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As of 20-Oct-2021 number of released structures: 11724
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Polymer Type: All + RNA Type: All + Protein Function: All + Experimental Method: All + RNA Sequence Type: All RNA Sequence

Results: 4358  Download results as an excel file       Gallery view

NDB ID:

7RQ8

PDB ID:

7RQ8 

Release:

2021-10-13

Title:

Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with iboxamycin, mRNA, deacylated A- and E-site tRNAs, and aminoacylated P-site tRNA at 2.50A resolution

Classification:

RIBOSOME/RNA

Authors:

Mitcheltree, M.J., Pisipati, A., Syroegin, E.A., Silvestre, K.J., Klepacki, D., Mason, J.D., Terwilliger, D.W., Testolin, G., Pote, A.R., Wu, K.J.Y., Ladley, R.P., Chatman, K., Mankin, A.S., Polikanov, Y.S., Myers, A.G.

Citation:

A synthetic antibiotic scaffold effective against multidrug-resistant bacterial pathogens
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.5Å R work:0.224R free:0.268

Equivalence Class: 

NR_all_65795.61 

Eq. Class Rep:

4LFB

NDB ID:

7RQ9

PDB ID:

7RQ9 

Release:

2021-10-13

Title:

Crystal structure of the A2058-dimethylated Thermus thermophilus 70S ribosome in complex with iboxamycin, mRNA, deacylated A- and E-site tRNAs, and aminoacylated P-site tRNA at 2.60A resolution

Classification:

Ribosome/RNA

Authors:

Mitcheltree, M.J., Pisipati, A., Syroegin, E.A., Silvestre, K.J., Klepacki, D., Mason, J.D., Terwilliger, D.W., Testolin, G., Pote, A.R., Wu, K.J.Y., Ladley, R.P., Chatman, K., Mankin, A.S., Polikanov, Y.S., Myers, A.G.

Citation:

A synthetic antibiotic scaffold effective against multidrug-resistant bacterial pathogens
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.6Å R work:0.24R free:0.297

Equivalence Class: 

NR_all_65795.61 

Eq. Class Rep:

4LFB

NDB ID:

7A18

PDB ID:

7A18 

Release:

2021-10-06

Title:

50S Deinococcus radiodurans ribosome bounded with mycinamicin IV

Classification:

ANTIBIOTIC

Authors:

Breiner, E., Eyal, Z., Matzov, D., Halfon, Y., Cimicata, G., Rozenberg, H., Zimmerman, E., Bashan, A., Yonath, A.

Citation:

50S Deinococcus radiodurans ribosome bounded with mycinamicin IV
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.4Å R work:0.283R free:0.318

Equivalence Class: 

NR_all_17405.9 

Eq. Class Rep:

7A0S

NDB ID:

7KI3

PDB ID:

7KI3 

Release:

2021-10-06

Title:

Human Argonaute2:miR-122 bound to the HCV genotype 1a site-1 RNA

Classification:

HYDROLASE/RNA

Authors:

Gebert, L.F.R., Law, M., MacRae, I.J.

Citation:

A structured RNA motif locks Argonaute2:miR-122 onto the 5' end of the HCV genome
Nat Commun pp. - 2021

Experiment:

X-RAY DIFFRACTION Resolution:3.0Å R work:0.232R free:0.275

Equivalence Class: 

NR_all_23918.1 

Eq. Class Rep:

7KI3

NDB ID:

7K4L

PDB ID:

7K4L 

Release:

2021-09-29

Title:

Dengue 5'UTR SLA

Classification:

RNA

Authors:

Sun, Y.T., Varani, G.

Citation:

Solution NMR Structure of Denv1 5'UTR SLA region
To Be Published pp. - 0

Experiment:

SOLUTION NMR

Equivalence Class: 

NR_all_26568.1 

Eq. Class Rep:

7K4L

NDB ID:

7MJV

PDB ID:

7MJV 

Release:

2021-09-15

Title:

MiaB in the complex with s-adenosylmethionine and RNA

Classification:

TRANSFERASE/RNA

Authors:

Esakova, O.A., Grove, T.L., Yennawar, N.H., Arcinas, A.J., Wang, B., Krebs, C., Almo, S.C., Booker, S.J.

