A Portal for Three-dimensional Structural Information about Nucleic Acids
As of 9-Oct-2019 number of released structures: 10416
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Polymer Type: All + RNA Type: All + Protein Function: All + Experimental Method: All + RNA Sequence Type: All RNA Sequence

Results: 5134  Download results as an excel file       Gallery view

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

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., Kauppila, J.H.K., Kaever, V., Rackham, O., Falkenberg, M., Filipovska, A., Larsson, N.G., Gustafsson, C.M.

Citation:

Dinucleotide degradation by REXO2 maintains promoter specificity in mammalian mitochondria
to be published pp. - 0

Experiment:

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

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_64918.2 

Eq. Class Rep:

6O6X

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_64918.2 

Eq. Class Rep:

6O6X

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 PAM recognition and high fidelity of an evolved Cas9 nuclease
To Be Published pp. - 0

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 PAM recognition and high fidelity of an evolved Cas9 nuclease
To Be Published pp. - 0

Experiment:

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

Equivalence Class: 

NR_all_99121.1 

Eq. Class Rep:

5FQ5

NDB ID:

6K4Q

PDB ID:

6K4Q 

Release:

2019-09-25

Title:

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

Classification:

HYDROLASE/DNA/RNA

Authors:

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

Citation:

Molecular basis for PAM recognition and high fidelity of an evolved Cas9 nuclease
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.7Å R work:0.203R free:0.275

Equivalence Class: 

NR_all_99121.1 

Eq. Class Rep:

5FQ5

NDB ID:

6K4S

PDB ID:

6K4S 

Release:

2019-09-25

Title:

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

Classification:

HYDROLASE/DNA/RNA

Authors:

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

Citation:

Molecular basis for PAM recognition and high fidelity of an evolved Cas9 nuclease
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.01Å R work:0.236R free:0.285

Equivalence Class: 

NR_all_99121.1 

Eq. Class Rep:

5FQ5

NDB ID:

6K4U

PDB ID:

6K4U 

Release:

2019-09-25

Title:

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

Classification:

HYDROLASE/DNA

Authors:

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

Citation:

Molecular basis for PAM recognition and high fidelity of an evolved Cas9 nuclease
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.2Å R work:0.219R free:0.282

Equivalence Class: 

NR_all_99121.1 

Eq. Class Rep:

5FQ5

NDB ID:

6K57

PDB ID:

6K57 

Release:

2019-09-25

Title:

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

Classification:

HYDROLASE/RNA/DNA

Authors:

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

Citation:

Molecular basis for PAM recognition and high fidelity of an evolved Cas9 nuclease
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.98Å R work:0.197R free:0.274

Equivalence Class: 

NR_all_99121.1 

Eq. Class Rep:

5FQ5

NDB ID:

6QIQ

PDB ID:

6QIQ 

Release:

2019-09-25

Title:

Crystal structure of seleno-derivative CAG repeats with synthetic CMBL3a compound

Classification:

RNA

Authors:

Mukherjee, S., Blaszczyk, L., Rypniewski, W., Falschlunger, C., Micura, R., Murata, A., Dohno, C., Nakatani, K., Kiliszek, A.

Citation:

Structural insights into synthetic ligands targeting A-A pairs in disease-related CAG RNA repeats.
Nucleic Acids Res. pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.519Å R work:0.204R free:0.227

Equivalence Class: 

NR_all_99409.1 

Eq. Class Rep:

6QIT

NDB ID:

6QIR

PDB ID:

6QIR 

Release:

2019-09-25

Title:

Crystal structure of CAG repeats with synthetic CMBL3a compound (model I)

Classification:

RNA

Authors:

Mukherjee, S., Blaszczyk, L., Rypniewski, W., Falschlunger, C., Micura, R., Murata, A., Dohno, C., Nakatani, K., Kiliszek, A.

