A Portal for Three-dimensional Structural Information about Nucleic Acids
As of 05-Mar-2014 number of released structures: 7076
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Polymer Type: All + RNA Type: All + Protein Function: All + Experimental Method: All + RNA Sequence Type: All RNA Sequence

Results: 2717   (Gallery view)

NDB ID:

 2M4W

PDB ID:

2M4W 

Release:

2014-03-05

Title:

single G-bulge in a conserved regulatory region of the HEV genome

Classification:

RNA

Authors:

Lescrinier, E.

Citation:

Binding of a naphtyridine analogue to the single G-bulge in a conserved regulatory region of the HEV genome
To be Published pp. - 0

Experiment:

 SOLUTION NMR

NDB ID:

 NA2290

PDB ID:

4JGN 

Release:

2014-03-05

Title:

Crystal structure of RNA silencing suppressor p19 with 1nt-5'-overhanging double-helical RNA 20mer pUUG(CUG)5CU

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Katorcha, E., Tamjar, J., Popov, A.N., Malinina, L.

Citation:

Procrustean bed of RNA silencing suppression
To be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:1.86Å R work:0.183R free:0.21

NDB ID:

 NA2481

PDB ID:

4L0A 

Release:

2014-03-05

Title:

X-ray structure of an all LNA quadruplex

Classification:

DNA, RNA

Authors:

Russo Krauss, I., Parkinson, G.N., Merlino, A., Mattia, C.A., Randazzo, A., Novellino, E., Mazzarella, L., Sica, F.

Citation:

A regular thymine tetrad and a peculiar supramolecular assembly in the first crystal structure of an all-LNA G-quadruplex.
Acta Crystallogr.,Sect.D 70 pp.362 - 370 2014

Experiment:

 X-RAY DIFFRACTION Resolution:1.7Å R work:0.159R free:0.18

NDB ID:

 NA2753

PDB ID:

4NGB 

Release:

2014-03-05

Title:

Structure of human Dicer Platform-PAZ-Connector Helix cassette in complex with 12-mer siRNA having UU-3' ends (2.25 Angstrom resolution)

Classification:

HYDROLASE/RNA

Authors:

Tian, Y., Simanshu, D.K., Ma, J.B., Park, J.E., Heo, I., Kim, V.N., Patel, D.J.

Citation:

A Phosphate-Binding Pocket within the Platform-PAZ-Connector Helix Cassette of Human Dicer.
Mol.Cell pp. - 2014

Experiment:

 X-RAY DIFFRACTION Resolution:2.25Å R work:0.182R free:0.219

NDB ID:

 NA2754

PDB ID:

4NGC 

Release:

2014-03-05

Title:

Structure of human Dicer Platform-PAZ-Connector Helix cassette in complex with 12-mer siRNA having UA-3' ends (2.1 Angstrom resolution)

Classification:

HYDROLASE/RNA

Authors:

Tian, Y., Simanshu, D.K., Ma, J.B., Park, J.E., Heo, I., Kim, V.N., Patel, D.J.

Citation:

A Phosphate-Binding Pocket within the Platform-PAZ-Connector Helix Cassette of Human Dicer.
Mol.Cell pp. - 2014

Experiment:

 X-RAY DIFFRACTION Resolution:2.104Å R work:0.171R free:0.202

NDB ID:

 NA2755

PDB ID:

4NGD 

Release:

2014-03-05

Title:

Structure of human Dicer Platform-PAZ-Connector Helix cassette in complex with 12-mer siRNA having 5'-p and UU-3' ends (1.95 Angstrom resolution)

Classification:

HYDROLASE/RNA

Authors:

Tian, Y., Simanshu, D.K., Ma, J.B., Park, J.E., Heo, I., Kim, V.N., Patel, D.J.

