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As of 26-Aug-2015 number of released structures: 7692
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Polymer Type: All + RNA Type: All + Protein Function: All + Experimental Method: All + RNA Sequence Type: All RNA Sequence

Results: 2823  Download results as an excel file       Gallery view

NDB ID:

4U78

PDB ID:

4U78 

Release:

2015-08-26

Title:

Octameric RNA duplex soaked in copper(II)chloride

Classification:

RNA

Authors:

Schaffer, M.F., Spingler, B., Schnabl, J., Peng, G., Olieric, V., Sigel, R.K.O.

Citation:

The X-ray structures of an octameric RNA duplex in presence of six di- and trivalent metal ions
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.501Å R work:0.173R free:0.206

NDB ID:

4ZC7

PDB ID:

4ZC7 

Release:

2015-08-26

Title:

Paromomycin bound to a leishmanial ribosomal A-site

Classification:

RNA

Authors:

Shalev, M., Rozenberg, H., Smolkin, B., Nasereddin, A., Kopelyanskiy, D., Belakhov, V., Schrepfer, T., Schacht, J., Jaffe, C.L., Adir, N., Baasov, T.

Citation:

Structural basis for selective targeting of leishmanial ribosomes: aminoglycoside derivatives as promising therapeutics.
Nucleic Acids Res. pp. - 2015

Experiment:

X-RAY DIFFRACTION Resolution:3.041Å R work:0.182R free:0.261

NDB ID:

4ZNP

PDB ID:

4ZNP 

Release:

2015-08-26

Title:

The structure of A pfI Riboswitch Bound to ZMP

Classification:

RNA

Authors:

Ren, A., Rajashankar, K.R., Patel, D.J.

Citation:

Global RNA Fold and Molecular Recognition for a pfl Riboswitch Bound to ZMP, a Master Regulator of One-Carbon Metabolism.
Structure 23 pp.1375 - 1381 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.94Å R work:0.223R free:0.248

NDB ID:

5C3E

PDB ID:

5C3E 

Release:

2015-08-26

Title:

Crystal structure of a transcribing RNA Polymerase II complex reveals a complete transcription bubble

Classification:

TRANSFERASE/DNA/RNA

Authors:

Barnes, C.O., Calero, M., Malik, I., Graham, B.W., Spahr, H., Lin, G., Cohen, A.E., Brown, I.S., Zhang, Q., Pullara, F., Trakselis, M.A., Kaplan, C.D., Calero, G.

Citation:

Crystal Structure of a Transcribing RNA Polymerase II Complex Reveals a Complete Transcription Bubble.
Mol.Cell 59 pp.258 - 269 2015

Experiment:

X-RAY DIFFRACTION Resolution:3.7Å R work:0.2R free:0.219

NDB ID:

5C44

PDB ID:

5C44 

Release:

2015-08-26

Title:

Crystal structure of a transcribing RNA Polymerase II complex reveals a complete transcription bubble

Classification:

TRANSFERASE/DNA/RNA

Authors:

Barnes, C.O., Calero, M., Malik, I., Graham, B.W., Spahr, H., Lin, G., Cohen, A.E., Brown, I.S., Zhang, Q., Pullara, F., Trakselis, M.A., Kaplan, C.D., Calero, G.

Citation:

Crystal Structure of a Transcribing RNA Polymerase II Complex Reveals a Complete Transcription Bubble.
Mol.Cell 59 pp.258 - 269 2015

Experiment:

X-RAY DIFFRACTION Resolution:3.95Å R work:0.215R free:0.236

NDB ID:

5C4A

PDB ID:

5C4A 

Release:

2015-08-26

Title:

Crystal structure of a transcribing RNA Polymerase II complex reveals a complete transcription bubble

Classification:

TRANSFERASE/RNA/DNA

Authors:

Barnes, C.O., Calero, M., Malik, I., Graham, B.W., Spahr, H., Lin, G., Cohen, A.E., Brown, I.S., Zhang, Q., Pullara, F., Trakselis, M.A., Kaplan, C.D., Calero, G.

