A Portal for Three-dimensional Structural Information about Nucleic Acids
As of 22-Jan-2020 number of released structures: 10593
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Polymer Type: All + RNA Type: All + Protein Function: All + Experimental Method: All + RNA Sequence Type: All RNA Sequence

Results: 5223  Download results as an excel file       Gallery view

NDB ID:

6SDW

PDB ID:

6SDW 

Release:

2020-01-15

Title:

Solution structure of Staufen1 dsRBD3+4 - hARF1 SBS dsRNA complex.

Classification:

RNA BINDING PROTEIN

Authors:

Yadav, D.K., Zigackova, D., Zlobina, M., Klumpler, T., Beaumont, C., Kubickova, M., Vanacova, S., Lukavsky, P.J.

Citation:

Staufen1 reads out structure and sequence features in ARF1 dsRNA for target recognition.
Nucleic Acids Res. pp. - 2019

Experiment:

SOLUTION NMR

Equivalence Class: 

NR_all_54922.1 

Eq. Class Rep:

6SDW

NDB ID:

6SDY

PDB ID:

6SDY 

Release:

2020-01-15

Title:

Solution structure of Staufen1 dsRBD4 - hARF1 SBS dsRNA complex.

Classification:

RNA BINDING PROTEIN

Authors:

Yadav, D.K., Zigackova, D., Zlobina, M., Klumpler, T., Beaumont, C., Kubickova, M., Vanacova, S., Lukavsky, P.J.

Citation:

Staufen1 reads out structure and sequence features in ARF1 dsRNA for target recognition.
Nucleic Acids Res. pp. - 2019

Experiment:

SOLUTION NMR

Equivalence Class: 

NR_all_94180.1 

Eq. Class Rep:

6SDY

NDB ID:

6PRV

PDB ID:

6PRV 

Release:

2020-01-08

Title:

58nt RNA L11-binding domain from E. coli 23S rRNA

Classification:

RNA

Authors:

Welty, R., Rau, M., Pabit, S., Dunstan, M.S., Conn, G.L., Pollack, L., Hall, K.B.

Citation:

Ribosomal protein L11 selectively stabilizes a tertiary structure of the GTPase Center rRNA domain.
J.Mol.Biol. pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.71Å R work:0.203R free:0.259

Equivalence Class: 

NR_all_25376.1 

Eq. Class Rep:

6PRV

NDB ID:

6JVX

PDB ID:

6JVX 

Release:

2020-01-01

Title:

Crystal structure of RBM38 in complex with RNA

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Qian, K., Li, M., Wang, J., Zhang, M., Wang, M.

Citation:

Structural basis for mRNA recognition by human RBM38.
Biochem.J. pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.301Å R work:0.177R free:0.22

Equivalence Class: 

NR_all_97043.1 

Eq. Class Rep:

6JVX

NDB ID:

6L1W

PDB ID:

6L1W 

Release:

2020-01-01

Title:

Zinc-finger Antiviral Protein (ZAP) bound to RNA

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Luo, X., Wang, X., Gao, Y., Zhu, J., Liu, S., Gao, G., Gao, P.

Citation:

Molecular Mechanism of RNA Recognition by Zinc-Finger Antiviral Protein.
Cell Rep 30 pp.46 - 52.e4 2020

Experiment:

X-RAY DIFFRACTION Resolution:2.194Å R work:0.205R free:0.245

Equivalence Class: 

NR_all_28499.1 

Eq. Class Rep:

6L1W

NDB ID:

6LAS

PDB ID:

6LAS 

Release:

2020-01-01

Title:

the wildtype SAM-VI riboswitch bound to SAM

Classification:

RNA

Authors:

Sun, A., Gasser, C., Li, F., Chen, H., Mair, S., Krasheninina, O., Micura, R., Ren, A.

