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As of 25-Mar-2015 number of released structures: 7425
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Polymer Type: All + RNA Type: All + Protein Function: All + Experimental Method: All + RNA Sequence Type: All RNA Sequence

Results: 2706  Download results as an excel file       Gallery view

NDB ID:

NA3205

PDB ID:

4RDX 

Release:

2015-03-25

Title:

Strucutre of histidinyl-tRNA synthetase in complex with tRNA(His)

Classification:

LIGASE/RNA

Authors:

Tian, Q., Wang, C., Liu, Y., Xie, W.

Citation:

Structural basis for recognition of G-1-containing tRNA by histidyl-tRNA synthetase
Nucleic Acids Res. 43 pp.2980 - 2990 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.55Å R work:0.207R free:0.261

NDB ID:

NA3362

PDB ID:

4S3N 

Release:

2015-03-25

Title:

Crystal structure of human OAS3 domain I in complex with dsRNA

Classification:

Transferase/RNA

Authors:

Donovan, J., Whitney, G., Rath, S., Korennykh, A.

Citation:

Structural mechanism of sensing long dsRNA via a noncatalytic domain in human oligoadenylate synthetase 3.
Proc.Natl.Acad.Sci.USA pp. - 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.0Å R work:0.181R free:0.211

NDB ID:

4WKR

PDB ID:

4WKR 

Release:

2015-03-18

Title:

LaRP7 wrapping up the 3' hairpin of 7SK non-coding RNA (302-332)

Classification:

RNA-BINDING PROTEIN

Authors:

Uchikawa, E., Natchiar, K.S., Han, X., Proux, F., Roblin, P., Zhang, E., Durand, A., Klaholz, B.P., Dock-Bregeon, A.C.

Citation:

Structural insight into the mechanism of stabilization of the 7SK small nuclear RNA by LARP7.
Nucleic Acids Res. pp. - 2015

Experiment:

X-RAY DIFFRACTION Resolution:3.2Å R work:0.22R free:0.273

NDB ID:

4XJN

PDB ID:

4XJN 

Release:

2015-03-18

Title:

Structure of the parainfluenza virus 5 nucleocapsid-RNA complex: an insight into paramyxovirus polymerase activity

Classification:

VIRAL PROTEIN/RNA

Authors:

Alayyoubi, M., Leser, G.P., Kors, C.A., Lamb, R.A.

Citation:

Structure of the paramyxovirus parainfluenza virus 5 nucleoprotein-RNA complex
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.11Å R work:0.227R free:0.262

NDB ID:

4Y4O

PDB ID:

4Y4O 

Release:

2015-03-18

Title:

Crystal structure of the Thermus thermophilus 70S ribosome with rRNA modifications and bound to protein Y (YfiA) at 2.3A resolution

Classification:

RIBOSOME

Authors:

Polikanov, Y.S., Melnikov, S.V., Soll, D., Steitz, T.A.

Citation:

Structural insights into the role of rRNA modifications in protein synthesis and ribosome assembly
Nat.Struct.Mol.Biol. pp. - 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.3Å R work:0.206R free:0.246

NDB ID:

4Y4P

PDB ID:

4Y4P 

Release:

2015-03-18

Title:

Crystal structure of the Thermus thermophilus 70S ribosome with rRNA modifications and bound to mRNA and A-, P- and E-site tRNAs at 2.5A resolution

Classification:

RIBOSOME

Authors:

Polikanov, Y.S., Melnikov, S.V., Soll, D., Steitz, T.A.

Citation:

Structural insights into the role of rRNA modifications in protein synthesis and ribosome assembly
Nat.Struct.Mol.Biol. pp. - 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.5Å R work:0.23R free:0.28

NDB ID:

4YBB

PDB ID:

4YBB 

Release:

2015-03-18

Title:

High-resolution structure of the Escherichia coli ribosome

Classification:

RIBOSOME

Authors:

Noeke, J., Wasserman, M.R., Terry, D.S., Altman, R.B., Blanchard, S.C., Cate, J.H.D.

Citation:

High-resolution structure of the Escherichia coli ribosome.
to be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.1Å R work:0.218R free:0.233

NDB ID:

4P97

PDB ID:

4P97 

Release:

2015-03-04

Title:

Functional conservation despite structural divergence in ligand-responsive RNA switches

Classification:

RNA

Authors:

Boerneke, M.A., Dibrov, S.M., Gu, J., Wyles, D.L., Hermann, T.

