G8I VariationX-RAY DIFFRACTION2.832012-08-15
112P7D|1|D+ 2P7D|1|C+ 2P7D|1|PRibozyme strand III, Ribozyme strand II, 3' substrate strand, octameric fragmentA Minimal, 'Hinged' Hairpin Ribozyme Construct Solved with Mimics of the Product Strands at 2.25 Angstroms ResolutionX-RAY DIFFRACTION2.252007-05-22
121X9K|1|D+ 1X9K|1|C+ 1X9K|1|A+ 1X9K|1|B5'-R(*UP*CP*GP*CP*AP*GP*UP*CP*CP*UP*AP*UP*U)-3', 5'-R(*AP*AP*UP*AP*GP*AP*GP*AP*AP*GP*CP*GP*A)-3', 5'-R(*GP*GP*CP*AP*GP*AP*GP*AP*AP*AP*CP*AP*CP*AP*CP*GP*A)-3', 5'-R(*UP*CP*GP*UP*GP*GP*UP*AP*CP*AP*UP*UP*AP*CP*CP*UP*GP*CP*C)-3'An all-RNA Hairpin Ribozyme with mutation U39CX-RAY DIFFRACTION3.172005-11-22
132NPZ|1|D+ 2NPZ|1|C+ 2NPZ|1|A+ 2NPZ|1|B5'-R(*UP*CP*CP*CP*AP*GP*UP*CP*CP*AP*CP*CP*G)-3', 5'-R(*CP*GP*GP*UP*GP*AP*GP*AP*AP*GP*GP*G)-3', 5'-R(*GP*GP*CP*AP*GP*AP*GP*AP*AP*AP*CP*AP*CP*AP*CP*GP*A)-3', 5'-R(*UP*CP*GP*UP*GP*GP*UP*AP*CP*AP*UP*UP*AP*CP*CP*UP*GP*CP*C)-3'Crystal structure of junctioned hairpin ribozyme incorporating synthetic propyl linkerX-RAY DIFFRACTION3.352007-08-14
141X9C|1|D+ 1X9C|1|C+ 1X9C|1|A+ 1X9C|1|B5'-R(*UP*CP*CP*CP*(A2M)P*GP*UP*CP*CP*AP*CP*CP*G)-3', 5'-R(*CP*GP*GP*UP*GP*AP*GP*AP*AP*GP*GP*G)-3', 5'-R(*GP*GP*CP*AP*GP*AP*GP*AP*AP*AP*CP*AP*CP*AP*CP*GP*A)-3', 5'-R(*UP*CP*GP*UP*GP*GP*UP*AP*CP*AP*UP*UP*AP*CP*CP*UP*GP*CP*C)-3'An all-RNA Hairpin Ribozyme with mutation U39CX-RAY DIFFRACTION2.192005-11-22
153GS1|1|D+ 3GS1|1|C+ 3GS1|1|A+ 3GS1|1|BRNA (5'-R(*UP*CP*CP*CP*AP*GP*UP*CP*CP*AP*CP*CP*GP*U)-3'), RNA (5'-R(*CP*GP*GP*UP*GP*AP*GP*AP*AP*GP*GP*G)-3'), RNA (5'-R(P*GP*GP*CP*AP*GP*AP*GP*AP*AP*AP*CP*AP*CP*AP*CP*GP*A)-3'), RNA (5'-R(*UP*CP*GP*UP*GP*GP*UP*AP*CP*AP*UP*UP*AP*CP*CP*UP*GP*CP*C)-3')An all-RNA Hairpin Ribozyme with mutation A38N1dAX-RAY DIFFRACTION2.852009-05-12
162BCZ|1|D+ 2BCZ|1|C+ 2BCZ|1|A+ 2BCZ|1|B5'-R(*UP*CP*CP*CP*(DA)P*GP*UP*CP*CP*AP*CP*CP*G)-3'), 5'-R(*CP*GP*GP*UP*GP*AP*IP*AP*AP*GP*GP*G)-3', 5'-R(*GP*GP*CP*AP*GP*AP*GP*AP*AP*AP*CP*AP*CP*AP*CP*GP*A)-3', 5'-R(*UP*CP*GP*UP*GP*GP*UP*AP*CP*AP*UP*UP*AP*CP*CP*UP*GP*CP*C)-3'Crystal Structure of a minimal, mutant all-RNA hairpin ribozyme (U39C, G8I, 2'deoxy A-1)X-RAY DIFFRACTION2.42006-02-14
