A Portal for Three-dimensional Structural Information about Nucleic Acids
As of 18-Sep-2019 number of released structures: 10387
Search for released structures

RNA Search Options:

Polymer

All
RNA Only
Protein RNA Complexes
Drug RNA Complexes
Hybrids and Chimera
Peptide Nucleic Acid / Mimetics

RNA Type

All
tRNA
tRNA fragment
Ribosome
Ribozyme
Hairpin Ribozyme
Hammerhead Ribozyme
Group I intron Ribozyme
Group II intron Ribozyme
Rnase P Ribozyme
Polymerase Ribozyme
Ligase Ribozyme
Leadzyme
Ribozyme fragment
Virus
Viral fragment
Riboswitch
Riboswitch fragment
Aptamer
Telomerase RNA
Small nucleotide fragments
Double Helices
Triple Helices
Quadruple Helices

Protein Function

All
Enzymes
Structural
Regulatory

Experimental Method

All
XRAY
NMR

Representative RNA 3D Structure Sets

All RNA Structures
Representative sets of RNA-containing 3D structures
Resolution cutoff:

Text Search

Filter results by text search

Use this option to narrow your results down considerably (>50% reduction) using any word seen in the results page. Eg: Any author name found in the right side



Polymer Type: All + RNA Type: All + Protein Function: All + Experimental Method: All + RNA Sequence Type: All RNA Sequence

Results: 5118  Download results as an excel file       Gallery view

NDB ID:

6OZF

PDB ID:

6OZF 

Release:

2019-09-04

Title:

Crystal structure of Thermotoga maritima (Tm) Endonuclease V (D110N) in complex with a 12mer DNA containing an inosine followed by a ribo-adenosine

Classification:

HYDROLASE

Authors:

Wu, J., Samara, N.L., Kuraoka, I., Yang, W.

Citation:

Evolution of Inosine-Specific Endonuclease V from Bacterial DNase to Eukaryotic RNase.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:1.8Å R work:0.166R free:0.197

NDB ID:

6OZG

PDB ID:

6OZG 

Release:

2019-09-04

Title:

Crystal structure of Thermotoga maritima (Tm) Endonuclease V (E89Q) in complex with a 12mer DNA containing an inosine followed by a ribo-adenosine

Classification:

HYDROLASE

Authors:

Wu, J., Samara, N.L., Kuraoka, I., Yang, W.

Citation:

Evolution of Inosine-Specific Endonuclease V from Bacterial DNase to Eukaryotic RNase.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:1.93Å R work:0.177R free:0.209

NDB ID:

6OZH

PDB ID:

6OZH 

Release:

2019-09-04

Title:

Crystal structure of Ciona intestinalis (Ci) Endonuclease V in complex with a 24mer DNA containing an inosine followed by a ribo-adenosine

Classification:

HYDROLASE

Authors:

Wu, J., Samara, N.L., Kuraoka, I., Yang, W.

Citation:

Evolution of Inosine-Specific Endonuclease V from Bacterial DNase to Eukaryotic RNase.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:3.026Å R work:0.233R free:0.269

NDB ID:

6OZI

PDB ID:

6OZI 

Release:

2019-09-04

Title:

Crystal structure of Ciona intestinalis (Ci) Endonuclease V (D234N) in complex with a 23mer DNA containing an inosine followed by a ribo-adenosine

Classification:

HYDROLASE

Authors:

Wu, J., Samara, N.L., Kuraoka, I., Yang, W.

Citation:

Evolution of Inosine-Specific Endonuclease V from Bacterial DNase to Eukaryotic RNase.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.302Å R work:0.174R free:0.201

NDB ID:

6OZJ

PDB ID:

6OZJ 

Release:

2019-09-04

Title:

Crystal structure of Mus musculus (Mm) Endonuclease V in complex with a 23mer RNA oligo containing an inosine in the absence of divalent cation

Classification:

HYDROLASE

Authors:

Wu, J., Samara, N.L., Kuraoka, I., Yang, W.