Citation:

Structural insights into synthetic ligands targeting A-A pairs in disease-related CAG RNA repeats.
Nucleic Acids Res. pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:1.531Å R work:0.176R free:0.232

Equivalence Class: 

NR_all_99409.1 

Eq. Class Rep:

6QIT

NDB ID:

6QIS

PDB ID:

6QIS 

Release:

2019-09-25

Title:

Crystal structure of CAG repeats with synthetic CMBL3a compound (model II)

Classification:

RNA

Authors:

Mukherjee, S., Blaszczyk, L., Rypniewski, W., Falschlunger, C., Micura, R., Murata, A., Dohno, C., Nakatani, K., Kiliszek, A.

Citation:

Structural insights into synthetic ligands targeting A-A pairs in disease-related CAG RNA repeats.
Nucleic Acids Res. pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:1.99Å R work:0.239R free:0.276

Equivalence Class: 

NR_all_99409.1 

Eq. Class Rep:

6QIT

NDB ID:

6QIT

PDB ID:

6QIT 

Release:

2019-09-25

Title:

Crystal structure of CAG repeats with synthetic CMBL3b compound

Classification:

RNA

Authors:

Mukherjee, S., Blaszczyk, L., Rypniewski, W., Falschlunger, C., Micura, R., Murata, A., Dohno, C., Nakatani, K., Kiliszek, A.

Citation:

Structural insights into synthetic ligands targeting A-A pairs in disease-related CAG RNA repeats.
Nucleic Acids Res. pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:1.501Å R work:0.15R free:0.195

Equivalence Class: 

NR_all_99409.1 

Eq. Class Rep:

6QIT

NDB ID:

6QIV

PDB ID:

6QIV 

Release:

2019-09-25

Title:

Crystal structure of seleno-derivative CAG repeats with synthetic CMBL4 compound

Classification:

RNA

Authors:

Mukherjee, S., Blaszczyk, L., Rypniewski, W., Falschlunger, C., Micura, R., Murata, A., Dohno, C., Nakatani, K., Kiliszek, A.

Citation:

Structural insights into synthetic ligands targeting A-A pairs in disease-related CAG RNA repeats.
Nucleic Acids Res. pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.28Å R work:0.198R free:0.253

Equivalence Class: 

NR_all_99409.1 

Eq. Class Rep:

6QIT

NDB ID:

6OZF

PDB ID:

6OZF 

Release:

2019-09-04

Title:

Crystal structure of Thermotoga maritima (Tm) Endonuclease V (D110N) in complex with a 12mer DNA containing an inosine followed by a ribo-adenosine

Classification:

HYDROLASE

Authors:

Wu, J., Samara, N.L., Kuraoka, I., Yang, W.

Citation:

Evolution of Inosine-Specific Endonuclease V from Bacterial DNase to Eukaryotic RNase.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:1.8Å R work:0.166R free:0.197

NDB ID:

6OZG

PDB ID:

6OZG 

Release:

2019-09-04

Title:

Crystal structure of Thermotoga maritima (Tm) Endonuclease V (E89Q) in complex with a 12mer DNA containing an inosine followed by a ribo-adenosine

Classification:

HYDROLASE

Authors:

Wu, J., Samara, N.L., Kuraoka, I., Yang, W.

Citation:

Evolution of Inosine-Specific Endonuclease V from Bacterial DNase to Eukaryotic RNase.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:1.93Å R work:0.177R free:0.209

NDB ID:

6OZH

PDB ID:

6OZH 

Release:

2019-09-04

Title:

Crystal structure of Ciona intestinalis (Ci) Endonuclease V in complex with a 24mer DNA containing an inosine followed by a ribo-adenosine

Classification:

HYDROLASE

Authors:

Wu, J., Samara, N.L., Kuraoka, I., Yang, W.

Citation:

Evolution of Inosine-Specific Endonuclease V from Bacterial DNase to Eukaryotic RNase.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:3.026Å R work:0.233R free:0.269

NDB ID:

6OZI

PDB ID:

6OZI 

Release:

2019-09-04

Title:

Crystal structure of Ciona intestinalis (Ci) Endonuclease V (D234N) in complex with a 23mer DNA containing an inosine followed by a ribo-adenosine

Classification:

HYDROLASE

Authors:

Wu, J., Samara, N.L., Kuraoka, I., Yang, W.

