A Portal for Three-dimensional Structural Information about Nucleic Acids
As of 30-Nov-2016 number of released structures: 8621
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
Other

Experimental Method

All
XRAY
NMR

Non-redundant List

All RNA Structures
Non Redundant RNA 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: 3179  Download results as an excel file       Gallery view

NDB ID:

5M74

PDB ID:

5M74 

Release:

2016-11-30

Title:

Rebuild and re-refined model for Human Parechovirus 1

Classification:

VIRUS

Authors:

Shakeel, S., Dykeman, E.C., White, S.J., Ora, A., Cockburn, J.J.B., Butcher, S.J., Stockley, P.G., Twarock, R.

Citation:

Genomic RNA folding mediates assembly of human parechovirus
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.09Å R work:0.258R free:0.261

NDB ID:

5E54

PDB ID:

5E54 

Release:

2016-11-23

Title:

Two apo structures of the adenine riboswitch aptamer domain determined using an X-ray free electron laser

Classification:

RNA

Authors:

Stagno, J.R., Liu, Y., Bhandari, Y.R., Conrad, C.E., Panja, S., Swain, M., Fan, L., Nelson, G., Li, C., Wendel, D.R., White, T.A., Coe, J.D., Wiedorn, M.O., Knoska, J., Oberthuer, D., Tuckey, R.A., Yu, P., Dyba, M., Tarasov, S.G., Weierstall, U., Grant, T.D., Schwieters, C.D., Zhang, J., Ferre-D'Amare, A.R., Fromme, P., Draper, D.E., Liang, M., Hunter, M.S., Boutet, S., Tan, K., Zuo, X., Ji, X., Barty, A., Zatsepin, N.A., Chapman, H.N., Spence, J.C., Woodson, S.A., Wang, Y.X.

Citation:

Structures of riboswitch RNA reaction states by mix-and-inject XFEL serial crystallography.
Nature pp. - 2016

Experiment:

X-RAY DIFFRACTION Resolution:2.3Å R work:0.213R free:0.256

NDB ID:

5H1K

PDB ID:

5H1K 

Release:

2016-11-23

Title:

Crystal structure of WD40 repeat domains of Gemin5 in complex with 13-nt U4 snRNA fragment

Classification:

SPLICING/RNA

Authors:

Jin, W., Wang, Y., Liu, C.P., Yang, N., Jin, M., Cong, Y., Wang, M., Xu, R.M.

Citation:

Structural basis for snRNA recognition by the double WD40-repeat domain of Gemin5
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.9Å R work:0.17R free:0.206

NDB ID:

5H1L

PDB ID:

5H1L 

Release:

2016-11-23

Title:

Crystal structure of WD40 repeat domains of Gemin5 in complex with 7-nt U4 snRNA fragment

Classification:

SPLICING/RNA

Authors:

Jin, W., Wang, Y., Liu, C.P., Yang, N., Jin, M., Cong, Y., Wang, M., Xu, R.M.

Citation:

Structural basis for snRNA recognition by the double WD40-repeat domain of Gemin5
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.1Å R work:0.194R free:0.24

NDB ID:

5LYB

PDB ID:

5LYB 

Release:

2016-11-23

Title:

Crystal structure of the S.cerevisiae 80S ribosome in complex with the A-site bound aminoacyl-tRNA analog ACCPmn

Classification:

Ribosome

Authors:

Melnikov, S., Mailliot, J., Rigger, L., Neuner, S., Shin, B.S., Yusupova, G., Dever, T.E., Micura, R., Yusupov, M.

