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As of 19-Jan-2022 number of released structures: 11891
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Polymer Type: All + RNA Type: All + Protein Function: All + Experimental Method: All + RNA Sequence Type: All RNA Sequence

Results: 4422  Download results as an excel file       Gallery view

NDB ID:

6XJQ

PDB ID:

6XJQ 

Release:

2022-01-19

Title:

Crystal structure of a self-alkylating ribozyme - alkylated form with biotinylated epoxide substrate

Classification:

RNA/IMMUNE SYSTEM

Authors:

Koirala, D., Piccirilli, J.A.

Citation:

Structural basis for substrate binding and catalytic activity of a self-alkylating ribozyme
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.708Å R work:0.189R free:0.213

NDB ID:

6XJW

PDB ID:

6XJW 

Release:

2022-01-19

Title:

Crystal structure of a self-alkylating ribozyme - alkylated form without biotin moiety

Classification:

RNA/IMMUNE SYSTEM

Authors:

Koirala, D., Piccirilli, J.A.

Citation:

Structural basis for substrate binding and catalytic activity of a self-alkylating ribozyme
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.918Å R work:0.187R free:0.227

NDB ID:

6XJY

PDB ID:

6XJY 

Release:

2022-01-19

Title:

Crystal structure of a self-alkylating ribozyme - short time incubation with the epoxide substrate

Classification:

RNA/IMMUNE SYSTEM

Authors:

Koirala, D., Piccirilli, J.A.

Citation:

Structural basis for substrate binding and catalytic activity of a self-alkylating ribozyme
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.156Å R work:0.227R free:0.285

NDB ID:

6XJZ

PDB ID:

6XJZ 

Release:

2022-01-19

Title:

Crystal structure of a self-alkylating ribozyme - apo form

Classification:

RNA/IMMUNE SYSTEM

Authors:

Koirala, D., Piccirilli, J.A.

Citation:

Structural basis for substrate binding and catalytic activity of a self-alkylating ribozyme
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.488Å R work:0.2R free:0.263

NDB ID:

7EQJ

PDB ID:

7EQJ 

Release:

2022-01-19

Title:

crystal structure of E. coli Valine tRNA

Classification:

RNA

Authors:

Jeong, H., Kim, J.

Citation:

Unique anticodon loop conformation with the flipped-out wobble nucleotide in the crystal structure of unbound tRNA Val .
Rna 27 pp.1330 - 1338 2021

Experiment:

X-RAY DIFFRACTION Resolution:2.043Å R work:0.204R free:0.236

NDB ID:

7KVT

PDB ID:

7KVT 

Release:

2022-01-19

Title:

Crystal structure of Squash RNA aptamer in complex with DFHBI-1T with iridium (III) ions

Classification:

RNA

Authors:

Truong, L., Kooshapur, H., Dey, S.K., Li, X., Tjandra, N., Jaffrey, S.R., Ferre-D'Amare, A.R.

Citation:

The fluorescent aptamer Squash extensively repurposes the adenine riboswitch fold.
Nat.Chem.Biol. pp. - 2021

Experiment:

X-RAY DIFFRACTION Resolution:2.73Å R work:0.209R free:0.25

NDB ID:

7KVU

PDB ID:

7KVU 

Release:

2022-01-19

Title:

Crystal structure of Squash RNA aptamer in complex with DFHBI-1T

Classification:

RNA

Authors:

Truong, L., Kooshapur, H., Dey, S.K., Li, X., Tjandra, N., Jaffrey, S.R., Ferre-D'Amare, A.R.

Citation:

The fluorescent aptamer Squash extensively repurposes the adenine riboswitch fold.
Nat.Chem.Biol. pp. - 2021

Experiment:

X-RAY DIFFRACTION Resolution:2.68Å R work:0.209R free:0.246

NDB ID:

7KVV

PDB ID:

7KVV 

Release:

2022-01-19

Title:

Crystal structure of Squash RNA aptamer in complex with DFHBI-1T

Classification:

RNA

Authors:

Truong, L., Kooshapur, H., Dey, S.K., Li, X., Tjandra, N., Jaffrey, S.R., Ferre-D'Amare, A.R.

