A Portal for Three-dimensional Structural Information about Nucleic Acids
As of 11-Oct-2017 number of released structures: 9157
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Polymer Type: All + RNA Type: All + Protein Function: All + Experimental Method: All + RNA Sequence Type: All RNA Sequence

Results: 3384  Download results as an excel file       Gallery view

NDB ID:

5M8I

PDB ID:

5M8I 

Release:

2017-10-11

Title:

Solution structure of CUG-BP2 RRM3 in complex with 5'-UUUAA-3' RNA

Classification:

RNA BINDING PROTEIN

Authors:

Diarra Dit Konte, N., Krepl, M., Damberger, F.F., Ripin, N., Duss, O., Sponer, J., Allain, F.H.

Citation:

Aromatic side-chain conformational switch on the surface of the RNA Recognition Motif enables RNA discrimination.
Nat Commun 8 pp.654 - 654 2017

Experiment:

SOLUTION NMR

NDB ID:

5TKO

PDB ID:

5TKO 

Release:

2017-10-11

Title:

RNA heptamer duplex with one 2'-5'-linkage

Classification:

RNA

Authors:

Luo, Z., Sheng, J., Wang, R.

Citation:

RNA heptamer duplex with one 2'-5'-linkage
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.52Å R work:0.144R free:0.177

NDB ID:

5UD5

PDB ID:

5UD5 

Release:

2017-10-11

Title:

Crystal structure of the tRNA binding domain of Pyrrolysyl-tRNA synthetase bound to tRNA(Pyl)

Classification:

LIGASE/RNA

Authors:

Suzuki, T., Soll, D.

Citation:

Crystal structure of macromolecule
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.347Å R work:0.216R free:0.242

NDB ID:

5V6X

PDB ID:

5V6X 

Release:

2017-10-11

Title:

Crystal structure of the tRNA binding domain of Pyrrolysyl-tRNA synthetase mutant (32A NTD) bound to tRNA(Pyl)

Classification:

LIGASE/RNA

Authors:

Suzuki, T., Soll, D.

Citation:

Mutant structure of macromolecule
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.76Å R work:0.206R free:0.248

NDB ID:

5XWG

PDB ID:

5XWG 

Release:

2017-10-11

Title:

Crystal structure of a novel RNA motif that allows for precise positioning of a metal ion

Classification:

RNA

Authors:

Kanazawa, H., Kondo, J.

Citation:

Crystal structure of a novel RNA motif that allows for precise positioning of a single metal ion.
J. Inorg. Biochem. 176 pp.140 - 143 2017

Experiment:

X-RAY DIFFRACTION Resolution:3.002Å R work:0.216R free:0.225

NDB ID:

5NEW

PDB ID:

5NEW 

Release:

2017-10-04

Title:

RNA-RNA base stacking in the crystal structure of an Hfq6:RNA dimer

Classification:

RNA

Authors:

Schulz, E.C., Seiler, M., Zuliani, C., Voigt, F., Rybin, V., Pogenberg, V., Mucke, N., Wilmanns, M., Gibson, T.J., Barabas, O.

Citation:

Intermolecular base stacking mediates RNA-RNA interaction in a crystal structure of the RNA chaperone Hfq.
Sci Rep 7 pp.9903 - 9903 2017

Experiment:

X-RAY DIFFRACTION Resolution:2.511Å R work:0.196R free:0.252

NDB ID:

5OB3

PDB ID:

5OB3 

Release:

2017-10-04

Title:

iSpinach aptamer

Classification:

RNA

Authors:

Fernandez-Millan, P., Autour, A., Ennifar, E., Westhof, E., Ryckelynck, M.

Citation:

Crystal structure and fluorescence properties of the iSpinach aptamer in complex with DFHBI.
RNA pp. - 2017

Experiment:

X-RAY DIFFRACTION Resolution:2.004Å R work:0.198R free:0.222

NDB ID:

5VR4

PDB ID:

5VR4 

Release:

2017-10-04

Title:

RNA octamer containing 2'-F-4'-OMe U.