Citation:

A Phosphate-Binding Pocket within the Platform-PAZ-Connector Helix Cassette of Human Dicer.
Mol.Cell pp. - 2014

Experiment:

 X-RAY DIFFRACTION Resolution:1.958Å R work:0.177R free:0.204

NDB ID:

 NA2756

PDB ID:

4NGF 

Release:

2014-03-05

Title:

Structure of human Dicer Platform-PAZ-Connector Helix cassette in complex with 17-mer siRNA having 5'-p and UU-3' ends (3.1 Angstrom resolution)

Classification:

HYDROLASE/RNA

Authors:

Tian, Y., Simanshu, D.K., Ma, J.B., Park, J.E., Heo, I., Kim, V.N., Patel, D.J.

Citation:

A Phosphate-Binding Pocket within the Platform-PAZ-Connector Helix Cassette of Human Dicer.
Mol.Cell pp. - 2014

Experiment:

 X-RAY DIFFRACTION Resolution:3.101Å R work:0.223R free:0.27

NDB ID:

 NA2757

PDB ID:

4NGG 

Release:

2014-03-05

Title:

Structure of human Dicer Platform-PAZ-Connector Helix cassette in complex with 13-mer siRNA having 5'-A and UU-3' ends (2.6 Angstrom resolution)

Classification:

HYDROLASE/RNA

Authors:

Tian, Y., Simanshu, D.K., Ma, J.B., Park, J.E., Heo, I., Kim, V.N., Patel, D.J.

Citation:

A Phosphate-Binding Pocket within the Platform-PAZ-Connector Helix Cassette of Human Dicer.
Mol.Cell pp. - 2014

Experiment:

 X-RAY DIFFRACTION Resolution:2.6Å R work:0.186R free:0.239

NDB ID:

 NA2758

PDB ID:

4NH3 

Release:

2014-03-05

Title:

Structure of human Dicer Platform-PAZ-Connector Helix cassette in complex with 13-mer siRNA having 5'-pU and UU-3' ends (2.6 Angstrom resolution)

Classification:

HYDROLASE/RNA

Authors:

Tian, Y., Simanshu, D.K., Ma, J.B., Park, J.E., Heo, I., Kim, V.N., Patel, D.J.

Citation:

A Phosphate-Binding Pocket within the Platform-PAZ-Connector Helix Cassette of Human Dicer.
Mol.Cell pp. - 2014

Experiment:

 X-RAY DIFFRACTION Resolution:2.616Å R work:0.195R free:0.283

NDB ID:

 NA2759

PDB ID:

4NH5 

Release:

2014-03-05

Title:

Structure of human Dicer Platform-PAZ-Connector Helix cassette in complex with 14-mer siRNA having 5'-pUU and UU-3' ends (2.55 Angstrom resolution)

Classification:

HYDROLASE/RNA

Authors:

Tian, Y., Simanshu, D.K., Ma, J.B., Park, J.E., Heo, I., Kim, V.N., Patel, D.J.

Citation:

A Phosphate-Binding Pocket within the Platform-PAZ-Connector Helix Cassette of Human Dicer.
Mol.Cell pp. - 2014

Experiment:

 X-RAY DIFFRACTION Resolution:2.55Å R work:0.211R free:0.273

NDB ID:

 NA2760

PDB ID:

4NH6 

Release:

2014-03-05

Title:

Structure of human Dicer Platform-PAZ-Connector Helix cassette in complex with 15-mer siRNA having 5'-pUUU and UU-3' ends (2.55 Angstrom resolution)

Classification:

HYDROLASE/RNA

Authors:

Tian, Y., Simanshu, D.K., Ma, J.B., Park, J.E., Heo, I., Kim, V.N., Patel, D.J.

Citation:

A Phosphate-Binding Pocket within the Platform-PAZ-Connector Helix Cassette of Human Dicer.
Mol.Cell pp. - 2014

Experiment:

 X-RAY DIFFRACTION Resolution:2.551Å R work:0.193R free:0.245

NDB ID:

 NA2761

PDB ID:

4NHA 

Release:

2014-03-05

Title:

Structure of human Dicer Platform-PAZ-Connector Helix cassette in complex with 16-mer siRNA having 5'-p and UU-3' ends (3.4 Angstrom resolution)

Classification:

HYDROLASE/RNA

Authors:

Tian, Y., Simanshu, D.K., Ma, J.B., Park, J.E., Heo, I., Kim, V.N., Patel, D.J.