Citation:

Evolution of Inosine-Specific Endonuclease V from Bacterial DNase to Eukaryotic RNase.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.247Å R work:0.156R free:0.193

Equivalence Class: 

NR_all_99000.1 

Eq. Class Rep:

6OZR

NDB ID:

6OZK

PDB ID:

6OZK 

Release:

2019-09-04

Title:

Crystal structure of Mus musculus (Mm) Endonuclease V in complex with a 23mer RNA oligo containing an inosine after 68h soak in Ca2+

Classification:

HYDROLASE

Authors:

Wu, J., Samara, N.L., Kuraoka, I., Yang, W.

Citation:

Evolution of Inosine-Specific Endonuclease V from Bacterial DNase to Eukaryotic RNase.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.104Å R work:0.176R free:0.214

Equivalence Class: 

NR_all_99000.1 

Eq. Class Rep:

6OZR

NDB ID:

6OZL

PDB ID:

6OZL 

Release:

2019-09-04

Title:

Crystal structure of Mus musculus (Mm) Endonuclease V in complex with a 23mer RNA oligo containing an inosine after a 2 min soak in Mn2+

Classification:

HYDROLASE

Authors:

Wu, J., Samara, N.L., Kuraoka, I., Yang, W.

Citation:

Evolution of Inosine-Specific Endonuclease V from Bacterial DNase to Eukaryotic RNase.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.1Å R work:0.175R free:0.216

Equivalence Class: 

NR_all_99000.1 

Eq. Class Rep:

6OZR

NDB ID:

6OZM

PDB ID:

6OZM 

Release:

2019-09-04

Title:

Crystal structure of Mus musculus (Mm) Endonuclease V in complex with a 23mer RNA oligo containing an inosine after a 10 min soak in 10 mM Mn2+

Classification:

HYDROLASE/RNA

Authors:

Wu, J., Samara, N.L., Kuraoka, I., Yang, W.

Citation:

Evolution of Inosine-Specific Endonuclease V from Bacterial DNase to Eukaryotic RNase.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.15Å R work:0.173R free:0.216

Equivalence Class: 

NR_all_99000.1 

Eq. Class Rep:

6OZR

NDB ID:

6OZN

PDB ID:

6OZN 

Release:

2019-09-04

Title:

Crystal structure of Mus musculus (Mm) Endonuclease V in complex with a 23mer RNA oligo containing an inosine after a 15 min soak in 10 mM Mn2+

Classification:

HYDROLASE/RNA

Authors:

Wu, J., Samara, N.L., Kuraoka, I., Yang, W.

Citation:

Evolution of Inosine-Specific Endonuclease V from Bacterial DNase to Eukaryotic RNase.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:1.9Å R work:0.191R free:0.221

Equivalence Class: 

NR_all_99000.1 

Eq. Class Rep:

6OZR

NDB ID:

6OZO

PDB ID:

6OZO 

Release:

2019-09-04

Title:

Crystal structure of Mus musculus (Mm) Endonuclease V in complex with a 23mer RNA oligo containing an inosine after a 30 min soak in 10 mM Mn2+

Classification:

HYDROLASE/RNA

Authors:

Wu, J., Samara, N.L., Kuraoka, I., Yang, W.

Citation:

Evolution of Inosine-Specific Endonuclease V from Bacterial DNase to Eukaryotic RNase.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.235Å R work:0.168R free:0.211

Equivalence Class: 

NR_all_21529.1 

Eq. Class Rep:

6OZO

NDB ID:

6OZP

PDB ID:

6OZP 

Release:

2019-09-04

Title:

Crystal structure of Mus musculus (Mm) Endonuclease V in complex with a 23mer RNA oligo containing an inosine after a 180 min soak in 10 mM Mn2+

Classification:

HYDROLASE/RNA

Authors:

Wu, J., Samara, N.L., Kuraoka, I., Yang, W.