Classification:

RNA

Authors:

Malek-Adamian, E., Guenther, D., Matsuda, S., Martinez-Montero, S., Zlatev, I., Harp, J., Burai Patrascu, M., Foster, D.J., Fakhoury, J.J., Perkins, L., Moitessier, N., Manoharan, R., Taneja, N., Bisbe, A., Charisse, K., Maier, M.A., Rajeev, K.G., Egli, M., Manoharan, M., Damha, M.J.

Citation:

4'-C-Methoxy-2'-Deoxy-2'-Fluoro Modified Ribonucleotides Improve Metabolic Stability and Elicit Efficient RNAi-Mediated Gene Silencing.
J. Am. Chem. Soc. pp. - 2017

Experiment:

X-RAY DIFFRACTION Resolution:1.5Å R work:0.186R free:0.242

NDB ID:

5XOW

PDB ID:

5XOW 

Release:

2017-10-04

Title:

Crystal structure of T. thermophilus Argonaute protein complexed with a bulge 6'A7' on the target strand

Classification:

DNA BINDING PROTEIN

Authors:

Sheng, G., Gogakos, T., Wang, J., Zhao, H., Serganov, A., Juranek, S., Tuschl, T., Patel, D.J., Wang, Y.

Citation:

Structure/cleavage-based insights into helical perturbations at bulge sites within T. thermophilus Argonaute silencing complexes
Nucleic Acids Res. 45 pp.9149 - 9163 2017

Experiment:

X-RAY DIFFRACTION Resolution:2.902Å R work:0.214R free:0.256

NDB ID:

5BJO

PDB ID:

5BJO 

Release:

2017-09-27

Title:

Crystal structure of the Corn RNA aptamer in complex with DFHO, site-specific 5-iodo-U

Classification:

RNA

Authors:

Warner, K.D., Sjekloca, L., Song, W., Filonov, G.S., Jaffrey, S.R., Ferre-D'Amare, A.R.

Citation:

A homodimer interface without base pairs in an RNA mimic of red fluorescent protein.
Nat. Chem. Biol. pp. - 2017

Experiment:

X-RAY DIFFRACTION Resolution:2.35Å R work:0.179R free:0.228

NDB ID:

5BJP

PDB ID:

5BJP 

Release:

2017-09-27

Title:

Crystal structure of the Corn RNA aptamer in complex with DFHO, iridium hexammine soak

Classification:

RNA

Authors:

Warner, K.D., Sjekloca, L., Song, W., Filonov, G.S., Jaffrey, S.R., Ferre-D'Amare, A.R.

Citation:

A homodimer interface without base pairs in an RNA mimic of red fluorescent protein.
Nat. Chem. Biol. pp. - 2017

Experiment:

X-RAY DIFFRACTION Resolution:2.51Å R work:0.19R free:0.239

NDB ID:

5WZG

PDB ID:

5WZG 

Release:

2017-09-27

Title:

Structure of APUM23-GAAUUGACGG

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Bao, H., Wang, N., Wang, C., Jiang, Y., Wu, J., Shi, Y.

Citation:

Structural basis for the specific recognition of 18S rRNA by APUM23.
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.55Å R work:0.181R free:0.216

NDB ID:

5WZH

PDB ID:

5WZH 

Release:

2017-09-27

Title:

Structure of APUM23-GGAAUUGACGG

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Bao, H., Wang, N., Wang, C., Jiang, Y., Wu, J., Shi, Y.

Citation:

Structural basis for the specific recognition of 18S rRNA by APUM23.
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.509Å R work:0.187R free:0.229

NDB ID:

5WZI

PDB ID:

5WZI 

Release:

2017-09-27

Title:

Structure of APUM23-GGAGUUGACGG

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Bao, H., Wang, N., Wang, C., Jiang, Y., Wu, J., Shi, Y.