Citation:

SAM-VI riboswitch structure and signature for ligand discrimination.
Nat Commun 10 pp.5728 - 5728 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.708Å R work:0.206R free:0.243

Equivalence Class: 

NR_all_47836.1 

Eq. Class Rep:

6LAX

NDB ID:

6LAU

PDB ID:

6LAU 

Release:

2020-01-01

Title:

the wildtype SAM-VI riboswitch bound to SAH

Classification:

RNA

Authors:

Sun, A., Gasser, C., Li, F., Chen, H., Mair, S., Krasheninina, O., Micura, R., Ren, A.

Citation:

SAM-VI riboswitch structure and signature for ligand discrimination.
Nat Commun 10 pp.5728 - 5728 2019

Experiment:

X-RAY DIFFRACTION Resolution:3.109Å R work:0.19R free:0.251

Equivalence Class: 

NR_all_47836.1 

Eq. Class Rep:

6LAX

NDB ID:

6LAX

PDB ID:

6LAX 

Release:

2020-01-01

Title:

the mutant SAM-VI riboswitch (U6C) bound to SAM

Classification:

RNA

Authors:

Sun, A., Gasser, C., Li, F., Chen, H., Mair, S., Krasheninina, O., Micura, R., Ren, A.

Citation:

SAM-VI riboswitch structure and signature for ligand discrimination.
Nat Commun 10 pp.5728 - 5728 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.7Å R work:0.188R free:0.239

Equivalence Class: 

NR_all_47836.1 

Eq. Class Rep:

6LAX

NDB ID:

6LAZ

PDB ID:

6LAZ 

Release:

2020-01-01

Title:

the wildtype SAM-VI riboswitch bound to a N-mustard SAM analog M1

Classification:

RNA

Authors:

Sun, A., Gasser, C., Li, F., Chen, H., Mair, S., Krasheninina, O., Micura, R., Ren, A.

Citation:

SAM-VI riboswitch structure and signature for ligand discrimination.
Nat Commun 10 pp.5728 - 5728 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.76Å R work:0.187R free:0.223

Equivalence Class: 

NR_all_47836.1 

Eq. Class Rep:

6LAX

NDB ID:

6LLB

PDB ID:

6LLB 

Release:

2020-01-01

Title:

Crystal structure of mpy-RNase J (mutant S247A), an archaeal RNase J from Methanolobus psychrophilus R15, in complex with 6 nt RNA

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Li, D.F., Hou, Y.J., Guo, L.

Citation:

Crystal structure of mpy-RNase J (mutant S247A), an archaeal RNase J from Methanolobus psychrophilus R15, in complex with 6 nt RNA
To be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.6Å R work:0.187R free:0.224

Equivalence Class: 

NR_all_25498.1 

Eq. Class Rep:

6LLB

NDB ID:

6LLB

PDB ID:

6LLB 

Release:

2020-01-01

Title:

Crystal structure of mpy-RNase J (mutant S247A), an archaeal RNase J from Methanolobus psychrophilus R15, in complex with 6 nt RNA

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Li, D.F., Hou, Y.J., Guo, L.

Citation:

Crystal structure of mpy-RNase J (mutant S247A), an archaeal RNase J from Methanolobus psychrophilus R15, in complex with 6 nt RNA
To be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.6Å R work:0.187R free:0.224

Equivalence Class: 

NR_all_81754.1 

Eq. Class Rep:

6LLB

NDB ID:

6SVS

PDB ID:

6SVS 

Release:

2020-01-01

Title:

Crystal Structure of U:A-U-rich RNA triple helix with 11 consecutive base triples

Classification:

RNA

Authors:

Ruszkowska, A., Ruszkowski, M., Hulewicz, J.P., Dauter, Z., Brown, J.A.

Citation:

Molecular structure of a U:A-U-rich RNA triple helix with 11 consecutive base triples
To be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.5Å R work:0.166R free:0.213

Equivalence Class: 

NR_all_70863.1 

Eq. Class Rep:

6SVS

NDB ID:

6UGG

PDB ID:

6UGG 

Release:

2020-01-01

Title:

Structure of unmodified E. coli tRNA(Asp)

Classification:

RNA

Authors:

Chan, C.W., Badong, D., Rajan, R., Mondragon, A.