Citation:

Structural basis for tRNA methylthiolation by the radical SAM enzyme MiaB.
Nature 597 pp.566 - 570 2021

Experiment:

X-RAY DIFFRACTION Resolution:2.24Å R work:0.243R free:0.272

Equivalence Class: 

NR_all_67601.1 

Eq. Class Rep:

7MJV

NDB ID:

7MJW

PDB ID:

7MJW 

Release:

2021-09-15

Title:

Methylated MiaB in the complex with 5'-deoxyadenosine, methionine and RNA

Classification:

TRANSFERASE/RNA

Authors:

Esakova, O.A., Grove, T.L., Yennawar, N.H., Arcinas, A.J., Wang, B., Krebs, C., Almo, S.C., Booker, S.J.

Citation:

Structural basis for tRNA methylthiolation by the radical SAM enzyme MiaB.
Nature 597 pp.566 - 570 2021

Experiment:

X-RAY DIFFRACTION Resolution:1.4Å R work:0.149R free:0.173

Equivalence Class: 

NR_all_31728.1 

Eq. Class Rep:

7MJW

NDB ID:

7MJX

PDB ID:

7MJX 

Release:

2021-09-15

Title:

MiaB in the complex with 5'-deoxyadenosine, methionine and RNA

Classification:

TRANSFERASE/RNA

Authors:

Esakova, O.A., Grove, T.L., Yennawar, N.H., Arcinas, A.J., Wang, B., Krebs, C., Almo, S.C., Booker, S.J.

Citation:

Structural basis for tRNA methylthiolation by the radical SAM enzyme MiaB.
Nature 597 pp.566 - 570 2021

Experiment:

X-RAY DIFFRACTION Resolution:1.5Å R work:0.148R free:0.17

Equivalence Class: 

NR_all_31728.1 

Eq. Class Rep:

7MJW

NDB ID:

7MJY

PDB ID:

7MJY 

Release:

2021-09-15

Title:

MiaB in the complex with s-adenosyl-L-homocysteine and RNA

Classification:

TRANSFERASE/RNA

Authors:

Esakova, O.A., Grove, T.L., Yennawar, N.H., Arcinas, A.J., Wang, B., Krebs, C., Almo, S.C., Booker, S.J.

Citation:

Structural basis for tRNA methylthiolation by the radical SAM enzyme MiaB.
Nature 597 pp.566 - 570 2021

Experiment:

X-RAY DIFFRACTION Resolution:1.86Å R work:0.174R free:0.208

Equivalence Class: 

NR_all_65501.1 

Eq. Class Rep:

7MJY

NDB ID:

7MPL

PDB ID:

7MPL 

Release:

2021-09-15

Title:

Bartonella henselae NrnC bound to pGG

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Lormand, J.D., Kim, S.K., Walters-Marrah, G.A., Brownfield, B.A., Fromme, J.C., Winkler, W.C., Goodson, J.R., Lee, V.T., Sondermann, H.

Citation:

Structural characterization of NrnC identifies unifying features of dinucleotidases.
Elife 10 pp. - 2021

Experiment:

X-RAY DIFFRACTION Resolution:1.8Å R work:0.15R free:0.171

Equivalence Class: 

NR_all_98428.1 

Eq. Class Rep:

6N6I

NDB ID:

7MPM

PDB ID:

7MPM 

Release:

2021-09-15

Title:

Bartonella henselae NrnC bound to pAA

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Lormand, J.D., Kim, S.K., Walters-Marrah, G.A., Brownfield, B.A., Fromme, J.C., Winkler, W.C., Goodson, J.R., Lee, V.T., Sondermann, H.

Citation:

Structural characterization of NrnC identifies unifying features of dinucleotidases.
Elife 10 pp. - 2021

Experiment:

X-RAY DIFFRACTION Resolution:1.95Å R work:0.145R free:0.179

Equivalence Class: 

NR_all_53003.1 

Eq. Class Rep:

6N6C

NDB ID:

7MPN

PDB ID:

7MPN 

Release:

2021-09-15

Title:

Bartonella henselae NrnC bound to pGC

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Lormand, J.D., Kim, S.K., Walters-Marrah, G.A., Brownfield, B.A., Fromme, J.C., Winkler, W.C., Goodson, J.R., Lee, V.T., Sondermann, H.

Citation:

Structural characterization of NrnC identifies unifying features of dinucleotidases.
Elife 10 pp. - 2021

Experiment:

X-RAY DIFFRACTION Resolution:1.94Å R work:0.194R free:0.224

Equivalence Class: 

NR_all_65789.1 

Eq. Class Rep:

6N6F

NDB ID:

7MPQ

PDB ID:

7MPQ 

Release:

2021-09-15

Title:

Bartonella henselae NrnC cleaving pGG in the presence of Mn2+

Classification:

RNA BINDING PROTEIN

Authors:

Lormand, J.D., Kim, S.K., Walters-Marrah, G.A., Brownfield, B.A., Fromme, J.C., Winkler, W.C., Goodson, J.R., Lee, V.T., Sondermann, H.