Citation:

Functional conservation despite structural divergence in ligand-responsive RNA switches.
Proc.Natl.Acad.Sci.USA 111 pp.15952 - 15957 2014

Experiment:

X-RAY DIFFRACTION Resolution:1.86Å R work:0.212R free:0.196

NDB ID:

2MXY

PDB ID:

2MXY 

Release:

2015-02-25

Title:

Solution structure of hnRNP C RRM in complex with 5'-AUUUUUC-3' RNA

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Cienikova, Z., Damberger, F.F., Hall, J., Allain, F.H., Maris, C.

Citation:

Structural and mechanistic insights into poly(uridine) tract recognition by the hnRNP C RNA recognition motif.
J.Am.Chem.Soc. 136 pp.14536 - 14544 2014

Experiment:

SOLUTION NMR

NDB ID:

4X9E

PDB ID:

4X9E 

Release:

2015-02-25

Title:

DEOXYGUANOSINETRIPHOSPHATE TRIPHOSPHOHYDROLASE from Escherichia coli with two DNA effector molecules

Classification:

HYDROLASE/DNA

Authors:

Singh, D., Gawel, D., Itsko, M., Hochkoeppler, A., Krahn, J.M., London, R.E., Schaaper, R.M.

Citation:

Structure of Escherichia coli dGTP Triphosphohydrolase: A Hexameric Enzyme With DNA Effector Molecules.
J.Biol.Chem. pp. - 2015

Experiment:

X-RAY DIFFRACTION Resolution:3.1Å R work:0.166R free:0.222

NDB ID:

4XEJ

PDB ID:

4XEJ 

Release:

2015-02-25

Title:

IRES bound to bacterial Ribosome

Classification:

Ribosome

Authors:

Colussi, T.M., Costantino, D.A., Zhu, J., Donohue, J.P., Korostelev, A.A., Jaafar, Z.A., Plank, T.D., Noller, H.F., Kieft, J.S.

Citation:

Initiation of translation in bacteria by a structured eukaryotic IRES RNA.
Nature 519 pp.110 - 113 2015

Experiment:

X-RAY DIFFRACTION Resolution:3.8Å R work:0.246R free:0.284

NDB ID:

4PHY

PDB ID:

4PHY 

Release:

2015-02-18

Title:

Functional conservation despite structural divergence in ligand-responsive RNA switches

Classification:

RNA

Authors:

Boerneke, M.A., Dibrov, S.M., Gu, J., Wyles, D.L., Hermann, T.

Citation:

Functional conservation despite structural divergence in ligand-responsive RNA switches.
Proc.Natl.Acad.Sci.USA 111 pp.15952 - 15957 2014

Experiment:

X-RAY DIFFRACTION Resolution:3.1Å R work:0.214R free:0.267

NDB ID:

4WQS

PDB ID:

4WQS 

Release:

2015-02-18

Title:

Thermus thermophilus RNA polymerase backtracked complex

Classification:

TRANSFERASE/DNA/RNA

Authors:

Sekine, S.I., Murayama, Y., Svetlov, V., Nudler, E., Yokoyama, S.

Citation:

The Ratcheted and Ratchetable Structural States of RNA Polymerase Underlie Multiple Transcriptional Functions.
Mol.Cell 57 pp.408 - 421 2015

Experiment:

X-RAY DIFFRACTION Resolution:4.306Å R work:0.28R free:0.311

NDB ID:

4WTA

PDB ID:

4WTA 

Release:

2015-02-11

Title:

CRYSTAL STRUCTURE OF HCV NS5B GENOTYPE 2A JFH-1 ISOLATE WITH S15G E86Q E87Q C223H V321I MUTATIONS AND DELTA8 BETA HAIRPIN LOOP DELETION IN COMPLEX WITH UDP, MN2+ AND SYMMETRICAL PRIMER TEMPLATE 5'-CAAAAUUU

Classification:

Transferase/RNA

Authors:

Appleby, T.C., Perry, J.K., Murakami, E., Barauskas, O., Feng, J., Cho, A., Fox, D., Wetmore, D.R., McGrath, M.E., Ray, A.S., Sofia, M.J., Swaminathan, S., Edwards, T.E.