Citation:

A Phosphate-Binding Pocket within the Platform-PAZ-Connector Helix Cassette of Human Dicer.
Mol.Cell pp. - 2014

Experiment:

 X-RAY DIFFRACTION Resolution:3.401Å R work:0.276R free:0.317

NDB ID:

 NA2899

PDB ID:

4OL8 

Release:

2014-03-05

Title:

Ty3 reverse transcriptase bound to DNA/RNA

Classification:

TRANSFERASE, HYDROLASE/RNA/DNA

Authors:

Nowak, E., Miller, J.T., Bona, M.K., Studnicka, J., Szczepanowski, R.H., Jurkowski, J., Le Grice, S.F.J., Nowotny, M.

Citation:

Ty3 reverse transcriptase complexed with an RNA-DNA hybrid shows structural and functional asymmetry
Nat.Struct.Mol.Biol. pp. - 2014

Experiment:

 X-RAY DIFFRACTION Resolution:3.1Å R work:0.226R free:0.295

NDB ID:

 2M57

PDB ID:

2M57 

Release:

2014-02-26

Title:

NMR solution structure of domain 5 from Azotobacter vinelandii Intron 5 at pH 7.8

Classification:

RNA

Authors:

Pechlaner, M., Donghi, D., Zelenay, V., Sigel, R.K.O.

Citation:

Acid-base equilibria near neutral pH in the catalytic triad and the bulge of domain 5 of a bacterial group II intron
To be Published pp. - 0

Experiment:

 SOLUTION NMR

Equivalence Class: 

NR_all_91783.1 

Eq. Class Rep:

2M57

NDB ID:

 2MFC

PDB ID:

2MFC 

Release:

2014-02-26

Title:

Csr/Rsm protein-RNA recognition - A molecular affinity ruler: RsmZ(SL1)/RsmE(dimer) 2:1 complex

Classification:

TRANSLATION/RNA

Authors:

Duss, O., Michel, E., Diarra Dit Konte, N., Schubert, M., Allain, F.H.-T.

Citation:

Molecular basis for the wide-range of affinity found in Csr/Rsm protein-RNA recognition
Nucleic Acids Res. pp. - 2014

Experiment:

 SOLUTION NMR

Equivalence Class: 

NR_all_19916.1 

Eq. Class Rep:

2MFC

NDB ID:

 2MFE

PDB ID:

2MFE 

Release:

2014-02-26

Title:

Csr/Rsm protein-RNA recognition - A molecular affinity ruler: RsmZ(SL2)/RsmE(dimer) 2:1 complex

Classification:

TRANSLATION/RNA

Authors:

Duss, O., Michel, E., Diarra Dit Konte, N., Schubert, M., Allain, F.H.-T.

Citation:

Molecular basis for the wide-range of affinity found in Csr/Rsm protein-RNA recognition
Nucleic Acids Res. pp. - 2014

Experiment:

 SOLUTION NMR

Equivalence Class: 

NR_all_78512.1 

Eq. Class Rep:

2MFE

NDB ID:

 2MFF

PDB ID:

2MFF 

Release:

2014-02-26

Title:

Csr/Rsm protein-RNA recognition - A molecular affinity ruler: RsmZ(SL3)/RsmE(dimer) 2:1 complex

Classification:

TRANSLATION/RNA

Authors:

Duss, O., Michel, E., Diarra Dit Konte, N., Schubert, M., Allain, F.H.-T.

Citation:

Molecular basis for the wide-range of affinity found in Csr/Rsm protein-RNA recognition
Nucleic Acids Res. pp. - 2014

Experiment:

 SOLUTION NMR

Equivalence Class: 

NR_all_89143.1 

Eq. Class Rep:

2MFF

NDB ID:

 2MFG

PDB ID:

2MFG 

Release:

2014-02-26

Title:

Csr/Rsm protein-RNA recognition - A molecular affinity ruler: RsmZ(SL4)/RsmE(dimer) 2:1 complex

Classification:

TRANSLATION/RNA

Authors:

Duss, O., Michel, E., Diarra Dit Konte, N., Schubert, M., Allain, F.H.-T.