Citation:

Evolution of Inosine-Specific Endonuclease V from Bacterial DNase to Eukaryotic RNase.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:1.96Å R work:0.174R free:0.201

Equivalence Class: 

NR_all_37706.1 

Eq. Class Rep:

6OZP

NDB ID:

6OZP

PDB ID:

6OZP 

Release:

2019-09-04

Title:

Crystal structure of Mus musculus (Mm) Endonuclease V in complex with a 23mer RNA oligo containing an inosine after a 180 min soak in 10 mM Mn2+

Classification:

HYDROLASE/RNA

Authors:

Wu, J., Samara, N.L., Kuraoka, I., Yang, W.

Citation:

Evolution of Inosine-Specific Endonuclease V from Bacterial DNase to Eukaryotic RNase.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:1.96Å R work:0.174R free:0.201

Equivalence Class: 

NR_all_97453.1 

Eq. Class Rep:

6OZP

NDB ID:

6OZQ

PDB ID:

6OZQ 

Release:

2019-09-04

Title:

Crystal structure of Mus musculus (Mm) Endonuclease V (K155M) in complex with a 23mer RNA oligo containing an inosine after a 100 min soak in 10 mM Mn2+ and K+

Classification:

HYDROLASE

Authors:

Wu, J., Samara, N.L., Kuraoka, I., Yang, W.

Citation:

Evolution of Inosine-Specific Endonuclease V from Bacterial DNase to Eukaryotic RNase.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.153Å R work:0.173R free:0.209

Equivalence Class: 

NR_all_99000.1 

Eq. Class Rep:

6OZR

NDB ID:

6OZR

PDB ID:

6OZR 

Release:

2019-09-04

Title:

Crystal structure of Mus musculus (Mm) Endonuclease V in complex with a 23mer RNA oligo containing an inosine after a 15 min soak in 10 mM Mg2+

Classification:

HYDROLASE

Authors:

Wu, J., Samara, N.L., Kuraoka, I., Yang, W.

Citation:

Evolution of Inosine-Specific Endonuclease V from Bacterial DNase to Eukaryotic RNase.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.15Å R work:0.157R free:0.194

Equivalence Class: 

NR_all_99000.1 

Eq. Class Rep:

6OZR

NDB ID:

6OZS

PDB ID:

6OZS 

Release:

2019-09-04

Title:

Crystal structure of Mus musculus (Mm) Endonuclease V in complex with a 23mer RNA oligo containing an inosine after a 90 min soak in 10 mM Mg2+

Classification:

HYDROLASE/RNA

Authors:

Wu, J., Samara, N.L., Kuraoka, I., Yang, W.

Citation:

Evolution of Inosine-Specific Endonuclease V from Bacterial DNase to Eukaryotic RNase.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.41Å R work:0.19R free:0.236

Equivalence Class: 

NR_all_37706.1 

Eq. Class Rep:

6OZP

NDB ID:

6OZS

PDB ID:

6OZS 

Release:

2019-09-04

Title:

Crystal structure of Mus musculus (Mm) Endonuclease V in complex with a 23mer RNA oligo containing an inosine after a 90 min soak in 10 mM Mg2+

Classification:

HYDROLASE/RNA

Authors:

Wu, J., Samara, N.L., Kuraoka, I., Yang, W.

Citation:

Evolution of Inosine-Specific Endonuclease V from Bacterial DNase to Eukaryotic RNase.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.41Å R work:0.19R free:0.236

Equivalence Class: 

NR_all_97453.1 

Eq. Class Rep:

6OZP

NDB ID:

6P1S

PDB ID:

6P1S 

Release:

2019-09-04

Title:

Post-catalytic nicked complex of human DNA Polymerase Mu with 1-nt gapped substrate containing template 8OG and newly incorporated AMP

Classification:

TRANSFERASE/DNA

Authors:

Kaminski, A.M., Chiruvella, K.K., Ramsden, D.A., Kunkel, T.A., Bebenek, K., Pedersen, L.C.

