BGSU RNA Site //

Equivalence class NR_2.0_94729.5 Obsolete

#IFEStandardized nameMoleculeOrganismSourceRfamTitleMethodÅDate
14NLF|1|A (rep)23S ribosomal RNA Sarcin Ricin Loop2'-trifluoromethylthio-2'-deoxycytidine-modified SRLX-ray diffraction12014-11-19
25D99|1|ARNA (27-MER) hairpin from sarcin-ricin domain of E. coli 23S rRNAEnterobacteria phage L1Viruses3DW4 redetermined by direct methods starting from random phase anglesX-ray diffraction0.972016-04-13
31Q9A|1|ASarcin/ricin 23S rRNACrystal structure of the sarcin/ricin domain from E.coli 23S rRNA at 1.04 resolutionX-ray diffraction1.042003-11-25
44NMG|1|A23S ribosomal RNA Sarcin Ricin Loop2'-Trifluoromethylthio-2'-deoxyuridine-modified SRLX-ray diffraction1.012014-11-19
56ZYB|1|ASarcin-Ricin Loop RNA from Ecoli with a C2667-2'-OCF3 modificationsynthetic constructSyntheticSarcin-Ricin Loop RNA from Ecoli with a C2667-2'-OCF3 modificationX-ray diffraction0.92020-12-16
63DW4|1|ASarcin/Ricin Domain from E. Coli 23 S rRNACrystal Structure of the Sarcin/Ricin Domain from E. COLI 23 S rRNA, U2650-OCH3 modifiedX-ray diffraction0.972009-03-24
73DW6|1|ASarcin/Ricin Domain from E. Coli 23 S rRNACrystal Structure of the Sarcin/Ricin Domain from E. COLI 23 S rRNA, U2650-SECH3 modifiedX-ray diffraction12009-03-24
84Y27|1|A27-mer 23S Sarcin-Ricil LoopEscherichia coliBacteriaE.coli 23S Sarcin-Ricil Loop, modified with a 2-Me on G2661 and a methylphosphonate on A2662X-ray diffraction12015-11-18
97JJE|1|ARNA (27-MER)synthetic constructSyntheticSarcin-ricin loop with guanosine dithiophosphate residue.X-ray diffraction1.252020-12-23
103DVZ|1|ASarcin/Ricin Domain from E. Coli 23 S rRNACrystal Structure of the Sarcin/Ricin Domain from E. coli 23 S rRNAX-ray diffraction12009-03-24
114NXH|1|A23S ribosomal RNA Sarcin Ricin LoopEscherichia coliBacteria2'-Trifluoromethylthiouridine-modified E. coli 23S rRNA Sarcin Ricin LoopX-ray diffraction1.162014-12-10
125NQI|1|AE.Coli 27-mer SRL RNAEscherichia coliBacteriaE.coli 16S rRNA Sarcin-Ricin Loop containing a 5-hydroxymethylcytosine modificationX-ray diffraction0.852017-07-26
133S7C|1|AEcoli 23 S rRNA Sarcin Ricin loopCrystal structure of a 2'-azido-uridine-modified RNAX-ray diffraction1.12012-04-11
145MRX|1|ARNA (27-MER)Escherichia coliBacteria27-nt SRL with a 5-hydroxymethyl cytidine modificationX-ray diffraction0.852018-01-17
153DW5|1|ASarcin/Ricin Domain from E. Coli 23 S rRNACrystal Structure of the Sarcin/Ricin Domain from E. COLI 23S rRNA, U2656-OCH3 modifiedX-ray diffraction0.962009-03-24
163DW7|1|ASarcin/Ricin Domain from E. Coli 23 S rRNACrystal Structure of the Sarcin/Ricin Domain from E. COLI 23 S rRNA, U2656-SeCH3 modifiedX-ray diffraction12009-03-24
17483D|1|ASARCIN/RICIN RRNA DOMAINCRYSTAL STRUCTURE OF THE SARCIN/RICIN DOMAIN FROM E. COLI 23 S RRNAX-ray diffraction1.111999-10-08
183S8U|1|AEcoli 23 S rRNA Sarcin Ricin loopEscherichia coliBacteriaCrystal structure of a 2-azido-adenine-modified RNAX-ray diffraction1.22012-04-11
197JJD|1|ARNA (27-MER)synthetic constructSyntheticSarcin-ricin loop with guanosine monothiophosphate residue.X-ray diffraction1.212020-12-23
201MSY|1|ASARCIN/RICIN DOMAIN FROM 23 S RRNAGUAA tetraloop mutant of Sarcin/Ricin domain from E. Coli 23 S rRNAX-ray diffraction1.412003-02-25
21480D|1|ASARCIN/RICIN DOMAIN FROM 23 S RRNACRYSTAL STRUCTURE OF THE SARCIN/RICIN DOMAIN FROM E. COLI 23 S RRNAX-ray diffraction1.51999-10-08
227JJF|1|ARNA/DNA (27-mer)Escherichia coliBacteriaSarcin-ricin loop with modified residue.X-ray diffraction1.22020-12-23
231JBS|1|D29-mer sarcin/ricin domain RNA analogCrystal structure of ribotoxin restrictocin and a 29-mer SRD RNA analogX-ray diffraction1.972001-10-26
241JBS|1|C29-mer sarcin/ricin domain RNA analogCrystal structure of ribotoxin restrictocin and a 29-mer SRD RNA analogX-ray diffraction1.972001-10-26

