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As of 4-Dec-2019 number of released structures: 10490
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Polymer Type: All + RNA Type: All + Protein Function: All + Experimental Method: All + RNA Sequence Type: All RNA Sequence

Results: 5187  Download results as an excel file       Gallery view

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 pre-organized IRES RNA domain of hepatitis C virus inhibits translation.
Acs Chem.Biol. pp. - 2019

Experiment:

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

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 pre-organized IRES RNA domain of hepatitis C virus inhibits translation.
Acs Chem.Biol. pp. - 2019

Experiment:

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

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:

Cocrystal Structure of the Nocardia farcinica ileS T-box riboswitch in complex with its cognate tRNA
Nat.Struct.Mol.Biol. pp. - 2019

Experiment:

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

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 pp. - 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 pp. - 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

NDB ID:

6RT6

PDB ID:

6RT6 

Release:

2019-11-27

Title:

The YTH domain of YTHDC1 protein in complex with GGm6AC 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 pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:1.461Å R work:0.206R free:0.219

Equivalence Class: 

NR_all_19822.1 

Eq. Class Rep:

6RT6

NDB ID:

6RT7

PDB ID:

6RT7 

Release:

2019-11-27

Title:

The YTH domain of YTHDC1 protein in complex with Gm6ACU 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 pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:1.73Å R work:0.22R free:0.27

Equivalence Class: 

NR_all_10291.1 

Eq. Class Rep:

6RT7

NDB ID:

6UO1

PDB ID:

6UO1 

Release:

2019-11-27

Title:

Crystal structure of the Thermus thermophilus 70S ribosome in complex with mRNA (containing pseudouridine at the first position of the codon) and deacylated A-, P-, and E-site tRNAs at 2.95A resolution

Classification:

RIBOSOME

Authors:

Eyler, D.E., Franco, M.K., Batool, Z., Wu, M.Z., Dubuke, M.L., Dobosz-Bartoszek, M., Jones, J.D., Polikanov, Y.S., Roy, B., Koutmou, K.S.

Citation:

Pseudouridinylation of mRNA coding sequences alters translation.
Proc.Natl.Acad.Sci.USA 116 pp.23068 - 23074 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.95Å R work:0.238R free:0.292

Equivalence Class: 

NR_all_65795.51 

Eq. Class Rep:

4LFB

NDB ID:

6UO1

PDB ID:

6UO1 

Release:

2019-11-27

Title:

Crystal structure of the Thermus thermophilus 70S ribosome in complex with mRNA (containing pseudouridine at the first position of the codon) and deacylated A-, P-, and E-site tRNAs at 2.95A resolution

Classification:

RIBOSOME

Authors:

Eyler, D.E., Franco, M.K., Batool, Z., Wu, M.Z., Dubuke, M.L., Dobosz-Bartoszek, M., Jones, J.D., Polikanov, Y.S., Roy, B., Koutmou, K.S.

Citation:

Pseudouridinylation of mRNA coding sequences alters translation.
Proc.Natl.Acad.Sci.USA 116 pp.23068 - 23074 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.95Å R work:0.238R free:0.292

Equivalence Class: 

NR_all_97519.46 

Eq. Class Rep:

4Y4O

NDB ID:

6UO1

PDB ID:

6UO1 

Release:

2019-11-27

Title:

Crystal structure of the Thermus thermophilus 70S ribosome in complex with mRNA (containing pseudouridine at the first position of the codon) and deacylated A-, P-, and E-site tRNAs at 2.95A resolution

Classification:

RIBOSOME

Authors:

Eyler, D.E., Franco, M.K., Batool, Z., Wu, M.Z., Dubuke, M.L., Dobosz-Bartoszek, M., Jones, J.D., Polikanov, Y.S., Roy, B., Koutmou, K.S.