Citation:

The fluorescent aptamer Squash extensively repurposes the adenine riboswitch fold.
Nat.Chem.Biol. pp. - 2021

Experiment:

X-RAY DIFFRACTION Resolution:2.85Å R work:0.221R free:0.245

NDB ID:

7OS0

PDB ID:

7OS0 

Release:

2022-01-19

Title:

Structure of the Rhodobacter capsulatus Cas13a-crRNA binary complex

Classification:

RNA BINDING PROTEIN

Authors:

Kick, L.M., von Wrisberg, M.-K., Runtsch, L.S., Schneider, S.

Citation:

Structure and mechanism of the RNA dependent RNase Cas13a from Rhodobacter capsulatus
Commun Biol pp. - 2022

Experiment:

X-RAY DIFFRACTION Resolution:2.2Å R work:0.218R free:0.255

NDB ID:

7RQ5

PDB ID:

7RQ5 

Release:

2022-01-19

Title:

Hairpin near 3'-Splice Site of Influenza A Segment 7 Bound to 5-nt Oligonucleotide

Classification:

RNA

Authors:

Kauffmann, A.D., Kennedy, S.D., Moss, W.N., Kierzek, E., Kierzek, R., Turner, D.H.

Citation:

Nuclear Magnetic Resonance reveals a two hairpin equilibrium near the 3'-splice site of Influenza A segment 7 mRNA that can be shifted by oligonucleotides.
Rna pp. - 2022

Experiment:

SOLUTION NMR

NDB ID:

7BAH

PDB ID:

7BAH 

Release:

2022-01-12

Title:

Structure of RIG-I CTD bound to OH-RNA

Classification:

IMMUNE SYSTEM

Authors:

de Regt, A.K., Anand, K., Gatterdam, K., Hagelueken, G., Hartmann, G., Geyer, M., Schlee, M.

Citation:

A conserved isoleucine in the RNA sensor RIG-I controls immune tolerance to mitochondrial RNA
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.89Å R work:0.194R free:0.223

Equivalence Class: 

NR_all_22038.1 

Eq. Class Rep:

7BAH

NDB ID:

7BAI

PDB ID:

7BAI 

Release:

2022-01-12

Title:

Structure of RIG-I CTD (I875A) bound to p-RNA

Classification:

IMMUNE SYSTEM

Authors:

de Regt, A.K., Anand, K., Gatterdam, K., Hagelueken, G., Hartmann, G., Geyer, M., Schlee, M.

Citation:

A conserved isoleucine in the RNA sensor RIG-I controls immune tolerance to mitochondrial RNA
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.4Å R work:0.218R free:0.273

Equivalence Class: 

NR_all_22038.1 

Eq. Class Rep:

7BAH

NDB ID:

7DUG

PDB ID:

7DUG 

Release:

2022-01-12

Title:

Crystal structure of the Thermus thermophilus (HB8) 30S ribosomal subunit with mRNA and cognate transfer RNA anticodon stem-loop and sisomicin derivative N1''TFMS bound

Classification:

RIBOSOME

Authors:

Demirci, H.

Citation:

Crystal structure of the Thermus thermophilus (HB8) 30S ribosomal subunit with mRNA and cognate transfer RNA anticodon stem-loop and sisomicin derivative N1''TFMS bound
to be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.75Å R work:0.186R free:0.224

Equivalence Class: 

NR_all_65795.62 

Eq. Class Rep:

4LFB

NDB ID:

7DUI

PDB ID:

7DUI 

Release:

2022-01-12

Title:

Crystal structure of the Thermus thermophilus (HB8) 30S ribosomal subunit with mRNA and cognate transfer RNA anticodon stem-loop and sisomicin derivative N1''PyrS bound

Classification:

RIBOSOME

Authors:

Demirci, H.

Citation:

Crystal structure of the Thermus thermophilus (HB8) 30S ribosomal subunit with mRNA and cognate transfer RNA anticodon stem-loop and sisomicin derivative N1''PyrS bound
to be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.62Å R work:0.177R free:0.212

Equivalence Class: 

NR_all_65795.62 

Eq. Class Rep:

4LFB

NDB ID:

7DUJ

PDB ID:

7DUJ 

Release:

2022-01-12

Title:

Crystal structure of the Thermus thermophilus (HB8) 30S ribosomal subunit with mRNA and cognate transfer RNA anticodon stem-loop and sisomicin derivative N1,3''Bz bound

Classification:

RIBOSOME

Authors:

Demirci, H.