Citation:

Unexpected behavior of DNA polymerase Mu opposite template 8-oxo-7,8-dihydro-2'-guanosine.
Nucleic Acids Res. pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:1.75Å R work:0.172R free:0.195

NDB ID:

6P1U

PDB ID:

6P1U 

Release:

2019-09-04

Title:

Post-catalytic nicked complex of human DNA Polymerase Mu with 1-nt gapped substrate containing template 8OG and newly incorporated CMP

Classification:

TRANSFERASE

Authors:

Kaminski, A.M., Chiruvella, K.K., Ramsden, D.A., Kunkel, T.A., Bebenek, K., Pedersen, L.C.

Citation:

Unexpected behavior of DNA polymerase Mu opposite template 8-oxo-7,8-dihydro-2'-guanosine.
Nucleic Acids Res. pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:1.75Å R work:0.169R free:0.192

NDB ID:

6HYU

PDB ID:

6HYU 

Release:

2019-08-28

Title:

Crystal structure of DHX8 helicase bound to single stranded poly-adenine RNA

Classification:

RNA BINDING PROTEIN

Authors:

Felisberto-Rodrigues, C., Thomas, J.C., McAndrew, C., Le Bihan, Y.V., Burke, R., Workman, P., van Montfort, R.L.M.

Citation:

Structural and functional characterisation of human RNA helicase DHX8 provides insights into the mechanism of RNA-stimulated ADP release.
Biochem.J. pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:3.22Å R work:0.225R free:0.289

Equivalence Class: 

NR_all_22826.3 

Eq. Class Rep:

4OAU

NDB ID:

6HYU

PDB ID:

6HYU 

Release:

2019-08-28

Title:

Crystal structure of DHX8 helicase bound to single stranded poly-adenine RNA

Classification:

RNA BINDING PROTEIN

Authors:

Felisberto-Rodrigues, C., Thomas, J.C., McAndrew, C., Le Bihan, Y.V., Burke, R., Workman, P., van Montfort, R.L.M.

Citation:

Structural and functional characterisation of human RNA helicase DHX8 provides insights into the mechanism of RNA-stimulated ADP release.
Biochem.J. pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:3.22Å R work:0.225R free:0.289

Equivalence Class: 

NR_all_26052.5 

Eq. Class Rep:

5NEW

NDB ID:

6J7Z

PDB ID:

6J7Z 

Release:

2019-08-28

Title:

Human mitochondrial Oligoribonuclease in complex with RNA

Classification:

HYDROLASE

Authors:

Chu, L.Y., Agrawal, S., Chen, Y.P., Yang, W.Z., Yuan, H.S.

Citation:

Structural insights into nanoRNA degradation by human Rexo2.
Rna 25 pp.737 - 746 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.005Å R work:0.205R free:0.227

Equivalence Class: 

NR_all_21736.6 

Eq. Class Rep:

6D30

NDB ID:

6S0M

PDB ID:

6S0M 

Release:

2019-08-28

Title:

Structural and dynamic studies provide insights into specificity and allosteric regulation of Ribonuclease AS, a key enzyme in mycobacterial virulence

Classification:

RNA BINDING PROTEIN

Authors:

Calvanese, L., Squeglia, F., Romano, M., D'Auria, G., Falcigno, L., Berisio, R.

Citation:

Structural and dynamic studies provide insights into specificity and allosteric regulation of ribonuclease as, a key enzyme in mycobacterial virulence.
J.Biomol.Struct.Dyn. pp.1 - 13 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.0Å R work:0.177R free:0.241

Equivalence Class: 

NR_all_89612.6 

Eq. Class Rep:

6N6I

NDB ID:

6EEN

PDB ID:

6EEN 

Release:

2019-08-21

Title:

Crystal structure of a designer Pentatrico Peptide RNA binding protein, bound to a complex RNA target and featuring an infinite superhelix and microheterogeneity.

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Schmidberger, J.W., Bond, C.S.