Citation:

Structural basis for the specific recognition of 18S rRNA by APUM23.
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.75Å R work:0.188R free:0.241

NDB ID:

5WZJ

PDB ID:

5WZJ 

Release:

2017-09-27

Title:

Structure of APUM23-GGAUUUGACGG

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Bao, H., Wang, N., Wang, C., Jiang, Y., Wu, J., Shi, Y.

Citation:

Structural basis for the specific recognition of 18S rRNA by APUM23.
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.101Å R work:0.176R free:0.196

NDB ID:

5WZK

PDB ID:

5WZK 

Release:

2017-09-27

Title:

Structure of APUM23-deletion-of-insert-region-GGAAUUGACGG

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Bao, H., Wang, N., Wang, C., Jiang, Y., Wu, J., Shi, Y.

Citation:

Structural basis for the specific recognition of 18S rRNA by APUM23.
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.8Å R work:0.18R free:0.224

NDB ID:

5LSN

PDB ID:

5LSN 

Release:

2017-09-20

Title:

SINEB2 element of the long non-coding RNA activator of translation AS Uchl1

Classification:

RNA

Authors:

Podbevsek, P., Fasolo, F., Bon, C., Cimatti, L., Reisser, S., Carninci, P., Bussi, G., Zucchelli, S., Plavec, J., Gustincich, S.

Citation:

Structural determinants of the SINEB2 element embedded in the long non-coding RNA activator of translation AS Uchl1
To Be Published pp. - 0

Experiment:

SOLUTION NMR

NDB ID:

5VAJ

PDB ID:

5VAJ 

Release:

2017-09-13

Title:

BhRNase H - amide-RNA/DNA complex

Classification:

hydrolase/rna/dna

Authors:

Mutisya, D., Hardcastle, T., Cheruiyot, S.K., Pallan, P.S., Kennedy, S.D., Egli, M., Kelley, M.L., Smith, A.V.B., Rozners, E.

Citation:

Amide linkages mimic phosphates in RNA interactions with proteins and are well tolerated in the guide strand of short interfering RNAs.
Nucleic Acids Res. 45 pp.8142 - 8155 2017

Experiment:

X-RAY DIFFRACTION Resolution:1.95Å R work:0.165R free:0.216

NDB ID:

5W1H

PDB ID:

5W1H 

Release:

2017-09-13

Title:

Crystal structure of LbaCas13a (C2c2) bound to mature crRNA (24-nt spacer)

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Knott, G.J., East-Seletsky, A., Cofsky, J.C., Holton, J.M., Charles, E., O'Connell, M.R., Doudna, J.A.

Citation:

Guide-bound structures of an RNA-targeting A-cleaving CRISPR-Cas13a enzyme.
Nat. Struct. Mol. Biol. pp. - 2017

Experiment:

X-RAY DIFFRACTION Resolution:1.99Å R work:0.185R free:0.216

NDB ID:

5W1I

PDB ID:

5W1I 

Release:

2017-09-13

Title:

Crystal structure of LbaCas13a (C2c2) bound to mature crRNA (20-nt spacer)

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Knott, G.J., East-Seletsky, A., Cofsky, J.C., Holton, J.M., Charles, E., O'Connell, M.R., Doudna, J.A.

Citation:

Guide-bound structures of an RNA-targeting A-cleaving CRISPR-Cas13a enzyme.
Nat. Struct. Mol. Biol. pp. - 2017

Experiment:

X-RAY DIFFRACTION Resolution:2.2Å R work:0.196R free:0.232

NDB ID:

5WLH

PDB ID:

5WLH 

Release:

2017-09-13

Title:

Crystal structure of LbaCas13a H328A (C2c2) bound to pre-crRNA (24-nt spacer)

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Knott, G.J., East-Seletsky, A., Cofsky, J.C., Holton, J.M., Charles, E., O'Connell, M.R., Doudna, J.A.