Citation:

Crystal Structure of a Transcribing RNA Polymerase II Complex Reveals a Complete Transcription Bubble.
Mol.Cell 59 pp.258 - 269 2015

Experiment:

X-RAY DIFFRACTION Resolution:4.2Å R work:0.223R free:0.242

NDB ID:

5C4J

PDB ID:

5C4J 

Release:

2015-08-26

Title:

Crystal structure of a transcribing RNA Polymerase II complex reveals a complete transcription bubble

Classification:

TRANSFERASE/DNA/RNA

Authors:

Barnes, C.O., Calero, M., Malik, I., Graham, B.W., Spahr, H., Lin, G., Cohen, A.E., Brown, I.S., Zhang, Q., Pullara, F., Trakselis, M.A., Kaplan, C.D., Calero, G.

Citation:

Crystal Structure of a Transcribing RNA Polymerase II Complex Reveals a Complete Transcription Bubble.
Mol.Cell 59 pp.258 - 269 2015

Experiment:

X-RAY DIFFRACTION Resolution:4.0Å R work:0.212R free:0.27

NDB ID:

5C4X

PDB ID:

5C4X 

Release:

2015-08-26

Title:

Crystal structure of a transcribing RNA Polymerase II complex reveals a complete transcription bubble

Classification:

TRANSFERASE/RNA/DNA

Authors:

Barnes, C.O., Calero, M., Malik, I., Graham, B.W., Spahr, H., Lin, G., Cohen, A.E., Brown, I.S., Zhang, Q., Pullara, F., Trakselis, M.A., Kaplan, C.D., Calero, G.

Citation:

Crystal Structure of a Transcribing RNA Polymerase II Complex Reveals a Complete Transcription Bubble.
Mol.Cell 59 pp.258 - 269 2015

Experiment:

X-RAY DIFFRACTION Resolution:4.0Å R work:0.209R free:0.227

NDB ID:

5CD4

PDB ID:

5CD4 

Release:

2015-08-26

Title:

The Type IE CRISPR Cascade complex from E. coli, with two assemblies in the asymmetric unit arranged back-to-back

Classification:

HYDROLASE/RNA

Authors:

van Erp, P.B., Jackson, R.N., Carter, J., Golden, S.M., Bailey, S., Wiedenheft, B.

Citation:

Mechanism of CRISPR-RNA guided recognition of DNA targets in Escherichia coli.
Nucleic Acids Res. pp. - 2015

Experiment:

X-RAY DIFFRACTION Resolution:3.2Å R work:0.212R free:0.249

NDB ID:

4U6K

PDB ID:

4U6K 

Release:

2015-08-19

Title:

Crystal structure of DNA/RNA duplex containing 2'-4'-BNA-NC

Classification:

DNA/RNA

Authors:

Kondo, J., Nomura, Y., Kitahara, Y., Obika, S., Torigoe, H.

Citation:

Crystal structure of DNA/RNA duplex containing 2',4'-BNA-NC
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.5Å R work:0.198R free:0.215

NDB ID:

4U6L

PDB ID:

4U6L 

Release:

2015-08-19

Title:

Crystal structure of DNA/RNA duplex obtained in the presence of [Co(NH3)6]Cl3 and SrCl2

Classification:

DNA/RNA

Authors:

Kondo, J., Nomura, Y., Kitahara, Y., Obika, S., Torigoe, H.

Citation:

Crystal structure of DNA/RNA duplex obtained in the presence of [Co(NH3)6]Cl3 and SrCl2
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.9Å R work:0.25R free:0.275

NDB ID:

4U6M

PDB ID:

4U6M 

Release:

2015-08-19

Title:

Crystal structure of DNA/RNA duplex obtained in the presence of Spermine

Classification:

DNA/RNA

Authors:

Kondo, J., Nomura, Y., Kitahara, Y., Obika, S., Torigoe, H.

