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As of 15-Oct-2014 number of released structures: 7462
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Polymer Type: All + RNA Type: All + Protein Function: All + Experimental Method: All + RNA Sequence Type: All RNA Sequence

Results: 2917   (Gallery view)

NDB ID:

2MFD

PDB ID:

2MFD 

Release:

2014-10-15

Title:

The Solution Structure of a cGCUUAg RNA Pentaloop from Bovine Enterovirus Vir404/03

Classification:

RNA

Authors:

Ihle, Y., Zell, R., Gorlach, M.

Citation:

The Solution Structure of a cGCUUAg RNA Pentaloop from Bovine Enterovirus Vir 404/03
To be Published pp. - 0

Experiment:

SOLUTION NMR

NDB ID:

NA3189

PDB ID:

4RB5 

Release:

2014-10-15

Title:

Crystal structure of the Thermus thermophilus 70S ribosome in complex with amicoumacin, mRNA and three deacylated tRNAs in the A, P and E sites

Classification:

RIBOSOME/ANTIBIOTIC

Authors:

Polikanov, Y.S., Osterman, I.A., Szal, T., Tashlitsky, V.N., Serebryakova, M.V., Kusochek, P., Bulkley, D., Malanicheva, I.A., Efimenko, T.A., Efremenkova, O.V., Konevega, A.L., Shaw, K.J., Bogdanov, A.A., Rodnina, M.V., Dontsova, O.A., Mankin, A.S., Steitz, T.A., Sergiev, P.V.

Citation:

Amicoumacin A inhibits translation by stabilizing mRNA interaction with the ribosome
pp. - 2014

Experiment:

X-RAY DIFFRACTION Resolution:2.4Å R work:0.237R free:0.277

NDB ID:

NA3190

PDB ID:

4RB6 

Release:

2014-10-15

Title:

Crystal structure of the Thermus thermophilus 70S ribosome in complex with amicoumacin, mRNA and three deacylated tRNAs in the A, P and E sites

Classification:

RIBOSOME/ANTIBIOTIC

Authors:

Polikanov, Y.S., Osterman, I.A., Szal, T., Tashlitsky, V.N., Serebryakova, M.V., Kusochek, P., Bulkley, D., Malanicheva, I.A., Efimenko, T.A., Efremenkova, O.V., Konevega, A.L., Shaw, K.J., Bogdanov, A.A., Rodnina, M.V., Dontsova, O.A., Mankin, A.S., Steitz, T.A., Sergiev, P.V.

Citation:

Amicoumacin A inhibits translation by stabilizing mRNA interaction with the ribosome
To be Published pp. - 2014

Experiment:

X-RAY DIFFRACTION Resolution:2.4Å R work:0.237R free:0.277

NDB ID:

NA3191

PDB ID:

4RB7 

Release:

2014-10-15

Title:

Crystal structure of the Thermus thermophilus 70S ribosome in complex with amicoumacin, mRNA and three deacylated tRNAs in the A, P and E sites

Classification:

RIBOSOME/ANTIBIOTIC

Authors:

Polikanov, Y.S., Osterman, I.A., Szal, T., Tashlitsky, V.N., Serebryakova, M.V., Kusochek, P., Bulkley, D., Malanicheva, I.A., Efimenko, T.A., Efremenkova, O.V., Konevega, A.L., Shaw, K.J., Bogdanov, A.A., Rodnina, M.V., Dontsova, O.A., Mankin, A.S., Steitz, T.A., Sergiev, P.V.

Citation:

Amicoumacin A inhibits translation by stabilizing mRNA interaction with the ribosome
pp. - 2014

Experiment:

X-RAY DIFFRACTION Resolution:2.4Å R work:0.237R free:0.277

NDB ID:

NA3192

PDB ID:

4RB8 

Release:

2014-10-15

Title:

Crystal structure of the Thermus thermophilus 70S ribosome in complex with amicoumacin, mRNA and three deacylated tRNAs in the A, P and E sites

Classification:

RIBOSOME/ANTIBIOTIC

Authors:

Polikanov, Y.S., Osterman, I.A., Szal, T., Tashlitsky, V.N., Serebryakova, M.V., Kusochek, P., Bulkley, D., Malanicheva, I.A., Efimenko, T.A., Efremenkova, O.V., Konevega, A.L., Shaw, K.J., Bogdanov, A.A., Rodnina, M.V., Dontsova, O.A., Mankin, A.S., Steitz, T.A., Sergiev, P.V.