Citation:

Structural basis for RNA replication by the hepatitis C virus polymerase.
Science 347 pp.771 - 775 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.8Å R work:0.175R free:0.224

NDB ID:

4WTC

PDB ID:

4WTC 

Release:

2015-02-11

Title:

CRYSTAL STRUCTURE OF HCV NS5B GENOTYPE 2A JFH-1 ISOLATE WITH S15G E86Q E87Q C223H V321I MUTATIONS AND DELTA8 BETA HAIRPIN LOOP DELETION IN COMPLEX WITH CDP, MN2+ AND SYMMETRICAL PRIMER TEMPLATE 5'-AGAAAUUU

Classification:

Transferase/RNA

Authors:

Appleby, T.C., Perry, J.K., Murakami, E., Barauskas, O., Feng, J., Cho, A., Fox, D., Wetmore, D.R., McGrath, M.E., Ray, A.S., Sofia, M.J., Swaminathan, S., Edwards, T.E.

Citation:

Structural basis for RNA replication by the hepatitis C virus polymerase.
Science 347 pp.771 - 775 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.75Å R work:0.178R free:0.229

NDB ID:

4WTD

PDB ID:

4WTD 

Release:

2015-02-11

Title:

CRYSTAL STRUCTURE OF HCV NS5B GENOTYPE 2A JFH-1 ISOLATE WITH S15G E86Q E87Q C223H V321I MUTATIONS AND DELTA8 BETA HAIRPIN LOOP DELETION IN COMPLEX WITH ADP, MN2+ AND SYMMETRICAL PRIMER TEMPLATE 5'-AUAAAUUU

Classification:

Transferase/RNA

Authors:

Appleby, T.C., Perry, J.K., Murakami, E., Barauskas, O., Feng, J., Cho, A., Fox, D., Wetmore, D.R., McGrath, M.E., Ray, A.S., Sofia, M.J., Swaminathan, S., Edwards, T.E.

Citation:

Structural basis for RNA replication by the hepatitis C virus polymerase.
Science 347 pp.771 - 775 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.7Å R work:0.181R free:0.223

NDB ID:

4WTE

PDB ID:

4WTE 

Release:

2015-02-11

Title:

CRYSTAL STRUCTURE OF HCV NS5B GENOTYPE 2A JFH-1 ISOLATE WITH S15G E86Q E87Q C223H V321I MUTATIONS AND DELTA8 BETA HAIRPIN LOOP DELETION IN COMPLEX WITH GDP, MN2+ AND SYMMETRICAL PRIMER TEMPLATE 5'-ACAAAUUU

Classification:

Transferase/RNA

Authors:

Appleby, T.C., Perry, J.K., Murakami, E., Barauskas, O., Feng, J., Cho, A., Fox, D., Wetmore, D.R., McGrath, M.E., Ray, A.S., Sofia, M.J., Swaminathan, S., Edwards, T.E.

Citation:

Structural basis for RNA replication by the hepatitis C virus polymerase.
Science 347 pp.771 - 775 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.9Å R work:0.18R free:0.218

NDB ID:

4WTF

PDB ID:

4WTF 

Release:

2015-02-11

Title:

CRYSTAL STRUCTURE OF HCV NS5B GENOTYPE 2A JFH-1 ISOLATE WITH S15G E86Q E87Q C223H V321I MUTATIONS AND DELTA8 BETA HAIRPIN LOOP DELETION IN COMPLEX WITH GS-639475, MN2+ AND SYMMETRICAL PRIMER TEMPLATE 5'-CAAAAUUU

Classification:

Transferase/RNA

Authors:

Appleby, T.C., Perry, J.K., Murakami, E., Barauskas, O., Feng, J., Cho, A., Fox, D., Wetmore, D.R., McGrath, M.E., Ray, A.S., Sofia, M.J., Swaminathan, S., Edwards, T.E.