Citation:

Molecular basis for the wide-range of affinity found in Csr/Rsm protein-RNA recognition
Nucleic Acids Res. pp. - 2014

Experiment:

 SOLUTION NMR

Equivalence Class: 

NR_all_67831.1 

Eq. Class Rep:

2MFG

NDB ID:

 2MFH

PDB ID:

2MFH 

Release:

2014-02-26

Title:

Csr/Rsm protein-RNA recognition - A molecular affinity ruler: RsmZ(36-44)/RsmE(dimer) 2:1 complex

Classification:

TRANSLATION/RNA

Authors:

Duss, O., Michel, E., Diarra Dit Konte, N., Schubert, M., Allain, F.H.-T.

Citation:

Molecular basis for the wide-range of affinity found in Csr/Rsm protein-RNA recognition
Nucleic Acids Res. pp. - 2014

Experiment:

 SOLUTION NMR

Equivalence Class: 

NR_all_80176.1 

Eq. Class Rep:

2MFH

NDB ID:

 NA2910

PDB ID:

4OO8 

Release:

2014-02-26

Title:

Crystal structure of Streptococcus pyogenes Cas9 in complex with guide RNA and target DNA

Classification:

Hydrolase/DNA/RNA

Authors:

Nishimasu, H., Ran, F.A., Hsu, P.D., Konermann, S., Shehata, S.I., Dohmae, N., Ishitani, R., Zhang, F., Nureki, O.

Citation:

Crystal Structure of Cas9 in Complex with Guide RNA and Target DNA
Cell(Cambridge,Mass.) pp. - 2014

Experiment:

 X-RAY DIFFRACTION Resolution:2.5Å R work:0.221R free:0.253

Equivalence Class: 

NR_all_56110.1 

Eq. Class Rep:

4OO8

NDB ID:

 NA2243

PDB ID:

4J5V 

Release:

2014-02-12

Title:

Crystal structure of p19 in complex with double-helical RNA 19mer p(CAG)3C(CCG)3

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Tamjar, J., Katorcha, E., Cabo, A., Delgado, S., Popov, A.N., Malinina, L.

Citation:

Structural insights into CNG-repetitive RNAs associated with human Trinucleotide Repeat Expansion Diseases (TREDs)
To be published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.15Å R work:0.171R free:0.214

Equivalence Class: 

NR_all_85488.1 

Eq. Class Rep:

4J5V

NDB ID:

 NA2624

PDB ID:

4LQ3 

Release:

2014-02-12

Title:

Crystal structure of human norovirus RNA-dependent RNA-polymerase bound to the inhibitor PPNDS

Classification:

VIRAL PROTEIN/REPLICATION INHIBITOR/RNA

Authors:

Tarantino, D., Pezzullo, M., Mastrangelo, E., Croci, R., Rohayem, J., Robel, I., Bolognesi, M., Milani, M.

Citation:

Naphthalene-sulfonate inhibitors of human norovirus RNA-dependent RNA-polymerase.
Antiviral Res. 102 pp.23 - 28 2014

Experiment:

 X-RAY DIFFRACTION Resolution:2.6Å R work:0.219R free:0.285

Equivalence Class: 

NR_all_28444.1 

Eq. Class Rep:

4LQ3

NDB ID:

 NA2736

PDB ID:

4MSB 

Release:

2014-02-12

Title:

RNA 10mer duplex with two 2'-5'-linkages

Classification:

RNA

Authors:

Sheng, J., Li, L., E., Engelhart A., Gan, J., Wang, J., Szostak, J.W.

Citation:

Structural Insights into the Effects of 2,-5, linkages on the RNA Duplex
Proc.Natl.Acad.Sci.USA pp. - 2014

Experiment:

 X-RAY DIFFRACTION Resolution:1.55Å R work:0.181R free:0.246

Equivalence Class: 

NR_all_02201.6 

Eq. Class Rep:

4MSR

NDB ID:

 NA2738

PDB ID:

4MS9 

Release:

2014-02-12

Title:

Native RNA-10mer Structure: ccggcgccgg

Classification:

RNA

Authors:

Sheng, J., Li, L., Engelhart, A.E., Gan, J., Wang, J., Szostak, J.W.