Citation:

Pseudouridinylation of mRNA coding sequences alters translation.
Proc.Natl.Acad.Sci.USA 116 pp.23068 - 23074 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.95Å R work:0.238R free:0.292

Equivalence Class: 

NR_all_19951.32 

Eq. Class Rep:

4YCO

NDB ID:

6UO1

PDB ID:

6UO1 

Release:

2019-11-27

Title:

Crystal structure of the Thermus thermophilus 70S ribosome in complex with mRNA (containing pseudouridine at the first position of the codon) and deacylated A-, P-, and E-site tRNAs at 2.95A resolution

Classification:

RIBOSOME

Authors:

Eyler, D.E., Franco, M.K., Batool, Z., Wu, M.Z., Dubuke, M.L., Dobosz-Bartoszek, M., Jones, J.D., Polikanov, Y.S., Roy, B., Koutmou, K.S.

Citation:

Pseudouridinylation of mRNA coding sequences alters translation.
Proc.Natl.Acad.Sci.USA 116 pp.23068 - 23074 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.95Å R work:0.238R free:0.292

Equivalence Class: 

NR_all_42622.46 

Eq. Class Rep:

5FDV

NDB ID:

6UO1

PDB ID:

6UO1 

Release:

2019-11-27

Title:

Crystal structure of the Thermus thermophilus 70S ribosome in complex with mRNA (containing pseudouridine at the first position of the codon) and deacylated A-, P-, and E-site tRNAs at 2.95A resolution

Classification:

RIBOSOME

Authors:

Eyler, D.E., Franco, M.K., Batool, Z., Wu, M.Z., Dubuke, M.L., Dobosz-Bartoszek, M., Jones, J.D., Polikanov, Y.S., Roy, B., Koutmou, K.S.

Citation:

Pseudouridinylation of mRNA coding sequences alters translation.
Proc.Natl.Acad.Sci.USA 116 pp.23068 - 23074 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.95Å R work:0.238R free:0.292

Equivalence Class: 

NR_all_35542.65 

Eq. Class Rep:

5L4O

NDB ID:

6I1V

PDB ID:

6I1V 

Release:

2019-11-20

Title:

Structure of the RNA duplex containing pseudouridine residue (5'-Cp(PSU)pG-3' sequence context)

Classification:

RNA

Authors:

Deb, I., Popenda, L., Sarzynska, J., Malgowska, M., Lahiri, A., Gdaniec, Z., Kierzek, R.

Citation:

Computational and NMR studies of RNA duplexes with an internal pseudouridine-adenosine base pair.
Sci Rep 9 pp.16278 - 16278 2019

Experiment:

SOLUTION NMR

Equivalence Class: 

NR_all_16609.1 

Eq. Class Rep:

6I1V

NDB ID:

6I1W

PDB ID:

6I1W 

Release:

2019-11-20

Title:

Structure of the RNA duplex containing pseudouridine residue (5'-Gp(PSU)pC-3' sequence context)

Classification:

RNA

Authors:

Deb, I., Popenda, L., Sarzynska, J., Malgowska, M., Lahiri, A., Gdaniec, Z., Kierzek, R.

Citation:

Computational and NMR studies of RNA duplexes with an internal pseudouridine-adenosine base pair.
Sci Rep 9 pp.16278 - 16278 2019

Experiment:

SOLUTION NMR

Equivalence Class: 

NR_all_05252.1 

Eq. Class Rep:

6I1W

NDB ID:

6PMO

PDB ID:

6PMO 

Release:

2019-11-20

Title:

Co-crystal structure of the Geobacillus kaustophilus glyQ T-box riboswitch discriminator domain in complex with tRNA-Gly

Classification:

RNA

Authors:

Li, S., Su, Z., Lehmann, J., Stamatopoulou, V., Giarimoglou, N., Henderson, F.E., Fan, L., Pintilie, G.D., Zhang, K., Chen, M., Ludtke, S.J., Wang, Y.X., Stathopoulos, C., Chiu, W., Zhang, J.