Citation:

Structural characterization of NrnC identifies unifying features of dinucleotidases.
Elife 10 pp. - 2021

Experiment:

X-RAY DIFFRACTION Resolution:2.35Å R work:0.161R free:0.206

Equivalence Class: 

NR_all_98428.1 

Eq. Class Rep:

6N6I

NDB ID:

7MPU

PDB ID:

7MPU 

Release:

2021-09-15

Title:

Brucella melitensis NrnC bound to pGG

Classification:

RNA BINDING PROTEIN/RNA

Authors:

Lormand, J.D., Kim, S.K., Walters-Marrah, G.A., Brownfield, B.A., Fromme, J.C., Winkler, W.C., Goodson, J.R., Lee, V.T., Sondermann, H.

Citation:

Structural characterization of NrnC identifies unifying features of dinucleotidases.
Elife 10 pp. - 2021

Experiment:

X-RAY DIFFRACTION Resolution:1.72Å R work:0.155R free:0.183

Equivalence Class: 

NR_all_98428.1 

Eq. Class Rep:

6N6I

NDB ID:

7OX7

PDB ID:

7OX7 

Release:

2021-09-15

Title:

Target-bound SpCas9 complex with TRAC chimeric RNA-DNA guide

Classification:

HYDROLASE

Authors:

Donohoue, P.D., Pacesa, M., Lau, E., Vidal, B., Irby, M.J., Nyer, D.B., Rotstein, T., Banh, L., Toh, M.S., Gibson, J., Kohrs, B., Baek, K., Owen, A.L.G., Slorach, E.M., van Overbeek, M., Fuller, C.K., May, A.P., Jinek, M., Cameron, P.

Citation:

Conformational control of Cas9 by CRISPR hybrid RNA-DNA guides mitigates off-target activity in T cells.
Mol.Cell 81 pp.3637 - 3649.e5 2021

Experiment:

X-RAY DIFFRACTION Resolution:2.6Å R work:0.209R free:0.229

NDB ID:

7OX8

PDB ID:

7OX8 

Release:

2021-09-15

Title:

Target-bound SpCas9 complex with TRAC full RNA guide

Classification:

HYDROLASE

Authors:

Donohoue, P.D., Pacesa, M., Lau, E., Vidal, B., Irby, M.J., Nyer, D.B., Rotstein, T., Banh, L., Toh, M.S., Gibson, J., Kohrs, B., Baek, K., Owen, A.L.G., Slorach, E.M., van Overbeek, M., Fuller, C.K., May, A.P., Jinek, M., Cameron, P.

Citation:

Conformational control of Cas9 by CRISPR hybrid RNA-DNA guides mitigates off-target activity in T cells.
Mol.Cell 81 pp.3637 - 3649.e5 2021

Experiment:

X-RAY DIFFRACTION Resolution:2.75Å R work:0.209R free:0.247

Equivalence Class: 

NR_all_09588.1 

Eq. Class Rep:

7OX8

NDB ID:

7OX9

PDB ID:

7OX9 

Release:

2021-09-15

Title:

Target-bound SpCas9 complex with AAVS1 all-RNA guide

Classification:

HYDROLASE

Authors:

Donohoue, P.D., Pacesa, M., Lau, E., Vidal, B., Irby, M.J., Nyer, D.B., Rotstein, T., Banh, L., Toh, M.S., Gibson, J., Kohrs, B., Baek, K., Owen, A.L.G., Slorach, E.M., van Overbeek, M., Fuller, C.K., May, A.P., Jinek, M., Cameron, P.

Citation:

Conformational control of Cas9 by CRISPR hybrid RNA-DNA guides mitigates off-target activity in T cells.
Mol.Cell 81 pp.3637 - 3649.e5 2021

Experiment:

X-RAY DIFFRACTION Resolution:2.45Å R work:0.194R free:0.232

Equivalence Class: 

NR_all_92730.1 

Eq. Class Rep:

7OX9

NDB ID:

7OXA

PDB ID:

7OXA 

Release:

2021-09-15

Title:

Target-bound SpCas9 complex with AAVS1 chimeric RNA-DNA guide

Classification:

HYDROLASE

Authors:

Donohoue, P.D., Pacesa, M., Lau, E., Vidal, B., Irby, M.J., Nyer, D.B., Rotstein, T., Banh, L., Toh, M.S., Gibson, J., Kohrs, B., Baek, K., Owen, A.L.G., Slorach, E.M., van Overbeek, M., Fuller, C.K., May, A.P., Jinek, M., Cameron, P.