172NPY|1|D+ 2NPY|1|C+ 2NPY|1|A+ 2NPY|1|B5'-R(*UP*CP*CP*CP*(U2N)P*GP*UP*CP*CP*AP*CP*CP*G)-3', 5'-R(*CP*GP*GP*UP*GP*AP*GP*AP*AP*GP*GP*G)-3', 5'-R(*GP*GP*CP*AP*GP*AP*GP*AP*AP*AP*CP*AP*CP*AP*CP*GP*A)-3', 5'-R(*UP*CP*GP*UP*GP*GP*UP*AP*CP*AP*UP*UP*AP*CP*CP*UP*GP*CP*C)-3'Crystal Structure of a junctioned hairpin ribozyme incorporating 9atom linker and 2'-deoxy 2'-amino U at A-1X-RAY DIFFRACTION2.652007-08-14
182OUE|1|D+ 2OUE|1|C+ 2OUE|1|A+ 2OUE|1|BSubstrate strand - Minimal Junctionless Hairpin Ribozyme, Loop A ribozyme strand, Loop B ribozyme strand, Loop B S-turn strandCrystal structure of a junctionless all-RNA hairpin ribozyme at 2.05 angstroms resolutionX-RAY DIFFRACTION2.052007-03-06
192BCY|1|D+ 2BCY|1|C+ 2BCY|1|A+ 2BCY|1|B5'-R(*UP*CP*CP*CP*AP*GP*UP*CP*CP*AP*CP*CP*G)-3', 5'-R(*CP*GP*GP*UP*GP*AP*(MTU)P*AP*AP*GP*GP*G)-3', 5'-R(*GP*GP*CP*AP*GP*AP*GP*AP*AP*AP*CP*AP*CP*AP*CP*GP*A)-3', 5'-R(*UP*CP*GP*UP*GP*GP*UP*AP*CP*AP*UP*UP*AP*CP*CP*UP*GP*CP*C)-3'Crystal Structure of a minimal, mutant all-RNA hairpin ribozyme (U39C, G8MTU)X-RAY DIFFRACTION2.72006-02-14
201ZFT|1|D+ 1ZFT|1|C+ 1ZFT|1|A+ 1ZFT|1|B5'-R(*UP*CP*CP*CP*(A2M)P*GP*UP*CP*CP*AP*CP*CP*G)-3', 5'-R(*CP*GP*GP*UP*GP*AP*IP*AP*AP*GP*GP*G)-3', 5'-R(*GP*GP*CP*AP*GP*AP*GP*AP*AP*AP*CP*AP*CP*AP*CP*GP*A)-3', 5'-R(*UP*CP*GP*UP*GP*GP*UP*AP*CP*AP*UP*UP*AP*CP*CP*UP*GP*CP*C)-3'The crystal structure of an all-RNA minimal Hairpin Ribozyme with mutant G8I at the cleavage siteX-RAY DIFFRACTION2.332006-02-14
212FGP|1|D+ 2FGP|1|C+ 2FGP|1|A+ 2FGP|1|B5'-R(*UP*CP*CP*CP*AP*GP*UP*CP*CP*AP*CP*CP*G)-3', 5'-R(*CP*GP*GP*UP*GP*AP*(N6G)P*AP*AP*GP*GP*G)-3', 5'-R(*GP*GP*CP*AP*GP*AP*GP*AP*AP*AP*CP*AP*CP*AP*CP*GP*A)-3', 5'-R(*UP*CP*GP*UP*GP*GP*UP*AP*CP*AP*UP*UP*AP*CP*CP*UP*GP*CP*C) -3'Crystal structure of a minimal, all RNA hairpin ribozyme with modifications (g8dap, u39c) at ph 8.6X-RAY DIFFRACTION2.42006-02-14
221ZFX|1|D+ 1ZFX|1|C+ 1ZFX|1|A+ 1ZFX|1|B5'-R(*UP*CP*CP*CP*AP*GP*UP*CP*CP*AP*CP*CP*G)-3', 5'-R(*CP*GP*GP*UP*GP*AP*UP*AP*AP*GP*GP*G)-3', 5'-R(*GP*GP*CP*AP*GP*AP*GP*AP*AP*AP*CP*AP*CP*AP*CP*GP*A)-3', 5'-R(*UP*CP*GP*UP*GP*GP*UP*AP*CP*AP*UP*UP*AP*CP*CP*UP*GP*CP*C)-3'The Structure of a minimal all-RNA Hairpin Ribozyme with the mutant G8U at the cleavage siteX-RAY DIFFRACTION2.382006-02-14
232P7F|1|D+ 2P7F|1|C+ 2P7F|1|A+ 2P7F|1|Bsubstrate strand, Loop A ribozyme strand, Loop B ribozyme strand, Loop B S-turn strandThe Novel Use of a 2',5'-Phosphodiester Linkage as a Reaction Intermediate at the Active Site of a Small RibozymeX-RAY DIFFRACTION2.352007-05-22