Citation:

Crystal structures of an unmodified bacterial tRNA reveal intrinsic structural flexibility and plasticity as general properties of unbound tRNAs.
Rna pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:1.95Å R work:0.215R free:0.238

Equivalence Class: 

NR_all_56204.1 

Eq. Class Rep:

6UGG

NDB ID:

6UGI

PDB ID:

6UGI 

Release:

2020-01-01

Title:

Crystal structure of a fragment of E. coli tRNA(Asp) consisting of its acceptor stem/T stem-loop. Long unit cell.

Classification:

RNA

Authors:

Chan, C.W., Badong, D., Rajan, R., Mondragon, A.

Citation:

Crystal structures of an unmodified bacterial tRNA reveal intrinsic structural flexibility and plasticity as general properties of unbound tRNAs.
Rna pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:1.75Å R work:0.23R free:0.255

Equivalence Class: 

NR_all_92029.1 

Eq. Class Rep:

6UGI

NDB ID:

6UGJ

PDB ID:

6UGJ 

Release:

2020-01-01

Title:

Crystal structure of a fragment of E. coli tRNA(Asp) consisting of its acceptor stem/T stem-loop. Short unit cell.

Classification:

RNA

Authors:

Chan, C.W., Badong, D., Rajan, R., Mondragon, A.

Citation:

Crystal structures of an unmodified bacterial tRNA reveal intrinsic structural flexibility and plasticity as general properties of unbound tRNAs.
Rna pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:1.6Å R work:0.213R free:0.272

Equivalence Class: 

NR_all_92029.1 

Eq. Class Rep:

6UGI

NDB ID:

6UV1

PDB ID:

6UV1 

Release:

2020-01-01

Title:

Crystal structure of RNA helicase DDX17 in complex of rU10 RNA

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Ngo, T.D., Partin, A.C., Nam, Y.

Citation:

RNA Specificity and Autoregulation of DDX17, a Modulator of MicroRNA Biogenesis.
Cell Rep 29 pp.4024 - 4035.e5 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.307Å R work:0.197R free:0.255

Equivalence Class: 

NR_all_20040.1 

Eq. Class Rep:

6UV1

NDB ID:

6UV1

PDB ID:

6UV1 

Release:

2020-01-01

Title:

Crystal structure of RNA helicase DDX17 in complex of rU10 RNA

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Ngo, T.D., Partin, A.C., Nam, Y.

Citation:

RNA Specificity and Autoregulation of DDX17, a Modulator of MicroRNA Biogenesis.
Cell Rep 29 pp.4024 - 4035.e5 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.307Å R work:0.197R free:0.255

Equivalence Class: 

NR_all_43929.1 

Eq. Class Rep:

6UV1

NDB ID:

6UV2

PDB ID:

6UV2 

Release:

2020-01-01

Title:

Crystal structure of the core domain of RNA helicase DDX17 with RNA pri-125a-oligo1

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Ngo, T.D., Partin, A.C., Nam, Y.

Citation:

RNA Specificity and Autoregulation of DDX17, a Modulator of MicroRNA Biogenesis.
Cell Rep 29 pp.4024 - 4035.e5 2019

Experiment:

X-RAY DIFFRACTION Resolution:1.894Å R work:0.169R free:0.19

Equivalence Class: 

NR_all_16093.1 

Eq. Class Rep:

6UV2

NDB ID:

6UV3

PDB ID:

6UV3 

Release:

2020-01-01

Title:

Crystal structure of the core domain of RNA helicase DDX17 with RNA pri-125a-oligo2

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Ngo, T.D., Partin, A.C., Nam, Y.

Citation:

RNA Specificity and Autoregulation of DDX17, a Modulator of MicroRNA Biogenesis.
Cell Rep 29 pp.4024 - 4035.e5 2019

Experiment:

X-RAY DIFFRACTION Resolution:1.597Å R work:0.174R free:0.197

Equivalence Class: 

NR_all_82332.1 

Eq. Class Rep:

6UV3

NDB ID:

6UV4

PDB ID:

6UV4 

Release:

2020-01-01

Title:

Crystal structure of the core domain of RNA helicase DDX17 with RNA pri-18a-oligo1

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Ngo, T.D., Partin, A.C., Nam, Y.