Citation:

Crystal structure of the Thermus thermophilus (HB8) 30S ribosomal subunit with mRNA and cognate transfer RNA anticodon stem-loop and sisomicin derivative N1,3''Bz bound
to be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.75Å R work:0.188R free:0.234

Equivalence Class: 

NR_all_65795.62 

Eq. Class Rep:

4LFB

NDB ID:

7DUK

PDB ID:

7DUK 

Release:

2022-01-12

Title:

Crystal structure of the Thermus thermophilus (HB8) 30S ribosomal subunit with mRNA and cognate transfer RNA anticodon stem-loop and sisomicin derivative N1,3''MS bound

Classification:

RIBOSOME

Authors:

Demirci, H.

Citation:

Crystal structure of the Thermus thermophilus (HB8) 30S ribosomal subunit with mRNA and cognate transfer RNA anticodon stem-loop and sisomicin derivative N1,3''MS bound
to be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.6Å R work:0.185R free:0.228

Equivalence Class: 

NR_all_65795.62 

Eq. Class Rep:

4LFB

NDB ID:

7MLW

PDB ID:

7MLW 

Release:

2022-01-12

Title:

Burkholderia sp. TJI49 Guanidine-I riboswitch

Classification:

RNA

Authors:

Trachman 3rd, R.J., Ferre-D'Amare, A.R.

Citation:

An uncommon [K + (Mg 2+ ) 2 ] metal ion triad imparts stability and selectivity to the Guanidine-I riboswitch.
Rna 27 pp.1257 - 1264 2021

Experiment:

X-RAY DIFFRACTION Resolution:2.7Å R work:0.218R free:0.27

Equivalence Class: 

NR_all_01253.1 

Eq. Class Rep:

7MLW

NDB ID:

7RIM

PDB ID:

7RIM 

Release:

2022-01-12

Title:

RNA polymerase II elongation complex with hairpin polyamide Py-Im 1, scaffold 1

Classification:

DNA BINDING PROTEIN/DNA/RNA

Authors:

Oh, J., Wang, D.

Citation:

Transcription treadmill: pyrrole-imidazole polyamide induces inhibition of transcription elongation in RNA polymerase II
To be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.9Å R work:0.215R free:0.25

Equivalence Class: 

NR_all_33912.2 

Eq. Class Rep:

7RIQ

NDB ID:

7RIP

PDB ID:

7RIP 

Release:

2022-01-12

Title:

RNA polymerase II elongation complex with hairpin polyamide Py-Im 1, scaffold 1 soaked with CTP

Classification:

DNA BINDING PROTEIN/DNA/RNA

Authors:

Oh, J., Wang, D.

Citation:

Transcription treadmill: pyrrole-imidazole polyamide induces inhibition of transcription elongation in RNA polymerase II
To be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.3Å R work:0.218R free:0.26

Equivalence Class: 

NR_all_22024.1 

Eq. Class Rep:

7RIP

NDB ID:

7RIQ

PDB ID:

7RIQ 

Release:

2022-01-12

Title:

RNA polymerase II elongation complex scaffold 1 without polyamide

Classification:

DNA BINDING PROTEIN/DNA/RNA

Authors:

Oh, J., Wang, D.

Citation:

Transcription treadmill: pyrrole-imidazole polyamide induces inhibition of transcription elongation in RNA polymerase II
To be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.0Å R work:0.213R free:0.264

Equivalence Class: 

NR_all_33912.2 

Eq. Class Rep:

7RIQ

NDB ID:

7RIW

PDB ID:

7RIW 

Release:

2022-01-12

Title:

RNA polymerase II elongation complex scaffold 2, without polyamide

Classification:

DNA BINDING PROTEIN/DNA/RNA

Authors:

Oh, J., Wang, D.

Citation:

Transcription treadmill: pyrrole-imidazole polyamide induces inhibition of transcription elongation in RNA polymerase II
To be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.2Å R work:0.227R free:0.264

Equivalence Class: 

NR_all_22024.1 

Eq. Class Rep:

7RIP

NDB ID:

7RIX

PDB ID:

7RIX 

Release:

2022-01-12

Title:

RNA polymerase II elongation complex with hairpin polyamide Py-Im 1, scaffold 2

Classification:

DNA BINDING PROTEIN/DNA/RNA

Authors:

Oh, J., Wang, D.