Citation:

Structural Insights into the Effects of 2'-5' linkages on the RNA Duplex
Proc.Natl.Acad.Sci.USA pp. - 2014

Experiment:

 X-RAY DIFFRACTION Resolution:1.32Å R work:0.188R free:0.227

Equivalence Class: 

NR_all_36087.1 

Eq. Class Rep:

4MS9

NDB ID:

 NA2739

PDB ID:

4MSR 

Release:

2014-02-12

Title:

RNA 10mer duplex with six 2'-5'-linkages

Classification:

RNA

Authors:

Sheng, J., Li, L., E., Engelhart A., Gan, J., Wang, J., Szostak, J.W.

Citation:

Structural Insights into the Effects of 2'-5' linkages on the RNA Duplex
Proc.Natl.Acad.Sci.USA pp. - 2014

Experiment:

 X-RAY DIFFRACTION Resolution:1.2Å R work:0.175R free:0.217

Equivalence Class: 

NR_all_02201.6 

Eq. Class Rep:

4MSR

NDB ID:

 NA2909

PDB ID:

4C4W 

Release:

2014-02-12

Title:

Structure of a rare, non-standard sequence k-turn bound by L7Ae protein

Classification:

RNA BINDING PROTEIN/RNA

Authors:

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

Citation:

Structure of a Rare, Non-Standard Sequence K-Turn Bound by L7Ae Protein
Nucleic Acids Res. pp. - 2014

Experiment:

 X-RAY DIFFRACTION Resolution:2.95Å R work:0.166R free:0.21

Equivalence Class: 

NR_all_03295.1 

Eq. Class Rep:

4C4W

NDB ID:

 NA2233

PDB ID:

4J39 

Release:

2014-02-05

Title:

Crystal structure of p19 in complex with double-helical 19mer RNA p(CAG)3C(CUG)3

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Katorcha, E, Tamjar, J., Popov, A.N., Malinina, L.

Citation:

Procrustean bed of RNA silencing suppression
To be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:1.7Å R work:0.18R free:0.206

Equivalence Class: 

NR_all_10546.1 

Eq. Class Rep:

4J39

NDB ID:

 NA2874

PDB ID:

4OLA 

Release:

2014-02-05

Title:

Crystal Structure of Human Argonaute2

Classification:

HYDROLASE/RNA

Authors:

Schirle, N.T., MacRae, I.J.

Citation:

The crystal structure of human Argonaute2.
Science 336 pp.1037 - 1040 2012

Experiment:

 X-RAY DIFFRACTION Resolution:2.3Å R work:0.211R free:0.252

Equivalence Class: 

NR_all_44111.1 

Eq. Class Rep:

4OLA

NDB ID:

 NA2875

PDB ID:

4OLB 

Release:

2014-02-05

Title:

Crystal Structure of Human Argonaute2 Bound to Tryptophan

Classification:

HYDROLASE/RNA

Authors:

Schirle, N.T., MacRae, I.J.

Citation:

The crystal structure of human Argonaute2.
Science 336 pp.1037 - 1040 2012

Experiment:

 X-RAY DIFFRACTION Resolution:2.899Å R work:0.209R free:0.248

Equivalence Class: 

NR_all_44111.1 

Eq. Class Rep:

4OLA

NDB ID:

 2MIY

PDB ID:

2MIY 

Release:

2014-01-29

Title:

Solution NMR structure of a preQ1 Class II riboswitch from Streptococcus pneumoniae

Classification:

RNA

Authors:

Kang, M., Eichhorn, C.D., Feigon, J.

Citation:

Structural determinants for ligand capture by a class II preQ1 riboswitch.
Proc.Natl.Acad.Sci.USA 111 pp.E663 - E671 2014

Experiment:

 SOLUTION NMR

Equivalence Class: 

NR_all_35975.1 

Eq. Class Rep:

2MIY

NDB ID:

 NA2261

PDB ID:

4JAH 

Release:

2014-01-29

Title:

Crystal structure of 2-Selenouridine containing RNA

Classification:

RNA

Authors:

Jiang, S., Gan, J., Sun, H., Huang, Z.