Citation:

RNA Specificity and Autoregulation of DDX17, a Modulator of MicroRNA Biogenesis.
Cell Rep 29 pp.4024 - 4035.e5 2019

Experiment:

X-RAY DIFFRACTION Resolution:1.7Å R work:0.172R free:0.203

Equivalence Class: 

NR_all_73160.1 

Eq. Class Rep:

6UV4

NDB ID:

6IZP

PDB ID:

6IZP 

Release:

2019-12-25

Title:

Solution structure of the complex of naphthyridine carbamate dimer and an RNA with UGGAA-UGGAA pentad

Classification:

RNA

Authors:

Shibata, T., Nagano, K., Ueyama, M., Nagai, Y., Ishikawa, K., Kawai, G., Nakatani, K.

Citation:

A small molecule that improves disease phenotype in spinocerebellar ataxia type 31 drosophila model
To Be Published pp. - 0

Experiment:

SOLUTION NMR

Equivalence Class: 

NR_all_51853.1 

Eq. Class Rep:

6IZP

NDB ID:

6P7P

PDB ID:

6P7P 

Release:

2019-12-25

Title:

Structure of E. coli MS115-1 NucC, cAAA-bound form

Classification:

DNA BINDING PROTEIN

Authors:

Lau, R.K., Ye, Q., Birkholz, E.A., Berg, K.R., Patel, L., Mathews, I.T., Watrous, J.D., Ego, K., Whiteley, A.T., Lowey, B., Mekalanos, J.J., Kranzusch, P.J., Jain, M., Pogliano, J., Corbett, K.D.

Citation:

Structure and mechanism of a cyclic trinucleotide-activated bacterial endonuclease mediating bacteriophage immunity
Mol.Cell pp. - 2020

Experiment:

X-RAY DIFFRACTION Resolution:1.665Å R work:0.141R free:0.162

Equivalence Class: 

NR_all_09544.1 

Eq. Class Rep:

6Q1H

NDB ID:

6P7Q

PDB ID:

6P7Q 

Release:

2019-12-25

Title:

Structure of E. coli MS115-1 NucC, 5'-pApA bound form

Classification:

DNA BINDING PROTEIN

Authors:

Lau, R.K., Ye, Q., Birkholz, E.A., Berg, K.R., Patel, L., Mathews, I.T., Watrous, J.D., Ego, K., Whiteley, A.T., Lowey, B., Mekalanos, J.J., Kranzusch, P.J., Jain, M., Pogliano, J., Corbett, K.D.

Citation:

Structure and mechanism of a cyclic trinucleotide-activated bacterial endonuclease mediating bacteriophage immunity
Mol.Cell pp. - 2020

Experiment:

X-RAY DIFFRACTION Resolution:1.66Å R work:0.158R free:0.184

Equivalence Class: 

NR_all_80570.9 

Eq. Class Rep:

6N6C

NDB ID:

6Q1H

PDB ID:

6Q1H 

Release:

2019-12-25

Title:

Structure of P. aeruginosa ATCC27853 NucC, cAAA-bound form

Classification:

DNA BINDING PROTEIN/RNA

Authors:

Lau, R.K., Ye, Q., Birkholz, E.A., Berg, K.R., Patel, L., Mathews, I.T., Watrous, J.D., Ego, K., Whiteley, A.T., Lowey, B., Mekalanos, J.J., Kranzusch, P.J., Jain, M., Pogliano, J., Corbett, K.D.

Citation:

Structure and mechanism of a cyclic trinucleotide-activated bacterial endonuclease mediating bacteriophage immunity
Mol.Cell pp. - 2020

Experiment:

X-RAY DIFFRACTION Resolution:1.45Å R work:0.147R free:0.166

Equivalence Class: 

NR_all_09544.1 

Eq. Class Rep:

6Q1H

NDB ID:

6UCQ

PDB ID:

6UCQ 

Release:

2019-12-25

Title:

Crystal structure of the Thermus thermophilus 70S ribosome recycling complex

Classification:

RIBOSOME

Authors:

Zhou, D., Tanzawa, T., Lin, J., Gagnon, M.G.