Citation:

Transcription treadmill: pyrrole-imidazole polyamide induces inhibition of transcription elongation in RNA polymerase II
To be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.4Å R work:0.222R free:0.268

Equivalence Class: 

NR_all_22024.1 

Eq. Class Rep:

7RIP

NDB ID:

7RIY

PDB ID:

7RIY 

Release:

2022-01-12

Title:

RNA polymerase II elongation complex with hairpin polyamide Py-Im 1, scaffold 2 soaked with UTP

Classification:

DNA BINDING PROTEIN/DNA/RNA

Authors:

Oh, J., Wang, D.

Citation:

Transcription treadmill: pyrrole-imidazole polyamide induces inhibition of transcription elongation in RNA polymerase II
To be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.7Å R work:0.231R free:0.28

Equivalence Class: 

NR_all_93567.1 

Eq. Class Rep:

7RIY

NDB ID:

7D8O

PDB ID:

7D8O 

Release:

2022-01-05

Title:

Crystal structure of E. coli ToxIN type III toxin-antitoxin complex

Classification:

TOXIN/RNA

Authors:

Manikandan, P., Rothweiler, U., Singh, M.

Citation:

Crystal structure of E. coli ToxIN type III toxin-antitoxin complex
Nucleic Acids Res. pp. - 2022

Experiment:

X-RAY DIFFRACTION Resolution:2.097Å R work:0.212R free:0.232

Equivalence Class: 

NR_all_99575.1 

Eq. Class Rep:

7D8O

NDB ID:

6XKN

PDB ID:

6XKN 

Release:

2021-12-29

Title:

Class III PreQ1 riboswitch mutant A52G

Classification:

RNA

Authors:

Srivastava, K.Y., Jenkins, J.L., Wedekind, J.E.

Citation:

New insights into Class III PreQ1 metabolite binding
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.73Å R work:0.244R free:0.259

Equivalence Class: 

NR_all_63567.1 

Eq. Class Rep:

6XKO

NDB ID:

6XKO

PDB ID:

6XKO 

Release:

2021-12-29

Title:

Class III PreQ1 riboswitch mutant A84G

Classification:

RNA

Authors:

Srivastava, K.Y., Jenkins, J.L., Wedekind, J.E.

Citation:

New insights into Class III PreQ1 metabolite binding
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.75Å R work:0.208R free:0.223

Equivalence Class: 

NR_all_63567.1 

Eq. Class Rep:

6XKO

NDB ID:

7REX

PDB ID:

7REX 

Release:

2021-12-29

Title:

PreQ1-1 (type-1) riboswitch in complex with tandem stacked metabolites

Classification:

RNA

Authors:

Schroeder, G.M., Cavender, C.E., Blau, M.E., Jenkins, J.L., Mathews, D.H., Wedekind, J.E.

Citation:

A small RNA that cooperatively senses two stacked metabolites in one pocket for gene control
Nat Commun 13 pp.199 - 2022

Experiment:

X-RAY DIFFRACTION Resolution:2.6Å R work:0.231R free:0.272

Equivalence Class: 

NR_all_94432.1 

Eq. Class Rep:

7REX

NDB ID:

7S02

PDB ID:

7S02 

Release:

2021-12-29

Title:

Crystal structure of FBF-2 in complex with LST-1 site A peptide and FBE RNA

Classification:

RNA BINDING PROTEIN

Authors:

Qiu, C., Wine, R.N., Campbell, Z.T., Hall, T.M.T.

Citation:

Bipartite interaction sites differentially modulate RNA-binding affinity of a protein complex essential for germline stem cell self-renewal.
Nucleic Acids Res. pp. - 2021

Experiment:

X-RAY DIFFRACTION Resolution:2.34Å R work:0.178R free:0.224

Equivalence Class: 

NR_all_25162.1 

Eq. Class Rep:

3K5Q

NDB ID:

7F36

PDB ID:

7F36 

Release:

2021-12-22

Title:

TacT complexed with acetyl-glycyl-tRNAGly

Classification:

TRANSFERASE

Authors:

Yashiro, Y., Zhang, C., Sakaguchi, Y., Suzuki, T., Tomita, K.

Citation:

Molecular basis of glycyl-tRNAGly acetylation by TacT from Salmonella Typhimurium
Cell Rep 37 pp.110130 - 2021

Experiment:

X-RAY DIFFRACTION Resolution:3.098Å R work:0.208R free:0.263

Equivalence Class: 

NR_all_04953.1 

Eq. Class Rep:

7F36

NDB ID:

7LO9

PDB ID:

7LO9 

Release:

2021-12-22

Title:

RNA dodecamer containing a GNA A residue

Classification:

RNA

Authors:

Schlegel, M.K., Matsuda, S., Brown, C.R., Harp, J.M., Barry, J.D., Berman, D., Castoreno, A., Schofield, S., Szeto, J., Manoharan, M., Charisse, K., Egli, M., Maier, M.A.