Citation:

Structural basis of amino acid surveillance by higher-order tRNA-mRNA interactions.
Nat.Struct.Mol.Biol. pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.65703Å R work:0.224R free:0.272

Equivalence Class: 

NR_all_04298.1 

Eq. Class Rep:

6PMO

NDB ID:

6PMO

PDB ID:

6PMO 

Release:

2019-11-20

Title:

Co-crystal structure of the Geobacillus kaustophilus glyQ T-box riboswitch discriminator domain in complex with tRNA-Gly

Classification:

RNA

Authors:

Li, S., Su, Z., Lehmann, J., Stamatopoulou, V., Giarimoglou, N., Henderson, F.E., Fan, L., Pintilie, G.D., Zhang, K., Chen, M., Ludtke, S.J., Wang, Y.X., Stathopoulos, C., Chiu, W., Zhang, J.

Citation:

Structural basis of amino acid surveillance by higher-order tRNA-mRNA interactions.
Nat.Struct.Mol.Biol. pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.65703Å R work:0.224R free:0.272

Equivalence Class: 

NR_all_68144.1 

Eq. Class Rep:

6PMO

NDB ID:

6U6J

PDB ID:

6U6J 

Release:

2019-11-20

Title:

RNA-monomer complex containing pyrophosphate linkage

Classification:

RNA

Authors:

Wright, T.H., Giurgiu, C., Zhang, W., Radakovic, A., O'Flaherty, D.K., Zhou, L., Szostak, J.W.

Citation:

Prebiotically Plausible ""Patching"" of RNA Backbone Cleavage through a 3'-5' Pyrophosphate Linkage.
J.Am.Chem.Soc. 141 pp.18104 - 18112 2019

Experiment:

X-RAY DIFFRACTION Resolution:1.6Å R work:0.23R free:0.28

Equivalence Class: 

NR_all_16232.2 

Eq. Class Rep:

5L00

NDB ID:

6UFG

PDB ID:

6UFG 

Release:

2019-11-20

Title:

Co-crystal structure of M. tuberculosis ileS T-box in complex with tRNA-3'-OH

Classification:

RNA

Authors:

Battaglia, R.A., Grigg, J.C., Ke, A.

Citation:

Structural basis for tRNA decoding and aminoacylation sensing by T-box riboregulators.
Nat.Struct.Mol.Biol. pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.929Å R work:0.197R free:0.235

Equivalence Class: 

NR_all_11374.1 

Eq. Class Rep:

6UFG

NDB ID:

6UFG

PDB ID:

6UFG 

Release:

2019-11-20

Title:

Co-crystal structure of M. tuberculosis ileS T-box in complex with tRNA-3'-OH

Classification:

RNA

Authors:

Battaglia, R.A., Grigg, J.C., Ke, A.

Citation:

Structural basis for tRNA decoding and aminoacylation sensing by T-box riboregulators.
Nat.Struct.Mol.Biol. pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.929Å R work:0.197R free:0.235

Equivalence Class: 

NR_all_70717.1 

Eq. Class Rep:

6UFG

NDB ID:

6UFH

PDB ID:

6UFH 

Release:

2019-11-20

Title:

Co-crystal structure of M. tuberculosis ileS T-box in complex with tRNA-3'-2'3'cyclic phosphate

Classification:

RNA

Authors:

Battaglia, R.A., Grigg, J.C., Ke, A.

Citation:

Structural basis for tRNA decoding and aminoacylation sensing by T-box riboregulators.
Nat.Struct.Mol.Biol. pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:3.104Å R work:0.219R free:0.268

Equivalence Class: 

NR_all_11374.1 

Eq. Class Rep:

6UFG

NDB ID:

6UFH

PDB ID:

6UFH 

Release:

2019-11-20

Title:

Co-crystal structure of M. tuberculosis ileS T-box in complex with tRNA-3'-2'3'cyclic phosphate

Classification:

RNA

Authors:

Battaglia, R.A., Grigg, J.C., Ke, A.