Citation:

Structural basis for ribosome recycling by RRF and tRNA.
Nat.Struct.Mol.Biol. 27 pp.25 - 32 2020

Experiment:

X-RAY DIFFRACTION Resolution:3.5Å R work:0.243R free:0.294

Equivalence Class: 

NR_all_65795.52 

Eq. Class Rep:

4LFB

NDB ID:

6UCQ

PDB ID:

6UCQ 

Release:

2019-12-25

Title:

Crystal structure of the Thermus thermophilus 70S ribosome recycling complex

Classification:

RIBOSOME

Authors:

Zhou, D., Tanzawa, T., Lin, J., Gagnon, M.G.

Citation:

Structural basis for ribosome recycling by RRF and tRNA.
Nat.Struct.Mol.Biol. 27 pp.25 - 32 2020

Experiment:

X-RAY DIFFRACTION Resolution:3.5Å R work:0.243R free:0.294

Equivalence Class: 

NR_all_97519.47 

Eq. Class Rep:

4Y4O

NDB ID:

6UCQ

PDB ID:

6UCQ 

Release:

2019-12-25

Title:

Crystal structure of the Thermus thermophilus 70S ribosome recycling complex

Classification:

RIBOSOME

Authors:

Zhou, D., Tanzawa, T., Lin, J., Gagnon, M.G.

Citation:

Structural basis for ribosome recycling by RRF and tRNA.
Nat.Struct.Mol.Biol. 27 pp.25 - 32 2020

Experiment:

X-RAY DIFFRACTION Resolution:3.5Å R work:0.243R free:0.294

Equivalence Class: 

NR_all_19951.33 

Eq. Class Rep:

4YCO

NDB ID:

6UCQ

PDB ID:

6UCQ 

Release:

2019-12-25

Title:

Crystal structure of the Thermus thermophilus 70S ribosome recycling complex

Classification:

RIBOSOME

Authors:

Zhou, D., Tanzawa, T., Lin, J., Gagnon, M.G.

Citation:

Structural basis for ribosome recycling by RRF and tRNA.
Nat.Struct.Mol.Biol. 27 pp.25 - 32 2020

Experiment:

X-RAY DIFFRACTION Resolution:3.5Å R work:0.243R free:0.294

Equivalence Class: 

NR_all_42622.47 

Eq. Class Rep:

5FDV

NDB ID:

6Q57

PDB ID:

6Q57 

Release:

2019-12-18

Title:

X-ray crystal structure of the tetrahydrofolate riboswitch aptamer bound to 5-deazatetrahydropterin

Classification:

RNA

Authors:

Vincent, H.A., Leigh, J., Robinson, C.J., Dunstan, M.S., Ferrer Rios, M.G., Micklefield, J.

Citation:

Tetrahydrofolate Riboswitches Provide Distinct Genetic Outputs to Synthetic and Natural Signals.
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.72Å R work:0.21R free:0.248

Equivalence Class: 

NR_all_78797.3 

Eq. Class Rep:

4LVW

NDB ID:

6UEY

PDB ID:

6UEY 

Release:

2019-12-18

Title:

Pistol ribozyme transition-state analog vanadate

Classification:

RNA

Authors:

Teplova, M., Falschlunger, C., Krasheninina, O., Egger, M., Ren, A., Patel, D.J., Micura, R.

Citation:

Crucial Roles of Two Hydrated Mg2+Ions in Reaction Catalysis of the Pistol Ribozyme.
Angew.Chem.Int.Ed.Engl. pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.8Å R work:0.211R free:0.251

Equivalence Class: 

NR_all_24394.1 

Eq. Class Rep:

6UFJ

NDB ID:

6UF1

PDB ID:

6UF1 

Release:

2019-12-18

Title:

Pistol ribozyme transition-state analog vanadate

Classification:

RNA

Authors:

Teplova, M., Falschlunger, C., Krasheninina, O., Egger, M., Ren, A., Patel, D.J., Micura, R.