Citation:

Crystal structure of 2-Selenouridine containing RNA
To be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:1.5Å R work:0.208R free:0.238

Equivalence Class: 

NR_all_95476.1 

Eq. Class Rep:

4JAH

NDB ID:

 NA2262

PDB ID:

4JAB 

Release:

2014-01-29

Title:

U/G Wobble Base Pair in a RNA Duplex

Classification:

RNA

Authors:

Jiang, S., Sun, H., Gan, J., Huang, Z.

Citation:

2-Se Uridine enhanced U/G Wobble Base Pair Discrimination
To be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.23Å R work:0.152R free:0.228

Equivalence Class: 

NR_all_78120.1 

Eq. Class Rep:

4JAB

NDB ID:

 2MIS

PDB ID:

2MIS 

Release:

2014-01-22

Title:

NMR Localization of Divalent Cations at the Active Site of the Neurospora VS Ribozyme Provides Insights Into RNA-Metal Ion Interactions

Classification:

RNA

Authors:

Bonneau, E., Legault, P.

Citation:

NMR Localization of Divalent Cations at the Active Site of the Neurospora VS Ribozyme Provides Insights into RNA-Metal-Ion Interactions.
Biochemistry 53 pp.579 - 590 2014

Experiment:

 SOLUTION NMR

Equivalence Class: 

NR_all_54921.1 

Eq. Class Rep:

2MIS

NDB ID:

 NA2786

PDB ID:

4N48 

Release:

2014-01-22

Title:

Cap-specific mRNA (nucleoside-2'-O-)-methyltransferase 1 Protein in complex with capped RNA fragment

Classification:

TRANSFERASE/RNA

Authors:

Smietanski, M., Werner, M., Purta, E., Kaminska, K.H., Stepinski, J., Darzynkiewicz, E., Nowotny, M., Bujnicki, J.M.

Citation:

Structural analysis of human 2'-O-ribose methyltransferases involved in mRNA cap structure formation.
Nat Commun 5 pp.3004 - 3004 2014

Experiment:

 X-RAY DIFFRACTION Resolution:2.704Å R work:0.181R free:0.241

Equivalence Class: 

NR_all_80645.1 

Eq. Class Rep:

4N48

NDB ID:

 2MI0

PDB ID:

2MI0 

Release:

2014-01-15

Title:

NMR structure of the I-V kissing-loop interaction of the Neurospora VS ribozyme

Classification:

RNA

Authors:

Bouchard, P., Legault, P.

Citation:

Structural insights into substrate recognition by the neurospora varkud satellite ribozyme: importance of u-turns at the kissing-loop junction.
Biochemistry 53 pp.258 - 269 2014

Experiment:

 SOLUTION NMR

Equivalence Class: 

NR_all_04232.1 

Eq. Class Rep:

2MI0

NDB ID:

 2MEQ

PDB ID:

2MEQ 

Release:

2014-01-01

Title:

Structure of Helix 69 from Escherichia coli 23S Ribosomal RNA

Classification:

RNA

Authors:

Jiang, J., Aduri, R., Chow, C.S., Santalucia, J.

Citation:

Structure modulation of helix 69 from Escherichia coli 23S ribosomal RNA by pseudouridylations.
Nucleic Acids Res. pp. - 2013

Experiment:

 SOLUTION NMR

Equivalence Class: 

NR_all_06974.1 

Eq. Class Rep:

2MEQ

NDB ID:

 2MER

PDB ID:

2MER 

Release:

2014-01-01

Title:

Structure of helix 69 from escherichia coli 23s ribosomal rna

Classification:

RNA

Authors:

Jiang, J., Aduri, R., Chow, C.S., Santalucia, J.