Citation:

Conformational control of Cas9 by CRISPR hybrid RNA-DNA guides mitigates off-target activity in T cells.
Mol.Cell 81 pp.3637 - 3649.e5 2021

Experiment:

X-RAY DIFFRACTION Resolution:2.15Å R work:0.197R free:0.225

NDB ID:

7JRR

PDB ID:

7JRR 

Release:

2021-09-08

Title:

Crystal structures of artificially designed homomeric RNA nanoarchitectures

Classification:

RNA

Authors:

Liu, D., Shao, Y., Piccirilli, J.A., Weizmann, Y.

Citation:

Structures of artificially designed discrete RNA nanoarchitectures at near-atomic resolution.
Sci Adv 7 pp.eabf4459 - eabf4459 2021

Experiment:

X-RAY DIFFRACTION Resolution:2.16Å R work:0.226R free:0.259

Equivalence Class: 

NR_all_18633.1 

Eq. Class Rep:

7JRR

NDB ID:

7JRS

PDB ID:

7JRS 

Release:

2021-09-08

Title:

Crystal structures of artificially designed homomeric RNA nanoarchitectures

Classification:

RNA

Authors:

Liu, D., Shao, Y., Piccirilli, J.A., Weizmann, Y.

Citation:

Structures of artificially designed discrete RNA nanoarchitectures at near-atomic resolution.
Sci Adv 7 pp.eabf4459 - eabf4459 2021

Experiment:

X-RAY DIFFRACTION Resolution:3.21Å R work:0.274R free:0.296

Equivalence Class: 

NR_all_45061.1 

Eq. Class Rep:

7JRS

NDB ID:

7JRT

PDB ID:

7JRT 

Release:

2021-09-08

Title:

Crystal structures of artificially designed homomeric RNA nanoarchitectures

Classification:

RNA

Authors:

Liu, D., Shao, Y., Piccirilli, J.A., Weizmann, Y.

Citation:

Structures of artificially designed discrete RNA nanoarchitectures at near-atomic resolution.
Sci Adv 7 pp.eabf4459 - eabf4459 2021

Experiment:

X-RAY DIFFRACTION Resolution:3.07Å R work:0.188R free:0.226

Equivalence Class: 

NR_all_51052.1 

Eq. Class Rep:

7JRT

NDB ID:

7KUK

PDB ID:

7KUK 

Release:

2021-09-08

Title:

High resolution RNA primer complex with guanosine dinucleotide ligand G(5')ppp(5')G

Classification:

RNA

Authors:

Giurgiu, C., Fang, Z., Aitken, H.R.M., Kim, S.C., Pazienza, L., Mittal, S., Szostak, J.W.

Citation:

Structure-Activity Relationships in Nonenzymatic Template-Directed RNA Synthesis.
Angew.Chem.Int.Ed.Engl. 60 pp.22925 - 22932 2021

Experiment:

X-RAY DIFFRACTION Resolution:1.67Å R work:0.201R free:0.22

Equivalence Class: 

NR_all_01949.4 

Eq. Class Rep:

5UED

NDB ID:

7KUL

PDB ID:

7KUL 

Release:

2021-09-08

Title:

DNA modification at 3' end of RNA primer complex with guanosine dinucleotide ligand G(5')ppp(5')G

Classification:

RNA

Authors:

Giurgiu, C., Fang, Z., Aitken, H.R.M., Kim, S.C., Pazienza, L., Mittal, S., Szostak, J.W.

Citation:

Structure-Activity Relationships in Nonenzymatic Template-Directed RNA Synthesis.
Angew.Chem.Int.Ed.Engl. 60 pp.22925 - 22932 2021

Experiment:

X-RAY DIFFRACTION Resolution:1.64Å R work:0.207R free:0.246

Equivalence Class: 

NR_all_01949.4 

Eq. Class Rep:

5UED

NDB ID:

7KUM

PDB ID:

7KUM 

Release:

2021-09-08

Title:

LNA modification at 3' end of RNA primer complex with guanosine dinucleotide ligand G(5')ppp(5')G

Classification:

RNA

Authors:

Giurgiu, C., Fang, Z., Aitken, H.R.M., Kim, S.C., Pazienza, L., Mittal, S., Szostak, J.W.