Citation:

Structural basis for tRNA decoding and aminoacylation sensing by T-box riboregulators.
Nat.Struct.Mol.Biol. pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:3.104Å R work:0.219R free:0.268

Equivalence Class: 

NR_all_20272.1 

Eq. Class Rep:

6UFH

NDB ID:

6UEJ

PDB ID:

6UEJ 

Release:

2019-11-13

Title:

Crystal structure of human zinc finger antiviral protein bound to RNA

Classification:

ANTIVIRAL PROTEIN

Authors:

Meagher, J.L., Takata, M., Goncalves-Carneiro, D., Keane, S.C., Rebendenne, A., Ong, H., Orr, V.K., MacDonald, M.R., Stuckey, J.A., Bieniasz, P.D., Smith, J.L.

Citation:

Structure of the zinc-finger antiviral protein in complex with RNA reveals a mechanism for selective targeting of CG-rich viral sequences.
Proc.Natl.Acad.Sci.USA pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.21Å R work:0.21R free:0.254

Equivalence Class: 

NR_all_75659.1 

Eq. Class Rep:

6UEJ

NDB ID:

6JDQ

PDB ID:

6JDQ 

Release:

2019-11-06

Title:

Crystal structure of Nme1Cas9 in complex with sgRNA

Classification:

HYDROLASE/RNA

Authors:

Sun, W., Yang, J., Cheng, Z., Amrani, N., Liu, C., Wang, K., Ibraheim, R., Edraki, A., Huang, X., Wang, M., Wang, J., Liu, L., Sheng, G., Yang, Y., Lou, J., Sontheimer, E.J., Wang, Y.

Citation:

Structures of Neisseria meningitidis Cas9 Complexes in Catalytically Poised and Anti-CRISPR-Inhibited States.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.95Å R work:0.255R free:0.289

Equivalence Class: 

NR_all_38966.1 

Eq. Class Rep:

6JDV

NDB ID:

6JDV

PDB ID:

6JDV 

Release:

2019-11-06

Title:

Crystal structure of Nme1Cas9 in complex with sgRNA and target DNA (ATATGATT PAM) in catalytic state

Classification:

HYDROLASE/RNA/DNA

Authors:

Sun, W., Yang, J., Cheng, Z., Amrani, N., Liu, C., Wang, K., Ibraheim, R., Edraki, A., Huang, X., Wang, M., Wang, J., Liu, L., Sheng, G., Yang, Y., Lou, J., Sontheimer, E.J., Wang, Y.

Citation:

Structures of Neisseria meningitidis Cas9 Complexes in Catalytically Poised and Anti-CRISPR-Inhibited States.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:3.1Å R work:0.212R free:0.231

Equivalence Class: 

NR_all_38966.1 

Eq. Class Rep:

6JDV

NDB ID:

6JE3

PDB ID:

6JE3 

Release:

2019-11-06

Title:

Crystal structure of Nme2Cas9 in complex with sgRNA and target DNA (AGGCCC PAM) with 5 nt overhang

Classification:

HYDROLASE/RNA/DNA

Authors:

Sun, W., Yang, J., Cheng, Z., Amrani, N., Liu, C., Wang, K., Ibraheim, R., Edraki, A., Huang, X., Wang, M., Wang, J., Liu, L., Sheng, G., Yang, Y., Lou, J., Sontheimer, E.J., Wang, Y.