Citation:

Structure modulation of helix 69 from Escherichia coli 23S ribosomal RNA by pseudouridylations.
Nucleic Acids Res. pp. - 2013

Experiment:

 SOLUTION NMR

Equivalence Class: 

NR_all_46628.1 

Eq. Class Rep:

2MER

NDB ID:

 NA2627

PDB ID:

3WFQ 

Release:

2014-01-01

Title:

tRNA processing enzyme complex 1

Classification:

Transferase/RNA

Authors:

Yamashita, S., Takeshita, D., Tomita, K.

Citation:

Translocation and Rotation of tRNA during Template-Independent RNA Polymerization by tRNA Nucleotidyltransferase
To be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:3.619Å R work:0.221R free:0.289

Equivalence Class: 

NR_all_05251.1 

Eq. Class Rep:

3WFS

NDB ID:

 NA2628

PDB ID:

3WFR 

Release:

2014-01-01

Title:

tRNA processing enzyme complex 2

Classification:

Transferase/RNA

Authors:

Yamashita, S., Takeshita, D., Tomita, K.

Citation:

Translocation and Rotation of tRNA during Template-Independent RNA Polymerization by tRNA Nucleotidyltransferase
To be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:3.501Å R work:0.224R free:0.269

Equivalence Class: 

NR_all_05251.1 

Eq. Class Rep:

3WFS

NDB ID:

 NA2629

PDB ID:

3WFS 

Release:

2014-01-01

Title:

tRNA processing enzyme complex 3

Classification:

Transferase/RNA

Authors:

Yamashita, S., Takeshita, D., Tomita, K.

Citation:

Translocation and Rotation of tRNA during Template-Independent RNA Polymerization by tRNA Nucleotidyltransferase
To be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:3.311Å R work:0.228R free:0.275

Equivalence Class: 

NR_all_05251.1 

Eq. Class Rep:

3WFS

NDB ID:

 2MHI

PDB ID:

2MHI 

Release:

2013-12-25

Title:

Solution structure of the CR4/5 domain of medaka telomerase RNA

Classification:

RNA

Authors:

Kim, N.K., Zhang, Q., Feigon, J.

Citation:

Structure and sequence elements of the CR4/5 domain of medaka telomerase RNA important for telomerase function.
Nucleic Acids Res. pp. - 2013

Experiment:

 SOLUTION NMR

Equivalence Class: 

NR_all_92796.1 

Eq. Class Rep:

2MHI

NDB ID:

 NA2193

PDB ID:

4IQS 

Release:

2013-12-25

Title:

RNA 8mer duplex modified with 4-Se-Uridine

Classification:

RNA

Authors:

Sheng, J., Gan, J., Soares, A.S., Salon, J., Huang, Z.

Citation:

Structural insights of non-canonical U*U pair and Hoogsteen interaction probed with Se atom.
Nucleic Acids Res. 41 pp.10476 - 10487 2013

Experiment:

 X-RAY DIFFRACTION Resolution:2.6Å R work:0.193R free:0.258

Equivalence Class: 

NR_all_27855.1 

Eq. Class Rep:

4IQS

NDB ID:

 2LUN

PDB ID:

2LUN 

Release:

2013-12-18

Title:

RNA Aptamer for B. anthracis Ribosomal Protein S8

Classification:

RNA

Authors:

Donarski, J., Wang, J., Nikonowicz, E.P.

Citation:

An RNA Aptamer Takes an Unexpected Twist to Bind r-Protein S8
To be Published pp. - 0

Experiment:

 SOLUTION NMR

Equivalence Class: 

NR_all_49404.1 

Eq. Class Rep:

2LUN

NDB ID:

 2M23

PDB ID:

2M23 

Release:

2013-12-18

Title:

NMR solution structure of the d3'-hairpin of the group II intron Sc.ai5gamma including EBS1 bound to IBS1

Classification:

RNA

Authors:

Kruschel, D., Skilandat, M., Sigel, R.K.

Citation:

NMR structure of the 5'-splice site in the group IIB intron Sc.ai5 gamma-conformational requirements for exon-intron recognition.
Rna pp. - 2014

Experiment:

 SOLUTION NMR

Equivalence Class: 

NR_all_28607.1 

Eq. Class Rep:

2M23

NDB ID:

 2M24

PDB ID:

2M24 

Release:

2013-12-18

Title:

NMR solution structure of the d3'-hairpin including the exon binding site 1 (EBS1) of the group II intron Sc.ai5gamma

Classification:

RNA

Authors:

Kruschel, D., Skilandat, M., Sigel, R.K.