Citation:

Crystal structure of a designer Pentatrico Peptide RNA binding protein, bound to a complex RNA target and featuring an infinite superhelix and microheterogeneity.
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.01Å R work:0.183R free:0.247

Equivalence Class: 

NR_all_06759.1 

Eq. Class Rep:

6EEN

NDB ID:

6EEN

PDB ID:

6EEN 

Release:

2019-08-21

Title:

Crystal structure of a designer Pentatrico Peptide RNA binding protein, bound to a complex RNA target and featuring an infinite superhelix and microheterogeneity.

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Schmidberger, J.W., Bond, C.S.

Citation:

Crystal structure of a designer Pentatrico Peptide RNA binding protein, bound to a complex RNA target and featuring an infinite superhelix and microheterogeneity.
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.01Å R work:0.183R free:0.247

Equivalence Class: 

NR_all_07366.1 

Eq. Class Rep:

6EEN

NDB ID:

6EEN

PDB ID:

6EEN 

Release:

2019-08-21

Title:

Crystal structure of a designer Pentatrico Peptide RNA binding protein, bound to a complex RNA target and featuring an infinite superhelix and microheterogeneity.

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Schmidberger, J.W., Bond, C.S.

Citation:

Crystal structure of a designer Pentatrico Peptide RNA binding protein, bound to a complex RNA target and featuring an infinite superhelix and microheterogeneity.
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.01Å R work:0.183R free:0.247

Equivalence Class: 

NR_all_18559.1 

Eq. Class Rep:

6EEN

NDB ID:

6EEN

PDB ID:

6EEN 

Release:

2019-08-21

Title:

Crystal structure of a designer Pentatrico Peptide RNA binding protein, bound to a complex RNA target and featuring an infinite superhelix and microheterogeneity.

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Schmidberger, J.W., Bond, C.S.

Citation:

Crystal structure of a designer Pentatrico Peptide RNA binding protein, bound to a complex RNA target and featuring an infinite superhelix and microheterogeneity.
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.01Å R work:0.183R free:0.247

Equivalence Class: 

NR_all_85397.1 

Eq. Class Rep:

6EEN

NDB ID:

6JXM

PDB ID:

6JXM 

Release:

2019-08-21

Title:

Crystal Structure of phi29 pRNA domain II

Classification:

RNA

Authors:

Cai, R., Price, I.R., Ding, F., Wu, F., Chen, T., Zhang, Y., Liu, G., Jardine, P.J., Lu, C., Ke, A.

Citation:

ATP/ADP modulates gp16-pRNA conformational change in the Phi29 DNA packaging motor.
Nucleic Acids Res. pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:3.32Å R work:0.222R free:0.265

Equivalence Class: 

NR_all_62996.1 

Eq. Class Rep:

6JXM

NDB ID:

6NY6

PDB ID:

6NY6 

Release:

2019-08-21

Title:

Structure of dimeric Escherichia coli toxin YoeB bound to the Thermus thermophilus 30S ribosome

Classification:

RIBOSOME

Authors:

Hoffer, E.D., Pavelich, I.J., Maehigashi, T., Risener, C., Dunham, C.M.

Citation:

Monomeric YoeB toxin retains RNase activity but likely adopts an obligate dimeric form to combat thermal stress
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.74Å R work:0.205R free:0.224

Equivalence Class: 

NR_all_65795.50 

Eq. Class Rep:

4LFB

NDB ID:

6OTR

PDB ID:

6OTR 

Release:

2019-08-21

Title:

Dimeric E.coli YoeB bound to Thermus thermophilus 70S post-cleavage (AAU)

Classification:

RIBOSOME

Authors:

Hoffer, E., Pavelich, I., Maehigashi, T., Dunham, C.

Citation:

Dimeric E.coli YoeB bound to Thermus thermophilus 70S post-cleavage (AAU)
to be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.12Å R work:0.231R free:0.257

Equivalence Class: 

NR_all_65795.50 

Eq. Class Rep:

4LFB

NDB ID:

6OTR

PDB ID:

6OTR 

Release:

2019-08-21

Title:

Dimeric E.coli YoeB bound to Thermus thermophilus 70S post-cleavage (AAU)

Classification:

RIBOSOME

Authors:

Hoffer, E., Pavelich, I., Maehigashi, T., Dunham, C.