Citation:

Overcoming GNA/RNA base-pairing limitations using isonucleotides improves the pharmacodynamic activity of ESC+ GalNAc-siRNAs.
Nucleic Acids Res. 49 pp.10851 - 10867 2021

Experiment:

X-RAY DIFFRACTION Resolution:1.78Å R work:0.194R free:0.225

Equivalence Class: 

NR_all_28670.1 

Eq. Class Rep:

7LO9

NDB ID:

5BKL

PDB ID:

5BKL 

Release:

2021-12-15

Title:

Crystallographic structure of the cubic crystal form of STMV (77.9 degree rotation) grown from NaCl

Classification:

VIRUS/RNA

Authors:

McPherson, A.

Citation:

Structures of additional crystal forms of Satellite tobacco mosaic virus grown from a variety of salts.
Acta Crystallogr.,Sect.F 77 pp.473 - 483 2021

Experiment:

X-RAY DIFFRACTION Resolution:2.94Å R work:0.216R free:0.255

Equivalence Class: 

NR_all_12757.1 

Eq. Class Rep:

5BKL

NDB ID:

5BKN

PDB ID:

5BKN 

Release:

2021-12-15

Title:

Crystallographic structure of a cubic crystal form of STMV (84.5 degree rotation) grown from chloride

Classification:

VIRUS

Authors:

McPherson, A.

Citation:

Structures of additional crystal forms of Satellite tobacco mosaic virus grown from a variety of salts.
Acta Crystallogr.,Sect.F 77 pp.473 - 483 2021

Experiment:

X-RAY DIFFRACTION Resolution:3.0Å R work:0.207R free:0.255

Equivalence Class: 

NR_all_41668.1 

Eq. Class Rep:

4LJ0

NDB ID:

7M2T

PDB ID:

7M2T 

Release:

2021-12-15

Title:

Crystallographic Structure of the Monoclinic Form of Satellite Tobacco Mosaic Virus

Classification:

VIRUS/RNA

Authors:

McPherson, A.

Citation:

Structures of additional crystal forms of Satellite tobacco mosaic virus grown from a variety of salts.
Acta Crystallogr.,Sect.F 77 pp.473 - 483 2021

Experiment:

X-RAY DIFFRACTION Resolution:2.71Å R work:0.129R free:0.176

Equivalence Class: 

NR_all_47419.1 

Eq. Class Rep:

7M2V

NDB ID:

7M2V

PDB ID:

7M2V 

Release:

2021-12-15

Title:

Crystallographic Structure of the Rhombohedral Crystal Form of STMV Grown from Chloride

Classification:

VIRUS/RNA

Authors:

McPherson, A.

Citation:

Structures of additional crystal forms of Satellite tobacco mosaic virus grown from a variety of salts.
Acta Crystallogr.,Sect.F 77 pp.473 - 483 2021

Experiment:

X-RAY DIFFRACTION Resolution:1.8Å R work:0.205R free:0.216

Equivalence Class: 

NR_all_17672.1 

Eq. Class Rep:

7M2V

NDB ID:

7M3T

PDB ID:

7M3T 

Release:

2021-12-15

Title:

Crystallographic structure of a cubic crystal of STMV (80.7 degree rotation about 111) grown from chloride

Classification:

VIRUS/RNA

Authors:

McPherson, A.

Citation:

Structures of additional crystal forms of Satellite tobacco mosaic virus grown from a variety of salts.
Acta Crystallogr.,Sect.F 77 pp.473 - 483 2021

Experiment:

X-RAY DIFFRACTION Resolution:3.2Å R work:0.215R free:0.253

Equivalence Class: 

NR_all_04998.1 

Eq. Class Rep:

7M3T

NDB ID:

7M50

PDB ID:

7M50 

Release:

2021-12-15

Title:

Crystallographic structure of a cubic crystal form of STMV grown from ammonium sulfate

Classification:

VIRUS

Authors:

McPherson, A.