Citation:

NMR structure of the 5'-splice site in the group IIB intron Sc.ai5 gamma-conformational requirements for exon-intron recognition.
Rna pp. - 2014

Experiment:

 SOLUTION NMR

Equivalence Class: 

NR_all_89088.1 

Eq. Class Rep:

2M24

NDB ID:

 NA2490

PDB ID:

3WC1 

Release:

2013-12-18

Title:

Crystal structure of C. albicans tRNA(His) guanylyltransferase (Thg1) with a G-1 deleted tRNA(His)

Classification:

TRANSFERASE/RNA

Authors:

Nakamura, A., Nemoto, T., Heinemann, I.U., Yamashita, K., Sonoda, T., Komoda, K., Tanaka, I., Soll, D., Yao, M.

Citation:

Structural basis of reverse nucleotide polymerization
Proc.Natl.Acad.Sci.USA 110 pp.20970 - 20975 2013

Experiment:

 X-RAY DIFFRACTION Resolution:4.18Å R work:0.292R free:0.334

Equivalence Class: 

NR_all_62222.1 

Eq. Class Rep:

3WC1

NDB ID:

 NA2494

PDB ID:

3WC2 

Release:

2013-12-18

Title:

Crystal structure of C. albicans tRNA(His) guanylyltransferase (Thg1) with a tRNA(Phe)(GUG)

Classification:

TRANSFERASE/RNA

Authors:

Nakamura, A., Nemoto, T., Heinemann, I.U., Yamashita, K., Sonoda, T., Komoda, K., Tanaka, I., Soll, D., Yao, M.

Citation:

Structural basis of reverse nucleotide polymerization
Proc.Natl.Acad.Sci.USA 110 pp.20970 - 20975 2013

Experiment:

 X-RAY DIFFRACTION Resolution:3.641Å R work:0.252R free:0.287

Equivalence Class: 

NR_all_40963.4 

Eq. Class Rep:

1I9V

NDB ID:

 NA2625

PDB ID:

4M4O 

Release:

2013-12-18

Title:

Crystal structure of the aptamer minE-lysozyme complex

Classification:

HYDROLASE/RNA

Authors:

Malashkevich, V.N., Padlan, F.C., Toro, R., Girvin, M., Almo, S.C.

Citation:

Crystal structure of the aptamer minE-lysozyme complex
to be published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.0Å R work:0.18R free:0.206

Equivalence Class: 

NR_all_30067.1 

Eq. Class Rep:

4M4O

NDB ID:

 NA2746

PDB ID:

4NDF 

Release:

2013-12-18

Title:

Human Aprataxin (Aptx) bound to RNA-DNA, AMP, and Zn - product complex

Classification:

DNA BINDING PROTEIN/RNA/DNA

Authors:

Tumbale, P., Williams, J.S., Schellenberg, M.J., Kunkel, T.A., Williams, R.S.

Citation:

Aprataxin resolves adenylated RNA-DNA junctions to maintain genome integrity.
Nature 506 pp.111 - 115 2013

Experiment:

 X-RAY DIFFRACTION Resolution:1.944Å R work:0.171R free:0.204

NDB ID:

 NA2747

PDB ID:

4NDG 

Release:

2013-12-18

Title:

Human Aprataxin (Aptx) bound to RNA-DNA and Zn - adenosine vanadate transition state mimic complex

Classification:

DNA BINDING PROTEIN/RNA/DNA

Authors:

Tumbale, P., Williams, J.S., Schellenberg, M.J., Kunkel, T.A., Williams, R.S.

Citation:

Aprataxin resolves adenylated RNA-DNA junctions to maintain genome integrity.
Nature 506 pp.111 - 115 2013

Experiment:

 X-RAY DIFFRACTION Resolution:2.541Å R work:0.208R free:0.259

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