Citation:

Amicoumacin A inhibits translation by stabilizing mRNA interaction with the ribosome
pp. - 2014

Experiment:

X-RAY DIFFRACTION Resolution:2.4Å R work:0.237R free:0.277

NDB ID:

NA3193

PDB ID:

4RB9 

Release:

2014-10-15

Title:

Crystal structure of the Thermus thermophilus 70S ribosome in complex with pactamycin (soaked), mRNA and three deacylated tRNAs in the A, P and E sites

Classification:

RIBOSOME/ANTIBIOTIC

Authors:

Polikanov, Y.S., Osterman, I.A., Szal, T., Tashlitsky, V.N., Serebryakova, M.V., Kusochek, P., Bulkley, D., Malanicheva, I.A., Efimenko, T.A., Efremenkova, O.V., Konevega, A.L., Shaw, K.J., Bogdanov, A.A., Rodnina, M.V., Dontsova, O.A., Mankin, A.S., Steitz, T.A., Sergiev, P.V.

Citation:

Amicoumacin A inhibits translation by stabilizing mRNA interaction with the ribosome
pp. - 2014

Experiment:

X-RAY DIFFRACTION Resolution:2.55Å R work:0.225R free:0.273

NDB ID:

NA3194

PDB ID:

4RBA 

Release:

2014-10-15

Title:

Crystal structure of the Thermus thermophilus 70S ribosome in complex with pactamycin (soaked), mRNA and three deacylated tRNAs in the A, P and E sites

Classification:

RIBOSOME/ANTIBIOTIC

Authors:

Polikanov, Y.S., Osterman, I.A., Szal, T., Tashlitsky, V.N., Serebryakova, M.V., Kusochek, P., Bulkley, D., Malanicheva, I.A., Efimenko, T.A., Efremenkova, O.V., Konevega, A.L., Shaw, K.J., Bogdanov, A.A., Rodnina, M.V., Dontsova, O.A., Mankin, A.S., Steitz, T.A., Sergiev, P.V.

Citation:

Amicoumacin A inhibits translation by stabilizing mRNA interaction with the ribosome
pp. - 2014

Experiment:

X-RAY DIFFRACTION Resolution:2.55Å R work:0.225R free:0.273

NDB ID:

NA3195

PDB ID:

4RBB 

Release:

2014-10-15

Title:

Crystal structure of the Thermus thermophilus 70S ribosome in complex with pactamycin (soaked), mRNA and three deacylated tRNAs in the A, P and E sites

Classification:

RIBOSOME/ANTIBIOTIC

Authors:

Polikanov, Y.S., Osterman, I.A., Szal, T., Tashlitsky, V.N., Serebryakova, M.V., Kusochek, P., Bulkley, D., Malanicheva, I.A., Efimenko, T.A., Efremenkova, O.V., Konevega, A.L., Shaw, K.J., Bogdanov, A.A., Rodnina, M.V., Dontsova, O.A., Mankin, A.S., Steitz, T.A., Sergiev, P.V.

Citation:

Amicoumacin A inhibits translation by stabilizing mRNA interaction with the ribosome
pp. - 2014

Experiment:

X-RAY DIFFRACTION Resolution:2.55Å R work:0.225R free:0.273

NDB ID:

NA3196

PDB ID:

4RBC 

Release:

2014-10-15

Title:

Crystal structure of the Thermus thermophilus 70S ribosome in complex with pactamycin (soaked), mRNA and three deacylated tRNAs in the A, P and E sites

Classification:

RIBOSOME/ANTIBIOTIC

Authors:

Polikanov, Y.S., Osterman, I.A., Szal, T., Tashlitsky, V.N., Serebryakova, M.V., Kusochek, P., Bulkley, D., Malanicheva, I.A., Efimenko, T.A., Efremenkova, O.V., Konevega, A.L., Shaw, K.J., Bogdanov, A.A., Rodnina, M.V., Dontsova, O.A., Mankin, A.S., Steitz, T.A., Sergiev, P.V.

Citation:

Amicoumacin A inhibits translation by stabilizing mRNA interaction with the ribosome
pp. - 2014

Experiment:

X-RAY DIFFRACTION Resolution:2.55Å R work:0.225R free:0.273

NDB ID:

NA3197

PDB ID:

4RBD 

Release:

2014-10-15

Title:

Crystal structure of the Thermus thermophilus 70S ribosome in complex with pactamycin (co-crystallized), mRNA and deacylated tRNA in the P site

Classification:

RIBOSOME/ANTIBIOTIC

Authors:

Polikanov, Y.S., Osterman, I.A., Szal, T., Tashlitsky, V.N., Serebryakova, M.V., Kusochek, P., Bulkley, D., Malanicheva, I.A., Efimenko, T.A., Efremenkova, O.V., Konevega, A.L., Shaw, K.J., Bogdanov, A.A., Rodnina, M.V., Dontsova, O.A., Mankin, A.S., Steitz, T.A., Sergiev, P.V.