Citation:

Molecular insights into protein synthesis with proline residues.
Embo Rep. pp. - 2016

Experiment:

X-RAY DIFFRACTION Resolution:3.25Å R work:0.207R free:0.248

NDB ID:

5SWD

PDB ID:

5SWD 

Release:

2016-11-23

Title:

Structure of the adenine riboswitch aptamer domain in an intermediate-bound state

Classification:

RNA

Authors:

Stagno, J.R., Liu, Y., Bhandari, Y.R., Conrad, C.E., Panja, S., Swain, M., Fan, L., Nelson, G., Li, C., Wendel, D.R., White, T.A., Coe, J.D., Wiedorn, M.O., Knoska, J., Oberthuer, D., Tuckey, R.A., Yu, P., Dyba, M., Tarasov, S.G., Weierstall, U., Grant, T.D., Schwieters, C.D., Zhang, J., Ferre-D'Amare, A.R., Fromme, P., Draper, D.E., Liang, M., Hunter, M.S., Boutet, S., Tan, K., Zuo, X., Ji, X., Barty, A., Zatsepin, N.A., Chapman, H.N., Spence, J.C., Woodson, S.A., Wang, Y.X.

Citation:

Structures of riboswitch RNA reaction states by mix-and-inject XFEL serial crystallography.
Nature pp. - 2016

Experiment:

X-RAY DIFFRACTION Resolution:2.5Å R work:0.194R free:0.229

NDB ID:

5SWE

PDB ID:

5SWE 

Release:

2016-11-23

Title:

Ligand-bound structure of adenine riboswitch aptamer domain converted in crystal from its ligand-free state using ligand mixing serial femtosecond crystallography

Classification:

RNA

Authors:

Stagno, J.R., Liu, Y., Bhandari, Y.R., Conrad, C.E., Panja, S., Swain, M., Fan, L., Nelson, G., Li, C., Wendel, D.R., White, T.A., Coe, J.D., Wiedorn, M.O., Knoska, J., Oberthuer, D., Tuckey, R.A., Yu, P., Dyba, M., Tarasov, S.G., Weierstall, U., Grant, T.D., Schwieters, C.D., Zhang, J., Ferre-D'Amare, A.R., Fromme, P., Draper, D.E., Liang, M., Hunter, M.S., Boutet, S., Tan, K., Zuo, X., Ji, X., Barty, A., Zatsepin, N.A., Chapman, H.N., Spence, J.C., Woodson, S.A., Wang, Y.X.

Citation:

Structures of riboswitch RNA reaction states by mix-and-inject XFEL serial crystallography.
Nature pp. - 2016

Experiment:

X-RAY DIFFRACTION Resolution:3.0Å R work:0.348R free:0.379

NDB ID:

5TGA

PDB ID:

5TGA 

Release:

2016-11-23

Title:

Crystal structure of the S.cerevisiae 80S ribosome in complex with the A-site bound aminoacyl-tRNA analog ACCA-Pro

Classification:

Ribosome

Authors:

Melnikov, S., Mailliot, J., Rigger, L., Neuner, S., Shin, B.S., Yusupova, G., Dever, T.E., Micura, R., Yusupov, M.

Citation:

Molecular insights into protein synthesis with proline residues.
Embo Rep. pp. - 2016

Experiment:

X-RAY DIFFRACTION Resolution:3.3Å R work:0.211R free:0.264

NDB ID:

5JJI

PDB ID:

5JJI 

Release:

2016-11-16

Title:

Protein/Nucleic Acid Complex 1

Classification:

TRANSCRIPTION/RNA

Authors:

Thomsen, N.D., Lawson, M.R., Witkowsky, L.B., Qu, S., Berger, J.M.

Citation:

Molecular mechanisms of substrate-controlled ring dynamics and sub-stepping in a nucleic-acid dependent hexameric motor
Proc.Natl.Acad.Sci.USA pp. - 2016

Experiment:

X-RAY DIFFRACTION Resolution:2.601Å R work:0.218R free:0.246

NDB ID:

5JJK

PDB ID:

5JJK 

Release:

2016-11-16

Title:

Protein/nucleic acid complex 2

Classification:

TRANSCRIPTION/RNA

Authors:

Thomsen, N.D., Lawson, M.R., Witkowsky, L.B., Qu, S., Berger, J.M.

Citation:

Molecular mechanisms of substrate-controlled ring dynamics and sub-stepping in a nucleic-acid dependent hexameric motor
Proc.Natl.Acad.Sci.USA pp. - 2016

Experiment:

X-RAY DIFFRACTION Resolution:3.15Å R work:0.233R free:0.264

NDB ID:

5JJL

PDB ID:

5JJL 

Release:

2016-11-16

Title:

Protein/Nucleic Acid Complex 3

Classification:

TRANSCRIPTION/RNA

Authors:

Thomsen, N.D., Lawson, M.R., Witkowsky, L.B., Qu, S., Berger, J.M.