Citation:

Structural basis for RNA replication by the hepatitis C virus polymerase.
Science 347 pp.771 - 775 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.65Å R work:0.187R free:0.233

NDB ID:

4WTG

PDB ID:

4WTG 

Release:

2015-02-11

Title:

CRYSTAL STRUCTURE OF HCV NS5B GENOTYPE 2A JFH-1 ISOLATE WITH S15G E86Q E87Q C223H V321I MUTATIONS AND DELTA8 BETA HAIRPIN LOOP DELETION IN COMPLEX WITH SOFOSBUVIR DIPHOSPHATE GS-607596, MN2+ AND SYMMETRICAL PRIMER TEMPLATE 5'-CAAAAUUU

Classification:

Transferase/RNA

Authors:

Appleby, T.C., Perry, J.K., Murakami, E., Barauskas, O., Feng, J., Cho, A., Fox, D., Wetmore, D.R., McGrath, M.E., Ray, A.S., Sofia, M.J., Swaminathan, S., Edwards, T.E.

Citation:

Structural basis for RNA replication by the hepatitis C virus polymerase.
Science 347 pp.771 - 775 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.9Å R work:0.179R free:0.231

NDB ID:

4WTI

PDB ID:

4WTI 

Release:

2015-02-11

Title:

CRYSTAL STRUCTURE OF HCV NS5B GENOTYPE 2A JFH-1 ISOLATE WITH S15G E86Q E87Q C223H V321I MUTATIONS IN COMPLEX WITH RNA TEMPLATE 5'-ACGG, RNA PRIMER 5'-PCC, MN2+, AND GDP

Classification:

Transferase/RNA

Authors:

Appleby, T.C., Perry, J.K., Murakami, E., Barauskas, O., Feng, J., Cho, A., Fox, D., Wetmore, D.R., McGrath, M.E., Ray, A.S., Sofia, M.J., Swaminathan, S., Edwards, T.E.

Citation:

Structural basis for RNA replication by the hepatitis C virus polymerase.
Science 347 pp.771 - 775 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.8Å R work:0.18R free:0.233

NDB ID:

4WTJ

PDB ID:

4WTJ 

Release:

2015-02-11

Title:

CRYSTAL STRUCTURE OF HCV NS5B GENOTYPE 2A JFH-1 ISOLATE WITH S15G E86Q E87Q C223H V321I MUTATIONS IN COMPLEX WITH RNA TEMPLATE 5'-AUCC, RNA PRIMER 5'-PGG, MN2+, AND ADP

Classification:

Transferase/RNA

Authors:

Appleby, T.C., Perry, J.K., Murakami, E., Barauskas, O., Feng, J., Cho, A., Fox, D., Wetmore, D.R., McGrath, M.E., Ray, A.S., Sofia, M.J., Swaminathan, S., Edwards, T.E.

Citation:

Structural basis for RNA replication by the hepatitis C virus polymerase.
Science 347 pp.771 - 775 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.2Å R work:0.175R free:0.21

NDB ID:

4WTK

PDB ID:

4WTK 

Release:

2015-02-11

Title:

CRYSTAL STRUCTURE OF HCV NS5B GENOTYPE 2A JFH-1 ISOLATE WITH S15G E86Q E87Q C223H V321I MUTATIONS IN COMPLEX WITH RNA TEMPLATE 5'-AGCC, RNA PRIMER 5'-PGG, MN2+, AND CDP

Classification:

Transferase/RNA

Authors:

Appleby, T.C., Perry, J.K., Murakami, E., Barauskas, O., Feng, J., Cho, A., Fox, D., Wetmore, D.R., McGrath, M.E., Ray, A.S., Sofia, M.J., Swaminathan, S., Edwards, T.E.

Citation:

Structural basis for RNA replication by the hepatitis C virus polymerase.
Science 347 pp.771 - 775 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.5Å R work:0.184R free:0.224

NDB ID:

4WTL

PDB ID:

4WTL 

Release:

2015-02-11

Title:

CRYSTAL STRUCTURE OF HCV NS5B GENOTYPE 2A JFH-1 ISOLATE WITH S15G E86Q E87Q C223H V321I MUTATIONS IN COMPLEX WITH RNA TEMPLATE 5'-UACC, RNA PRIMER 5'-PGG, MN2+, AND UDP

Classification:

Transferase/RNA

Authors:

Appleby, T.C., Perry, J.K., Murakami, E., Barauskas, O., Feng, J., Cho, A., Fox, D., Wetmore, D.R., McGrath, M.E., Ray, A.S., Sofia, M.J., Swaminathan, S., Edwards, T.E.