Citation:

Amicoumacin A inhibits translation by stabilizing mRNA interaction with the ribosome
pp. - 2014

Experiment:

X-RAY DIFFRACTION Resolution:2.7Å R work:0.215R free:0.262

NDB ID:

NA3198

PDB ID:

4RBE 

Release:

2014-10-15

Title:

Crystal structure of the Thermus thermophilus 70S ribosome in complex with pactamycin (co-crystallized), mRNA and deacylated tRNA in the P site

Classification:

RIBOSOME/ANTIBIOTIC

Authors:

Polikanov, Y.S., Osterman, I.A., Szal, T., Tashlitsky, V.N., Serebryakova, M.V., Kusochek, P., Bulkley, D., Malanicheva, I.A., Efimenko, T.A., Efremenkova, O.V., Konevega, A.L., Shaw, K.J., Bogdanov, A.A., Rodnina, M.V., Dontsova, O.A., Mankin, A.S., Steitz, T.A., Sergiev, P.V.

Citation:

Amicoumacin A inhibits translation by stabilizing mRNA interaction with the ribosome
pp. - 2014

Experiment:

X-RAY DIFFRACTION Resolution:2.7Å R work:0.215R free:0.262

NDB ID:

NA3199

PDB ID:

4RBF 

Release:

2014-10-15

Title:

Crystal structure of the Thermus thermophilus 70S ribosome in complex with pactamycin (co-crystallized), mRNA and deacylated tRNA in the P site

Classification:

RIBOSOME/ANTIBIOTIC

Authors:

Polikanov, Y.S., Osterman, I.A., Szal, T., Tashlitsky, V.N., Serebryakova, M.V., Kusochek, P., Bulkley, D., Malanicheva, I.A., Efimenko, T.A., Efremenkova, O.V., Konevega, A.L., Shaw, K.J., Bogdanov, A.A., Rodnina, M.V., Dontsova, O.A., Mankin, A.S., Steitz, T.A., Sergiev, P.V.

Citation:

Amicoumacin A inhibits translation by stabilizing mRNA interaction with the ribosome
pp. - 2014

Experiment:

X-RAY DIFFRACTION Resolution:2.7Å R work:0.215R free:0.262

NDB ID:

NA3200

PDB ID:

4RBG 

Release:

2014-10-15

Title:

Crystal structure of the Thermus thermophilus 70S ribosome in complex with pactamycin (co-crystallized), mRNA and deacylated tRNA in the P site

Classification:

RIBOSOME/ANTIBIOTIC

Authors:

Polikanov, Y.S., Osterman, I.A., Szal, T., Tashlitsky, V.N., Serebryakova, M.V., Kusochek, P., Bulkley, D., Malanicheva, I.A., Efimenko, T.A., Efremenkova, O.V., Konevega, A.L., Shaw, K.J., Bogdanov, A.A., Rodnina, M.V., Dontsova, O.A., Mankin, A.S., Steitz, T.A., Sergiev, P.V.

Citation:

Amicoumacin A inhibits translation by stabilizing mRNA interaction with the ribosome
pp. - 2014

Experiment:

X-RAY DIFFRACTION Resolution:2.7Å R work:0.215R free:0.262

NDB ID:

NA3201

PDB ID:

4RBH 

Release:

2014-10-15

Title:

Crystal structure of the Thermus thermophilus 70S ribosome in complex with negamycin, mRNA and three deacylated tRNAs in the A, P and E sites

Classification:

RIBOSOME/ANTIBIOTIC

Authors:

Polikanov, Y.S., Szal, T., Jiang, F., Gupta, P., Matsuda, R., Shiozuka, M., Steitz, T.A., Vazquez-Laslop, Nora, Mankin, A.S.

Citation:

Negamycin interferes with decoding and translocation by simultaneous interaction with rRNA and tRNA
pp. - 2014

Experiment:

X-RAY DIFFRACTION Resolution:2.7Å R work:0.209R free:0.256

NDB ID:

NA3202

PDB ID:

4RBI 

Release:

2014-10-15

Title:

Crystal structure of the Thermus thermophilus 70S ribosome in complex with negamycin, mRNA and three deacylated tRNAs in the A, P and E sites

Classification:

RIBOSOME/ANTIBIOTIC

Authors:

Polikanov, Y.S., Szal, T., Jiang, F., Gupta, P., Matsuda, R., Shiozuka, M., Steitz, T.A., Vazquez-Laslop, Nora, Mankin, A.S.

Citation:

Negamycin interferes with decoding and translocation by simultaneous interaction with rRNA and tRNA
pp. - 2014

Experiment:

X-RAY DIFFRACTION Resolution:2.7Å R work:0.209R free:0.256

NDB ID:

NA3203

PDB ID:

4RBJ 

Release:

2014-10-15

Title:

Crystal structure of the Thermus thermophilus 70S ribosome in complex with negamycin, mRNA and three deacylated tRNAs in the A, P and E sites

Classification:

RIBOSOME/ANTIBIOTIC

Authors:

Polikanov, Y.S., Szal, T., Jiang, F., Gupta, P., Matsuda, R., Shiozuka, M., Steitz, T.A., Vazquez-Laslop, Nora, Mankin, A.S.