Citation:

Evolution of Inosine-Specific Endonuclease V from Bacterial DNase to Eukaryotic RNase.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.302Å R work:0.174R free:0.201

NDB ID:

6OZJ

PDB ID:

6OZJ 

Release:

2019-09-04

Title:

Crystal structure of Mus musculus (Mm) Endonuclease V in complex with a 23mer RNA oligo containing an inosine in the absence of divalent cation

Classification:

HYDROLASE

Authors:

Wu, J., Samara, N.L., Kuraoka, I., Yang, W.

Citation:

Evolution of Inosine-Specific Endonuclease V from Bacterial DNase to Eukaryotic RNase.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.247Å R work:0.156R free:0.193

Equivalence Class: 

NR_all_99000.1 

Eq. Class Rep:

6OZR

NDB ID:

6OZK

PDB ID:

6OZK 

Release:

2019-09-04

Title:

Crystal structure of Mus musculus (Mm) Endonuclease V in complex with a 23mer RNA oligo containing an inosine after 68h soak in Ca2+

Classification:

HYDROLASE

Authors:

Wu, J., Samara, N.L., Kuraoka, I., Yang, W.

Citation:

Evolution of Inosine-Specific Endonuclease V from Bacterial DNase to Eukaryotic RNase.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.104Å R work:0.176R free:0.214

Equivalence Class: 

NR_all_99000.1 

Eq. Class Rep:

6OZR

NDB ID:

6OZL

PDB ID:

6OZL 

Release:

2019-09-04

Title:

Crystal structure of Mus musculus (Mm) Endonuclease V in complex with a 23mer RNA oligo containing an inosine after a 2 min soak in Mn2+

Classification:

HYDROLASE

Authors:

Wu, J., Samara, N.L., Kuraoka, I., Yang, W.

Citation:

Evolution of Inosine-Specific Endonuclease V from Bacterial DNase to Eukaryotic RNase.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.1Å R work:0.175R free:0.216

Equivalence Class: 

NR_all_99000.1 

Eq. Class Rep:

6OZR

NDB ID:

6OZM

PDB ID:

6OZM 

Release:

2019-09-04

Title:

Crystal structure of Mus musculus (Mm) Endonuclease V in complex with a 23mer RNA oligo containing an inosine after a 10 min soak in 10 mM Mn2+

Classification:

HYDROLASE/RNA

Authors:

Wu, J., Samara, N.L., Kuraoka, I., Yang, W.

Citation:

Evolution of Inosine-Specific Endonuclease V from Bacterial DNase to Eukaryotic RNase.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.15Å R work:0.173R free:0.216

Equivalence Class: 

NR_all_99000.1 

Eq. Class Rep:

6OZR

NDB ID:

6OZN

PDB ID:

6OZN 

Release:

2019-09-04

Title:

Crystal structure of Mus musculus (Mm) Endonuclease V in complex with a 23mer RNA oligo containing an inosine after a 15 min soak in 10 mM Mn2+

Classification:

HYDROLASE/RNA

Authors:

Wu, J., Samara, N.L., Kuraoka, I., Yang, W.

Citation:

Evolution of Inosine-Specific Endonuclease V from Bacterial DNase to Eukaryotic RNase.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:1.9Å R work:0.191R free:0.221

Equivalence Class: 

NR_all_99000.1 

Eq. Class Rep:

6OZR

NDB ID:

6OZO

PDB ID:

6OZO 

Release:

2019-09-04

Title:

Crystal structure of Mus musculus (Mm) Endonuclease V in complex with a 23mer RNA oligo containing an inosine after a 30 min soak in 10 mM Mn2+

Classification:

HYDROLASE/RNA

Authors:

Wu, J., Samara, N.L., Kuraoka, I., Yang, W.