Citation:

Crystal structure of DNA/RNA duplex obtained in the presence of Spermine
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.9Å R work:0.206R free:0.233

NDB ID:

4ZLD

PDB ID:

4ZLD 

Release:

2015-08-19

Title:

Crystal structure of human Roquin-2 ROQ domain in complex with Roquin CDE RNA

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Sakurai, S., Ohto, U., Shimizu, T.

Citation:

Structure of human Roquin-2 and its complex with constitutive-decay element RNA
Acta Crystallogr.,Sect.F 71 pp.1048 - 1054 2015

Experiment:

X-RAY DIFFRACTION Resolution:1.6Å R work:0.155R free:0.176

NDB ID:

NA3375

PDB ID:

5A0T 

Release:

2015-08-19

Title:

Catalysis and 5' end sensing by ribonuclease RNase J of the metallo- beta-lactamase family

Classification:

HYDROLASE/RNA

Authors:

Pei, X.Y., Bralley, P., Jones, G.H., Luisi, B.F.

Citation:

Linkage of Catalysis and 5' End Recognition in Ribonuclease Rnase J
Nucleic Acids Res. pp. - 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.283Å R work:0.144R free:0.176

NDB ID:

NA3376

PDB ID:

5A0V 

Release:

2015-08-19

Title:

Catalysis and 5' end sensing by ribonuclease RNase J of the metallo- beta-lactamase family

Classification:

HYDROLASE/RNA

Authors:

Pei, X.Y., Bralley, P., Jones, G.H., Luisi, B.F.

Citation:

Linkage of Catalysis and 5' End Recognition in Ribonuclease Rnase J
Nucleic Acids Res. pp. - 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.8Å R work:0.154R free:0.208

NDB ID:

5BTP

PDB ID:

5BTP 

Release:

2015-08-12

Title:

Fusobacterium ulcerans ZTP riboswitch bound to ZMP

Classification:

RNA

Authors:

Jones, C.P., Ferre-D'Amare, A.R.

Citation:

Recognition of the bacterial alarmone ZMP through long-distance association of two RNA sub-domains
Nat.Struct.Mol.Biol. pp. - 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.816Å R work:0.185R free:0.22

NDB ID:

5C7U

PDB ID:

5C7U 

Release:

2015-08-12

Title:

5'-monophosphate wt Guanine Riboswitch bound to hypoxanthine.

Classification:

RNA

Authors:

Hernandez, A.R., Shao, Y., Hoshika, S., Yang, Z., Shelke, S.A., Herrou, J., Kim, H.J., Kim, M.J., Piccirilli, J.A., Benner, S.A.

Citation:

A Crystal Structure of a Functional RNA Molecule Containing an Artificial Nucleobase Pair.
Angew.Chem.Int.Ed.Engl. 54 pp.9853 - 9856 2015

Experiment:

X-RAY DIFFRACTION Resolution:3.05Å R work:0.201R free:0.241

NDB ID:

5C7W

PDB ID:

5C7W 

Release:

2015-08-12

Title:

5'-monophosphate Z:P Guanine Riboswitch bound to hypoxanthine.

Classification:

RNA

Authors:

Hernandez, A.R., Shao, Y., Hoshika, S., Yang, Z., Shelke, S.A., Herrou, J., Kim, H.J., Kim, M.J., Piccirilli, J.A., Benner, S.A.

Citation:

A Crystal Structure of a Functional RNA Molecule Containing an Artificial Nucleobase Pair.
Angew.Chem.Int.Ed.Engl. 54 pp.9853 - 9856 2015

Experiment:

X-RAY DIFFRACTION Resolution:3.22Å R work:0.227R free:0.279

NDB ID:

2N2O

PDB ID:

2N2O 

Release:

2015-08-05

Title:

Structure of murine tumour necrosis factor alpha CDE RNA

Classification:

RNA

Authors:

Codutti, L., Leppek, K., Zalesak, J., Windeisen, V., Masiewicz, P., Stoecklin, G., Carlomagno, T.