Citation:

Structural basis for RNA replication by the hepatitis C virus polymerase.
Science 347 pp.771 - 775 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.0Å R work:0.202R free:0.234

NDB ID:

4WTM

PDB ID:

4WTM 

Release:

2015-02-11

Title:

CRYSTAL STRUCTURE OF HCV NS5B GENOTYPE 2A JFH-1 ISOLATE WITH S15G E86Q E87Q C223H V321I MUTATIONS IN COMPLEX WITH RNA TEMPLATE 5'-UAGG, RNA PRIMER 5'-PCC, MN2+, AND UDP

Classification:

Transferase/RNA

Authors:

Appleby, T.C., Perry, J.K., Murakami, E., Barauskas, O., Feng, J., Cho, A., Fox, D., Wetmore, D.R., McGrath, M.E., Ray, A.S., Sofia, M.J., Swaminathan, S., Edwards, T.E.

Citation:

Structural basis for RNA replication by the hepatitis C virus polymerase.
Science 347 pp.771 - 775 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.15Å R work:0.185R free:0.216

NDB ID:

4X4N

PDB ID:

4X4N 

Release:

2015-02-11

Title:

Crystal structure of the A.fulgidus CCA-adding enzyme in complex with a G70A arginyl-tRNA minihelix

Classification:

transferase/RNA

Authors:

Kuhn, C.D., Wilusz, J.E., Zheng, Y., Beal, P.A., Joshua-Tor, L.

Citation:

On-Enzyme Refolding Permits Small RNA and tRNA Surveillance by the CCA-Adding Enzyme.
Cell 160 pp.644 - 658 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.953Å R work:0.191R free:0.248

NDB ID:

4X4O

PDB ID:

4X4O 

Release:

2015-02-11

Title:

Crystal structure of the A.fulgidus CCA-adding enzyme in complex with a G70A arginyl-tRNA minihelix and CTP

Classification:

RNA BINDING PROTEIN

Authors:

Kuhn, C.D., Wilusz, J.E., Zheng, Y., Beal, P.A., Joshua-Tor, L.

Citation:

On-Enzyme Refolding Permits Small RNA and tRNA Surveillance by the CCA-Adding Enzyme.
Cell 160 pp.644 - 658 2015

Experiment:

X-RAY DIFFRACTION Resolution:3.201Å R work:0.209R free:0.251

NDB ID:

4X4P

PDB ID:

4X4P 

Release:

2015-02-11

Title:

Crystal structure of the A.fulgidus CCA-adding enzyme in complex with a G70A arginyl-tRNA minihelix ending in CCAC

Classification:

RNA BINDING PROTEIN

Authors:

Kuhn, C.D., Wilusz, J.E., Zheng, Y., Beal, P.A., Joshua-Tor, L.

Citation:

On-Enzyme Refolding Permits Small RNA and tRNA Surveillance by the CCA-Adding Enzyme.
Cell 160 pp.644 - 658 2015

Experiment:

X-RAY DIFFRACTION Resolution:3.0Å R work:0.223R free:0.273

NDB ID:

4X4Q

PDB ID:

4X4Q 

Release:

2015-02-11

Title:

Crystal structure of the A.fulgidus CCA-adding enzyme in complex with a G70A arginyl-tRNA minihelix ending in CCAC and CTP

Classification:

RNA BINDING PROTEIN

Authors:

Kuhn, C.D., Wilusz, J.E., Zheng, Y., Beal, P.A., Joshua-Tor, L.

Citation:

On-Enzyme Refolding Permits Small RNA and tRNA Surveillance by the CCA-Adding Enzyme.
Cell 160 pp.644 - 658 2015

Experiment:

X-RAY DIFFRACTION Resolution:3.15Å R work:0.225R free:0.284

NDB ID:

4X4R

PDB ID:

4X4R 

Release:

2015-02-11

Title:

Crystal structure of the A.fulgidus CCA-adding enzyme in complex with a G70A arginyl-tRNA minihelix ending in CCACC and AMPcPP

Classification:

RNA BINDING PROTEIN

Authors:

Kuhn, C.D., Wilusz, J.E., Zheng, Y., Beal, P.A., Joshua-Tor, L.