Citation:

Evolution of Inosine-Specific Endonuclease V from Bacterial DNase to Eukaryotic RNase.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.235Å R work:0.168R free:0.211

Equivalence Class: 

NR_all_21529.1 

Eq. Class Rep:

6OZO

NDB ID:

6OZP

PDB ID:

6OZP 

Release:

2019-09-04

Title:

Crystal structure of Mus musculus (Mm) Endonuclease V in complex with a 23mer RNA oligo containing an inosine after a 180 min soak in 10 mM Mn2+

Classification:

HYDROLASE/RNA

Authors:

Wu, J., Samara, N.L., Kuraoka, I., Yang, W.

Citation:

Evolution of Inosine-Specific Endonuclease V from Bacterial DNase to Eukaryotic RNase.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:1.96Å R work:0.174R free:0.201

Equivalence Class: 

NR_all_37706.1 

Eq. Class Rep:

6OZP

NDB ID:

6OZP

PDB ID:

6OZP 

Release:

2019-09-04

Title:

Crystal structure of Mus musculus (Mm) Endonuclease V in complex with a 23mer RNA oligo containing an inosine after a 180 min soak in 10 mM Mn2+

Classification:

HYDROLASE/RNA

Authors:

Wu, J., Samara, N.L., Kuraoka, I., Yang, W.

Citation:

Evolution of Inosine-Specific Endonuclease V from Bacterial DNase to Eukaryotic RNase.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:1.96Å R work:0.174R free:0.201

Equivalence Class: 

NR_all_97453.1 

Eq. Class Rep:

6OZP

NDB ID:

6OZQ

PDB ID:

6OZQ 

Release:

2019-09-04

Title:

Crystal structure of Mus musculus (Mm) Endonuclease V (K155M) in complex with a 23mer RNA oligo containing an inosine after a 100 min soak in 10 mM Mn2+ and K+

Classification:

HYDROLASE

Authors:

Wu, J., Samara, N.L., Kuraoka, I., Yang, W.

Citation:

Evolution of Inosine-Specific Endonuclease V from Bacterial DNase to Eukaryotic RNase.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.153Å R work:0.173R free:0.209

Equivalence Class: 

NR_all_99000.1 

Eq. Class Rep:

6OZR

NDB ID:

6OZR

PDB ID:

6OZR 

Release:

2019-09-04

Title:

Crystal structure of Mus musculus (Mm) Endonuclease V in complex with a 23mer RNA oligo containing an inosine after a 15 min soak in 10 mM Mg2+

Classification:

HYDROLASE

Authors:

Wu, J., Samara, N.L., Kuraoka, I., Yang, W.

Citation:

Evolution of Inosine-Specific Endonuclease V from Bacterial DNase to Eukaryotic RNase.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.15Å R work:0.157R free:0.194

Equivalence Class: 

NR_all_99000.1 

Eq. Class Rep:

6OZR

NDB ID:

6OZS

PDB ID:

6OZS 

Release:

2019-09-04

Title:

Crystal structure of Mus musculus (Mm) Endonuclease V in complex with a 23mer RNA oligo containing an inosine after a 90 min soak in 10 mM Mg2+

Classification:

HYDROLASE/RNA

Authors:

Wu, J., Samara, N.L., Kuraoka, I., Yang, W.

Citation:

Evolution of Inosine-Specific Endonuclease V from Bacterial DNase to Eukaryotic RNase.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.41Å R work:0.19R free:0.236

Equivalence Class: 

NR_all_37706.1 

Eq. Class Rep:

6OZP

NDB ID:

6OZS

PDB ID:

6OZS 

Release:

2019-09-04

Title:

Crystal structure of Mus musculus (Mm) Endonuclease V in complex with a 23mer RNA oligo containing an inosine after a 90 min soak in 10 mM Mg2+

Classification:

HYDROLASE/RNA

Authors:

Wu, J., Samara, N.L., Kuraoka, I., Yang, W.