Citation:

Dimeric E.coli YoeB bound to Thermus thermophilus 70S post-cleavage (AAU)
to be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.12Å R work:0.231R free:0.257

Equivalence Class: 

NR_all_97519.45 

Eq. Class Rep:

4Y4O

NDB ID:

6OTR

PDB ID:

6OTR 

Release:

2019-08-21

Title:

Dimeric E.coli YoeB bound to Thermus thermophilus 70S post-cleavage (AAU)

Classification:

RIBOSOME

Authors:

Hoffer, E., Pavelich, I., Maehigashi, T., Dunham, C.

Citation:

Dimeric E.coli YoeB bound to Thermus thermophilus 70S post-cleavage (AAU)
to be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.12Å R work:0.231R free:0.257

Equivalence Class: 

NR_all_42622.45 

Eq. Class Rep:

5FDV

NDB ID:

6OTR

PDB ID:

6OTR 

Release:

2019-08-21

Title:

Dimeric E.coli YoeB bound to Thermus thermophilus 70S post-cleavage (AAU)

Classification:

RIBOSOME

Authors:

Hoffer, E., Pavelich, I., Maehigashi, T., Dunham, C.

Citation:

Dimeric E.coli YoeB bound to Thermus thermophilus 70S post-cleavage (AAU)
to be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.12Å R work:0.231R free:0.257

Equivalence Class: 

NR_all_35542.63 

Eq. Class Rep:

5L4O

NDB ID:

6OXA

PDB ID:

6OXA 

Release:

2019-08-21

Title:

Dimeric E.coli YoeB bound to Thermus thermophilus 70S pre-cleavage (AAU)

Classification:

RIBOSOME

Authors:

Hoffer, E., Pavelich, I., Maehigashi, T., Dunham, C.

Citation:

TBD
to be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.25Å R work:0.229R free:0.256

Equivalence Class: 

NR_all_65795.50 

Eq. Class Rep:

4LFB

NDB ID:

6OXA

PDB ID:

6OXA 

Release:

2019-08-21

Title:

Dimeric E.coli YoeB bound to Thermus thermophilus 70S pre-cleavage (AAU)

Classification:

RIBOSOME

Authors:

Hoffer, E., Pavelich, I., Maehigashi, T., Dunham, C.

Citation:

TBD
to be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.25Å R work:0.229R free:0.256

Equivalence Class: 

NR_all_97519.45 

Eq. Class Rep:

4Y4O

NDB ID:

6OXA

PDB ID:

6OXA 

Release:

2019-08-21

Title:

Dimeric E.coli YoeB bound to Thermus thermophilus 70S pre-cleavage (AAU)

Classification:

RIBOSOME

Authors:

Hoffer, E., Pavelich, I., Maehigashi, T., Dunham, C.

Citation:

TBD
to be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.25Å R work:0.229R free:0.256

Equivalence Class: 

NR_all_42622.45 

Eq. Class Rep:

5FDV

NDB ID:

6OXA

PDB ID:

6OXA 

Release:

2019-08-21

Title:

Dimeric E.coli YoeB bound to Thermus thermophilus 70S pre-cleavage (AAU)

Classification:

RIBOSOME

Authors:

Hoffer, E., Pavelich, I., Maehigashi, T., Dunham, C.

Citation:

TBD
to be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.25Å R work:0.229R free:0.256

Equivalence Class: 

NR_all_35542.63 

Eq. Class Rep:

5L4O

NDB ID:

6OXI

PDB ID:

6OXI 

Release:

2019-08-21

Title:

Dimeric E.coli YoeB bound to Thermus thermophilus 70S post-cleavage (UAA)

Classification:

RIBOSOME

Authors:

Hoffer, E., Pavelich, I., Maehigashi, T., Dunham, C.