Citation:

Structures of Neisseria meningitidis Cas9 Complexes in Catalytically Poised and Anti-CRISPR-Inhibited States.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.931Å R work:0.226R free:0.256

Equivalence Class: 

NR_all_38966.1 

Eq. Class Rep:

6JDV

NDB ID:

6JE4

PDB ID:

6JE4 

Release:

2019-11-06

Title:

Crystal structure of Nme1Cas9-sgRNA-dsDNA dimer mediated by double protein inhibitor AcrIIC3 monomers

Classification:

HYDROLASE/HYDROLASE INHIBITOR/DNA/RNA

Authors:

Sun, W., Yang, J., Cheng, Z., Amrani, N., Liu, C., Wang, K., Ibraheim, R., Edraki, A., Huang, X., Wang, M., Wang, J., Liu, L., Sheng, G., Yang, Y., Lou, J., Sontheimer, E.J., Wang, Y.

Citation:

Structures of Neisseria meningitidis Cas9 Complexes in Catalytically Poised and Anti-CRISPR-Inhibited States.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:3.069Å R work:0.21R free:0.24

Equivalence Class: 

NR_all_38966.1 

Eq. Class Rep:

6JDV

NDB ID:

6JE9

PDB ID:

6JE9 

Release:

2019-11-06

Title:

Crystal structure of Nme1Cas9-sgRNA dimer mediated by double protein inhibitor AcrIIC3 monomers

Classification:

HYDROLASE/HYDROLASE INHIBITOR/RNA

Authors:

Sun, W., Yang, J., Cheng, Z., Amrani, N., Liu, C., Wang, K., Ibraheim, R., Edraki, A., Huang, X., Wang, M., Wang, J., Liu, L., Sheng, G., Yang, Y., Lou, J., Sontheimer, E.J., Wang, Y.

Citation:

Structures of Neisseria meningitidis Cas9 Complexes in Catalytically Poised and Anti-CRISPR-Inhibited States.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:3.46Å R work:0.22R free:0.26

Equivalence Class: 

NR_all_38966.1 

Eq. Class Rep:

6JDV

NDB ID:

6JFU

PDB ID:

6JFU 

Release:

2019-11-06

Title:

Crystal structure of Nme2Cas9 in complex with sgRNA and target DNA (AGGCCC PAM)

Classification:

HYDROLASE/RNA/DNA

Authors:

Sun, W., Yang, J., Cheng, Z., Amrani, N., Liu, C., Wang, K., Ibraheim, R., Edraki, A., Huang, X., Wang, M., Wang, J., Liu, L., Sheng, G., Yang, Y., Lou, J., Sontheimer, E.J., Wang, Y.

Citation:

Structures of Neisseria meningitidis Cas9 Complexes in Catalytically Poised and Anti-CRISPR-Inhibited States.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:3.2Å R work:0.253R free:0.27

Equivalence Class: 

NR_all_38966.1 

Eq. Class Rep:

6JDV

NDB ID:

6KC7

PDB ID:

6KC7 

Release:

2019-11-06

Title:

Crystal structure of Nme1Cas9 in complex with sgRNA and target DNA (ATATGATT PAM) in seed-base paring state

Classification:

HYDROLASE/RNA/DNA

Authors:

Sun, W., Yang, J., Cheng, Z., Amrani, N., Liu, C., Wang, K., Ibraheim, R., Edraki, A., Huang, X., Wang, M., Wang, J., Liu, L., Sheng, G., Yang, Y., Lou, J., Sontheimer, E.J., Wang, Y.

Citation:

Structures of Neisseria meningitidis Cas9 Complexes in Catalytically Poised and Anti-CRISPR-Inhibited States.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:3.3Å R work:0.252R free:0.274

Equivalence Class: 

NR_all_38966.1 

Eq. Class Rep:

6JDV

NDB ID:

6KC8

PDB ID:

6KC8 

Release:

2019-11-06

Title:

Crystal structure of WT Nme1Cas9 in complex with sgRNA and target DNA (ATATGATT PAM) in post-cleavage state

Classification:

HYDROLASE/RNA/DNA

Authors:

Sun, W., Yang, J., Cheng, Z., Amrani, N., Liu, C., Wang, K., Ibraheim, R., Edraki, A., Huang, X., Wang, M., Wang, J., Liu, L., Sheng, G., Yang, Y., Lou, J., Sontheimer, E.J., Wang, Y.