Citation:

Molecular mechanisms of substrate-controlled ring dynamics and sub-stepping in a nucleic-acid dependent hexameric motor
Proc.Natl.Acad.Sci.USA pp. - 2016

Experiment:

X-RAY DIFFRACTION Resolution:3.2Å R work:0.231R free:0.266

NDB ID:

5EN1

PDB ID:

5EN1 

Release:

2016-11-09

Title:

Crystal structure of hnRNPA2B1 in complex with RNA

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Wu, B.X., Su, S.C., Ma, J.B.

Citation:

Crystal structure of HNRNPA2B1 RRM1-RRM2 with RNA complex
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.58Å R work:0.191R free:0.236

NDB ID:

5JVG

PDB ID:

5JVG 

Release:

2016-11-09

Title:

The large ribosomal subunit from Deinococcus radiodurans in complex with avilamycin

Classification:

RIBOSOME

Authors:

Krupkin, M., Wekselman, I., Matzov, D., Eyal, Z., Diskin Posner, Y., Rozenberg, H., Zimmerman, E., Bashan, A., Yonath, A.

Citation:

Avilamycin and evernimicin induce structural changes in rProteins uL16 and CTC that enhance the inhibition of A-site tRNA binding.
Proc.Natl.Acad.Sci.USA 113 pp.E6796 - E6805 2016

Experiment:

X-RAY DIFFRACTION Resolution:3.428Å R work:0.211R free:0.252

NDB ID:

5JVH

PDB ID:

5JVH 

Release:

2016-11-09

Title:

The crystal structure large ribosomal subunit (50S) of Deinococcus radiodurans in complex with evernimicin

Classification:

RIBOSOME

Authors:

Krupkin, M., Wekselman, I., Matzov, D., Eyal, Z., Diskin Posner, Y., Rozenberg, H., Zimmerman, E., Bashan, A., Yonath, A.

Citation:

Avilamycin and evernimicin induce structural changes in rProteins uL16 and CTC that enhance the inhibition of A-site tRNA binding.
Proc.Natl.Acad.Sci.USA 113 pp.E6796 - E6805 2016

Experiment:

X-RAY DIFFRACTION Resolution:3.58Å R work:0.203R free:0.247

NDB ID:

5GMF

PDB ID:

5GMF 

Release:

2016-11-02

Title:

Crystal structure of monkey TLR7 in complex with guanosine and polyU

Classification:

IMMUNE SYSTEM/RNA

Authors:

Zhang, Z., Ohto, U., Shibata, T., Krayukhina, E., Taoka, M., Yamauchi, Y., Tanji, H., Isobe, T., Uchiyama, S., Miyake, K., Shimizu, T.

Citation:

Structural Analysis Reveals that Toll-like Receptor 7 Is a Dual Receptor for Guanosine and Single-Stranded RNA
Immunity 45 pp.737 - 748 2016

Experiment:

X-RAY DIFFRACTION Resolution:2.5Å R work:0.207R free:0.243

NDB ID:

5GMG

PDB ID:

5GMG 

Release:

2016-11-02

Title:

Crystal structure of monkey TLR7 in complex with loxoribine and polyU

Classification:

IMMUNE SYSTEM/RNA

Authors:

Zhang, Z., Ohto, U., Shibata, T., Krayukhina, E., Taoka, M., Yamauchi, Y., Tanji, H., Isobe, T., Uchiyama, S., Miyake, K., Shimizu, T.

Citation:

Structural Analysis Reveals that Toll-like Receptor 7 Is a Dual Receptor for Guanosine and Single-Stranded RNA
Immunity 45 pp.737 - 748 2016

Experiment:

X-RAY DIFFRACTION Resolution:2.6Å R work:0.215R free:0.258

NDB ID:

5IEM

PDB ID:

5IEM 

Release:

2016-11-02

Title:

NMR structure of the 5'-terminal hairpin of the 7SK snRNA

Classification:

TRANSCRIPTION

Authors:

Bourbigot, S., Dock-Bregeon, A.C., Eberling, P., Coutant, J., Kieffer, B., Lebars, I.