Citation:

A Distinct, Sequence-Induced Conformation Is Required for Recognition of the Constitutive Decay Element RNA by Roquin.
Structure 23 pp.1437 - 1447 2015

Experiment:

SOLUTION NMR

NDB ID:

2N2P

PDB ID:

2N2P 

Release:

2015-08-05

Title:

Solution structure of a double base-pair inversion mutant of murine tumour necrosis factor alpha CDE-23 RNA

Classification:

RNA

Authors:

Codutti, L., Leppek, K., Zalesak, J., Windeisen, V., Masiewicz, P., Stoecklin, G., Carlomagno, T.

Citation:

A Distinct, Sequence-Induced Conformation Is Required for Recognition of the Constitutive Decay Element RNA by Roquin.
Structure 23 pp.1437 - 1447 2015

Experiment:

SOLUTION NMR

NDB ID:

4U47

PDB ID:

4U47 

Release:

2015-08-05

Title:

Octameric RNA duplex soaked in terbium(III)chloride

Classification:

RNA

Authors:

Schaffer, M.F., Spingler, B., Schnabl, J., Peng, G., Olieric, V., Sigel, R.K.O.

Citation:

The X-ray structures of an octameric RNA duplex in presence of six di- and trivalent metal ions
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.952Å R work:0.172R free:0.206

NDB ID:

4U67

PDB ID:

4U67 

Release:

2015-08-05

Title:

Crystal structure of the large ribosomal subunit (50S) of Deinococcus radiodurans containing a three residue insertion in L22

Classification:

RIBOSOME

Authors:

Wekselman, I., Zimmerman, E., Rozenberg, H., Bashan, A., Lindahl, L., Zengel, J.M., Yonath, A.

Citation:

A mutation in the ribosomal protein L22 modulates the structure of the nascent protein exit tunnel
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.65Å R work:0.225R free:0.269

NDB ID:

4WOI

PDB ID:

4WOI 

Release:

2015-08-05

Title:

4,5-linked aminoglycoside antibiotics regulate the bacterial ribosome by targeting dynamic conformational processes within intersubunit bridge B2

Classification:

RIBOSOME

Authors:

Wasserman, M.R., Pulk, A., Zhou, Z., Altman, R.B., Zinder, J.C., Green, K.D., Garneau-Tsodikova, S., Doudna Cate, J.H., Blanchard, S.C.

Citation:

Chemically related 4,5-linked aminoglycoside antibiotics drive subunit rotation in opposite directions.
Nat Commun 6 pp.7896 - 7896 2015

Experiment:

X-RAY DIFFRACTION Resolution:3.0Å R work:0.173R free:0.253

NDB ID:

5C0X

PDB ID:

5C0X 

Release:

2015-08-05

Title:

Structure of a 12-subunit nuclear exosome complex bound to structured RNA

Classification:

hydrolase/RNA

Authors:

Makino, D.L., Schuch, B., Stegmann, E., Baumgartner, M., Basquin, C., Conti, E.

Citation:

RNA degradation paths in a 12-subunit nuclear exosome complex.
Nature 524 pp.54 - 58 2015

Experiment:

X-RAY DIFFRACTION Resolution:3.812Å R work:0.294R free:0.299

NDB ID:

5C0Y

PDB ID:

5C0Y 

Release:

2015-08-05

Title:

Crystal structure of the Rrp6 catalytic domain bound to poly(U) RNA

Classification:

HYDROLASE

Authors:

Makino, D.L., Schuch, B., Stegmann, E., Baumgartner, M., Basquin, C., Conti, E.