Citation:

Guide-bound structures of an RNA-targeting A-cleaving CRISPR-Cas13a enzyme.
Nat. Struct. Mol. Biol. pp. - 2017

Experiment:

X-RAY DIFFRACTION Resolution:1.80001Å R work:0.184R free:0.217

NDB ID:

5XWP

PDB ID:

5XWP 

Release:

2017-09-13

Title:

Crystal structure of LbuCas13a-crRNA-target RNA ternary complex

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Liu, L., Li, X., Ma, J., Li, Z., You, L., Wang, J., Wang, M., Zhang, X., Wang, Y.

Citation:

The Molecular Architecture for RNA-Guided RNA Cleavage by Cas13a.
Cell 170 pp.714 - 726.e10 2017

Experiment:

X-RAY DIFFRACTION Resolution:3.086Å R work:0.218R free:0.243

NDB ID:

5OR0

PDB ID:

5OR0 

Release:

2017-08-30

Title:

NMR derived model of the 5'-splice site of SMN2 in complex with the 5'-end of U1 snRNA

Classification:

RNA

Authors:

Sivaramakrishnan, M., McCarthy, K.D., Campagne, S., Huber, S., Meier, S., Augustin, A., Heckel, T., Meistermann, H., Hug, M.N., Birrer, P., Moursy, A., Khawaja, S., Schmucki, R., Berntenis, N., Giroud, N., Golling, S., Tzouros, N., Banfai, B., Duran-Pacheco, G., Lamerz, J., Hsiu Liu, Y., Luebbers, T., Ratni, A., Ebeling, M., Clery, A., Paushkin, S., Krainer, A.R., Allain, F.H., Metzger, F.

Citation:

Binding to SMN2 pre-mRNA-Protein complex elicits specificity for small molecule splicing modifiers
Nat Commun pp. - 2017

Experiment:

SOLUTION NMR

NDB ID:

5W4K

PDB ID:

5W4K 

Release:

2017-08-30

Title:

Crystal structure of the Thermus thermophilus 70S ribosome in complex with Klebsazolicin and bound to mRNA and A-, P- and E-site tRNAs at 2.7A resolution

Classification:

ribosome/antibiotic

Authors:

Metelev, M., Osterman, I.A., Ghilarov, D., Khabibullina, N.F., Yakimov, A., Shabalin, K., Utkina, I., Travin, D.Y., Komarova, E.S., Serebryakova, M., Artamonova, T., Khodorkovskii, M., Konevega, A.L., Sergiev, P.V., Severinov, K., Polikanov, Y.S.

Citation:

Klebsazolicin inhibits 70S ribosome by obstructing the peptide exit tunnel.
Nat. Chem. Biol. 13 pp.1129 - 1136 2017

Experiment:

X-RAY DIFFRACTION Resolution:2.7Å R work:0.206R free:0.252

NDB ID:

5KW1

PDB ID:

5KW1 

Release:

2017-08-23

Title:

Crystal Structure of the Two Tandem RRM Domains of PUF60 Bound to a Modified AdML Pre-mRNA 3' Splice Site Analogue

Classification:

splicing/dna

Authors:

Hsiao, H.-H., Crichlow, G.V., Albright, R.A., Murphy, J.W., Folta-Stogniew, E.J., Lolis, E.J., Braddock, D.T.

Citation:

Recognition of the 3' AdML intron by the alternative splicing factor PUF60
To be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.1Å R work:0.219R free:0.237

NDB ID:

5WWW

PDB ID:

5WWW 

Release:

2017-08-23

Title:

Crystal structure of the KH1 domain of human RNA-binding E3 ubiquitin-protein ligase MEX-3C complex with RNA

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Yang, L., Wang, C., Li, F., Zhang, J., Nayab, A., Wu, J., Shi, Y., Gong, Q.

