#IFECompound(s)RNA source organismTitleMethodResolutionDate
13PEY|1|B (rep)RNA (5'-R(P*UP*UP*UP*UP*UP*U)-3')S. cerevisiae Dbp5 bound to RNA and ADP BeF3X-RAY DIFFRACTION1.42011-03-23
23PEW|1|BRNA (5'-R(P*UP*UP*UP*UP*UP*U)-3')S. cerevisiae Dbp5 L327V bound to RNA and ADP BeF3X-RAY DIFFRACTION1.52011-03-23
35ELX|1|BRNA (5'-R(P*UP*UP*UP*UP*UP*U)-3')Saccharomyces cerevisiaeS. cerevisiae Dbp5 bound to RNA and mant-ADP BeF3X-RAY DIFFRACTION1.812016-02-24
44ALP|1|EHEXA URIDINEsynthetic constructThe Lin28b Cold shock domain in complex with hexauridineX-RAY DIFFRACTION1.482012-09-05
52HYI|1|F5'-R(*UP*UP*UP*UP*UP*U)-3'Structure of the human exon junction complex with a trapped DEAD-box helicase bound to RNAX-RAY DIFFRACTION2.32006-08-15
66G2K|1|RRNA (5'-R(P*UP*UP*UP*UP*UP*U)-3')synthetic constructStructure of HuR RRM3 in complex with RNA (UUUUUU)X-RAY DIFFRACTION2.012018-10-31
72HYI|1|L5'-R(*UP*UP*UP*UP*UP*U)-3'Structure of the human exon junction complex with a trapped DEAD-box helicase bound to RNAX-RAY DIFFRACTION2.32006-08-15
83EX7|1|JRNA (5'-R(*UP*UP*UP*UP*UP*U)-3')The crystal structure of EJC in its transition stateX-RAY DIFFRACTION2.32008-12-09
95SZE|1|CRNA (5'-R(P*UP*UP*U)-3')unidentifiedCrystal structure of Aquifex aeolicus Hfq-RNA complex at 1.5AX-RAY DIFFRACTION1.52017-04-12
103EX7|1|FRNA (5'-R(*UP*UP*UP*UP*UP*U)-3')The crystal structure of EJC in its transition stateX-RAY DIFFRACTION2.32008-12-09
113O8C|1|CRNA (5'-R(P*UP*(5BU)P*UP*UP*UP*U)-3')Visualizing ATP-dependent RNA Translocation by the NS3 Helicase from HCVX-RAY DIFFRACTION22011-01-05
125BTE|1|DRNA (5'-R(P*UP*(U37)P*(U37)P*UP*UP*U)-3')Homo sapiensCrystal structure of Ashbya gossypii Rai1 in complex with pU(S)6-Mn2+X-RAY DIFFRACTION2.42015-07-22
133PF5|1|Rhexaribouracil (rU6)Crystal structure of Bs-CspB in complex with rU6X-RAY DIFFRACTION1.682011-09-21
145BTE|1|CRNA (5'-R(P*UP*(U37)P*(U37)P*UP*UP*U)-3')Homo sapiensCrystal structure of Ashbya gossypii Rai1 in complex with pU(S)6-Mn2+X-RAY DIFFRACTION2.42015-07-22
156WRE|1|DRNA (5'-R(*UP*(U37)P*(U37)P*UP)-3')Homo sapiensCrystal structure of mouse DXO in complex with 5'-OH RNA substrate mimic and calcium ionX-RAY DIFFRACTION22020-05-13
166I0U|1|BRNA (5'-R(*UP*UP*UP*U)-3')Drosophila melanogasterCrystal structure of DmTailor in complex with U6 RNAX-RAY DIFFRACTION22018-12-05
175ZSA|1|CRNA (5'-R(P*UP*UP*UP*U)-3')synthetic constructCrystal structure of monkey TLR7 in complex with IMDQ and UUUUUUX-RAY DIFFRACTION2.52019-01-30
185ZSA|1|DRNA (5'-R(P*UP*UP*UP*U)-3')synthetic constructCrystal structure of monkey TLR7 in complex with IMDQ and UUUUUUX-RAY DIFFRACTION2.52019-01-30
193O8R|1|CRNA (5'-R(P*UP*(5BU)P*UP*UP*UP*U)-3')Visualizing ATP-dependent RNA Translocation by the NS3 Helicase from HCVX-RAY DIFFRACTION2.32011-01-05
204NL3|1|Z5'-R(*UP*UP*UP*UP*UP*U)-3'Crystal Structure of Listeria monocytogenes Hfq in complex with U6 RNAX-RAY DIFFRACTION3.12014-09-10
214Y91|1|ORNA (5'-R(P*UP*UP*UP*UP*UP*U)-3')synthetic constructCrystal Structure of a Thermotoga maritima Hfq homologX-RAY DIFFRACTION2.662016-03-16
224Y91|1|NRNA (5'-R(P*UP*UP*UP*UP*UP*U)-3')synthetic constructCrystal Structure of a Thermotoga maritima Hfq homologX-RAY DIFFRACTION2.662016-03-16
234NL3|1|R5'-R(*UP*UP*UP*UP*UP*U)-3'Crystal Structure of Listeria monocytogenes Hfq in complex with U6 RNAX-RAY DIFFRACTION3.12014-09-10
241N34|1|ZA-SITE MESSENGER RNA FRAGMENTThermus thermophilusStructure of the Thermus thermophilus 30S ribosomal subunit in the presence of codon and crystallographically disordered near-cognate transfer rna anticodon stem-loop mismatched at the first codon positionX-RAY DIFFRACTION3.82002-11-29
253PF5|1|Shexaribouracil (rU6)Crystal structure of Bs-CspB in complex with rU6X-RAY DIFFRACTION1.682011-09-21
266PPN|1|AMimic of unprocessed U6 snRNAsynthetic constructStructure of S. pombe Lsm2-8 with unprocessed U6 snRNAX-RAY DIFFRACTION1.912020-06-17
276PPN|1|IMimic of unprocessed U6 snRNAsynthetic constructStructure of S. pombe Lsm2-8 with unprocessed U6 snRNAX-RAY DIFFRACTION1.912020-06-17
285Z9W|1|RRNA (6-MER)synthetic constructEbola virus nucleoprotein-RNA complexELECTRON MICROSCOPY3.62018-10-24