Citation:

Structures of Neisseria meningitidis Cas9 Complexes in Catalytically Poised and Anti-CRISPR-Inhibited States.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.9Å R work:0.202R free:0.256

Equivalence Class: 

NR_all_38966.1 

Eq. Class Rep:

6JDV

NDB ID:

6SO9

PDB ID:

6SO9 

Release:

2019-11-06

Title:

Mouse RBM20 RRM domain in complex with AUCUUA RNA

Classification:

RNA BINDING PROTEIN

Authors:

Mackereth, C.D., Upadhyay, S.K.

Citation:

Structural basis of UCUU RNA motif recognition by splicing factor RBM20
Biorxiv pp. - 2019

Experiment:

SOLUTION NMR

Equivalence Class: 

NR_all_36061.1 

Eq. Class Rep:

6SO9

NDB ID:

6U9X

PDB ID:

6U9X 

Release:

2019-11-06

Title:

Structure of T. brucei MERS1-RNA complex

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Schumacher, M.A., Zeng, W., Henderson, M.

Citation:

Structures of MERS1, the 5' processing enzyme of mitochondrial mRNAs in Trypanosoma brucei.
Rna pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.6Å R work:0.217R free:0.249

Equivalence Class: 

NR_all_30330.1 

Eq. Class Rep:

6U9X

NDB ID:

6SCF

PDB ID:

6SCF 

Release:

2019-10-30

Title:

A viral anti-CRISPR subverts type III CRISPR immunity by rapid degradation of cyclic oligoadenylate

Classification:

DNA

Authors:

Athukoralage, J.S., McMahon, S.A., Zhang, C., Gruschow, S., Graham, S., Krupovic, M., Whitaker, R.J., Gloster, T.M., White, M.F.

Citation:

A viral anti-CRISPR subverts type III CRISPR immunity by rapid degradation of cyclic oligoadenylate
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.55Å R work:0.201R free:0.248

Equivalence Class: 

NR_all_64918.3 

Eq. Class Rep:

6SCF

NDB ID:

6P2H

PDB ID:

6P2H 

Release:

2019-10-23

Title:

Structural basis for 2'-deoxyguanosine recognition by the 2'-dG-II class of riboswitches

Classification:

RNA

Authors:

Matyjasik, M.M., Batey, R.T.

Citation:

Structural basis for 2'-deoxyguanosine recognition by the 2'-dG-II class of riboswitches.
Nucleic Acids Res. 47 pp.10931 - 10941 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.803Å R work:0.244R free:0.275

Equivalence Class: 

NR_all_23920.1 

Eq. Class Rep:

6P2H

NDB ID:

6IJ2

PDB ID:

6IJ2 

Release:

2019-10-09

Title:

Crystal structure of a standalone versatile EAL protein from Vibrio cholerae O395 - 5'-pGpG bound form

Classification:

HYDROLASE

Authors:

Yadav, M., Pal, K., Sen, U.

Citation:

Crystal structure of a standalone versatile EAL protein from Vibrio cholerae O395 - 5'-pGpG bound form
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.7Å R work:0.181R free:0.22

Equivalence Class: 

NR_all_89612.7 

Eq. Class Rep:

6N6I

NDB ID:

6RCL

PDB ID:

6RCL 

Release:

2019-10-09

Title:

Crystal structure of REXO2-D199A-AA

Classification:

HYDROLASE

Authors:

Nicholls, T.J., Spahr, H., Jiang, S., Siira, S.J., Koolmeister, C., Sharma, S., Kauppila, J.H.K., Jiang, M., Kaever, V., Rackham, O., Chabes, A., Falkenberg, M., Filipovska, A., Larsson, N.G., Gustafsson, C.M.