Citation:

Crucial Roles of Two Hydrated Mg2+Ions in Reaction Catalysis of the Pistol Ribozyme.
Angew.Chem.Int.Ed.Engl. pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:3.1Å R work:0.199R free:0.254

Equivalence Class: 

NR_all_24394.1 

Eq. Class Rep:

6UFJ

NDB ID:

6UFJ

PDB ID:

6UFJ 

Release:

2019-12-18

Title:

Pistol ribozyme product crystal structure

Classification:

RNA

Authors:

Teplova, M., Falschlunger, C., Krasheninina, O., Egger, M., Ren, A., Patel, D.J., Micura, R.

Citation:

Crucial Roles of Two Hydrated Mg2+Ions in Reaction Catalysis of the Pistol Ribozyme.
Angew.Chem.Int.Ed.Engl. pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.645Å R work:0.19R free:0.239

Equivalence Class: 

NR_all_24394.1 

Eq. Class Rep:

6UFJ

NDB ID:

6UFK

PDB ID:

6UFK 

Release:

2019-12-18

Title:

Pistol ribozyme product crystal soaked in Mn2+

Classification:

RNA

Authors:

Teplova, M., Falschlunger, C., Krasheninina, O., Egger, M., Ren, A., Patel, D.J., Micura, R.

Citation:

Crucial Roles of Two Hydrated Mg2+Ions in Reaction Catalysis of the Pistol Ribozyme.
Angew.Chem.Int.Ed.Engl. pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:3.2Å R work:0.21R free:0.257

Equivalence Class: 

NR_all_24394.1 

Eq. Class Rep:

6UFJ

NDB ID:

6KWQ

PDB ID:

6KWQ 

Release:

2019-12-11

Title:

Crystal structure of enterovirus 71 polymerase elongation complex (native form)

Classification:

TRANSFERASE/RNA

Authors:

Shi, W., Ye, H.Q., Deng, C.L., Li, R., Zhang, B., Gong, P.

Citation:

A nucleobase-binding pocket in a viral RNA-dependent RNA polymerase contributes to elongation complex stability.
Nucleic Acids Res. pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:1.76Å R work:0.18R free:0.214

Equivalence Class: 

NR_all_13614.1 

Eq. Class Rep:

6KWQ

NDB ID:

6KWR

PDB ID:

6KWR 

Release:

2019-12-11

Title:

Crystal structure of enterovirus 71 polymerase elongation complex (ddCTP form)

Classification:

TRANSFERASE/RNA

Authors:

Shi, W., Ye, H.Q., Deng, C.L., Li, R., Zhang, B., Gong, P.

Citation:

A nucleobase-binding pocket in a viral RNA-dependent RNA polymerase contributes to elongation complex stability.
Nucleic Acids Res. pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.5Å R work:0.216R free:0.257

Equivalence Class: 

NR_all_04400.1 

Eq. Class Rep:

6KWR

NDB ID:

6U8D

PDB ID:

6U8D 

Release:

2019-12-04

Title:

Crystal structure of hepatitis C virus IRES junction IIIabc in complex with Fab HCV2

Classification:

RNA/Immune System

Authors:

Koirala, D., Lewicka, A., Koldobskaya, Y., Huang, H., Piccirilli, J.A.

Citation:

Synthetic Antibody Binding to a Preorganized RNA Domain of Hepatitis C Virus Internal Ribosome Entry Site Inhibits Translation.
Acs Chem.Biol. pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:1.807Å R work:0.173R free:0.208

Equivalence Class: 

NR_all_20951.1 

Eq. Class Rep:

6U8D

NDB ID:

6U8K

PDB ID:

6U8K 

Release:

2019-12-04

Title:

Crystal structure of hepatitis C virus IRES junction IIIabc in complex with Fab HCV3

Classification:

RNA/Immune System

Authors:

Koirala, D., Lewicka, A., Koldobskaya, Y., Huang, H., Piccirilli, J.A.