Citation:

Negamycin interferes with decoding and translocation by simultaneous interaction with rRNA and tRNA
pp. - 2014

Experiment:

X-RAY DIFFRACTION Resolution:2.7Å R work:0.209R free:0.256

NDB ID:

NA3204

PDB ID:

4RBK 

Release:

2014-10-15

Title:

Crystal structure of the Thermus thermophilus 70S ribosome in complex with negamycin, mRNA and three deacylated tRNAs in the A, P and E sites

Classification:

RIBOSOME/ANTIBIOTIC

Authors:

Polikanov, Y.S., Szal, T., Jiang, F., Gupta, P., Matsuda, R., Shiozuka, M., Steitz, T.A., Vazquez-Laslop, Nora, Mankin, A.S.

Citation:

Negamycin interferes with decoding and translocation by simultaneous interaction with rRNA and tRNA
pp. - 2014

Experiment:

X-RAY DIFFRACTION Resolution:2.7Å R work:0.209R free:0.256

NDB ID:

NA3057

PDB ID:

4QM6 

Release:

2014-10-08

Title:

Structure of bacterial polynucleotide kinase bound to GTP and RNA

Classification:

TRANSFERASE/RNA

Authors:

Das, U., Wang, L.K., Smith, P., Munir, A., Shuman, S.

Citation:

Structures of bacterial polynucleotide kinase in a Michaelis complex with NTPMg2+ and 5'-OH RNA and a mixed substrate-product complex with NTPMg2+ and a 5'-phosphorylated oligonucleotide.
J.Bacteriol. pp. - 2014

Experiment:

X-RAY DIFFRACTION Resolution:1.5Å R work:0.153R free:0.174

Equivalence Class: 

NR_all_18022.1 

Eq. Class Rep:

4QM6

NDB ID:

2MNC

PDB ID:

2MNC 

Release:

2014-10-01

Title:

oligonucleotide model of miR-21 pre-element

Classification:

RNA

Authors:

Chirayil, S., Wu, Q., Amezcua, C., Luebke, K.J.

Citation:

NMR Characterization of an Oligonucleotide Model of the MiR-21 Pre-Element.
Plos One 9 pp.e108231 - e108231 2014

Experiment:

SOLUTION NMR

Equivalence Class: 

NR_all_26675.1 

Eq. Class Rep:

2MNC

NDB ID:

NA3049

PDB ID:

4QJS 

Release:

2014-10-01

Title:

Crystal structure of Elongation Factor 4 (EF4/LepA) bound to the Thermus thermophilus 70S ribosome, 50S subunit of the 70S ribosome

Classification:

ribosome

Authors:

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

Citation:

Ribosome structure. Crystal structure of elongation factor 4 bound to a clockwise ratcheted ribosome.
Science 345 pp.684 - 687 2014

Experiment:

X-RAY DIFFRACTION Resolution:2.9Å R work:0.238R free:0.303

Equivalence Class: 

NR_all_86444.21 

Eq. Class Rep:

4QCN

NDB ID:

NA3056

PDB ID:

4QJT 

Release:

2014-10-01

Title:

Crystal structure of Elongation Factor 4 (EF4/LepA) bound to the Thermus thermophilus 70S ribosome, 30S subunit of the 70S ribosome

Classification:

ribosome

Authors:

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

Citation:

Ribosome structure. Crystal structure of elongation factor 4 bound to a clockwise ratcheted ribosome.
Science 345 pp.684 - 687 2014

Experiment:

X-RAY DIFFRACTION Resolution:2.9Å R work:0.239R free:0.302

Equivalence Class: 

NR_all_42982.32 

Eq. Class Rep:

1FJG

NDB ID:

NA3108

PDB ID:

4R0D 

Release:

2014-10-01

Title:

Crystal structure of a eukaryotic group II intron lariat

Classification:

RNA

Authors:

Robart, A.R., Chan, R.T., Peters, J.K., Rajashankar, K.R., Toor, N.

Citation:

Crystal structure of a eukaryotic group II intron lariat.
Nature 514 pp.193 - 197 2014

Experiment:

X-RAY DIFFRACTION Resolution:3.676Å R work:0.238R free:0.273

Equivalence Class: 

NR_all_28257.1 

Eq. Class Rep:

4R0D

NDB ID:

NA3181

PDB ID:

4W2A 

Release:

2014-10-01

Title:

Crystal structure of the peptolide 12C bound to bacterial ribosome

Classification:

Ribosome/Ribosome inhibitor

Authors:

Washington, A.Z., Benicewicz, D.B., Canzoneri, J.C., Fagan, C.E., Mwakwari, S.C., Maehigashi, T., Dunham, C.M., Oyelere, A.K.