Citation:

Dinucleotide Degradation by REXO2 Maintains Promoter Specificity in Mammalian Mitochondria.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:1.97Å R work:0.202R free:0.25

Equivalence Class: 

NR_all_80570.8 

Eq. Class Rep:

6N6C

NDB ID:

6N2V

PDB ID:

6N2V 

Release:

2019-10-02

Title:

Manganese riboswitch from Xanthmonas oryzae bound to Mn(II)

Classification:

RNA

Authors:

Suddala, K.C., Price, I.R., Dandpat, S.S., Janecek, M., Kuhrova, P., Sponer, J., Banas, P., Ke, A., Walter, N.G.

Citation:

Local-to-global signal transduction at the core of a Mn2+sensing riboswitch.
Nat Commun 10 pp.4304 - 4304 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.85Å R work:0.209R free:0.22

Equivalence Class: 

NR_all_70719.1 

Eq. Class Rep:

6N2V

NDB ID:

6R7B

PDB ID:

6R7B 

Release:

2019-10-02

Title:

Crystal structure of Csx1 in complex with cyclic oligoadenylate cOA4 conformation 1

Classification:

RNA BINDING PROTEIN

Authors:

Molina, R., Stella, S., Feng, M., Sofos, N., Jauniskis, V., Pozdnyakova, I., Lopez-Mendez, B., She, Q., Montoya, G.

Citation:

Structure of Csx1-cOA4complex reveals the basis of RNA decay in Type III-B CRISPR-Cas.
Nat Commun 10 pp.4302 - 4302 2019

Experiment:

X-RAY DIFFRACTION Resolution:3.12Å R work:0.18R free:0.229

Equivalence Class: 

NR_all_64918.3 

Eq. Class Rep:

6SCF

NDB ID:

6R9R

PDB ID:

6R9R 

Release:

2019-10-02

Title:

Crystal structure of Csx1 in complex with cyclic oligoadenylate cOA4 conformation 2

Classification:

RNA BINDING PROTEIN

Authors:

Molina, R., Stella, S., Feng, M., Sofos, N., Jauniskis, V., Pozdnyakova, I., Lopez-Mendez, B., She, Q., Montoya, G.

Citation:

Structure of Csx1-cOA4complex reveals the basis of RNA decay in Type III-B CRISPR-Cas.
Nat Commun 10 pp.4302 - 4302 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.7Å R work:0.192R free:0.224

Equivalence Class: 

NR_all_64918.3 

Eq. Class Rep:

6SCF

NDB ID:

6K3Z

PDB ID:

6K3Z 

Release:

2019-09-25

Title:

Crystal structure of dCas9 in complex with sgRNA and DNA (TGA PAM)

Classification:

HYDROLASE/DNA/RNA

Authors:

Chen, W., Zhang, H., Zhang, Y., Wang, Y., Gan, J., Ji, Q.

Citation:

Molecular basis for the PAM expansion and fidelity enhancement of an evolved Cas9 nuclease.
Plos Biol. 17 pp.e3000496 - e3000496 2019

Experiment:

X-RAY DIFFRACTION Resolution:3.2Å R work:0.196R free:0.275

Equivalence Class: 

NR_all_99121.1 

Eq. Class Rep:

5FQ5

NDB ID:

6K4P

PDB ID:

6K4P 

Release:

2019-09-25

Title:

Crystal structure of xCas9 in complex with sgRNA and DNA (TGG PAM)

Classification:

HYDROLASE/DNA/RNA

Authors:

Chen, W., Zhang, H., Zhang, Y., Wang, Y., Gan, J., Ji, Q.

Citation:

Molecular basis for the PAM expansion and fidelity enhancement of an evolved Cas9 nuclease.
Plos Biol. 17 pp.e3000496 - e3000496 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.9Å R work:0.202R free:0.269

Equivalence Class: 

NR_all_99121.1 

Eq. Class Rep:

5FQ5