Citation:

Solution structure of the 5'-terminal hairpin of the 7SK small nuclear RNA.
Rna 22 pp.1844 - 1858 2016

Experiment:

SOLUTION NMR

NDB ID:

5K36

PDB ID:

5K36 

Release:

2016-11-02

Title:

Structure of an eleven component nuclear RNA exosome complex bound to RNA

Classification:

Hydrolase/RNA

Authors:

Zinder, J.C., Wasmuth, E.V., Lima, C.D.

Citation:

Nuclear RNA Exosome at 3.1 Angstrom Reveals Substrate Specificities, RNA Paths, and Allosteric Inhibition of Rrp44/Dis3
To be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.1Å R work:0.201R free:0.248

NDB ID:

5GXH

PDB ID:

5GXH 

Release:

2016-10-26

Title:

The structure of the Gemin5 WD40 domain with AAUUUUUG

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Xu, C., Ishikawa, H., Izumikawa, K., Li, L., He, H., Nobe, Y., Yamauchi, Y., Shahjee, H.M., Wu, X.-H., Yu, Y.-T., Isobe, T., Takahashi, N., Min, J.

Citation:

Structural insights into Gemin5-guided selection of pre-snRNAs for snRNP assembly
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.8Å R work:0.161R free:0.196

NDB ID:

5GXI

PDB ID:

5GXI 

Release:

2016-10-26

Title:

Strucutre of the Gemin5 WD40 domain in complex with AAUUUUUGAG

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Xu, C., Ishikawa, H., Izumikawa, K., Li, L., He, H., Nobe, Y., Yamauchi, Y., Shahjee, H.M., Wu, X.-H., Yu, Y.-T., Isobe, T., Takahashi, N., Min, J.

Citation:

Structural insights into Gemin5-guided selection of pre-snRNAs for snRNP assembly
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.85Å R work:0.163R free:0.207

NDB ID:

5KAL

PDB ID:

5KAL 

Release:

2016-10-26

Title:

Terminal uridylyl transferase 4 from Trypanosoma brucei with bound UTP and UpU

Classification:

Transferase/RNA

Authors:

Rajappa-Titu, L., Suematsu, T., Munoz-Tello, P., Long, M., Demir, O., Cheng, K.J., Stagno, J.R., Luecke, H., Amaro, R.E., Aphasizheva, I., Aphasizhev, R., Thore, S.

Citation:

RNA Editing TUTase 1: structural foundation of substrate recognition, complex interactions and drug targeting.
Nucleic Acids Res. pp. - 2016

Experiment:

X-RAY DIFFRACTION Resolution:2.75Å R work:0.213R free:0.259

NDB ID:

5L1Z

PDB ID:

5L1Z 

Release:

2016-10-26

Title:

TAR complex with HIV-1 Tat-AFF4-P-TEFb

Classification:

transcription/RNA

Authors:

Schulze-Gahmen, U., Echeverria, I., Stjepanovic, G., Bai, Y., Lu, H., Schneidman-Duhovny, D., Doudna, J.A., Zhou, Q., Sali, A., Hurley, J.H.

Citation:

Insights into HIV-1 proviral transcription from integrative structure and dynamics of the Tat:AFF4:P-TEFb:TAR complex.
Elife 5 pp. - 2016

Experiment:

X-RAY DIFFRACTION Resolution:5.9Å R work:0.216R free:0.313

NDB ID:

5GUH

PDB ID:

5GUH 

Release:

2016-10-19

Title:

Crystal structure of silkworm PIWI-clade Argonaute Siwi bound to piRNA

Classification:

HYDROLASE/RNA

Authors:

Matsumoto, N., Nishimasu, H., Sakakibara, K., Nishida, K.M., Hirano, T., Ishitani, R., Siomi, H., Siomi, M.C., Nureki, O.