Citation:

RNA degradation paths in a 12-subunit nuclear exosome complex.
Nature 524 pp.54 - 58 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.1Å R work:0.148R free:0.18

NDB ID:

2N4J

PDB ID:

2N4J 

Release:

2015-07-29

Title:

Solution structure of a self complementary Xylonucleic Acid duplex

Classification:

UNKNOWN FUNCTION

Authors:

Maiti, M., Maiti, M., Knies, C., Dumbre, S., Lescrinier, E., Rosemeyer, H., Ceulemans, A., Herdewijn, P.

Citation:

Xylonucleic acid: synthesis, structure, and orthogonal pairing properties.
Nucleic Acids Res. pp. - 2015

Experiment:

SOLUTION NMR

NDB ID:

4U3L

PDB ID:

4U3L 

Release:

2015-07-29

Title:

octameric RNA duplex co-crystallized in calcium(II)chloride

Classification:

RNA

Authors:

Schaffer, M.F., Spingler, B., Schnabl, J., Peng, G., Olieric, V., Sigel, R.K.O.

Citation:

The X-ray structures of an octameric RNA duplex in presence of six di- and trivalent metal ions
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.482Å R work:0.169R free:0.188

NDB ID:

4U3O

PDB ID:

4U3O 

Release:

2015-07-29

Title:

Octameric RNA duplex soaked in manganese(II)chloride

Classification:

RNA

Authors:

Schaffer, M.F., Spingler, B., Schnabl, J., Peng, G., Olieric, V., Sigel, R.K.O.

Citation:

The X-ray structures of an octameric RNA duplex in presence of six di- and trivalent metal ions
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.8Å R work:0.164R free:0.175

NDB ID:

4U3P

PDB ID:

4U3P 

Release:

2015-07-29

Title:

Octameric RNA duplex co-crystallized with strontium(II)chloride

Classification:

RNA

Authors:

Schaffer, M.F., Spingler, B., Schnabl, J., Peng, G., Olieric, V., Sigel, R.K.O.

Citation:

The X-ray structures of an octameric RNA duplex in presence of six di- and trivalent metal ions
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.866Å R work:0.179R free:0.229

NDB ID:

4U3R

PDB ID:

4U3R 

Release:

2015-07-29

Title:

Octameric RNA duplex co-crystallized with cobalt(II)chloride

Classification:

RNA

Authors:

Schaffer, M.F., Spingler, B., Schnabl, J., Peng, G., Olieric, V., Sigel, R.K.O.

Citation:

The X-ray structures of an octameric RNA duplex in presence of six di- and trivalent metal ions
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.701Å R work:0.164R free:0.197

NDB ID:

4ZCF

PDB ID:

4ZCF 

Release:

2015-07-29

Title:

Structural basis of asymmetric DNA methylation and ATP-triggered long-range diffusion by EcoP15I

Classification:

Hydrolase-DNA complex

Authors:

Gupta, Y.K., Chan, S.H., Xu, S.Y., Aggarwal, A.K.

Citation:

Structural basis of asymmetric DNA methylation and ATP-triggered long-range diffusion by EcoP15I.
Nat Commun 6 pp.7363 - 7363 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.6Å R work:0.218R free:0.262

NDB ID:

5C0W

PDB ID:

5C0W 

Release:

2015-07-29

Title:

Structure of a 12-subunit nuclear exosome complex bound to single-stranded RNA substrates

Classification:

HYDROLASE/RNA

Authors:

Makino, D.L., Schuch, B., Stegmann, E., Baumgartner, M., Basquin, C., Conti, E.

Citation:

RNA degradation paths in a 12-subunit nuclear exosome complex.
Nature 524 pp.54 - 58 2015

Experiment:

X-RAY DIFFRACTION Resolution:4.6Å R work:0.271R free:0.283

NDB ID:

4YHW

PDB ID:

4YHW 

Release:

2015-07-22

Title:

Yeast Prp3 (296-469) in complex with fragment of U4/U6 di-snRNA

Classification:

SPLICING

Authors:

Liu, S., Mozaffari-Jovin, S., Wollenhaupt, J., Santos, K.F., Theuser, M., Dunin-Horkawicz, S., Fabrizio, P., Bujnicki, J.M., Luhrmann, R., Wahl, M.C.