Citation:

Evolution of Inosine-Specific Endonuclease V from Bacterial DNase to Eukaryotic RNase.
Mol.Cell pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.41Å R work:0.19R free:0.236

Equivalence Class: 

NR_all_97453.1 

Eq. Class Rep:

6OZP

NDB ID:

6P1S

PDB ID:

6P1S 

Release:

2019-09-04

Title:

Post-catalytic nicked complex of human DNA Polymerase Mu with 1-nt gapped substrate containing template 8OG and newly incorporated AMP

Classification:

TRANSFERASE/DNA

Authors:

Kaminski, A.M., Chiruvella, K.K., Ramsden, D.A., Kunkel, T.A., Bebenek, K., Pedersen, L.C.

Citation:

Unexpected behavior of DNA polymerase Mu opposite template 8-oxo-7,8-dihydro-2'-guanosine.
Nucleic Acids Res. 47 pp.9410 - 9422 2019

Experiment:

X-RAY DIFFRACTION Resolution:1.75Å R work:0.172R free:0.195

NDB ID:

6P1U

PDB ID:

6P1U 

Release:

2019-09-04

Title:

Post-catalytic nicked complex of human DNA Polymerase Mu with 1-nt gapped substrate containing template 8OG and newly incorporated CMP

Classification:

TRANSFERASE

Authors:

Kaminski, A.M., Chiruvella, K.K., Ramsden, D.A., Kunkel, T.A., Bebenek, K., Pedersen, L.C.

Citation:

Unexpected behavior of DNA polymerase Mu opposite template 8-oxo-7,8-dihydro-2'-guanosine.
Nucleic Acids Res. 47 pp.9410 - 9422 2019

Experiment:

X-RAY DIFFRACTION Resolution:1.75Å R work:0.169R free:0.192

NDB ID:

6HYU

PDB ID:

6HYU 

Release:

2019-08-28

Title:

Crystal structure of DHX8 helicase bound to single stranded poly-adenine RNA

Classification:

RNA BINDING PROTEIN

Authors:

Felisberto-Rodrigues, C., Thomas, J.C., McAndrew, C., Le Bihan, Y.V., Burke, R., Workman, P., van Montfort, R.L.M.

Citation:

Structural and functional characterisation of human RNA helicase DHX8 provides insights into the mechanism of RNA-stimulated ADP release.
Biochem.J. 476 pp.2521 - 2543 2019

Experiment:

X-RAY DIFFRACTION Resolution:3.22Å R work:0.225R free:0.289

Equivalence Class: 

NR_all_22826.3 

Eq. Class Rep:

4OAU

NDB ID:

6HYU

PDB ID:

6HYU 

Release:

2019-08-28

Title:

Crystal structure of DHX8 helicase bound to single stranded poly-adenine RNA

Classification:

RNA BINDING PROTEIN

Authors:

Felisberto-Rodrigues, C., Thomas, J.C., McAndrew, C., Le Bihan, Y.V., Burke, R., Workman, P., van Montfort, R.L.M.

Citation:

Structural and functional characterisation of human RNA helicase DHX8 provides insights into the mechanism of RNA-stimulated ADP release.
Biochem.J. 476 pp.2521 - 2543 2019

Experiment:

X-RAY DIFFRACTION Resolution:3.22Å R work:0.225R free:0.289

Equivalence Class: 

NR_all_26052.5 

Eq. Class Rep:

5NEW

NDB ID:

6J7Z

PDB ID:

6J7Z 

Release:

2019-08-28

Title:

Human mitochondrial Oligoribonuclease in complex with RNA

Classification:

HYDROLASE

Authors:

Chu, L.Y., Agrawal, S., Chen, Y.P., Yang, W.Z., Yuan, H.S.

Citation:

Structural insights into nanoRNA degradation by human Rexo2.
Rna 25 pp.737 - 746 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.005Å R work:0.205R free:0.227

Equivalence Class: 

NR_all_21736.6 

Eq. Class Rep:

6D30

NDB ID:

6S0M

PDB ID:

6S0M 

Release:

2019-08-28

Title:

Structural and dynamic studies provide insights into specificity and allosteric regulation of Ribonuclease AS, a key enzyme in mycobacterial virulence

Classification:

RNA BINDING PROTEIN

Authors:

Calvanese, L., Squeglia, F., Romano, M., D'Auria, G., Falcigno, L., Berisio, R.