Citation:

Crystal Structure of Silkworm PIWI-Clade Argonaute Siwi Bound to piRNA
Cell 167 pp.484 - 497.e9 2016

Experiment:

X-RAY DIFFRACTION Resolution:2.4Å R work:0.209R free:0.235

NDB ID:

2N7C

PDB ID:

2N7C 

Release:

2016-10-12

Title:

Solution structure of Plasmodium falciparum SR1-RRM1 in complex with ACAUCA RNA

Classification:

RNA Binding Protein/RNA

Authors:

Ganguly, A.K., Verma, G., Bhavesh, N.S.

Citation:

Solution structure of Plasmodium falciparum SR1-RRM1 in complex with ACAUCA RNA
To be Published pp. - 0

Experiment:

SOLUTION NMR

NDB ID:

5CZP

PDB ID:

5CZP 

Release:

2016-10-12

Title:

70S termination complex containing E. coli RF2

Classification:

RIBOSOME

Authors:

Pierson, W.E., Hoffer, E.D., Keedy, H.E., Simms, C.L., Dunham, C.M., Zaher, H.S.

Citation:

Uniformity of Peptide Release Is Maintained by Methylation of Release Factors.
Cell Rep 17 pp.11 - 18 2016

Experiment:

X-RAY DIFFRACTION Resolution:3.29996Å R work:0.266R free:0.286

NDB ID:

5DFE

PDB ID:

5DFE 

Release:

2016-10-12

Title:

70S termination complex containing E. coli RF2

Classification:

RIBOSOME

Authors:

Pierson, W.E., Hoffer, E.D., Keedy, H.E., Simms, C.L., Dunham, C.M., Zaher, H.S.

Citation:

Uniformity of Peptide Release Is Maintained by Methylation of Release Factors.
Cell Rep 17 pp.11 - 18 2016

Experiment:

X-RAY DIFFRACTION Resolution:3.09998Å R work:0.195R free:0.227

NDB ID:

5J30

PDB ID:

5J30 

Release:

2016-10-12

Title:

Thermus thermophilus 70S termination complex containing E. coli RF1

Classification:

RIBOSOME

Authors:

Pierson, W.E., Hoffer, E.D., Keedy, H.E., Simms, C.L., Dunham, C.M., Zaher, H.S.

Citation:

Uniformity of Peptide Release Is Maintained by Methylation of Release Factors.
Cell Rep 17 pp.11 - 18 2016

Experiment:

X-RAY DIFFRACTION Resolution:3.2Å R work:0.214R free:0.244

NDB ID:

5J3C

PDB ID:

5J3C 

Release:

2016-10-12

Title:

Thermus thermophilus 70S termination complex containing E. coli RF1

Classification:

RIBOSOME

Authors:

Pierson, W.E., Hoffer, E.D., Keedy, H.E., Simms, C.L., Dunham, C.M., Zaher, H.S.

Citation:

Uniformity of Peptide Release Is Maintained by Methylation of Release Factors.
Cell Rep 17 pp.11 - 18 2016

Experiment:

X-RAY DIFFRACTION Resolution:3.04Å R work:0.246R free:0.278

NDB ID:

5KMZ

PDB ID:

5KMZ 

Release:

2016-10-12

Title:

Solution NMR structure of Tetrahymena telomerase RNA pseudoknot

Classification:

RNA

Authors:

Jiang, J., Chan, H., Cash, D.D., Miracco, E.J., Ogorzalek Loo, R.R., Upton, H.E., Cascio, D., O'Brien Johnson, R., Collins, K., Loo, J.A., Zhou, Z.H., Feigon, J.

Citation:

Structure of Tetrahymena telomerase reveals previously unknown subunits, functions, and interactions.
Science 350 pp.aab4070 - aab4070 2015

Experiment:

SOLUTION NMR

NDB ID:

5KTJ

PDB ID:

5KTJ 

Release:

2016-10-05

Title:

The crystal structure of Pistol: a new class of self-cleaving ribozyme

Classification:

RNA

Authors:

Nguyen, L.A., Wang, J., Steitz, T.A.