Citation:

A composite double-/single-stranded RNA-binding region in protein Prp3 supports tri-snRNP stability and splicing.
Elife 4 pp. - 2015

Experiment:

X-RAY DIFFRACTION Resolution:3.25Å R work:0.248R free:0.299

NDB ID:

5BTE

PDB ID:

5BTE 

Release:

2015-07-22

Title:

Crystal structure of Ashbya gossypii Rai1 in complex with pU(S)6-Mn2+

Classification:

hydrolase/rna

Authors:

Wang, V.Y., Jiao, X., Kiledjian, M., Tong, L.

Citation:

Structural and biochemical studies of the distinct activity profiles of Rai1 enzymes.
Nucleic Acids Res. 43 pp.6596 - 6606 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.4Å R work:0.195R free:0.253

NDB ID:

2N3Q

PDB ID:

2N3Q 

Release:

2015-07-15

Title:

NMR structure of the II-III-VI three-way junction from the VS ribozyme

Classification:

RNA

Authors:

Bonneau, E., Girard, N., Lemieux, S., Legault, P.

Citation:

The NMR structure of the II-III-VI three-way junction from the Neurospora VS ribozyme reveals a critical tertiary interaction and provides new insights into the global ribozyme structure.
Rna pp. - 2015

Experiment:

SOLUTION NMR

NDB ID:

2N3R

PDB ID:

2N3R 

Release:

2015-07-15

Title:

NMR structure of the II-III-VI three-way junction from the VS ribozyme and identification of magnesium-binding sites using paramagnetic relaxation enhancement

Classification:

RNA

Authors:

Bonneau, E., Girard, N., Lemieux, S., Legault, P.

Citation:

The NMR structure of the II-III-VI three-way junction from the Neurospora VS ribozyme reveals a critical tertiary interaction and provides new insights into the global ribozyme structure.
Rna pp. - 2015

Experiment:

SOLUTION NMR

NDB ID:

4Y52

PDB ID:

4Y52 

Release:

2015-07-15

Title:

Crystal structure of 5-Carboxycytosine Recognition by RNA Polymerase II during Transcription Elongation.

Classification:

transcription/dna/rna

Authors:

Wang, L., Zhou, Y., Xu, L., Xiao, R., Lu, X., Chen, L., Chong, J., Li, H., He, C., Fu, X.D., Wang, D.

Citation:

Molecular basis for 5-carboxycytosine recognition by RNA polymerase II elongation complex.
Nature 523 pp.621 - 625 2015

Experiment:

X-RAY DIFFRACTION Resolution:3.5Å R work:0.201R free:0.232

NDB ID:

4Y7N

PDB ID:

4Y7N 

Release:

2015-07-15

Title:

The Structure Insight into 5-Carboxycytosine Recognition by RNA Polymerase II during Transcription Elongation.

Classification:

transcription/dna/rna

Authors:

Wang, L., Zhou, Y., Xu, L., Xiao, R., Lu, X., Chen, L., Chong, J., Li, H., He, C., Fu, X.D., Wang, D.

Citation:

Molecular basis for 5-carboxycytosine recognition by RNA polymerase II elongation complex.
Nature 523 pp.621 - 625 2015

Experiment:

X-RAY DIFFRACTION Resolution:3.3Å R work:0.206R free:0.249

NDB ID:

4YVI

PDB ID:

4YVI 

Release:

2015-07-15

Title:

Crystal Structure of H. influenzae TrmD in complex with sinefungin and tRNA

Classification:

TRANSFERASE/RNA

Authors:

Ito, T., Masuda, I., Yoshida, K., Goto-Ito, S., Sekine, S., Suh, S.W., Hou, Y.-M., Yokoyama, S.