Citation:

Synthetic Antibody Binding to a Preorganized RNA Domain of Hepatitis C Virus Internal Ribosome Entry Site Inhibits Translation.
Acs Chem.Biol. pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.75Å R work:0.186R free:0.222

Equivalence Class: 

NR_all_20951.1 

Eq. Class Rep:

6U8D

NDB ID:

6UFM

PDB ID:

6UFM 

Release:

2019-12-04

Title:

Cocrystal Structure of the Nocardia farcinica ileS T-box riboswitch in complex with its cognate tRNA

Classification:

RNA

Authors:

Suddala, K.C., Zhang, J.

Citation:

High-affinity recognition of specific tRNAs by an mRNA anticodon-binding groove.
Nat.Struct.Mol.Biol. 26 pp.1114 - 1122 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.82Å R work:0.19R free:0.232

Equivalence Class: 

NR_all_03365.1 

Eq. Class Rep:

6UFM

NDB ID:

6UFM

PDB ID:

6UFM 

Release:

2019-12-04

Title:

Cocrystal Structure of the Nocardia farcinica ileS T-box riboswitch in complex with its cognate tRNA

Classification:

RNA

Authors:

Suddala, K.C., Zhang, J.

Citation:

High-affinity recognition of specific tRNAs by an mRNA anticodon-binding groove.
Nat.Struct.Mol.Biol. 26 pp.1114 - 1122 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.82Å R work:0.19R free:0.232

Equivalence Class: 

NR_all_44698.1 

Eq. Class Rep:

6UFM

NDB ID:

6N5K

PDB ID:

6N5K 

Release:

2019-11-27

Title:

Structure of Human pir-miRNA-449c Apical Loop and One-base-pair Fused to the YdaO Riboswitch Scaffold

Classification:

RNA

Authors:

Shoffner, G.M., Peng, Z., Guo, F.

Citation:

Three-dimensional structures of pri-miRNA apical junctions and loops revealed by scaffold-directed crystallography
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.098Å R work:0.176R free:0.186

Equivalence Class: 

NR_all_94866.1 

Eq. Class Rep:

6N5P

NDB ID:

6N5L

PDB ID:

6N5L 

Release:

2019-11-27

Title:

Structure of Human pir-miRNA-19b-2 Apical Loop and One-base-pair Fused to the YdaO Riboswitch Scaffold

Classification:

RNA

Authors:

Shoffner, G.M., Peng, Z., Guo, F.

Citation:

Three-dimensional structures of pri-miRNA apical junctions and loops revealed by scaffold-directed crystallography
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.85Å R work:0.183R free:0.211

Equivalence Class: 

NR_all_94866.1 

Eq. Class Rep:

6N5P

NDB ID:

6N5N

PDB ID:

6N5N 

Release:

2019-11-27

Title:

Structure of Human pir-miRNA-208a Apical Loop and One-base-pair Fused to the YdaO Riboswitch Scaffold

Classification:

RNA

Authors:

Shoffner, G.M., Peng, Z., Guo, F.

Citation:

Three-dimensional structures of pri-miRNA apical junctions and loops revealed by scaffold-directed crystallography
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.951Å R work:0.168R free:0.185

Equivalence Class: 

NR_all_94866.1 

Eq. Class Rep:

6N5P

NDB ID:

6N5O

PDB ID:

6N5O 

Release:

2019-11-27

Title:

Structure of Human pir-miRNA-202 Apical Loop and One-base-pair Fused to the YdaO Riboswitch Scaffold

Classification:

RNA

Authors:

Shoffner, G.M., Peng, Z., Guo, F.

Citation:

Three-dimensional structures of pri-miRNA apical junctions and loops revealed by scaffold-directed crystallography
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.708Å R work:0.179R free:0.218

Equivalence Class: 

NR_all_94866.1 

Eq. Class Rep:

6N5P

NDB ID:

6N5P

PDB ID:

6N5P 

Release:

2019-11-27

Title:

Structure of Human pir-miRNA-340 Apical Loop and One-base-pair Fused to the YdaO Riboswitch Scaffold

Classification:

RNA

Authors:

Shoffner, G.M., Peng, Z., Guo, F.