242P7E|1|D+ 2P7E|1|C+ 2P7E|1|PRibozyme strand III, Ribozyme strand II, 3' substrate strand, octameric fragmentVanadate at the Active Site of a Small Ribozyme Suggests a Role for Water in Transition-State StabilizationX-RAY DIFFRACTION2.052007-05-22
252D2L|1|D+ 2D2L|1|C+ 2D2L|1|A+ 2D2L|1|B5'-R(*UP*CP*CP*CP*(A2M)P*GP*UP*CP*CP*AP*CP*CP*G)-3', 5'-R(*CP*GP*GP*UP*GP*AP*GP*AP*AP*GP*GP*G)-3', 5'-R(*GP*GP*CP*AP*GP*AP*GP*AP*AP*AP*CP*AP*CP*AP*CP*GP*A)-3', 5'-R(*UP*CP*GP*UP*GP*GP*UP*AP*(P1P)P*AP*UP*UP*AP*CP*CP*UP*GP*CP*C)-3'Crystal Structure of a minimal, all-RNA hairpin ribozyme with a propyl linker (C3) at position U39X-RAY DIFFRACTION2.52005-11-01

Release history

Release2.02.12.22.32.42.52.62.72.82.92.102.112.122.132.142.152.162.172.182.192.202.212.222.232.242.252.262.272.282.292.302.312.322.332.342.352.362.372.382.392.402.412.422.432.442.452.462.472.482.492.502.512.522.532.542.552.562.572.582.592.602.612.622.632.642.652.662.672.682.692.702.712.722.732.742.752.762.772.782.792.802.812.822.832.842.852.862.872.882.892.902.912.922.932.942.952.962.972.982.992.1002.1012.1022.1032.1042.1052.1062.1072.1082.1092.1102.1112.1122.1132.1142.1152.1162.1172.1182.1192.1202.1212.1222.1232.1242.1252.1262.1272.1282.1292.1302.1312.1322.1332.1342.1352.1362.1372.1382.1392.1402.1412.1422.1432.1442.1452.1462.1472.1482.1492.1502.1512.1522.1532.1542.1552.1562.1572.158
Date2014-12-052014-12-122014-12-192014-12-262015-01-022015-01-092015-01-162015-01-232015-01-302015-02-062015-02-132015-02-202015-02-272015-03-062015-03-132015-03-202015-03-272015-04-032015-04-102015-04-172015-04-242015-05-012015-05-082015-05-152015-05-222015-05-292015-06-052015-06-122015-06-192015-06-262015-07-032015-07-102015-07-172015-07-242015-07-312015-08-072015-08-142015-08-212015-08-282015-09-042015-09-112015-09-182015-09-252015-10-022015-10-092015-10-162015-10-232015-10-302015-11-062015-11-132015-11-202015-11-272015-12-042015-12-112015-12-182015-12-252016-01-012016-01-082016-01-152016-01-222016-01-292016-02-052016-02-122016-02-192016-02-262016-03-042016-03-112016-03-182016-03-252016-04-012016-04-082016-04-152016-04-222016-04-292016-05-062016-05-132016-05-202016-05-272016-06-032016-06-102016-06-172016-06-242016-07-012016-07-082016-07-152016-07-222016-07-292016-08-052016-08-122016-08-192016-08-262016-09-022016-09-092016-09-162016-09-232016