Citation:

Structural basis for methyl-donor-dependent and sequence-specific binding to tRNA substrates by knotted methyltransferase TrmD.
Proc.Natl.Acad.Sci.USA pp. - 2015

Experiment:

X-RAY DIFFRACTION Resolution:3.01Å R work:0.218R free:0.282

NDB ID:

4YVJ

PDB ID:

4YVJ 

Release:

2015-07-15

Title:

Crystal Structure of H. influenzae TrmD in complex with sinefungin and tRNA variant (G36U)

Classification:

TRANSFERASE/RNA

Authors:

Ito, T., Masuda, I., Yoshida, K., Goto-Ito, S., Sekine, S., Suh, S.W., Hou, Y.-M., Yokoyama, S.

Citation:

Structural basis for methyl-donor-dependent and sequence-specific binding to tRNA substrates by knotted methyltransferase TrmD.
Proc.Natl.Acad.Sci.USA pp. - 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.9Å R work:0.199R free:0.277

NDB ID:

4YVK

PDB ID:

4YVK 

Release:

2015-07-15

Title:

Crystal Structure of H. influenzae TrmD in complex with sinefungin and tRNA variant (G36C)

Classification:

TRANSFERASE/RNA

Authors:

Ito, T., Masuda, I., Yoshida, K., Goto-Ito, S., Sekine, S., Suh, S.W., Hou, Y.-M., Yokoyama, S.

Citation:

Structural basis for methyl-donor-dependent and sequence-specific binding to tRNA substrates by knotted methyltransferase TrmD.
Proc.Natl.Acad.Sci.USA pp. - 2015

Experiment:

X-RAY DIFFRACTION Resolution:3.002Å R work:0.218R free:0.283

NDB ID:

5BTM

PDB ID:

5BTM 

Release:

2015-07-15

Title:

Crystal structure of AUUCU repeating RNA that causes spinocerebellar ataxia type 10 (SCA10)

Classification:

RNA

Authors:

Park, H., Gonzalez, A.L., Yildirim, I., Tran, T., Lohman, J.R., Fang, P., Guo, M., Disney, M.D.

Citation:

Crystallographic and Computational Analyses of AUUCU Repeating RNA That Causes Spinocerebellar Ataxia Type 10 (SCA10).
Biochemistry 54 pp.3851 - 3859 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.778Å R work:0.175R free:0.224

NDB ID:

NA3206

PDB ID:

3WZI 

Release:

2015-07-15

Title:

Crystal structure of AfCsx3 in complex with ssRNA

Classification:

TRANSCRIPTION/RNA

Authors:

Yan, X., Guo, W., Yuan, Y.A.

Citation:

Crystal structures of CRISPR-associated Csx3 reveal a manganese-dependent deadenylation exoribonuclease
Rna Biol. pp. - 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.9Å R work:0.206R free:0.235

NDB ID:

4ZT0

PDB ID:

4ZT0 

Release:

2015-07-08

Title:

Crystal structure of catalytically-active Streptococcus pyogenes Cas9 in complex with single-guide RNA at 2.9 Angstrom resolution

Classification:

HYDROLASE/RNA

Authors:

Jiang, F., Zhou, K., Ma, L., Gressel, S., Doudna, J.A.

Citation:

A Cas9-guide RNA complex preorganized for target DNA recognition.
Science 348 pp.1477 - 1481 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.9Å R work:0.238R free:0.263

NDB ID:

4ZT9

PDB ID:

4ZT9 

Release:

2015-07-08

Title:

Nuclease-inactive Streptococcus pyogenes Cas9 (D10A/H840A, dCas9) in complex with single-guide RNA at 3.1 Angstrom resolution

Classification:

HYDROLASE/RNA

Authors:

Jiang, F., Zhou, K., Ma, L., Gressel, S., Doudna, J.A.