Citation:

Structural and dynamic studies provide insights into specificity and allosteric regulation of ribonuclease as, a key enzyme in mycobacterial virulence.
J.Biomol.Struct.Dyn. pp.1 - 13 2019

Experiment:

X-RAY DIFFRACTION Resolution:2.0Å R work:0.177R free:0.241

Equivalence Class: 

NR_all_89612.6 

Eq. Class Rep:

6N6I

NDB ID:

6EEN

PDB ID:

6EEN 

Release:

2019-08-21

Title:

Crystal structure of a designer Pentatrico Peptide RNA binding protein, bound to a complex RNA target and featuring an infinite superhelix and microheterogeneity.

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Schmidberger, J.W., Bond, C.S.

Citation:

Crystal structure of a designer Pentatrico Peptide RNA binding protein, bound to a complex RNA target and featuring an infinite superhelix and microheterogeneity.
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.01Å R work:0.183R free:0.247

Equivalence Class: 

NR_all_06759.1 

Eq. Class Rep:

6EEN

NDB ID:

6EEN

PDB ID:

6EEN 

Release:

2019-08-21

Title:

Crystal structure of a designer Pentatrico Peptide RNA binding protein, bound to a complex RNA target and featuring an infinite superhelix and microheterogeneity.

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Schmidberger, J.W., Bond, C.S.

Citation:

Crystal structure of a designer Pentatrico Peptide RNA binding protein, bound to a complex RNA target and featuring an infinite superhelix and microheterogeneity.
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.01Å R work:0.183R free:0.247

Equivalence Class: 

NR_all_07366.1 

Eq. Class Rep:

6EEN

NDB ID:

6EEN

PDB ID:

6EEN 

Release:

2019-08-21

Title:

Crystal structure of a designer Pentatrico Peptide RNA binding protein, bound to a complex RNA target and featuring an infinite superhelix and microheterogeneity.

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Schmidberger, J.W., Bond, C.S.

Citation:

Crystal structure of a designer Pentatrico Peptide RNA binding protein, bound to a complex RNA target and featuring an infinite superhelix and microheterogeneity.
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.01Å R work:0.183R free:0.247

Equivalence Class: 

NR_all_18559.1 

Eq. Class Rep:

6EEN

NDB ID:

6EEN

PDB ID:

6EEN 

Release:

2019-08-21

Title:

Crystal structure of a designer Pentatrico Peptide RNA binding protein, bound to a complex RNA target and featuring an infinite superhelix and microheterogeneity.

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Schmidberger, J.W., Bond, C.S.

Citation:

Crystal structure of a designer Pentatrico Peptide RNA binding protein, bound to a complex RNA target and featuring an infinite superhelix and microheterogeneity.
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.01Å R work:0.183R free:0.247

Equivalence Class: 

NR_all_85397.1 

Eq. Class Rep:

6EEN

NDB ID:

6JXM

PDB ID:

6JXM 

Release:

2019-08-21

Title:

Crystal Structure of phi29 pRNA domain II

Classification:

RNA

Authors:

Cai, R., Price, I.R., Ding, F., Wu, F., Chen, T., Zhang, Y., Liu, G., Jardine, P.J., Lu, C., Ke, A.

Citation:

ATP/ADP modulates gp16-pRNA conformational change in the Phi29 DNA packaging motor.
Nucleic Acids Res. 47 pp.9818 - 9828 2019

Experiment:

X-RAY DIFFRACTION Resolution:3.32Å R work:0.222R free:0.265

Equivalence Class: 

NR_all_62996.1 

Eq. Class Rep:

6JXM

NDB ID:

6NY6

PDB ID:

6NY6 

Release:

2019-08-21

Title:

Structure of dimeric Escherichia coli toxin YoeB bound to the Thermus thermophilus 30S ribosome

Classification:

RIBOSOME

Authors:

Pavelich, I.J., Maehigashi, T., Hoffer, E.D., Ruangprasert, A., Miles, S.J., Dunham, C.M.