Citation:

On-Enzyme Refolding Permits Small RNA and tRNA Surveillance by the CCA-Adding Enzyme.
Cell 160 pp.644 - 658 2015

Experiment:

X-RAY DIFFRACTION Resolution:3.202Å R work:0.208R free:0.266

NDB ID:

4X4S

PDB ID:

4X4S 

Release:

2015-02-11

Title:

Crystal structure of the A.fulgidus CCA-adding enzyme in complex with a G70A arginyl-tRNA minihelix ending in CCACC and CTP

Classification:

RNA BINDING PROTEIN

Authors:

Kuhn, C.D., Wilusz, J.E., Zheng, Y., Beal, P.A., Joshua-Tor, L.

Citation:

On-Enzyme Refolding Permits Small RNA and tRNA Surveillance by the CCA-Adding Enzyme.
Cell 160 pp.644 - 658 2015

Experiment:

X-RAY DIFFRACTION Resolution:3.25Å R work:0.219R free:0.275

NDB ID:

4X4T

PDB ID:

4X4T 

Release:

2015-02-11

Title:

Crystal structure of the A.fulgidus CCA-adding enzyme in complex with a G70A arginyl-tRNA minihelix ending in CCACCA

Classification:

transferase/RNA

Authors:

Kuhn, C.D., Wilusz, J.E., Zheng, Y., Beal, P.A., Joshua-Tor, L.

Citation:

On-Enzyme Refolding Permits Small RNA and tRNA Surveillance by the CCA-Adding Enzyme.
Cell 160 pp.644 - 658 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.5Å R work:0.186R free:0.229

NDB ID:

4X4U

PDB ID:

4X4U 

Release:

2015-02-11

Title:

Crystal structure of the A.fulgidus CCA-adding enzyme in complex with a human MenBeta minihelix ending in CCACC

Classification:

RNA BINDING PROTEIN

Authors:

Kuhn, C.D., Wilusz, J.E., Zheng, Y., Beal, P.A., Joshua-Tor, L.

Citation:

On-Enzyme Refolding Permits Small RNA and tRNA Surveillance by the CCA-Adding Enzyme.
Cell 160 pp.644 - 658 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.7Å R work:0.182R free:0.233

NDB ID:

4X4V

PDB ID:

4X4V 

Release:

2015-02-11

Title:

Crystal structure of the A.fulgidus CCA-adding enzyme in complex with a human MenBeta minihelix ending in CCACC and AMPcPP

Classification:

RNA BINDING PROTEIN

Authors:

Kuhn, C.D., Wilusz, J.E., Zheng, Y., Beal, P.A., Joshua-Tor, L.

Citation:

On-Enzyme Refolding Permits Small RNA and tRNA Surveillance by the CCA-Adding Enzyme.
Cell 160 pp.644 - 658 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.6Å R work:0.184R free:0.237

NDB ID:

4XK0

PDB ID:

4XK0 

Release:

2015-02-11

Title:

Crystal structure of a tetramolecular RNA G-quadruplex in potassium

Classification:

RNA

Authors:

Chen, M.C., Murat, P., Abecassis, K., Ferre-D'Amare, A.R., Balasubramanian, S.

Citation:

Insights into the mechanism of a G-quadruplex-unwinding DEAH-box helicase.
Nucleic Acids Res. 43 pp.2223 - 2231 2015

Experiment:

X-RAY DIFFRACTION Resolution:1.08Å

NDB ID:

NA3041

PDB ID:

4QG3 

Release:

2015-02-11

Title:

Crystal structure of mutant ribosomal protein G219V TthL1 in complex with 80nt 23S RNA from Thermus thermophilus

Classification:

RIBOSOMAL PROTEIN/RNA

Authors:

Tishchenko, S., Kostareva, O., Gabdulkhakov, A., Mikhaylina, A., Nikonova, E., Nevskaya, N., Sarskikh, A., Piendl, W., Garber, M., Nikonov, S.

Citation:

Protein-RNA affinity of ribosomal protein L1 mutants does not correlate with the number of intermolecular interactions.
Acta Crystallogr.,Sect.D 71 pp.376 - 386 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.0Å R work:0.199R free:0.225

NDB ID:

NA3138

PDB ID:

4QVI 

Release:

2015-02-11

Title:

Crystal structure of mutant ribosomal protein M218L TthL1 in complex with 80nt 23S RNA from Thermus thermophilus

Classification:

RIBOSOMAL PROTEIN/RNA

Authors:

Tishchenko, S., Kostareva, O., Gabdulkhakov, A., Mikhaylina, A., Nikonova, E., Nevskaya, N., Sarskikh, A., Piendl, W., Garber, M., Nikonov, S.