Citation:

Macrolide-Peptide Conjugates as Probes of the Path of Travel of the Nascent Peptides through the Ribosome.
Acs Chem.Biol. pp. - 2014

Experiment:

X-RAY DIFFRACTION Resolution:3.6Å R work:0.222R free:0.254

Equivalence Class: 

NR_all_42982.32 

Eq. Class Rep:

1FJG

NDB ID:

NA3182

PDB ID:

4W2B 

Release:

2014-10-01

Title:

Crystal structure of the peptolide 12C bound to bacterial ribosome

Classification:

Ribosome/Ribosome inhibitor

Authors:

Washington, A.Z., Benicewicz, D.B., Canzoneri, J.C., Fagan, C.E., Mwakwari, S.C., Maehigashi, T., Dunham, C.M., Oyelere, A.K.

Citation:

Macrolide-Peptide Conjugates as Probes of the Path of Travel of the Nascent Peptides through the Ribosome.
Acs Chem.Biol. pp. - 2014

Experiment:

X-RAY DIFFRACTION Resolution:3.6Å R work:0.222R free:0.254

Equivalence Class: 

NR_all_86444.21 

Eq. Class Rep:

4QCN

NDB ID:

NA3183

PDB ID:

4W2D 

Release:

2014-10-01

Title:

Crystal structure of the peptolide 12C bound to bacterial ribosome

Classification:

Ribosome/Ribosome inhibitor

Authors:

Washington, A.Z., Benicewicz, D.B., Canzoneri, J.C., Fagan, C.E., Mwakwari, S.C., Maehigashi, T., Dunham, C.M., Oyelere, A.K.

Citation:

Macrolide-Peptide Conjugates as Probes of the Path of Travel of the Nascent Peptides through the Ribosome.
Acs Chem.Biol. pp. - 2014

Experiment:

X-RAY DIFFRACTION Resolution:3.6Å R work:0.222R free:0.254

Equivalence Class: 

NR_all_86444.21 

Eq. Class Rep:

4QCN

NDB ID:

NA3188

PDB ID:

4W2C 

Release:

2014-10-01

Title:

Crystal structure of the peptolide 12C bound to bacterial ribosome

Classification:

Ribosome/Ribosome inhibitor

Authors:

Washington, A.Z., Benicewicz, D.B., Canzoneri, J.C., Fagan, C.E., Mwakwari, S.C., Maehigashi, T., Dunham, C.M., Oyelere, A.K.

Citation:

Macrolide-Peptide Conjugates as Probes of the Path of Travel of the Nascent Peptides through the Ribosome.
Acs Chem.Biol. pp. - 2014

Experiment:

X-RAY DIFFRACTION Resolution:3.6Å R work:0.222R free:0.254

Equivalence Class: 

NR_all_42982.32 

Eq. Class Rep:

1FJG

NDB ID:

NA2700

PDB ID:

4MCE 

Release:

2014-09-24

Title:

Crystal structure of the Gas5 GRE Mimic

Classification:

RNA

Authors:

Hudson, W.H., Ortlund, E.A.

Citation:

Conserved, sequence-specific lincRNA-protein interactions drive transcriptional repression and direct cell fate
To be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.205Å R work:0.18R free:0.258

Equivalence Class: 

NR_all_56477.1 

Eq. Class Rep:

4MCE

NDB ID:

NA2883

PDB ID:

4OE1 

Release:

2014-09-24

Title:

Crystal structure of the pentatricopeptide repeat protein PPR10 (C256S/C430S/C449S) in complex with an 18-nt PSAJ rna element

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Li, Q., Yan, C., Xu, H., Wang, Z., Long, J., Li, W., Wu, J., Yin, P., Yan, N.

Citation:

Examination of the Dimerization States of the Single-stranded RNA-recognition Protein PPR10
J.Biol.Chem. pp. - 2014

Experiment:

X-RAY DIFFRACTION Resolution:2.8Å R work:0.262R free:0.277

Equivalence Class: 

NR_all_44989.1 

Eq. Class Rep:

4M59

NDB ID:

2MQV

PDB ID:

2MQV 

Release:

2014-09-17

Title:

Solution NMR structure of the U5-primer binding site (U5-PBS) domain of murine leukemia virus RNA genome bound to the retroviral nucleocapsid protein

Classification:

VIRAL PROTEIN/RNA

Authors:

Miller, S.B., Yildiz, F.Z., Lo, J.A., Wang, B., D'Souza, V.M.

Citation:

A structure-based mechanism for tRNA and retroviral RNA remodelling during primer annealing.
Nature pp. - 2014

Experiment:

SOLUTION NMR

Equivalence Class: 

NR_all_94123.1 

Eq. Class Rep:

2MQV

NDB ID:

2MS0

PDB ID:

2MS0 

Release:

2014-09-17

Title:

Solution NMR structure pf tRNApro:MLV-Nucleocapsid (1:2) Complex

Classification:

VIRAL PROTEIN/RNA

Authors:

Miller, S.B., Yildiz, F.Z., Lo, J.A., Wang, B., D'Souza, V.M.