Citation:

A Cas9-guide RNA complex preorganized for target DNA recognition.
Science 348 pp.1477 - 1481 2015

Experiment:

X-RAY DIFFRACTION Resolution:3.1Å R work:0.242R free:0.284

NDB ID:

5BUD

PDB ID:

5BUD 

Release:

2015-07-08

Title:

Crystal structure of Candida albicans Rai1 in complex with pU5-Mn2+

Classification:

hydrolase/RNA

Authors:

Wang, V.Y., Jiao, X., Kiledjian, M., Tong, L.

Citation:

Structural and biochemical studies of the distinct activity profiles of Rai1 enzymes.
Nucleic Acids Res. 43 pp.6596 - 6606 2015

Experiment:

X-RAY DIFFRACTION Resolution:1.99Å R work:0.186R free:0.243

NDB ID:

NA3334

PDB ID:

4RZD 

Release:

2015-07-01

Title:

Crystal Structure of a PreQ1 Riboswitch

Classification:

RNA

Authors:

Liberman, J.A., Suddala, K.C., Aytenfisu, A., Chan, D., Belashov, I.A., Salim, M., Mathews, D.H., Spitale, R.C., Walter, N.G., Wedekind, J.E.

Citation:

Structural analysis of a class III preQ1 riboswitch reveals an aptamer distant from a ribosome-binding site regulated by fast dynamics.
Proc.Natl.Acad.Sci.USA 112 pp.E3485 - E3494 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.75Å R work:0.212R free:0.227

NDB ID:

5BS3

PDB ID:

5BS3 

Release:

2015-06-17

Title:

Crystal Structure of S.A. gyrase in complex with Compound 7

Classification:

Isomerase/DNA/RNA

Authors:

Singh, S.B., Kaelin, D.E., Wu, J., Miesel, L., Tan, C.M., Black, T., Nargund, R., Meinke, P.T., Olsen, D.B., Lagrutta, A., Lu, J., Patel, S., Rickert, K.W., Smith, R.F., Soisson, S., Sherer, E., Joyce, L.A., Wei, C., Peng, X., Wang, X., Fukuda, H., Kishii, R., Takei, M., Takano, H., Shibasaki, M., Yajima, M., Nishimura, A., Shibata, T., Fukuda, Y.

Citation:

Tricyclic 1,5-naphthyridinone oxabicyclooctane-linked novel bacterial topoisomerase inhibitors as broad-spectrum antibacterial agents-SAR of left-hand-side moiety (Part-2).
Bioorg.Med.Chem.Lett. 25 pp.1831 - 1835 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.65Å R work:0.17R free:0.212

NDB ID:

4WQ1

PDB ID:

4WQ1 

Release:

2015-06-10

Title:

Complex of 70S ribosome with tRNA-Tyr and mRNA with C-A mismatch in the first position in the A-site.

Classification:

RIBOSOME

Authors:

Rozov, A., Demeshkina, N., Westhof, E., Yusupov, M., Yusupova, G.

Citation:

Structural insights into the translational infidelity mechanism.
Nat Commun 6 pp.7251 - 7251 2015

Experiment:

X-RAY DIFFRACTION Resolution:3.1Å R work:0.188R free:0.234

NDB ID:

4WQR

PDB ID:

4WQR 

Release:

2015-06-10

Title:

Complex of 70S ribosome with tRNA-Phe and mRNA with C-A mismatch in the first position in the A-site.

Classification:

RIBOSOME

Authors:

Rozov, A., Demeshkina, N., Westhof, E., Yusupov, M., Yusupova, G.

Citation:

Structural insights into the translational infidelity mechanism.
Nat Commun 6 pp.7251 - 7251 2015

Experiment:

X-RAY DIFFRACTION Resolution:3.15Å R work:0.189R free:0.231