Citation:

Monomeric YoeB toxin retains RNase activity but adopts an obligate dimeric form for thermal stability.
Nucleic Acids Res. pp. - 2019

Experiment:

X-RAY DIFFRACTION Resolution:3.74Å R work:0.205R free:0.224

Equivalence Class: 

NR_all_65795.50 

Eq. Class Rep:

4LFB

NDB ID:

6OTR

PDB ID:

6OTR 

Release:

2019-08-21

Title:

Dimeric E.coli YoeB bound to Thermus thermophilus 70S post-cleavage (AAU)

Classification:

RIBOSOME

Authors:

Hoffer, E., Pavelich, I., Maehigashi, T., Dunham, C.

Citation:

Dimeric E.coli YoeB bound to Thermus thermophilus 70S post-cleavage (AAU)
to be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.12Å R work:0.231R free:0.257

Equivalence Class: 

NR_all_65795.50 

Eq. Class Rep:

4LFB

NDB ID:

6OTR

PDB ID:

6OTR 

Release:

2019-08-21

Title:

Dimeric E.coli YoeB bound to Thermus thermophilus 70S post-cleavage (AAU)

Classification:

RIBOSOME

Authors:

Hoffer, E., Pavelich, I., Maehigashi, T., Dunham, C.

Citation:

Dimeric E.coli YoeB bound to Thermus thermophilus 70S post-cleavage (AAU)
to be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.12Å R work:0.231R free:0.257

Equivalence Class: 

NR_all_97519.45 

Eq. Class Rep:

4Y4O

NDB ID:

6OTR

PDB ID:

6OTR 

Release:

2019-08-21

Title:

Dimeric E.coli YoeB bound to Thermus thermophilus 70S post-cleavage (AAU)

Classification:

RIBOSOME

Authors:

Hoffer, E., Pavelich, I., Maehigashi, T., Dunham, C.

Citation:

Dimeric E.coli YoeB bound to Thermus thermophilus 70S post-cleavage (AAU)
to be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.12Å R work:0.231R free:0.257

Equivalence Class: 

NR_all_42622.45 

Eq. Class Rep:

5FDV

NDB ID:

6OTR

PDB ID:

6OTR 

Release:

2019-08-21

Title:

Dimeric E.coli YoeB bound to Thermus thermophilus 70S post-cleavage (AAU)

Classification:

RIBOSOME

Authors:

Hoffer, E., Pavelich, I., Maehigashi, T., Dunham, C.

Citation:

Dimeric E.coli YoeB bound to Thermus thermophilus 70S post-cleavage (AAU)
to be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.12Å R work:0.231R free:0.257

Equivalence Class: 

NR_all_35542.64 

Eq. Class Rep:

5L4O

NDB ID:

6OXA

PDB ID:

6OXA 

Release:

2019-08-21

Title:

Dimeric E.coli YoeB bound to Thermus thermophilus 70S pre-cleavage (AAU)

Classification:

RIBOSOME

Authors:

Hoffer, E., Pavelich, I., Maehigashi, T., Dunham, C.

Citation:

TBD
to be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.25Å R work:0.229R free:0.256

Equivalence Class: 

NR_all_65795.50 

Eq. Class Rep:

4LFB

NDB ID:

6OXA

PDB ID:

6OXA 

Release:

2019-08-21

Title:

Dimeric E.coli YoeB bound to Thermus thermophilus 70S pre-cleavage (AAU)

Classification:

RIBOSOME

Authors:

Hoffer, E., Pavelich, I., Maehigashi, T., Dunham, C.

Citation:

TBD
to be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.25Å R work:0.229R free:0.256

Equivalence Class: 

NR_all_97519.45 

Eq. Class Rep:

4Y4O