Citation:

TBD
to be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.495Å R work:0.215R free:0.245

Equivalence Class: 

NR_all_65795.50 

Eq. Class Rep:

4LFB

NDB ID:

6OXI

PDB ID:

6OXI 

Release:

2019-08-21

Title:

Dimeric E.coli YoeB bound to Thermus thermophilus 70S post-cleavage (UAA)

Classification:

RIBOSOME

Authors:

Hoffer, E., Pavelich, I., Maehigashi, T., Dunham, C.

Citation:

TBD
to be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.495Å R work:0.215R free:0.245

Equivalence Class: 

NR_all_97519.45 

Eq. Class Rep:

4Y4O

NDB ID:

6OXI

PDB ID:

6OXI 

Release:

2019-08-21

Title:

Dimeric E.coli YoeB bound to Thermus thermophilus 70S post-cleavage (UAA)

Classification:

RIBOSOME

Authors:

Hoffer, E., Pavelich, I., Maehigashi, T., Dunham, C.

Citation:

TBD
to be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.495Å R work:0.215R free:0.245

Equivalence Class: 

NR_all_42622.45 

Eq. Class Rep:

5FDV

NDB ID:

6OXI

PDB ID:

6OXI 

Release:

2019-08-21

Title:

Dimeric E.coli YoeB bound to Thermus thermophilus 70S post-cleavage (UAA)

Classification:

RIBOSOME

Authors:

Hoffer, E., Pavelich, I., Maehigashi, T., Dunham, C.

Citation:

TBD
to be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.495Å R work:0.215R free:0.245

Equivalence Class: 

NR_all_35542.63 

Eq. Class Rep:

5L4O

NDB ID:

6PUN

PDB ID:

6PUN 

Release:

2019-08-21

Title:

Crystal structure of a ternary complex of FBF-2 with LST-1 (site B) and compact FBE RNA

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Qiu, C., Bhat, V.D., Rajeev, S., Zhang, C., Lasley, A.E., Wine, R.N., Campbell, Z.T., Tanaka Hall, T.M.T.

Citation:

A crystal structure of a collaborative RNA regulatory complex reveals mechanisms to refine target specificity.
Elife 8 pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.099Å R work:0.198R free:0.24

Equivalence Class: 

NR_all_97847.1 

Eq. Class Rep:

6PUN

NDB ID:

6HMI

PDB ID:

6HMI 

Release:

2019-08-14

Title:

Solution structure of the RNA duplex formed by the 5'-end of U1snRNA and the 5'-splice site of SMN2 exon7

Classification:

RNA

Authors:

Campagne, S., Boigner, S., Rudisser, S., Moursy, A., Knorlein, A., Hall, J., Ratni, H., Clery, A., Allain, F.H.

Citation:

tructural basis for specific RNA splicing correction induced by a small molecule
To Be Published pp. - 0

Experiment:

SOLUTION NMR

Equivalence Class: 

NR_all_12727.1 

Eq. Class Rep:

6HMI

NDB ID:

6HMO

PDB ID:

6HMO 

Release:

2019-08-14

Title:

Solution structure of the RNA duplex formed by the 5'-end of U1snRNA and the 5'-splice site of SMN2 exon7 in complex with the SMN-C5 splicing modifier

Classification:

RNA

Authors:

Campagne, S., Boigner, S., Rudisser, S., Moursy, A., Knorlein, A., Hall, J., Ratni, H., Clery, A., Allain, F.H.

Citation:

Structural basis for specific RNA splicing correction induced by a small molecule
To Be Published pp. - 0

Experiment:

SOLUTION NMR

Equivalence Class: 

NR_all_80636.1 

Eq. Class Rep:

6HMO

NDB ID:

6MWN

PDB ID:

6MWN 

Release:

2019-08-14

Title:

Crystal structure of hepatitis A virus IRES domain V in complex with Fab HAVx

Classification:

RNA/Immune System

Authors:

Koirala, D., Shao, Y., Koldobskaya, Y., Fuller, J.R., Watkins, A.M., Shelke, S.A., Pilipenko, E.V., Das, R., Rice, P.A., Piccirilli, J.A.