-09-302016-10-072016-10-142016-10-212016-10-282016-11-042016-11-112016-11-182016-11-252016-12-022016-12-092016-12-162016-12-232016-12-302017-01-062017-01-132017-01-202017-01-272017-02-032017-02-102017-02-172017-02-242017-03-032017-03-102017-03-172017-03-242017-03-312017-04-112017-04-152017-04-262017-04-292017-05-092017-05-152017-05-202017-05-272017-06-072017-06-112017-06-212017-06-242017-06-282017-07-042017-07-102017-07-152017-07-262017-07-312017-08-052017-08-122017-08-192017-08-262017-09-032017-09-092017-09-162017-09-232017-09-302017-10-072017-10-142017-10-212017-10-282017-11-032017-11-102017-11-172017-11-242017-12-012017-12-08

Parents

This classParent classesRelease idIntersectionAdded to this classOnly in parent

Heat map of mutual geometric discrepancy, in Angstroms per nucleotide. Instances are ordered to put similar structures near each other. The colorbar ranges from 0 to the maximum observed discrepancy, up to 0.5

#S - ordering by similarity (same as in the heat map).
#SPDBTitleMethodResolutionLength
12NPZ|1|D+2NPZ|1|C+2NPZ|1|A+2NPZ|1|BCrystal structure of junctioned hairpin ribozyme incorporating synthetic propyl linkerX-RAY DIFFRACTION3.3519
23GS1|1|D+3GS1|1|C+3GS1|1|A+3GS1|1|BAn all-RNA Hairpin Ribozyme with mutation A38N1dAX-RAY DIFFRACTION2.8519
32BCY|1|D+2BCY|1|C+2BCY|1|A+2BCY|1|BCrystal Structure of a minimal, mutant all-RNA hairpin ribozyme (U39C, G8MTU)X-RAY DIFFRACTION2.719
42BCZ|1|D+2BCZ|1|C+2BCZ|1|A+2BCZ|1|BCrystal Structure of a minimal, mutant all-RNA hairpin ribozyme (U39C, G8I, 2'deoxy A-1)X-RAY DIFFRACTION2.419
52D2L|1|D+2D2L|1|C+2D2L|1|A+2D2L|1|BCrystal Structure of a minimal, all-RNA hairpin ribozyme with a propyl linker (C3) at position U39X-RAY DIFFRACTION2.518
62D2K|1|D+2D2K|1|C+2D2K|1|A+2D2K|1|BCrystal Structure of a minimal, native (U39) all-RNA hairpin ribozymeX-RAY DIFFRACTION2.6522
71ZFV|1|D+1ZFV|1|C+1ZFV|1|A+1ZFV|1|BThe structure of an all-RNA minimal Hairpin Ribozyme with Mutation G8A at the cleavage siteX-RAY DIFFRACTION2.419
81ZFX|1|D+1ZFX|1|C+1ZFX|1|A+1ZFX|1|BThe Structure of a minimal all-RNA Hairpin Ribozyme with the mutant G8U at the cleavage siteX-RAY DIFFRACTION2.3819
94G6R|1|D+4G6R|1|C+4G6R|1|A+4G6R|1|BMinimal Hairpin Ribozyme in the Transition State with G8I VariationX-RAY DIFFRACTION2.8319