Citation:

The human RNA-binding protein and E3 ligase MEX-3C binds the MEX-3-recognition element (MRE) motif with high affinity
J. Biol. Chem. 292 pp.16221 - 16234 2017

Experiment:

X-RAY DIFFRACTION Resolution:1.798Å R work:0.172R free:0.209

NDB ID:

5WWX

PDB ID:

5WWX 

Release:

2017-08-23

Title:

Crystal structure of the KH2 domain of human RNA-binding E3 ubiquitin-protein ligase MEX-3C complex with RNA

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Yang, L., Wang, C., Li, F., Zhang, J., Nayab, A., Wu, J., Shi, Y., Gong, Q.

Citation:

The human RNA-binding protein and E3 ligase MEX-3C binds the MEX-3-recognition element (MRE) motif with high affinity
J. Biol. Chem. 292 pp.16221 - 16234 2017

Experiment:

X-RAY DIFFRACTION Resolution:2.0Å R work:0.17R free:0.217

NDB ID:

5O6U

PDB ID:

5O6U 

Release:

2017-08-16

Title:

Structure of the Cascade-I-Fv R-loop complex from Shewanella putrefaciens

Classification:

ANTIVIRAL PROTEIN

Authors:

Pausch, P., Muller-Esparza, H., Gleditzsch, D., Altegoer, F., Randau, L., Bange, G.

Citation:

Structural Variation of Type I-F CRISPR RNA Guided DNA Surveillance.
Mol. Cell 67 pp.622 - 632.e4 2017

Experiment:

X-RAY DIFFRACTION Resolution:3.25Å R work:0.252R free:0.285

NDB ID:

5O7H

PDB ID:

5O7H 

Release:

2017-08-16

Title:

Structure of the Cascade-I-Fv complex from Shewanella putrefaciens

Classification:

ANTIVIRAL PROTEIN

Authors:

Pausch, P., Muller-Esparza, H., Gleditzsch, D., Altegoer, F., Randau, L., Bange, G.

Citation:

Structural Variation of Type I-F CRISPR RNA Guided DNA Surveillance.
Mol. Cell 67 pp.622 - 632.e4 2017

Experiment:

X-RAY DIFFRACTION Resolution:3.0Å R work:0.221R free:0.267

NDB ID:

5VXQ

PDB ID:

5VXQ 

Release:

2017-08-16

Title:

X-Ray crystallography structure of the parallel stranded duplex formed by 5-rA5-dA-rA5

Classification:

RNA, DNA

Authors:

Copp, W., Denisov, A.Y., Xie, J., Noronha, A.M., Liczner, C., Safaee, N., Wilds, C.J., Gehring, K.

Citation:

Influence of nucleotide modifications at the C2' position on the Hoogsteen base-paired parallel-stranded duplex of poly(A) RNA.
Nucleic Acids Res. 45 pp.10321 - 10331 2017

Experiment:

X-RAY DIFFRACTION Resolution:1.002Å R work:0.128R free:0.159

NDB ID:

5XOG

PDB ID:

5XOG 

Release:

2017-08-16

Title:

RNA Polymerase II elongation complex bound with Spt5 KOW5 and Elf1

Classification:

TRANSCRIPTION

Authors:

Ehara, H., Yokoyama, T., Shigematsu, H., Yokoyama, S., Shirouzu, M., Sekine, S.I.

Citation:

Structure of the complete elongation complex of RNA polymerase II with basal factors
Science 357 pp.921 - 924 2017

Experiment:

X-RAY DIFFRACTION Resolution:3.0Å R work:0.195R free:0.225

NDB ID:

5NRG

PDB ID:

5NRG 

Release:

2017-08-09

Title:

The crystal structure of the large ribosomal subunit of Staphylococcus aureus in complex with RB02

Classification:

RIBOSOME

Authors:

Matzov, D., Eyal, Z., Benhamou, R.I., Shalev-Benami, M., Halfon, Y., Krupkin, M., Zimmerman, E., Rozenberg, H., Bashan, A., Fridman, M., Yonath, A.