Citation:

A structure-based mechanism for tRNA and retroviral RNA remodelling during primer annealing.
Nature pp. - 2014

Experiment:

SOLUTION NMR

Equivalence Class: 

NR_all_88007.1 

Eq. Class Rep:

2MS0

NDB ID:

NA3143

PDB ID:

4R3I 

Release:

2014-09-17

Title:

The crystal structure of an RNA complex

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Xu, C., Liu, K., Tempel, W., Li, Y., Bountra, C., Arrowsmith, C.H., Edwards, A.M., Min, J., Structural Genomics Consortium (SGC)

Citation:

Structural Basis for selective binding of m6A RNA by the YTHDC1 YTH domain
To be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.8Å R work:0.203R free:0.263

Equivalence Class: 

NR_all_54115.1 

Eq. Class Rep:

4R3I

NDB ID:

2MQT

PDB ID:

2MQT 

Release:

2014-09-10

Title:

Solution NMR structure of the U5-primer binding site (U5-PBS) domain of murine leukemia virus RNA genome

Classification:

RNA

Authors:

Miller, S.B., Yildiz, F.Z., Lo, J.A., Wang, B., D'Souza, V.M.

Citation:

A structure-based mechanism for tRNA and retroviral RNA remodelling during primer annealing.
Nature pp. - 2014

Experiment:

SOLUTION NMR

Equivalence Class: 

NR_all_04415.1 

Eq. Class Rep:

2MQT

NDB ID:

2MS1

PDB ID:

2MS1 

Release:

2014-09-10

Title:

Solution NMR structure of tRNApro:MLV Nucleocapsid Protein (1:1) Complex

Classification:

VIRAL PROTEIN/RNA

Authors:

Miller, S.B., Yildiz, F.Z., Lo, J.A., Wang, B., D'Souza, V.M.

Citation:

A structure-based mechanism for tRNA and retroviral RNA remodelling during primer annealing.
Nature pp. - 2014

Experiment:

SOLUTION NMR

Equivalence Class: 

NR_all_90932.1 

Eq. Class Rep:

2MS1

NDB ID:

NA2778

PDB ID:

4NL3 

Release:

2014-09-10

Title:

Crystal Structure of Listeria monocytogenes Hfq in complex with U6 RNA

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Kovach, A.R., Hoff, K.E., Canty, J.T., Orans, J., Brennan, R.G.

Citation:

Recognition of U-rich RNA by Hfq from the Gram-positive pathogen Listeria monocytogenes.
Rna pp. - 2014

Experiment:

X-RAY DIFFRACTION Resolution:3.1Å R work:0.221R free:0.282

Equivalence Class: 

NR_all_25221.1 

Eq. Class Rep:

4NL3

NDB ID:

NA2789

PDB ID:

4NIA 

Release:

2014-09-10

Title:

Satellite Tobacco Mosaic Virus Refined at room temperature to 1.8 A Resolution using NCS Restraints

Classification:

VIRUS/RNA

Authors:

Larson, S.B., Day, J.S., McPherson, A.

Citation:

Satellite tobacco mosaic virus refined to 1.4 AA resolution
Acta Crystallogr.,Sect.D pp. - 2014

Experiment:

X-RAY DIFFRACTION Resolution:1.82Å R work:0.123R free:0.156

Equivalence Class: 

NR_all_91301.3 

Eq. Class Rep:

1RRR

NDB ID:

NA2857

PDB ID:

4O8J 

Release:

2014-09-10

Title:

Crystal structure of RtcA, the RNA 3'-terminal phosphate cyclase from Pyrococcus horikoshii, in complex with rACAAA3'phosphate and adenine.

Classification:

Ligase/RNA

Authors:

Desai, K.K., Bingman, C.A., Cheng, C.L., Phillips, G.N., Raines, R.T.

Citation:

Structure of RNA 3'-phosphate cyclase bound to substrate RNA.
Rna pp. - 2014

Experiment:

X-RAY DIFFRACTION Resolution:2.04Å R work:0.158R free:0.198

Equivalence Class: 

NR_all_64813.1 

Eq. Class Rep:

4O8J

NDB ID:

NA2915

PDB ID:

4OQ8 

Release:

2014-09-10

Title:

Satellite Tobacco Mosaic Virus Refined to 1.4 A Resolution using icosahedral constraints

Classification:

VIRUS/RNA

Authors:

Larson, S.B., Day, J.S., McPherson, A.

Citation:

Satellite tobacco mosaic virus refined to 1.4 AA resolution
Acta Crystallogr.,Sect.D pp. - 2014

Experiment:

X-RAY DIFFRACTION Resolution:1.45Å R work:0.277R free:0.279

Equivalence Class: 

NR_all_91301.3 

Eq. Class Rep:

1RRR

NDB ID:

NA2916

PDB ID:

4OQ9 

Release:

2014-09-10

Title:

Satellite Tobacco Mosaic Virus Refined to 1.4 A Resolution using non-crystallographic symmetry restraints

Classification:

VIRUS/RNA

Authors:

Larson, S.B., Day, J.S., McPherson, A.