Citation:

Protein-RNA affinity of ribosomal protein L1 mutants does not correlate with the number of intermolecular interactions.
Acta Crystallogr.,Sect.D 71 pp.376 - 386 2015

Experiment:

X-RAY DIFFRACTION Resolution:1.9Å R work:0.193R free:0.216

NDB ID:

NA3354

PDB ID:

4S2X 

Release:

2015-02-11

Title:

Structure of E. coli RppH bound to RNA and two magnesium ions

Classification:

hydrolase/RNA

Authors:

Vasilyev, N., Serganov, A.

Citation:

Structures of RNA Complexes with the Escherichia coli RNA Pyrophosphohydrolase RppH Unveil the Basis for Specific 5'-End-Dependent mRNA Decay*
J.Biol.Chem. pp. - 2015

Experiment:

X-RAY DIFFRACTION Resolution:1.5Å R work:0.188R free:0.215

NDB ID:

NA3355

PDB ID:

4S2Y 

Release:

2015-02-11

Title:

Structure of E. coli RppH bound to RNA and three magnesium ions

Classification:

hydrolase/RNA

Authors:

Vasilyev, N., Serganov, A.

Citation:

Structures of RNA Complexes with the Escherichia coli RNA Pyrophosphohydrolase RppH Unveil the Basis for Specific 5'-End-Dependent mRNA Decay*
J.Biol.Chem. pp. - 2015

Experiment:

X-RAY DIFFRACTION Resolution:1.6Å R work:0.172R free:0.198

NDB ID:

4X67

PDB ID:

4X67 

Release:

2015-02-04

Title:

Crystal structure of elongating yeast RNA polymerase II stalled at oxidative Cyclopurine DNA lesions.

Classification:

TRANSCRIPTION/DNA

Authors:

Walmacq, C., Wang, L., Chong, J., Scibelli, K., Lubkowska, L., Gnatt, A., Brooks, P.J., Wang, D., Kashlev, M.

Citation:

Mechanism of RNA polymerase II bypass of oxidative cyclopurine DNA lesions.
Proc.Natl.Acad.Sci.USA 112 pp.E410 - E419 2015

Experiment:

X-RAY DIFFRACTION Resolution:4.1Å R work:0.242R free:0.289

NDB ID:

4X6A

PDB ID:

4X6A 

Release:

2015-02-04

Title:

Crystal structure of yeast RNA polymerase II encountering oxidative Cyclopurine DNA lesions

Classification:

TRANSCRIPTION/DNA

Authors:

Walmacq, C., Wang, L., Chong, J., Scibelli, K., Lubkowska, L., Gnatt, A., Brooks, P.J., Wang, D., Kashlev, M.

Citation:

Mechanism of RNA polymerase II bypass of oxidative cyclopurine DNA lesions.
Proc.Natl.Acad.Sci.USA 112 pp.E410 - E419 2015

Experiment:

X-RAY DIFFRACTION Resolution:3.96Å R work:0.248R free:0.296

NDB ID:

NA3351

PDB ID:

4S20 

Release:

2015-02-04

Title:

Structural basis for transcription reactivation by RapA

Classification:

TRANSFERASE/DNA/RNA

Authors:

Liu, B., Zuo, Y., Steitz, T.A.

Citation:

Structural basis for transcription reactivation by RapA.
Proc.Natl.Acad.Sci.USA 112 pp.2006 - 2010 2015

Experiment:

X-RAY DIFFRACTION Resolution:4.7Å R work:0.273R free:0.369

NDB ID:

2MS5

PDB ID:

2MS5 

Release:

2015-01-28

Title:

Structural dynamics of double-helical RNA having CAG motif

Classification:

RNA

Authors:

Kumar, A., Tawani, A.

Citation:

Structural Insight reveals dynamics in repeating r(CAG) transcript found in Huntington's disease (HD) and Spinocerebellar ataxias (SCAs)
To be Published pp. - 0

Experiment:

SOLUTION NMR

NDB ID:

4TZ6

PDB ID:

4TZ6 

Release:

2015-01-28

Title:

DEAD-box helicase Mss116 bound to ssRNA and UDP-BeF

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Mallam, A.L., Sidote, D.J., Lambowitz, A.M.