Citation:

Structural insights of lincosamides targeting the ribosome of Staphylococcus aureus.
Nucleic Acids Res. 45 pp.10284 - 10292 2017

Experiment:

X-RAY DIFFRACTION Resolution:3.442Å R work:0.218R free:0.261

NDB ID:

5TGG

PDB ID:

5TGG 

Release:

2017-08-09

Title:

Solution structure of parallel stranded adenosine duplex

Classification:

RNA,DNA

Authors:

Copp, W., Denisov, A.Y., Xie, J., Noronha, A.M., Liczner, C., Safaee, N., Wilds, C.J., Gehring, K.

Citation:

Influence of nucleotide modifications at the C2' position on the Hoogsteen base-paired parallel-stranded duplex of poly(A) RNA.
Nucleic Acids Res. 45 pp.10321 - 10331 2017

Experiment:

SOLUTION NMR

NDB ID:

5WJR

PDB ID:

5WJR 

Release:

2017-08-09

Title:

2-Se-T2/4-DNA and native RNA hybrid in complex with RNase H catalytic domain D132N mutant

Classification:

HYDROLASE

Authors:

Fang, Z., Huang, Z.

Citation:

RNase H catalytic domain D132N mutant in complex with native DNA/RNA at 1.70 angstroms
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.7Å R work:0.188R free:0.233

NDB ID:

5XUS

PDB ID:

5XUS 

Release:

2017-08-09

Title:

Crystal structure of Lachnospiraceae bacterium ND2006 Cpf1 in complex with crRNA and target DNA (TTTA PAM)

Classification:

HYDROLASE/RNA/DNA

Authors:

Yamano, T., Zetsche, B., Ishitani, R., Zhang, F., Nishimasu, H., Nureki, O.

Citation:

Structural basis for the canonical and non-canonical PAM recognition by CRISPR-Cpf1
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.5Å R work:0.178R free:0.227

NDB ID:

5XUT

PDB ID:

5XUT 

Release:

2017-08-09

Title:

Crystal structure of Lachnospiraceae bacterium ND2006 Cpf1 in complex with crRNA and target DNA (TCTA PAM)

Classification:

HYDROLASE/RNA/DNA

Authors:

Yamano, T., Zetsche, B., Ishitani, R., Zhang, F., Nishimasu, H., Nureki, O.

Citation:

Structural basis for the canonical and non-canonical PAM recognition by CRISPR-Cpf1
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.4Å R work:0.192R free:0.237

NDB ID:

5XUU

PDB ID:

5XUU 

Release:

2017-08-09

Title:

Crystal structure of Lachnospiraceae bacterium ND2006 Cpf1 in complex with crRNA and target DNA (TCCA PAM)

Classification:

HYDROLASE/RNA/DNA

Authors:

Yamano, T., Zetsche, B., Ishitani, R., Zhang, F., Nishimasu, H., Nureki, O.

Citation:

Structural basis for the canonical and non-canonical PAM recognition by CRISPR-Cpf1
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.5Å R work:0.192R free:0.244

NDB ID:

5XUZ

PDB ID:

5XUZ 

Release:

2017-08-09

Title:

Crystal structure of Lachnospiraceae bacterium ND2006 Cpf1 in complex with crRNA and target DNA (CCCA PAM)

Classification:

HYDROLASE/RNA/DNA

Authors:

Yamano, T., Zetsche, B., Ishitani, R., Zhang, F., Nishimasu, H., Nureki, O.

Citation:

Structural basis for the canonical and non-canonical PAM recognition by CRISPR-Cpf1
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.4Å R work:0.177R free:0.229

NDB ID:

5O1Y

PDB ID:

5O1Y 

Release:

2017-08-02

Title:

Structure of Nrd1 RNA binding domain in complex with RNA (GUAA)

Classification:

TRANSCRIPTION

Authors:

Franco-Echevarria, E., Gonzalez-Polo, N., Zorrilla, S., Martinez-Lumbreras, S., Santiveri, C.M., Campos-Olivas, R., Sanchez, M., Calvo, O., Gonzalez, B., Perez-Canadillas, J.M.