101X9C|1|D+1X9C|1|C+1X9C|1|A+1X9C|1|BAn all-RNA Hairpin Ribozyme with mutation U39CX-RAY DIFFRACTION2.1919
112OUE|1|D+2OUE|1|C+2OUE|1|A+2OUE|1|BCrystal structure of a junctionless all-RNA hairpin ribozyme at 2.05 angstroms resolutionX-RAY DIFFRACTION2.0519
123I2S|1|CCrystal structure of the hairpin ribozyme with a 2'OMe substrate and N1-deazaadenosine at position A10X-RAY DIFFRACTION2.7519
131ZFT|1|D+1ZFT|1|C+1ZFT|1|A+1ZFT|1|BThe crystal structure of an all-RNA minimal Hairpin Ribozyme with mutant G8I at the cleavage siteX-RAY DIFFRACTION2.3319
142P7D|1|D+2P7D|1|C+2P7D|1|PA Minimal, 'Hinged' Hairpin Ribozyme Construct Solved with Mimics of the Product Strands at 2.25 Angstroms ResolutionX-RAY DIFFRACTION2.2519
152P7E|1|D+2P7E|1|C+2P7E|1|PVanadate at the Active Site of a Small Ribozyme Suggests a Role for Water in Transition-State StabilizationX-RAY DIFFRACTION2.0519
163I2R|1|CCrystal structure of the hairpin ribozyme with a 2',5'-linked substrate with N1-deazaadenosine at position A9X-RAY DIFFRACTION2.819
173I2U|1|CCrystal structure of the haiprin ribozyme with a 2',5'-linked substrate and N1-deazaadenosine at position A10X-RAY DIFFRACTION2.819
183GS8|1|D+3GS8|1|C+3GS8|1|A+3GS8|1|BAn all-RNA hairpin ribozyme A38N1dA38 variant with a transition-state mimic substrate strandX-RAY DIFFRACTION2.8519
192NPY|1|D+2NPY|1|C+2NPY|1|A+2NPY|1|BCrystal Structure of a junctioned hairpin ribozyme incorporating 9atom linker and 2'-deoxy 2'-amino U at A-1X-RAY DIFFRACTION2.6519
203CQS|1|CA 3'-OH, 2',5'-phosphodiester substitution in the hairpin ribozyme active site reveals similarities with protein ribonucleasesX-RAY DIFFRACTION2.819
212P7F|1|D+2P7F|1|C+2P7F|1|A+2P7F|1|BThe Novel Use of a 2',5'-Phosphodiester Linkage as a Reaction Intermediate at the Active Site of a Small RibozymeX-RAY DIFFRACTION2.3519
223I2Q|1|CCrystal structure of the hairpin ribozyme with 2'OMe substrate strand and N1-deazaadenosine at position A9X-RAY DIFFRACTION2.919
232FGP|1|D+2FGP|1|C+2FGP|1|A+2FGP|1|BCrystal structure of a minimal, all RNA hairpin ribozyme with modifications (g8dap, u39c) at ph 8.6X-RAY DIFFRACTION2.419
241X9K|1|D+1X9K|1|C+1X9K|1|A+1X9K|1|BAn all-RNA Hairpin Ribozyme with mutation U39CX-RAY DIFFRACTION3.1719
253CR1|1|Ccrystal structure of a minimal, mutant, all-RNA hairpin ribozyme (A38C, A-1OMA) grown from MgCl2X-RAY DIFFRACTION2.2519