Citation:

Structures of additional crystal forms of Satellite tobacco mosaic virus grown from a variety of salts.
Acta Crystallogr.,Sect.F 77 pp.473 - 483 2021

Experiment:

X-RAY DIFFRACTION Resolution:2.31Å R work:0.245R free:0.27

Equivalence Class: 

NR_all_41668.1 

Eq. Class Rep:

4LJ0

NDB ID:

7M57

PDB ID:

7M57 

Release:

2021-12-15

Title:

Crystallographic structure of a primitive orthorhombic crystal form of STMV

Classification:

VIRUS/RNA

Authors:

McPherson, A.

Citation:

Structures of additional crystal forms of Satellite tobacco mosaic virus grown from a variety of salts.
Acta Crystallogr.,Sect.F 77 pp.473 - 483 2021

Experiment:

X-RAY DIFFRACTION Resolution:4.0Å R work:0.2

Equivalence Class: 

NR_all_20373.1 

Eq. Class Rep:

7M57

NDB ID:

7PDU

PDB ID:

7PDU 

Release:

2021-12-15

Title:

Pre-catalytic complex of 10-23 DNAzyme with RNA target

Classification:

DNA-RNA HYBRID

Authors:

Borggrafe, J., Victor, J., Rosenbach, H., Viegas, A., Gertzen, C.G.W., Wuebben, C., Kovacs, H., Riesner, D., Steger, G., Schiemann, O., Gohlke, H., Span, I., Etzkorn, M.

Citation:

Time-resolved structural analysis of an RNA-cleaving DNA catalyst
To Be Published pp. - 0

Experiment:

SOLUTION NMR

Equivalence Class: 

NR_all_80220.1 

Eq. Class Rep:

7PDU

NDB ID:

7R9F

PDB ID:

7R9F 

Release:

2021-12-15

Title:

Wild-type yeast Pseudouridine Synthase, PUS1, bound to 5-Fluorouracil RNA

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Doyle, L.A., Stoddard, B.L.

Citation:

Wild-type yeast Pseudouridine Synthase bound to 5-Fluorouracil RNA
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.89Å R work:0.251R free:0.289

Equivalence Class: 

NR_all_22527.1 

Eq. Class Rep:

7R9F

NDB ID:

7R9G

PDB ID:

7R9G 

Release:

2021-12-15

Title:

Catalytically inactive yeast Pseudouridine Synthase, PUS1, bound to RNA

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Doyle, L.A., Stoddard, B.L.

Citation:

Catalytically inactive yeast Pseudouridine Synthase bound to RNA
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.4Å R work:0.221R free:0.263

Equivalence Class: 

NR_all_67797.1 

Eq. Class Rep:

7R9G

NDB ID:

7OSA

PDB ID:

7OSA 

Release:

2021-12-08

Title:

Pre-translocation complex of 80 S.cerevisiae ribosome with eEF2 and ligands

Classification:

RIBOSOME

Authors:

Djumagulov, M., Demeshkina, N., Jenner, L., Rozov, A., Yusupov, M., Yusupova, G.

Citation:

Accuracy mechanism of eukaryotic ribosome translocation.
Nature 600 pp.543 - 546 2021

Experiment:

X-RAY DIFFRACTION Resolution:3.0Å R work:0.195R free:0.25

Equivalence Class: 

NR_all_03510.42 

Eq. Class Rep:

4V88

NDB ID:

7OSM

PDB ID:

7OSM 

Release:

2021-12-08

Title:

Intermediate translocation complex of 80 S.cerevisiae ribosome with eEF2 and ligands

Classification:

RIBOSOME

Authors:

Djumagulov, M., Demeshkina, N., Jenner, L., Rozov, A., Yusupov, M., Yusupova, G.

Citation:

Accuracy mechanism of eukaryotic ribosome translocation.
Nature 600 pp.543 - 546 2021

Experiment:

X-RAY DIFFRACTION Resolution:3.0Å R work:0.227R free:0.284

Equivalence Class: 

NR_all_03510.42 

Eq. Class Rep:

4V88

NDB ID:

7FHI

PDB ID:

7FHI 

Release:

2021-12-01

Title:

Interaction between a fluoroquinolone derivative and RNAs with a single bulge

Classification:

RNA

Authors:

Nagano, K., Kamimura, T., Kawai, G.

