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As of 13-Nov-2019 number of released structures: 10455
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Polymer Type: All + RNA Type: All + Protein Function: All + Experimental Method: All + RNA Sequence Type: All RNA Sequence

Results: 5157  Download results as an excel file       Gallery view

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., Ohg, 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 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

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.

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. pp. - 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

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

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

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 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:0.219R 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 the PAM expansion and fidelity enhancement of an evolved Cas9 nuclease.
Plos Biol. 17 pp.e3000496 - e3000496 2019

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 76 pp.44 - 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 76 pp.44 - 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 76 pp.44 - 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 76 pp.44 - 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 76 pp.44 - 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 76 pp.44 - 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 76 pp.44 - 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 76 pp.44 - 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 76 pp.44 - 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 76 pp.44 - 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 76 pp.44 - 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 76 pp.44 - 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 76 pp.44 - 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 76 pp.44 - 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 76 pp.44 - 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 76 pp.44 - 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_68616.1 

Eq. Class Rep:

6HYU

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

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