Citation:

Structure-Activity Relationships in Nonenzymatic Template-Directed RNA Synthesis.
Angew.Chem.Int.Ed.Engl. 60 pp.22925 - 22932 2021

Experiment:

X-RAY DIFFRACTION Resolution:1.714Å R work:0.205R free:0.22

Equivalence Class: 

NR_all_01949.4 

Eq. Class Rep:

5UED

NDB ID:

7KUN

PDB ID:

7KUN 

Release:

2021-09-08

Title:

2'-F modification at 3' end of RNA primer complex with guanosine dinucleotide ligand G(5')ppp(5')G

Classification:

RNA

Authors:

Giurgiu, C., Fang, Z., Aitken, H.R.M., Kim, S.C., Pazienza, L., Mittal, S., Szostak, J.W.

Citation:

Structure-Activity Relationships in Nonenzymatic Template-Directed RNA Synthesis.
Angew.Chem.Int.Ed.Engl. 60 pp.22925 - 22932 2021

Experiment:

X-RAY DIFFRACTION Resolution:1.58Å R work:0.193R free:0.23

Equivalence Class: 

NR_all_69465.1 

Eq. Class Rep:

7KUN

NDB ID:

7KUO

PDB ID:

7KUO 

Release:

2021-09-08

Title:

FANA modification at 3' end of RNA primer complex with guanosine dinucleotide ligand G(5')ppp(5')G

Classification:

RNA

Authors:

Giurgiu, C., Fang, Z., Aitken, H.R.M., Kim, S.C., Pazienza, L., Mittal, S., Szostak, J.W.

Citation:

Structure-Activity Relationships in Nonenzymatic Template-Directed RNA Synthesis.
Angew.Chem.Int.Ed.Engl. 60 pp.22925 - 22932 2021

Experiment:

X-RAY DIFFRACTION Resolution:2.281Å R work:0.203R free:0.263

Equivalence Class: 

NR_all_01949.4 

Eq. Class Rep:

5UED

NDB ID:

7KUP

PDB ID:

7KUP 

Release:

2021-09-08

Title:

2'-OMe modification at 3' end of RNA primer complex with guanosine dinucleotide ligand G(5')ppp(5')G

Classification:

RNA

Authors:

Giurgiu, C., Fang, Z., Aitken, H.R.M., Kim, S.C., Pazienza, L., Mittal, S., Szostak, J.W.

Citation:

Structure-Activity Relationships in Nonenzymatic Template-Directed RNA Synthesis.
Angew.Chem.Int.Ed.Engl. 60 pp.22925 - 22932 2021

Experiment:

X-RAY DIFFRACTION Resolution:1.44Å R work:0.198R free:0.218

Equivalence Class: 

NR_all_01949.4 

Eq. Class Rep:

5UED

NDB ID:

7LNE

PDB ID:

7LNE 

Release:

2021-09-08

Title:

ANA modification at 3' end of RNA primer complex with guanosine dinucleotide ligand G(5')ppp(5')G

Classification:

RNA

Authors:

Giurgiu, C., Fang, Z., Aitken, H.R.M., Kim, S.C., Pazienza, L., Mittal, S., Szostak, J.W.

Citation:

Structure-Activity Relationships in Nonenzymatic Template-Directed RNA Synthesis.
Angew.Chem.Int.Ed.Engl. 60 pp.22925 - 22932 2021

Experiment:

X-RAY DIFFRACTION Resolution:1.53Å R work:0.191R free:0.225

Equivalence Class: 

NR_all_07962.1 

Eq. Class Rep:

7LNE

NDB ID:

7LNF

PDB ID:

7LNF 

Release:

2021-09-08

Title:

3'-deoxy modification at 3' end of RNA primer complex with guanosine dinucleotide ligand G(5')ppp(5')G

Classification:

RNA

Authors:

Giurgiu, C., Fang, Z., Szostak, J.W.

Citation:

Sugar conformation impacts on nonezymatic RNA primer extension
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.652Å R work:0.208R free:0.239

Equivalence Class: 

NR_all_07962.1 

Eq. Class Rep:

7LNE

NDB ID:

7LNG

PDB ID:

7LNG 

Release:

2021-09-08

Title:

TNA modification at 3' end of RNA primer complex with guanosine dinucleotide ligand G(5')ppp(5')G

Classification:

RNA

Authors:

Giurgiu, C., Fang, Z., Aitken, H.R.M., Kim, S.C., Pazienza, L., Mittal, S., Szostak, J.W.