Release history

Release3.1583.1593.1603.1613.1623.1633.1643.165
Date2020-12-232020-12-302021-01-062021-01-132021-01-202021-01-272021-02-032021-02-10

Parents

This classParent classesRelease idIntersectionAdded to this classOnly in parent
NR_2.0_94729.5NR_2.0_94729.43.158(21) 1JBS|1|D, 483D|1|A, 480D|1|A, 1JBS|1|C, 3S8U|1|A, 6ZYB|1|A, 3S7C|1|A, 5NQI|1|A, 3DW7|1|A, 5MRX|1|A, 3DW6|1|A, 5D99|1|A, 3DW5|1|A, 4Y27|1|A, 3DW4|1|A, 4NXH|1|A, 3DVZ|1|A, 4NMG|1|A, 1Q9A|1|A, 4NLF|1|A, 1MSY|1|A(3) 7JJE|1|A, 7JJD|1|A, 7JJF|1|A(0)

Children

This class Descendant classesRelease idIntersectionOnly in this classAdded to child
NR_2.0_94729.5NR_2.0_94729.63.166(24) 3DVZ|1|A, 3S7C|1|A, 4NXH|1|A, 6ZYB|1|A, 4NMG|1|A, 5NQI|1|A, 1Q9A|1|A, 3DW7|1|A, 4NLF|1|A, 5MRX|1|A, 1MSY|1|A, 3DW6|1|A, 7JJF|1|A, 483D|1|A, 5D99|1|A, 1JBS|1|D, 3DW5|1|A, 7JJE|1|A, 480D|1|A, 4Y27|1|A, 1JBS|1|C, 3DW4|1|A, 7JJD|1|A, 3S8U|1|A(0) (3) 6Y0T|1|B, 6Y0Y|1|A, 6Y0T|1|A

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
11MSY|1|AGUAA tetraloop mutant of Sarcin/Ricin domain from E. Coli 23 S rRNAX-RAY DIFFRACTION1.4131
21Q9A|1|ACrystal structure of the sarcin/ricin domain from E.coli 23S rRNA at 1.04 resolutionX-RAY DIFFRACTION1.0438
3483D|1|ACRYSTAL STRUCTURE OF THE SARCIN/RICIN DOMAIN FROM E. COLI 23 S RRNAX-RAY DIFFRACTION1.1139
45NQI|1|AE.coli 16S rRNA Sarcin-Ricin Loop containing a 5-hydroxymethylcytosine modificationX-RAY DIFFRACTION0.8534
55MRX|1|A27-nt SRL with a 5-hydroxymethyl cytidine modificationX-RAY DIFFRACTION0.8534
66ZYB|1|ASarcin-Ricin Loop RNA from Ecoli with a C2667-2'-OCF3 modificationX-RAY DIFFRACTION0.930
77JJE|1|ASarcin-ricin loop with guanosine dithiophosphate residue.X-RAY DIFFRACTION1.2529
83DVZ|1|ACrystal Structure of the Sarcin/Ricin Domain from E. coli 23 S rRNAX-RAY DIFFRACTION135
97JJD|1|ASarcin-ricin loop with guanosine monothiophosphate residue.X-RAY DIFFRACTION1.2129
103S8U|1|ACrystal structure of a 2-azido-adenine-modified RNAX-RAY DIFFRACTION1.234
113DW5|1|ACrystal Structure of the Sarcin/Ricin Domain from E. COLI 23S rRNA, U2656-OCH3 modifiedX-RAY DIFFRACTION0.9632
124NMG|1|A2'-Trifluoromethylthio-2'-deoxyuridine-modified SRLX-RAY DIFFRACTION1.0136
133DW7|1|ACrystal Structure of the Sarcin/Ricin Domain from E. COLI 23 S rRNA, U2656-SeCH3 modifiedX-RAY DIFFRACTION137
144NXH|1|A2'-Trifluoromethylthiouridine-modified E. coli 23S rRNA Sarcin Ricin LoopX-RAY DIFFRACTION1.1632
157JJF|1|ASarcin-ricin loop with modified residue.X-RAY DIFFRACTION1.227
164Y27|1|AE.coli 23S Sarcin-Ricil Loop, modified with a 2-Me on G2661 and a methylphosphonate on A2662X-RAY DIFFRACTION125
173DW4|1|ACrystal Structure of the Sarcin/Ricin Domain from E. COLI 23 S rRNA, U2650-OCH3 modifiedX-RAY DIFFRACTION0.9726
185D99|1|A3DW4 redetermined by direct methods starting from random phase anglesX-RAY DIFFRACTION0.9730
193DW6|1|ACrystal Structure of the Sarcin/Ricin Domain from E. COLI 23 S rRNA, U2650-SECH3 modifiedX-RAY DIFFRACTION128
203S7C|1|ACrystal structure of a 2'-azido-uridine-modified RNAX-RAY DIFFRACTION1.132
21480D|1|ACRYSTAL STRUCTURE OF THE SARCIN/RICIN DOMAIN FROM E. COLI 23 S RRNAX-RAY DIFFRACTION1.527
224NLF|1|A2'-trifluoromethylthio-2'-deoxycytidine-modified SRLX-RAY DIFFRACTION128
231JBS|1|CCrystal structure of ribotoxin restrictocin and a 29-mer SRD RNA analogX-RAY DIFFRACTION1.9717
241JBS|1|DCrystal structure of ribotoxin restrictocin and a 29-mer SRD RNA analogX-RAY DIFFRACTION1.9717