Citation:

Molecular insights into RNA and DNA helicase evolution from the determinants of specificity for a DEAD-box RNA helicase.
Elife 3 pp.e04630 - e04630 2014

Experiment:

X-RAY DIFFRACTION Resolution:3.209Å R work:0.219R free:0.269

NDB ID:

4WPO

PDB ID:

4WPO 

Release:

2015-01-28

Title:

Crystal structure of the Thermus thermophilus 70S ribosome in complex with elongation factor G in the pre-translocational state

Classification:

Ribosome

Authors:

Lin, J., Gagnon, M.G., Bulkley, D., Steitz, T.A.

Citation:

Conformational Changes of Elongation Factor G on the Ribosome during tRNA Translocation.
Cell 160 pp.219 - 227 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.8Å R work:0.202R free:0.252

NDB ID:

4WQF

PDB ID:

4WQF 

Release:

2015-01-28

Title:

Crystal structure of the Thermus thermophilus 70S ribosome in complex with elongation factor G and fusidic acid in the post-translocational state

Classification:

RIBOSOME

Authors:

Lin, J., Gagnon, M.G., Bulkley, D., Steitz, T.A.

Citation:

Conformational Changes of Elongation Factor G on the Ribosome during tRNA Translocation.
Cell 160 pp.219 - 227 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.8Å R work:0.2R free:0.254

NDB ID:

4WQU

PDB ID:

4WQU 

Release:

2015-01-28

Title:

Crystal structure of the Thermus thermophilus 70S ribosome in complex with elongation factor G trapped by the antibiotic dityromycin

Classification:

Ribosome/antibiotic

Authors:

Lin, J., Gagnon, M.G., Bulkley, D., Steitz, T.A.

Citation:

Conformational Changes of Elongation Factor G on the Ribosome during tRNA Translocation.
Cell 160 pp.219 - 227 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.8Å R work:0.209R free:0.263

NDB ID:

4WQY

PDB ID:

4WQY 

Release:

2015-01-28

Title:

Crystal structure of the Thermus thermophilus 70S ribosome in complex with elongation factor G in the post-translocational state (without fusitic acid)

Classification:

Ribosome

Authors:

Lin, J., Gagnon, M.G., Bulkley, D., Steitz, T.A.

Citation:

Conformational Changes of Elongation Factor G on the Ribosome during tRNA Translocation.
Cell 160 pp.219 - 227 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.8Å R work:0.221R free:0.266

NDB ID:

4WT8

PDB ID:

4WT8 

Release:

2015-01-21

Title:

Crystal Structure of bactobolin A bound to 70S ribosome-tRNA complex

Classification:

RIBOSOME

Authors:

Amunts, A., Fiedorczuk, K., Truong, T.T., Chandler, J., Peter Greenberg, E., Ramakrishnan, V.

Citation:

Bactobolin A Binds to a Site on the 70S Ribosome Distinct from Previously Seen Antibiotics.
J.Mol.Biol. 427 pp.753 - 755 2015

Experiment:

X-RAY DIFFRACTION Resolution:3.4Å R work:0.204R free:0.241

NDB ID:

4WUS

PDB ID:

4WUS 

Release:

2015-01-21

Title:

Crystal Structure of bactobolin A bound to 70S ribosome-tRNA complex

Classification:

RIBOSOME

Authors:

Amunts, A., Fiedorczuk, K., Truong, T.T., Chandler, J., Peter Greenberg, E., Ramakrishnan, V.

Citation:

Bactobolin A Binds to a Site on the 70S Ribosome Distinct from Previously Seen Antibiotics.
J.Mol.Biol. 427 pp.753 - 755 2015

Experiment:

X-RAY DIFFRACTION Resolution:3.4Å R work:0.204R free:0.241

NDB ID:

4WWE

PDB ID:

4WWE 

Release:

2015-01-21

Title:

Crystal Structure of bactobolin A bound to 70S ribosome-tRNA complex

Classification:

ribosome

Authors:

Amunts, A., Fiedorczuk, K., Truong, T.T., Chandler, J., Peter Greenberg, E., Ramakrishnan, V.

Citation:

Bactobolin A Binds to a Site on the 70S Ribosome Distinct from Previously Seen Antibiotics.
J.Mol.Biol. 427 pp.753 - 755 2015

Experiment:

X-RAY DIFFRACTION Resolution:3.4Å R work:0.204R free:0.241