Citation:

The crystal structure of Pistol: a new class of self-cleaving ribozyme.
To be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.97Å R work:0.195R free:0.257

NDB ID:

2NCI

PDB ID:

2NCI 

Release:

2016-09-28

Title:

RNA Bulge Loop that Specifically Binds Metal Ions

Classification:

RNA

Authors:

Gu, X., Park, S.Y., Tonelli, M., Cornilescu, G., Xia, T., Zhong, D., Schroeder, S.J.

Citation:

NMR Structures and Dynamics in a Prohead RNA Loop that Binds Metal Ions.
J Phys Chem Lett 7 pp.3841 - 3846 2016

Experiment:

SOLUTION NMR

NDB ID:

5D0A

PDB ID:

5D0A 

Release:

2016-09-28

Title:

Crystal structure of epoxyqueuosine reductase with cleaved RNA stem loop

Classification:

oxidoreductase/RNA

Authors:

Dowling, D.P., Miles, Z.D., Kohrer, C., Maiocco, S.J., Elliott, S.J., Bandarian, V., Drennan, C.L.

Citation:

Molecular basis of cobalamin-dependent RNA modification.
Nucleic Acids Res. pp. - 2016

Experiment:

X-RAY DIFFRACTION Resolution:2.1Å R work:0.184R free:0.224

NDB ID:

5D0B

PDB ID:

5D0B 

Release:

2016-09-28

Title:

Crystal structure of epoxyqueuosine reductase with a tRNA-TYR epoxyqueuosine-modified tRNA stem loop

Classification:

oxidoreductase/RNA

Authors:

Dowling, D.P., Miles, Z.D., Kohrer, C., Maiocco, S.J., Elliott, S.J., Bandarian, V., Drennan, C.L.

Citation:

Molecular basis of cobalamin-dependent RNA modification.
Nucleic Acids Res. pp. - 2016

Experiment:

X-RAY DIFFRACTION Resolution:2.645Å R work:0.191R free:0.221

NDB ID:

5FJ0

PDB ID:

5FJ0 

Release:

2016-09-28

Title:

Structure of the standard kink turn HmKt-7 as simple duplex in P4222 space group

Classification:

RNA

Authors:

Huang, L., Wang, J., Lilley, D.M.J.

Citation:

A Critical Base Pair in K-Turns Determines the Conformational Class Adopted, and Correlates with Biological Function.
Nucleic Acids Res. 44 pp.5390 - 2016

Experiment:

X-RAY DIFFRACTION Resolution:2.2Å R work:0.202R free:0.237

NDB ID:

5G4T

PDB ID:

5G4T 

Release:

2016-09-28

Title:

The structure of a quasi-cyclic six k-turn duplex RNA species

Classification:

RNA

Authors:

Huang, L., Lilley, D.M.J.

Citation:

A Quasi-Cyclic RNA Nano-Scale Molecular Object Constructed Using Kink Turns.
Nanoscale 8 pp.15189 - 2016

Experiment:

X-RAY DIFFRACTION Resolution:2.751Å R work:0.194R free:0.234

NDB ID:

5G4U

PDB ID:

5G4U 

Release:

2016-09-28

Title:

Association of three two-k-turn units based on Kt-7 3bU,3nU, forming a triangular-shaped structure

Classification:

RNA/PROTEIN

Authors:

Huang, L., Lilley, D.M.J.

Citation:

A Quasi-Cyclic RNA Nano-Scale Molecular Object Constructed Using Kink Turns.
Nanoscale 8 pp.15189 - 2016

Experiment:

X-RAY DIFFRACTION Resolution:2.65Å R work:0.229R free:0.257

NDB ID:

5G4V

PDB ID:

5G4V 

Release:

2016-09-28

Title:

Association of four two-k-turn units based on Kt-7 3bG,3nC, forming a square-shaped structure

Classification:

DNA BINDING

Authors:

Huang, L., Lilley, D.M.J.

Citation:

A Quasi-Cyclic RNA Nano-Scale Molecular Object Constructed Using Kink Turns.
Nanoscale 8 pp.15189 - 2016

Experiment:

X-RAY DIFFRACTION Resolution:2.87Å R work:0.211R free:0.273

NDB ID:

5JRC

PDB ID:

5JRC 

Release:

2016-09-28

Title:

Crystal structure of NeC3PO in complex with ssRNA.