Citation:

Structure-Activity Relationships in Nonenzymatic Template-Directed RNA Synthesis.
Angew.Chem.Int.Ed.Engl. 60 pp.22925 - 22932 2021

Experiment:

X-RAY DIFFRACTION Resolution:2.2Å R work:0.224R free:0.274

Equivalence Class: 

NR_all_07962.1 

Eq. Class Rep:

7LNE

NDB ID:

7A0R

PDB ID:

7A0R 

Release:

2021-08-18

Title:

50S Deinococcus radiodurans ribosome bounded with mycinamicin I

Classification:

ANTIBIOTIC

Authors:

Breiner, E., Eyal, Z., Matzov, D., Halfon, Y., Cimicata, G., Rozenberg, H., Zimmerman, E., Bashan, A., Yonath, A.

Citation:

50S Deinococcus radiodurans ribosome bounded with mycinamicin I
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.3Å R work:0.215R free:0.249

Equivalence Class: 

NR_all_17405.9 

Eq. Class Rep:

7A0S

NDB ID:

7A0S

PDB ID:

7A0S 

Release:

2021-08-18

Title:

50S Deinococcus radiodurans ribosome bounded with mycinamicin I

Classification:

ANTIBIOTIC

Authors:

Breiner, E., Eyal, Z., Matzov, D., Halfon, Y., Cimicata, G., Rozenberg, H., Zimmerman, E., Bashan, A., Yonath, A.

Citation:

50S Deinococcus radiodurans ribosome bounded with mycinamicin I
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.22Å R work:0.223R free:0.253

Equivalence Class: 

NR_all_17405.9 

Eq. Class Rep:

7A0S

NDB ID:

7K9Y

PDB ID:

7K9Y 

Release:

2021-08-18

Title:

GsI-IIC RT Template-Switching Complex (twinned)

Classification:

RNA BINDING PROTEIN/RNA/DNA

Authors:

Lentzsch, A.M., Stamos, J.L., Yao, J., Russell, R., Lambowitz, A.M.

Citation:

Structural basis for template switching by a group II intron-encoded non-LTR-retroelement reverse transcriptase.
J.Biol.Chem. 297 pp.100971 - 100971 2021

Experiment:

X-RAY DIFFRACTION Resolution:3.2Å R work:0.27R free:0.324

Equivalence Class: 

NR_all_06284.1 

Eq. Class Rep:

7K9Y

NDB ID:

7MLX

PDB ID:

7MLX 

Release:

2021-08-11

Title:

SARS-CoV-2 programmed -1 frameshifting element three stem H-type pseudoknot

Classification:

RNA/IMMUNE SYSTEM

Authors:

Roman, C., Lewicka, A., Koirala, D., Li, N.S., Piccirilli, J.A.

Citation:

The SARS-CoV-2 Programmed -1 Ribosomal Frameshifting Element Crystal Structure Solved to 2.09 angstrom Using Chaperone-Assisted RNA Crystallography.
Acs Chem.Biol. 16 pp.1469 - 1481 2021

Experiment:

X-RAY DIFFRACTION Resolution:2.09Å R work:0.199R free:0.23

Equivalence Class: 

NR_all_80074.1 

Eq. Class Rep:

7MLX

NDB ID:

7MRL

PDB ID:

7MRL 

Release:

2021-08-11

Title:

Structure of HIV-1 matrix domain bound to human tRNALys3

Classification:

VIRAL PROTEIN/RNA

Authors:

Bou-Nader, C., Muecksch, F., Brown, J.B., Gordon, J.M., York, A., Peng, C., Ghirlando, R., Summers, M.F., Bieniasz, P.D., Zhang, J.

Citation:

HIV-1 matrix-tRNA complex structure reveals basis for host control of Gag localization.
Cell Host Microbe 29 pp.1421 - 2021

Experiment:

X-RAY DIFFRACTION Resolution:3.15Å R work:0.185R free:0.223

Equivalence Class: 

NR_all_47714.1 

Eq. Class Rep:

7MRL

NDB ID:

7NQ4

PDB ID:

7NQ4 

Release:

2021-08-11

Title:

Human tRNA guanine transglycosylase (TGT), RNA-bound covalent intermediate

Classification:

RNA BINDING PROTEIN

Authors:

Sievers, K., Welp, L., Urlaub, H., Ficner, R.

Citation:

Structural and functional insights into human tRNA guanine transgylcosylase.
Rna Biol. pp.1 - 15 2021

Experiment:

X-RAY DIFFRACTION Resolution:2.88Å R work:0.211R free:0.248

Equivalence Class: 

NR_all_01597.2 

Eq. Class Rep:

7NQ4

NDB ID:

6XRQ

PDB ID:

6XRQ 

Release:

2021-07-28

Title:

Structural descriptions of ligand interactions to DNA and RNA quadruplexes folded from the non-coding region of Pseudorabies virus

Classification:

RNA

Authors:

Zhang, Y.S., Parkinson, G.N., Wei, D.G.