Release history

Release3.131
Date2020-06-17

Children

This class Descendant classesRelease idIntersectionOnly in this classAdded to child

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
16WRE|1|DCrystal structure of mouse DXO in complex with 5'-OH RNA substrate mimic and calcium ionX-RAY DIFFRACTION23
24ALP|1|EThe Lin28b Cold shock domain in complex with hexauridineX-RAY DIFFRACTION1.486
35ZSA|1|CCrystal structure of monkey TLR7 in complex with IMDQ and UUUUUUX-RAY DIFFRACTION2.54
45ZSA|1|DCrystal structure of monkey TLR7 in complex with IMDQ and UUUUUUX-RAY DIFFRACTION2.54
54NL3|1|ZCrystal Structure of Listeria monocytogenes Hfq in complex with U6 RNAX-RAY DIFFRACTION3.16
64NL3|1|RCrystal Structure of Listeria monocytogenes Hfq in complex with U6 RNAX-RAY DIFFRACTION3.16
74Y91|1|OCrystal Structure of a Thermotoga maritima Hfq homologX-RAY DIFFRACTION2.666
84Y91|1|NCrystal Structure of a Thermotoga maritima Hfq homologX-RAY DIFFRACTION2.666
96PPN|1|IStructure of S. pombe Lsm2-8 with unprocessed U6 snRNAX-RAY DIFFRACTION1.915
106PPN|1|AStructure of S. pombe Lsm2-8 with unprocessed U6 snRNAX-RAY DIFFRACTION1.915
113PF5|1|RCrystal structure of Bs-CspB in complex with rU6X-RAY DIFFRACTION1.689
125Z9W|1|REbola virus nucleoprotein-RNA complexELECTRON MICROSCOPY3.66
135BTE|1|CCrystal structure of Ashbya gossypii Rai1 in complex with pU(S)6-Mn2+X-RAY DIFFRACTION2.44
145BTE|1|DCrystal structure of Ashbya gossypii Rai1 in complex with pU(S)6-Mn2+X-RAY DIFFRACTION2.44
151N34|1|ZStructure of the Thermus thermophilus 30S ribosomal subunit in the presence of codon and crystallographically disordered near-cognate transfer rna anticodon stem-loop mismatched at the first codon positionX-RAY DIFFRACTION3.84
165ELX|1|BS. cerevisiae Dbp5 bound to RNA and mant-ADP BeF3X-RAY DIFFRACTION1.816
173PEW|1|BS. cerevisiae Dbp5 L327V bound to RNA and ADP BeF3X-RAY DIFFRACTION1.56
183PEY|1|BS. cerevisiae Dbp5 bound to RNA and ADP BeF3X-RAY DIFFRACTION1.46
193EX7|1|FThe crystal structure of EJC in its transition stateX-RAY DIFFRACTION2.36
202HYI|1|LStructure of the human exon junction complex with a trapped DEAD-box helicase bound to RNAX-RAY DIFFRACTION2.36
213EX7|1|JThe crystal structure of EJC in its transition stateX-RAY DIFFRACTION2.36
222HYI|1|FStructure of the human exon junction complex with a trapped DEAD-box helicase bound to RNAX-RAY DIFFRACTION2.36
233PF5|1|SCrystal structure of Bs-CspB in complex with rU6X-RAY DIFFRACTION1.681
243O8C|1|CVisualizing ATP-dependent RNA Translocation by the NS3 Helicase from HCVX-RAY DIFFRACTION25
253O8R|1|CVisualizing ATP-dependent RNA Translocation by the NS3 Helicase from HCVX-RAY DIFFRACTION2.35
266I0U|1|BCrystal structure of DmTailor in complex with U6 RNAX-RAY DIFFRACTION24
276G2K|1|RStructure of HuR RRM3 in complex with RNA (UUUUUU)X-RAY DIFFRACTION2.016
285SZE|1|CCrystal structure of Aquifex aeolicus Hfq-RNA complex at 1.5AX-RAY DIFFRACTION1.53