Citation:

Satellite tobacco mosaic virus refined to 1.4 AA resolution
Acta Crystallogr.,Sect.D pp. - 2014

Experiment:

X-RAY DIFFRACTION Resolution:1.45Å R work:0.216R free:0.249

Equivalence Class: 

NR_all_91301.3 

Eq. Class Rep:

1RRR

NDB ID:

4CIO

PDB ID:

4CIO 

Release:

2014-09-03

Title:

RRM domain from C. elegans SUP-12 bound to GGUGUGC RNA

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Amrane, S., Rebora, K., Zniber, I., Dupuy, D., Mackereth, C.D.

Citation:

Backbone-Independent Nucleic Acid Binding by Splicing Factor Sup-12 Reveals Key Aspects of Molecular Recognition
Nat.Commun. 5 pp.4595 - 2014

Experiment:

SOLUTION NMR

Equivalence Class: 

NR_all_29280.1 

Eq. Class Rep:

4CIO

NDB ID:

NA3053

PDB ID:

4QJD 

Release:

2014-09-03

Title:

Crystal Structure of Twister with the Nucleotide 5'- to the Cleavage Site Disordered at 3.1 A Resolution

Classification:

RNA

Authors:

Eiler, D., Wang, J., Steitz, T.A.

Citation:

Structural basis for the fast self-cleavage reaction catalyzed by the twister ribozyme.
Proc.Natl.Acad.Sci.USA 111 pp.13028 - 13033 2014

Experiment:

X-RAY DIFFRACTION Resolution:3.1Å R work:0.19R free:0.287

Equivalence Class: 

NR_all_87049.1 

Eq. Class Rep:

4QJD

NDB ID:

NA3054

PDB ID:

4QJH 

Release:

2014-09-03

Title:

Crystal Structure of the Twister Ribozyme with the Nucleotide 5'- to the Cleavage Site Ordered at 4.1 A Resolution

Classification:

RNA

Authors:

Eiler, D., Wang, J., Steitz, T.A.

Citation:

Structural basis for the fast self-cleavage reaction catalyzed by the twister ribozyme.
Proc.Natl.Acad.Sci.USA 111 pp.13028 - 13033 2014

Experiment:

X-RAY DIFFRACTION Resolution:3.88Å R work:0.185R free:0.232

Equivalence Class: 

NR_all_44266.1 

Eq. Class Rep:

4QJH

NDB ID:

NA3085

PDB ID:

4QYZ 

Release:

2014-09-03

Title:

Crystal structure of a CRISPR RNA-guided surveillance complex, Cascade, bound to a ssDNA target

Classification:

IMMUNE SYSTEM/DNA/RNA

Authors:

Mulepati, S., Heroux, A., Bailey, S.

Citation:

Crystal structure of a CRISPR RNA-guided surveillance complex bound to a ssDNA target.
Science pp. - 2014

Experiment:

X-RAY DIFFRACTION Resolution:3.0303Å R work:0.223R free:0.267

Equivalence Class: 

NR_all_18946.1 

Eq. Class Rep:

4QYZ

NDB ID:

NA3127

PDB ID:

4QQB 

Release:

2014-09-03

Title:

Structural basis for the assembly of the SXL-UNR translation regulatory complex

Classification:

TRANLATION/RNA

Authors:

Hennig, J., Militti, C., Popowicz, G.M., Wang, I., Sonntag, M., Geerlof, A., Gabel, F., Gebauer, F., Sattler, M.

Citation:

Structural basis for the assembly of the Sxl-Unr translation regulatory complex.
Nature pp. - 2014

Experiment:

X-RAY DIFFRACTION Resolution:2.8Å R work:0.198R free:0.235

Equivalence Class: 

NR_all_53334.1 

Eq. Class Rep:

4QQB

NDB ID:

NA2995

PDB ID:

4QCN 

Release:

2014-08-20

Title:

Crystal structure of the Thermus thermophilus 70S ribosome in the pre-attack state of peptide bond formation containing acylated tRNA- substrates in the A and P sites. This entry contains the 50S subunit of the first 70S ribosome in the ASU.

Classification:

RIBOSOME

Authors:

Polikanov, Y.S., Steitz, T.A., Innis, C.A.

Citation:

A proton wire to couple aminoacyl-tRNA accommodation and peptide-bond formation on the ribosome.
Nat.Struct.Mol.Biol. 21 pp.787 - 793 2014

Experiment:

X-RAY DIFFRACTION Resolution:2.6Å R work:0.222R free:0.263

Equivalence Class: 

NR_all_86444.21 

Eq. Class Rep:

4QCN

NDB ID:

NA2996

PDB ID:

4QCM 

Release:

2014-08-20

Title:

Crystal structure of the Thermus thermophilus 70S ribosome in the pre-attack state of peptide bond formation containing acylated tRNA-substrates in the A and P sites. This entry contains the 30S subunit of the first 70S ribosome in the ASU.