Citation:

Three-dimensional structures of pri-miRNA apical junctions and loops revealed by scaffold-directed crystallography
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.991Å R work:0.151R free:0.18

Equivalence Class: 

NR_all_94866.1 

Eq. Class Rep:

6N5P

NDB ID:

6N5Q

PDB ID:

6N5Q 

Release:

2019-11-27

Title:

Structure of Human pir-miRNA-378a Apical Loop and One-base-pair Fused to the YdaO Riboswitch Scaffold

Classification:

RNA

Authors:

Shoffner, G.M., Peng, Z., Guo, F.

Citation:

Three-dimensional structures of pri-miRNA apical junctions and loops revealed by scaffold-directed crystallography
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.946Å R work:0.165R free:0.187

Equivalence Class: 

NR_all_94866.1 

Eq. Class Rep:

6N5P

NDB ID:

6N5R

PDB ID:

6N5R 

Release:

2019-11-27

Title:

Structure of Human pir-miRNA-300 Apical Loop Fused to the YdaO Riboswitch Scaffold

Classification:

RNA

Authors:

Shoffner, G.M., Peng, Z., Guo, F.

Citation:

Three-dimensional structures of pri-miRNA apical junctions and loops revealed by scaffold-directed crystallography
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.082Å R work:0.164R free:0.189

Equivalence Class: 

NR_all_94866.1 

Eq. Class Rep:

6N5P

NDB ID:

6N5S

PDB ID:

6N5S 

Release:

2019-11-27

Title:

Structure of Human pir-miRNA-320b-2 Apical Loop and One-base-pair Stem Fused to the YdaO Riboswitch Scaffold

Classification:

RNA

Authors:

Shoffner, G.M., Peng, Z., Guo, F.

Citation:

Three-dimensional structures of pri-miRNA apical junctions and loops revealed by scaffold-directed crystallography
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.802Å R work:0.176R free:0.2

Equivalence Class: 

NR_all_94866.1 

Eq. Class Rep:

6N5P

NDB ID:

6N5T

PDB ID:

6N5T 

Release:

2019-11-27

Title:

Structure of Human pir-miRNA-378a Apical Loop Fused to the YdaO Riboswitch Scaffold

Classification:

RNA

Authors:

Shoffner, G.M., Peng, Z., Guo, F.

Citation:

Three-dimensional structures of pri-miRNA apical junctions and loops revealed by scaffold-directed crystallography
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.787Å R work:0.18R free:0.196

Equivalence Class: 

NR_all_94866.1 

Eq. Class Rep:

6N5P

NDB ID:

6RT4

PDB ID:

6RT4 

Release:

2019-11-27

Title:

The YTH domain of YTHDC1 protein in complex with m6ACU oligonucleotide

Classification:

RNA BINDING PROTEIN

Authors:

Li, Y., Bedi, R.K., Wiedmer, L., Huang, D., Sledz, P., Caflisch, A.

Citation:

Flexible Binding of m6A Reader Protein YTHDC1 to Its Preferred RNA Motif.
J Chem Theory Comput 15 pp.7004 - 7014 2019

Experiment:

X-RAY DIFFRACTION Resolution:1.49Å R work:0.204R free:0.23

Equivalence Class: 

NR_all_63313.1 

Eq. Class Rep:

6RT4

NDB ID:

6RT5

PDB ID:

6RT5 

Release:

2019-11-27

Title:

The YTH domain of YTHDC1 protein in complex with Gm6AC oligonucleotide

Classification:

RNA BINDING PROTEIN

Authors:

Li, Y., Bedi, R.K., Wiedmer, L., Huang, D., Sledz, P., Caflisch, A.

Citation:

Flexible Binding of m6A Reader Protein YTHDC1 to Its Preferred RNA Motif.
J Chem Theory Comput 15 pp.7004 - 7014 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.303Å R work:0.208R free:0.274

Equivalence Class: 

NR_all_33222.1 

Eq. Class Rep:

6RT5