Classification:

DNA BINDING PROTEIN

Authors:

Zhang, J., Liu, H., Yao, Q., Yu, X., Chen, Y., Cui, R., Wu, B., Zheng, L., Zuo, J., Huang, Z., Ma, J., Gan, J.

Citation:

Structural basis for single-stranded RNA recognition and cleavage by C3PO
Nucleic Acids Res. 44 pp.9494 - 9504 2016

Experiment:

X-RAY DIFFRACTION Resolution:1.9Å R work:0.205R free:0.229

NDB ID:

5T8Y

PDB ID:

5T8Y 

Release:

2016-09-28

Title:

Structure of epoxyqueuosine reductase from Bacillus subtilis with the Asp134 catalytic loop swung out of the active site.

Classification:

OXIDOREDUCTASE/RNA

Authors:

Dowling, D.P., Miles, Z.D., Kohrer, C., Maiocco, S.J., Elliott, S.J., Bandarian, V., Drennan, C.L.

Citation:

Molecular basis of cobalamin-dependent RNA modification.
Nucleic Acids Res. pp. - 2016

Experiment:

X-RAY DIFFRACTION Resolution:2.653Å R work:0.237R free:0.266

NDB ID:

5DO5

PDB ID:

5DO5 

Release:

2016-09-21

Title:

Crystal Structure of 2'-Fluoro-RNA bearing a phosphorodithioate

Classification:

RNA

Authors:

Pallan, P.S., Egli, M.

Citation:

Crystal Structure of 2'-Fluoro-RNA bearing a phosphorodithioate
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.2Å R work:0.189R free:0.229

NDB ID:

5E08

PDB ID:

5E08 

Release:

2016-09-21

Title:

Specific Recognition of a Single-stranded RNA Sequence by an Engineered Synthetic Antibody Fragment

Classification:

Immune system/RNA

Authors:

Shao, Y., Huang, H., Qin, D., Li, N.S., Koide, A., Staley, J.P., Koide, S., Kossiakoff, A.A., Piccirilli, J.A.

Citation:

Specific Recognition of a Single-Stranded RNA Sequence by a Synthetic Antibody Fragment.
J.Mol.Biol. 428 pp.4100 - 4114 2016

Experiment:

X-RAY DIFFRACTION Resolution:2.38Å R work:0.209R free:0.233

NDB ID:

5SWM

PDB ID:

5SWM 

Release:

2016-09-21

Title:

BACILLUS HALODURANS RNASE H MUTANT D132N IN COMPLEX WITH 12-MER FRNA/DNA HYBRID

Classification:

HYDROLASE/RNA/DNA

Authors:

Pallan, P.S., Prakash, T.P., de Leon, A.R., Egli, M.

Citation:

Limits of RNA 2'-OH Mimicry by Fluorine: Crystal Structure of Bacillus halodurans RNase H Bound to a 2'-FRNA:DNA Hybrid.
Biochemistry 55 pp.5321 - 5325 2016

Experiment:

X-RAY DIFFRACTION Resolution:1.5Å R work:0.16R free:0.185

NDB ID:

5D6G

PDB ID:

5D6G 

Release:

2016-09-14

Title:

CRYSTAL STRUCTURE OF FRAGMENT OF RIBOSOMAL PROTEIN P0 IN COMPLEX WITH 74NT 23S RNA FROM METHANOCOCCUS JANNASCHII

Classification:

TRANSLATION

Authors:

Gabdulkhakov, A.G., Mitroshin, I.V., Garber, M.B.

Citation:

CRYSTAL STRUCTURE OF FRAGMENT OF RIBOSOMAL PROTEIN P0 IN COMPLEX WITH 74NT 23S RNA FROM METHANOCOCCUS JANNASCHII
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.3Å R work:0.245R free:0.298

NDB ID:

5DAR

PDB ID:

5DAR 

Release:

2016-09-14

Title:

CRYSTAL STRUCTURE OF THE BASE OF THE RIBOSOMAL P STALK FROM METHANOCOCCUS JANNASCHII

Classification:

RIBOSOMAL PROTEIN

Authors:

Gabdulkhakov, A.G., Mitroshin, I.V., Garber, M.B.