Classification:

RIBOSOME

Authors:

Polikanov, Y.S., Steitz, T.A., Innis, C.A.

Citation:

A proton wire to couple aminoacyl-tRNA accommodation and peptide-bond formation on the ribosome.
Nat.Struct.Mol.Biol. 21 pp.787 - 793 2014

Experiment:

X-RAY DIFFRACTION Resolution:2.6Å R work:0.222R free:0.263

Equivalence Class: 

NR_all_42982.32 

Eq. Class Rep:

1FJG

NDB ID:

NA2997

PDB ID:

4QCO 

Release:

2014-08-20

Title:

Crystal structure of the Thermus thermophilus 70S ribosome in the pre-attack state of peptide bond formation containing acylated tRNA-substrates in the A and P sites. This entry contains the 30S subunit of the second 70S ribosome in the ASU.

Classification:

RIBOSOME

Authors:

Polikanov, Y.S., Steitz, T.A., Innis, C.A.

Citation:

A proton wire to couple aminoacyl-tRNA accommodation and peptide-bond formation on the ribosome.
Nat.Struct.Mol.Biol. 21 pp.787 - 793 2014

Experiment:

X-RAY DIFFRACTION Resolution:2.6Å R work:0.222R free:0.263

Equivalence Class: 

NR_all_42982.32 

Eq. Class Rep:

1FJG

NDB ID:

NA3006

PDB ID:

4QCP 

Release:

2014-08-20

Title:

Crystal structure of the Thermus thermophilus 70S ribosome in the pre-attack state of peptide bond formation containing acylated tRNA-substrates in the A and P sites. This entry contains the 50S subunit of the second 70S ribosome in the ASU.

Classification:

RIBOSOME

Authors:

Polikanov, Y.S., Steitz, T.A., Innis, C.A.

Citation:

A proton wire to couple aminoacyl-tRNA accommodation and peptide-bond formation on the ribosome.
Nat.Struct.Mol.Biol. 21 pp.787 - 793 2014

Experiment:

X-RAY DIFFRACTION Resolution:2.6Å R work:0.222R free:0.263

Equivalence Class: 

NR_all_86444.21 

Eq. Class Rep:

4QCN

NDB ID:

NA3007

PDB ID:

4QCQ 

Release:

2014-08-20

Title:

Crystal structure of the Thermus thermophilus 70S ribosome in the post-catalysis state of peptide bond formation containing dipeptydil-tRNA in the A site and deacylated tRNA in the P site. This entry contains the 50S subunit of the first 70S ribosome in the ASU.

Classification:

RIBOSOME

Authors:

Polikanov, Y.S., Steitz, T.A., Innis, C.A.

Citation:

A proton wire to couple aminoacyl-tRNA accommodation and peptide-bond formation on the ribosome.
Nat.Struct.Mol.Biol. 21 pp.787 - 793 2014

Experiment:

X-RAY DIFFRACTION Resolution:2.55Å R work:0.232R free:0.279

Equivalence Class: 

NR_all_42982.32 

Eq. Class Rep:

1FJG

NDB ID:

NA3008

PDB ID:

4QCS 

Release:

2014-08-20

Title:

Crystal structure of the Thermus thermophilus 70S ribosome in the post-catalysis state of peptide bond formation containing dipeptydil-tRNA in the A site and deacylated tRNA in the P site. This entry contains the 30S subunit of the second 70S ribosome in the ASU.

Classification:

RIBOSOME

Authors:

Polikanov, Y.S., Steitz, T.A., Innis, C.A.

Citation:

A proton wire to couple aminoacyl-tRNA accommodation and peptide-bond formation on the ribosome.
Nat.Struct.Mol.Biol. 21 pp.787 - 793 2014

Experiment:

X-RAY DIFFRACTION Resolution:2.55Å R work:0.232R free:0.279

Equivalence Class: 

NR_all_42982.32 

Eq. Class Rep:

1FJG

NDB ID:

NA3009

PDB ID:

4QCT 

Release:

2014-08-20

Title:

Crystal structure of the Thermus thermophilus 70S ribosome in the post-catalysis state of peptide bond formation containing dipeptydil-tRNA in the A site and deacylated tRNA in the P site. This entry contains the 50S subunit of the second 70S ribosome in the ASU.

Classification:

RIBOSOME

Authors:

Polikanov, Y.S., Steitz, T.A., Innis, C.A.

Citation:

A proton wire to couple aminoacyl-tRNA accommodation and peptide-bond formation on the ribosome.
Nat.Struct.Mol.Biol. 21 pp.787 - 793 2014

Experiment:

X-RAY DIFFRACTION Resolution:2.55Å R work:0.232R free:0.279

Equivalence Class: 

NR_all_86444.21 

Eq. Class Rep:

4QCN