Citation:

Structural descriptions of ligand interactions to DNA and RNA quadruplexes folded from the non-coding region of Pseudorabies virus
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.21Å R work:0.199R free:0.216

Equivalence Class: 

NR_all_55576.1 

Eq. Class Rep:

6XRQ

NDB ID:

7EL1

PDB ID:

7EL1 

Release:

2021-07-28

Title:

Structure of a protein from bacteria

Classification:

UNKNOWN FUNCTION

Authors:

Liu, H., Zhu, Y., Lu, Z., Huang, Z.

Citation:

Structural basis of Staphylococcus aureus Cas9 inhibition by AcrIIA14.
Nucleic Acids Res. 49 pp.6587 - 6595 2021

Experiment:

X-RAY DIFFRACTION Resolution:2.22Å R work:0.213R free:0.242

Equivalence Class: 

NR_all_96162.2 

Eq. Class Rep:

7EL1

NDB ID:

7OM6

PDB ID:

7OM6 

Release:

2021-07-28

Title:

Thosea asigna virus RdRP domain in complex with RNA

Classification:

VIRAL PROTEIN

Authors:

Ferrero, D.S., Falqui, M., Verdaguer, N.

Citation:

Snapshots of a Non-Canonical RdRP in Action.
Viruses 13 pp. - 2021

Experiment:

X-RAY DIFFRACTION Resolution:2.18Å R work:0.228R free:0.241

Equivalence Class: 

NR_all_02127.1 

Eq. Class Rep:

7OM7

NDB ID:

7OM7

PDB ID:

7OM7 

Release:

2021-07-28

Title:

Thosea asigna virus RdRP domain in complex with RNA and nucleotide UMPNPP

Classification:

VIRAL PROTEIN

Authors:

Ferrero, D.S., Falqui, M., Verdaguer, N.

Citation:

Snapshots of a Non-Canonical RdRP in Action.
Viruses 13 pp. - 2021

Experiment:

X-RAY DIFFRACTION Resolution:2.4Å R work:0.214R free:0.215

Equivalence Class: 

NR_all_02127.1 

Eq. Class Rep:

7OM7

NDB ID:

7OMA

PDB ID:

7OMA 

Release:

2021-07-28

Title:

Thosea asigna virus RdRP domain elongation complex

Classification:

VIRAL PROTEIN

Authors:

Ferrero, D.S., Falqui, M., Verdaguer, N.

Citation:

Snapshots of a Non-Canonical RdRP in Action.
Viruses 13 pp. - 2021

Experiment:

X-RAY DIFFRACTION Resolution:3.1Å R work:0.23R free:0.257

Equivalence Class: 

NR_all_02127.1 

Eq. Class Rep:

7OM7

NDB ID:

7NJC

PDB ID:

7NJC 

Release:

2021-07-21

Title:

Crystal structure of the Toxoplasma CPSF4 YTH-domain in complex with a 7 mer m6A-modified RNA

Classification:

RNA BINDING PROTEIN

Authors:

Farhat, D.C., Bowler, M.W., Communie, G., Pontier, D., Belmudes, L., Mas, C., Corrao, C., Coute, Y., Bougdour, A., Lagrange, T., Hakimi, M.A., Swale, C.

Citation:

A plant-like mechanism coupling m6A reading to polyadenylation safeguards transcriptome integrity and developmental gene partitioning in Toxoplasma .
Elife 10 pp. - 2021

Experiment:

X-RAY DIFFRACTION Resolution:1.38Å R work:0.143R free:0.168

Equivalence Class: 

NR_all_13974.1 

Eq. Class Rep:

7NJC

NDB ID:

7EH0

PDB ID:

7EH0 

Release:

2021-07-14

Title:

Thermus thermophilus RNA polymerase transcription initiation complex containing a template-strand purine at position TSS-2, UpA RNA primer and CMPcPP

Classification:

TRANSCRIPTION/DNA/RNA

Authors:

Skalenko, K.S., Li, L., Zhang, Y., Vvedenskaya, I.O., Winkelman, J.T., Cope, A.L., Taylor, D.M., Shah, P., Ebright, R.H., Kinney, J.B., Zhang, Y., Nickels, B.E.