Citation:

CRYSTAL STRUCTURE OF THE BASE OF THE RIBOSOMAL P STALK FROM METHANOCOCCUS JANNASCHII
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.9Å R work:0.264R free:0.296

NDB ID:

5DO4

PDB ID:

5DO4 

Release:

2016-09-14

Title:

Thrombin-RNA aptamer complex

Classification:

Hydrolase/RNA

Authors:

Abeydeera, N.D., Egli, M., Cox, N., Mercier, K., Conde, J.N., Pallan, P.S., Mizurini, D.M., Sierant, M., Hibti, F.E., Hassell, T., Wang, T., Liu, F.W., Liu, H.M., Martinez, C., Sood, A.K., Lybrand, T.P., Frydman, C., Monteiro, R.Q., Gomer, R.H., Nawrot, B., Yang, X.

Citation:

Evoking picomolar binding in RNA by a single phosphorodithioate linkage.
Nucleic Acids Res. 44 pp.8052 - 8064 2016

Experiment:

X-RAY DIFFRACTION Resolution:1.859Å R work:0.188R free:0.223

NDB ID:

5GIN

PDB ID:

5GIN 

Release:

2016-09-14

Title:

Crystal structure of box C/D RNP with 12 nt guide regions and 9 nt substrates

Classification:

TRANSFERASE/RNA

Authors:

Yang, Z., Lin, J., Ye, K.

Citation:

Box C/D guide RNAs recognize a maximum of 10 nt of substrates
Proc.Natl.Acad.Sci.USA 113 pp.10878 - 10883 2016

Experiment:

X-RAY DIFFRACTION Resolution:3.308Å R work:0.25R free:0.303

NDB ID:

5GIO

PDB ID:

5GIO 

Release:

2016-09-14

Title:

Crystal structure of box C/D RNP with 12 nt guide regions and 13 nt substrates

Classification:

TRANSFERASE/RNA

Authors:

Yang, Z., Lin, J., Ye, K.

Citation:

Box C/D guide RNAs recognize a maximum of 10 nt of substrates
Proc.Natl.Acad.Sci.USA 113 pp.10878 - 10883 2016

Experiment:

X-RAY DIFFRACTION Resolution:3.604Å R work:0.255R free:0.298

NDB ID:

5GIP

PDB ID:

5GIP 

Release:

2016-09-14

Title:

Crystal structure of box C/D RNP with 13 nt guide regions and 11 nt substrates

Classification:

TRANSFERASE/RNA

Authors:

Yang, Z., Lin, J., Ye, K.

Citation:

Box C/D guide RNAs recognize a maximum of 10 nt of substrates
Proc.Natl.Acad.Sci.USA 113 pp.10878 - 10883 2016

Experiment:

X-RAY DIFFRACTION Resolution:3.129Å R work:0.178R free:0.233

NDB ID:

4ZSN

PDB ID:

4ZSN 

Release:

2016-09-07

Title:

70S-wild-type HigB toxin complex bound to a AAA lysine codon

Classification:

RIBOSOME

Authors:

Schureck, M.A., Repack, A., Miles, S.J., Marquez, J., Dunham, C.M.

Citation:

Mechanism of endonuclease cleavage by the HigB toxin.
Nucleic Acids Res. 44 pp.7944 - 7953 2016

Experiment:

X-RAY DIFFRACTION Resolution:3.6Å R work:0.198R free:0.233

NDB ID:

5DAT

PDB ID:

5DAT 

Release:

2016-08-31

Title:

Complex of yeast 80S ribosome with hypusine-containing eIF5A

Classification:

RIBOSOME

Authors:

Melnikov, S., Mailliot, J., Shin, B.-S., Rigger, L., Yusupova, G., Micura, R., Dever, T.E., Yusupov, M.

Citation:

Coping with proline stalling: structural basis of hypusine-induced protein synthesis by the eukaryotic ribosome
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.15Å R work:0.203R free:0.252