Citation:

The structure of transcription termination factor Nrd1 reveals an original mode for GUAA recognition.
Nucleic Acids Res. 45 pp.10293 - 10305 2017

Experiment:

X-RAY DIFFRACTION Resolution:2.45Å R work:0.196R free:0.217

NDB ID:

5O1Z

PDB ID:

5O1Z 

Release:

2017-08-02

Title:

Structure of Nrd1 RNA binding domain in complex with RNA (CGUAAA)

Classification:

TRANSCRIPTION

Authors:

Franco-Echevarria, E., Gonzalez-Polo, N., Zorrilla, S., Martinez-Lumbreras, S., Santiveri, C.M., Campos-Olivas, R., Sanchez, M., Calvo, O., Gonzalez, B., Perez-Canadillas, J.M.

Citation:

The structure of transcription termination factor Nrd1 reveals an original mode for GUAA recognition.
Nucleic Acids Res. 45 pp.10293 - 10305 2017

Experiment:

X-RAY DIFFRACTION Resolution:3.4Å R work:0.181R free:0.215

NDB ID:

5O20

PDB ID:

5O20 

Release:

2017-08-02

Title:

Structure of Nrd1 RNA binding domain in complex with RNA (UUAGUAAUCC)

Classification:

TRANSCRIPTION

Authors:

Franco-Echevarria, E., Gonzalez-Polo, N., Zorrilla, S., Martinez-Lumbreras, S., Santiveri, C.M., Campos-Olivas, R., Sanchez, M., Calvo, O., Gonzalez, B., Perez-Canadillas, J.M.

Citation:

The structure of transcription termination factor Nrd1 reveals an original mode for GUAA recognition.
Nucleic Acids Res. 45 pp.10293 - 10305 2017

Experiment:

X-RAY DIFFRACTION Resolution:3.53Å R work:0.225R free:0.268

NDB ID:

5U9B

PDB ID:

5U9B 

Release:

2017-08-02

Title:

Solution structure of the zinc fingers 1 and 2 of MBNL1 in complex with human cardiac troponin T pre-mRNA

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Park, S., Phukan, P.D., Zeeb, M., Martinez-Yamout, M.A., Dyson, H.J., Wright, P.E.

Citation:

Structural Basis for Interaction of the Tandem Zinc Finger Domains of Human Muscleblind with Cognate RNA from Human Cardiac Troponin T.
Biochemistry 56 pp.4154 - 4168 2017

Experiment:

SOLUTION NMR

NDB ID:

5VZJ

PDB ID:

5VZJ 

Release:

2017-08-02

Title:

STRUCTURE OF A TWELVE COMPONENT MPP6-NUCLEAR RNA EXOSOME COMPLEX BOUND TO RNA

Classification:

HYDROLASE/RNA

Authors:

Wasmuth, E.V., Zinder, J.C., Zattas, D., Das, M., Lima, C.D.

Citation:

Structure and reconstitution of yeast Mpp6-nuclear exosome complexes reveals that Mpp6 stimulates RNA decay and recruits the Mtr4 helicase.
Elife 6 pp. - 2017

Experiment:

X-RAY DIFFRACTION Resolution:3.3Å R work:0.216R free:0.265

NDB ID:

5NQI

PDB ID:

5NQI 

Release:

2017-07-26

Title:

E.coli 16S rRNA Sarcin-Ricin Loop containing a 5-hydroxymethylcytosine modification

Classification:

RNA

Authors:

Riml, C., Lusser, A., Ennifar, E., Micura, R.