Citation:

A conserved RNA structural motif for organizing topology within picornaviral internal ribosome entry sites.
Nat Commun 10 pp.3629 - 3629 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.838Å R work:0.185R free:0.252

Equivalence Class: 

NR_all_60628.1 

Eq. Class Rep:

6MWN

NDB ID:

6MDZ

PDB ID:

6MDZ 

Release:

2019-08-07

Title:

Human Argonaute2-miR-122 bound to a target RNA with two central mismatches (bu2)

Classification:

hydrolase/rna

Authors:

Sheu-Gruttadauria, J., Pawlica, P., Klum, S.M., Wang, S., Yario, T.A., Schirle Oakdale, N.T., Steitz, J.A., MacRae, I.J.

Citation:

Structural Basis for Target-Directed MicroRNA Degradation.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:3.4Å R work:0.219R free:0.264

Equivalence Class: 

NR_all_94871.1 

Eq. Class Rep:

6MDZ

NDB ID:

6MFN

PDB ID:

6MFN 

Release:

2019-08-07

Title:

Human Argonaute2-miR-27a bound to HSUR1 target RNA

Classification:

HYDROLASE/RNA

Authors:

Sheu-Gruttadauria, J., Pawlica, P., Klum, S.M., Wang, S., Yario, T.A., Schirle Oakdale, N.T., Steitz, J.A., MacRae, I.J.

Citation:

Structural Basis for Target-Directed MicroRNA Degradation.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.5Å R work:0.209R free:0.246

Equivalence Class: 

NR_all_18726.1 

Eq. Class Rep:

6MFN

NDB ID:

6MFR

PDB ID:

6MFR 

Release:

2019-08-07

Title:

Human Argonaute2-miR-122 bound to a target RNA with three central mismatches (bu3)

Classification:

hydrolase/rna

Authors:

Sheu-Gruttadauria, J., Pawlica, P., Klum, S.M., Wang, S., Yario, T.A., Schirle Oakdale, N.T., Steitz, J.A., MacRae, I.J.

Citation:

Structural Basis for Target-Directed MicroRNA Degradation.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:3.6Å R work:0.239R free:0.282

Equivalence Class: 

NR_all_94871.1 

Eq. Class Rep:

6MDZ

NDB ID:

6NIT

PDB ID:

6NIT 

Release:

2019-08-07

Title:

Human Argonaute2-miR-122 bound to a target RNA with four central mismatches (bu4)

Classification:

rna binding protein/rna

Authors:

Sheu-Gruttadauria, J., Pawlica, P., Klum, S.M., Wang, S., Yario, T.A., Schirle Oakdale, N.T., Steitz, J.A., MacRae, I.J.

Citation:

Structural Basis for Target-Directed MicroRNA Degradation.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:3.8Å R work:0.242R free:0.294

Equivalence Class: 

NR_all_94871.1 

Eq. Class Rep:

6MDZ

NDB ID:

6E7L

PDB ID:

6E7L 

Release:

2019-07-31

Title:

Structure of a dimerized UUCG motif

Classification:

RNA

Authors:

Montemayor, E.J., Butcher, S.E.

Citation:

Structure of a dimerized UUCG motif
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.59Å R work:0.175R free:0.21

Equivalence Class: 

NR_all_81112.1 

Eq. Class Rep:

6E7L

NDB ID:

6E80

PDB ID:

6E80 

Release:

2019-07-31

Title:

Crystal structure of the Corn aptamer in unliganded state

Classification:

RNA

Authors:

Sjekloca, L., Ferre-D'Amare, A.R.

Citation:

Binding between G Quadruplexes at the Homodimer Interface of the Corn RNA Aptamer Strongly Activates Thioflavin T Fluorescence.
Cell Chem Biol 26 pp.1159 - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.901Å R work:0.252R free:0.307

Equivalence Class: 

NR_all_73441.1 

Eq. Class Rep:

5BJO