Citation:

Interaction between a fluoroquinolone derivative and RNAs with a single bulge.
J.Biochem. pp. - 2021

Experiment:

SOLUTION NMR

Equivalence Class: 

NR_all_55691.1 

Eq. Class Rep:

7FHI

NDB ID:

7FJ0

PDB ID:

7FJ0 

Release:

2021-12-01

Title:

Interaction between a fluoroquinolone derivative and RNAs with a single bulge

Classification:

RNA

Authors:

Nagano, K., Kamimura, T., Kawai, G.

Citation:

Interaction between a fluoroquinolone derivative and RNAs with a single bulge.
J.Biochem. pp. - 2021

Experiment:

SOLUTION NMR

Equivalence Class: 

NR_all_89167.1 

Eq. Class Rep:

7FJ0

NDB ID:

6WW6

PDB ID:

6WW6 

Release:

2021-11-24

Title:

Crystal structure of EutV bound to RNA

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Ataide, S.F., Walshe, J.L.

Citation:

One by one: Structural characterisation of an RNA bound anti-terminator protein reveals a successive binding mode
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.8Å R work:0.233R free:0.241

Equivalence Class: 

NR_all_24584.1 

Eq. Class Rep:

6WW6

NDB ID:

7EOG

PDB ID:

7EOG 

Release:

2021-11-24

Title:

Crystal structure of the Pepper aptamer in complex with HBC, iridium hexammine soak

Classification:

RNA

Authors:

Huang, K., Chen, X., Li, C., Song, Q., Li, H., Zhu, L., Yang, Y., Ren, A.

Citation:

Structure-based investigation of fluorogenic Pepper aptamer.
Nat.Chem.Biol. pp. - 2021

Experiment:

X-RAY DIFFRACTION Resolution:1.5Å R work:0.192R free:0.218

Equivalence Class: 

NR_all_54098.1 

Eq. Class Rep:

7EOG

NDB ID:

7EOH

PDB ID:

7EOH 

Release:

2021-11-24

Title:

Crystal structure of the Pepper aptamer in complex with HBC

Classification:

RNA

Authors:

Huang, K., Chen, X., Li, C., Song, Q., Li, H., Zhu, L., Yang, Y., Ren, A.

Citation:

Structure-based investigation of fluorogenic Pepper aptamer.
Nat.Chem.Biol. pp. - 2021

Experiment:

X-RAY DIFFRACTION Resolution:1.637Å R work:0.197R free:0.232

Equivalence Class: 

NR_all_54098.1 

Eq. Class Rep:

7EOG

NDB ID:

7EOI

PDB ID:

7EOI 

Release:

2021-11-24

Title:

Crystal structure of the Pepper aptamer in complex with HBC, manganese soak

Classification:

RNA

Authors:

Huang, K., Chen, X., Li, C., Song, Q., Li, H., Zhu, L., Yang, Y., Ren, A.

Citation:

Structure-based investigation of fluorogenic Pepper aptamer.
Nat.Chem.Biol. pp. - 2021

Experiment:

X-RAY DIFFRACTION Resolution:1.92Å R work:0.215R free:0.243

Equivalence Class: 

NR_all_54098.1 

Eq. Class Rep:

7EOG

NDB ID:

7EOJ

PDB ID:

7EOJ 

Release:

2021-11-24

Title:

Crystal structure of the Pepper aptamer in complex with HBC, cesium soak

Classification:

RNA

Authors:

Huang, K., Chen, X., Li, C., Song, Q., Li, H., Zhu, L., Yang, Y., Ren, A.

Citation:

Structure-based investigation of fluorogenic Pepper aptamer.
Nat.Chem.Biol. pp. - 2021

Experiment:

X-RAY DIFFRACTION Resolution:1.77Å R work:0.207R free:0.215

Equivalence Class: 

NR_all_54098.1 

Eq. Class Rep:

7EOG

NDB ID:

7EOK

PDB ID:

7EOK 

Release:

2021-11-24

Title:

Crystal structure of the Pepper aptamer in complex with HBC485

Classification:

RNA

Authors:

Huang, K., Chen, X., Li, C., Song, Q., Li, H., Zhu, L., Yang, Y., Ren, A.

Citation:

Structure-based investigation of fluorogenic Pepper aptamer.
Nat.Chem.Biol. pp. - 2021

Experiment:

X-RAY DIFFRACTION Resolution:2.7Å R work:0.201R free:0.241

Equivalence Class: 

NR_all_54098.1 

Eq. Class Rep:

7EOG