Citation:

Promoter-sequence determinants and structural basis of primer-dependent transcription initiation in Escherichia coli .
Proc.Natl.Acad.Sci.USA 118 pp. - 2021

Experiment:

X-RAY DIFFRACTION Resolution:2.808Å R work:0.202R free:0.243

Equivalence Class: 

NR_all_65802.1 

Eq. Class Rep:

6D2Z

NDB ID:

7EH1

PDB ID:

7EH1 

Release:

2021-07-14

Title:

Thermus thermophilus transcription initiation complex containing a template-strand purine at position TSS-2, GpG RNA primer, and CMPcPP

Classification:

TRANSCRIPTION/DNA/RNA

Authors:

Skalenko, K.S., Li, L., Zhang, Y., Vvedenskaya, I.O., Winkelman, J.T., Cope, A.L., Taylor, D.M., Shah, P., Ebright, R.H., Kinney, J.B., Zhang, Y., Nickels, B.E.

Citation:

Promoter-sequence determinants and structural basis of primer-dependent transcription initiation in Escherichia coli .
Proc.Natl.Acad.Sci.USA 118 pp. - 2021

Experiment:

X-RAY DIFFRACTION Resolution:2.9Å R work:0.191R free:0.252

Equivalence Class: 

NR_all_98428.1 

Eq. Class Rep:

6N6I

NDB ID:

7EH2

PDB ID:

7EH2 

Release:

2021-07-14

Title:

Thermus thermophilus transcription initiation complex containing a template-strand pyrimidine at position TSS-2 and GpG RNA primer

Classification:

TRANSCRIPTION/DNA/RNA

Authors:

Skalenko, K.S., Li, L., Zhang, Y., Vvedenskaya, I.O., Winkelman, J.T., Cope, A.L., Taylor, D.M., Shah, P., Ebright, R.H., Kinney, J.B., Zhang, Y., Nickels, B.E.

Citation:

Promoter-sequence determinants and structural basis of primer-dependent transcription initiation in Escherichia coli .
Proc.Natl.Acad.Sci.USA 118 pp. - 2021

Experiment:

X-RAY DIFFRACTION Resolution:3.34Å R work:0.2R free:0.247

Equivalence Class: 

NR_all_98428.1 

Eq. Class Rep:

6N6I

NDB ID:

7CGF

PDB ID:

7CGF 

Release:

2021-07-07

Title:

Crystal Structure of PUF-8 in Complex with PBE-RNA

Classification:

RNA BINDING PROTEIN

Authors:

Zheng, X., Yunyu, S., Shouhong, G.

Citation:

Crystal Structure of PUF-8 in Complex with PBE-RNA
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.7Å R work:0.198R free:0.221

Equivalence Class: 

NR_all_43688.1 

Eq. Class Rep:

7CGF

NDB ID:

7CGG

PDB ID:

7CGG 

Release:

2021-07-07

Title:

Crystal Structure of PUF-8 in Complex with PBE-RNA

Classification:

RNA BINDING PROTEIN

Authors:

Zheng, X., Yunyu, S., Shouhong, G.

Citation:

Crystal Structure of PUF-8 in Complex with PBE-RNA
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.7Å R work:0.189R free:0.237

Equivalence Class: 

NR_all_77859.1 

Eq. Class Rep:

7CGK

NDB ID:

7CGH

PDB ID:

7CGH 

Release:

2021-07-07

Title:

Crystal Structure of PUF-8 in Complex with PBE-RNA

Classification:

RNA BINDING PROTEIN

Authors:

Zheng, X., Yunyu, S., Shouhong, G.

Citation:

Crystal Structure of PUF-8 in Complex with PBE-RNA
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.4Å R work:0.202R free:0.246

Equivalence Class: 

NR_all_36895.1 

Eq. Class Rep:

7CGH

NDB ID:

7CGI

PDB ID:

7CGI 

Release:

2021-07-07

Title:

Crystal Structure of PUF-8 in Complex with PBE-RNA

Classification:

RNA BINDING PROTEIN

Authors:

Zheng, X., Yunyu, S., Shouhong, G.

Citation:

Crystal Structure of PUF-8 in Complex with PBE-RNA
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.796Å R work:0.203R free:0.248

Equivalence Class: 

NR_all_98426.1 

Eq. Class Rep:

7CGI

NDB ID:

7CGJ

PDB ID:

7CGJ 

Release:

2021-07-07

Title:

Crystal Structure of PUF-8 in Complex with PBE-RNA

Classification:

RNA BINDING PROTEIN

Authors:

Zheng, X., Yunyu, S., Shouhong, G.

Citation:

Crystal Structure of PUF-8 in Complex with PBE-RNA
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.546Å R work:0.19R free:0.241

Equivalence Class: 

NR_all_31724.1 

Eq. Class Rep:

7CGJ