Citation:

Synthesis, Thermodynamic Properties, and Crystal Structure of RNA Oligonucleotides Containing 5-Hydroxymethylcytosine.
J. Org. Chem. 82 pp.7939 - 7945 2017

Experiment:

X-RAY DIFFRACTION Resolution:0.851Å R work:0.145R free:0.17

NDB ID:

5TBW

PDB ID:

5TBW 

Release:

2017-07-26

Title:

Crystal structure of chlorolissoclimide bound to the yeast 80S ribosome

Classification:

RIBOSOME

Authors:

Konst, Z.A., Szklarski, A.R., Pellegrino, S., Michalak, S.E., Meyer, M., Zanette, C., Cencic, R., Nam, S., Voora, V.K., Horne, D.A., Pelletier, J., Mobley, D.L., Yusupova, G., Yusupov, M., Vanderwal, C.D.

Citation:

Synthesis facilitates an understanding of the structural basis for translation inhibition by the lissoclimides
Nat.Chem. pp. - 2017

Experiment:

X-RAY DIFFRACTION Resolution:3.0Å R work:0.193R free:0.226

NDB ID:

5V2R

PDB ID:

5V2R 

Release:

2017-07-26

Title:

Structure of a GA Rich 8x8 Nucleotide RNA Internal Loop

Classification:

RNA

Authors:

Kauffmann, A.D., Kennedy, S.D., Zhao, J., Turner, D.H.

Citation:

Nuclear Magnetic Resonance Structure of an 8 8 Nucleotide RNA Internal Loop Flanked on Each Side by Three Watson-Crick Pairs and Comparison to Three-Dimensional Predictions.
Biochemistry 56 pp.3733 - 3744 2017

Experiment:

SOLUTION NMR

NDB ID:

5VI5

PDB ID:

5VI5 

Release:

2017-07-26

Title:

Structure of Mycobacterium smegmatis transcription initiation complex with a full transcription bubble

Classification:

TRANSCRIPTION

Authors:

Hubin, E.A., Lilic, M., Darst, S.A., Campbell, E.A.

Citation:

Structural insights into the mycobacteria transcription initiation complex from analysis of X-ray crystal structures.
Nat Commun 8 pp.16072 - 16072 2017

Experiment:

X-RAY DIFFRACTION Resolution:3.196Å R work:0.253R free:0.279

NDB ID:

5W6V

PDB ID:

5W6V 

Release:

2017-07-26

Title:

The Structure of human Argonaute-1 in complex with the hook motif of human GW182

Classification:

GENE REGULATION/RNA

Authors:

Elkayam, E., Faehnle, C.R., Morales, M., Sun, J., Li, H., Joshua-Tor, L.

Citation:

Multivalent Recruitment of Human Argonaute by GW182.
Mol. Cell 67 pp.646 - 658.e3 2017

Experiment:

X-RAY DIFFRACTION Resolution:2.828Å R work:0.2R free:0.244

NDB ID:

5KH8

PDB ID:

5KH8 

Release:

2017-07-19

Title:

Solution structures of the apo state fluoride riboswitch

Classification:

RNA

Authors:

Zhao, B., Guffy, S.L., Williams, B., Zhang, Q.

Citation:

An excited state underlies gene regulation of a transcriptional riboswitch.
Nat. Chem. Biol. 13 pp.968 - 974 2017

Experiment:

SOLUTION NMR

NDB ID:

5VYC

PDB ID:

5VYC 

Release:

2017-07-19

Title:

Crystal structure of the human 40S ribosomal subunit in complex with DENR-MCT-1.

Classification:

RIBOSOME

Authors:

Lomakin, I.B., Stolboushkina, E.A., Vaidya, A.T., Zhao, C., Garber, M.B., Dmitriev, S.E., Steitz, T.A.

Citation:

Crystal Structure of the Human Ribosome in Complex with DENR-MCT-1.
Cell Rep 20 pp.521 - 528 2017

Experiment:

X-RAY DIFFRACTION Resolution:6.0Å R work:0.322R free:0.32