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As of 23-Sep-2020 number of released structures: 10967
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Polymer Type: All + RNA Type: All + Protein Function: All + Experimental Method: All + RNA Sequence Type: All RNA Sequence

Results: 5415  Download results as an excel file       Gallery view

NDB ID:

6KYV

PDB ID:

6KYV 

Release:

2020-09-23

Title:

Crystal Structure of RIG-I and hairpin RNA with G-U wobble base pairs

Classification:

IMMUNE SYSTEM

Authors:

Kim, K.-H., Hwang, J., Kim, J.H., Son, K.-P., Jang, Y., Kim, M., Kang, S.-J., Lee, J.-O., Choi, B.-S.

Citation:

Structure of RIG-I dCARD and hairpin RNA with G-U wobble base pairs
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.0Å R work:0.222R free:0.274

NDB ID:

6TF0

PDB ID:

6TF0 

Release:

2020-09-23

Title:

Crystal structure of the ADP-binding domain of the NAD+ riboswitch with Nicotinamide adenine dinucleotide, reduced (NADH)

Classification:

RNA

Authors:

Huang, L., Wang, J., Lilley, D.M.J.

Citation:

Structure and ligand binding of the ADP-binding domain of the NAD+ riboswitch.
Rna 26 pp.878 - 887 2020

Experiment:

X-RAY DIFFRACTION Resolution:2.1Å R work:0.209R free:0.257

NDB ID:

6TF1

PDB ID:

6TF1 

Release:

2020-09-23

Title:

Crystal structure of the ADP-binding domain of the NAD+ riboswitch with Adenosine diphosphate (ADP)

Classification:

RNA

Authors:

Huang, L., Wang, J., Lilley, D.M.J.

Citation:

Structure and ligand binding of the ADP-binding domain of the NAD+ riboswitch.
Rna 26 pp.878 - 887 2020

Experiment:

X-RAY DIFFRACTION Resolution:2.4Å R work:0.215R free:0.244

NDB ID:

6TF2

PDB ID:

6TF2 

Release:

2020-09-23

Title:

Crystal structure of the ADP-binding domain of the NAD+ riboswitch with Adenosine 5-triphosphate (ATP)

Classification:

RNA

Authors:

Huang, L., Wang, J., Lilley, D.M.J.

Citation:

Structure and ligand binding of the ADP-binding domain of the NAD+ riboswitch.
Rna 26 pp.878 - 887 2020

Experiment:

X-RAY DIFFRACTION Resolution:2.55Å R work:0.207R free:0.238

NDB ID:

6TF3

PDB ID:

6TF3 

Release:

2020-09-23

Title:

Crystal structure of the ADP-binding domain of the NAD+ riboswitch with Cordycepin 5-triphosphate (3-dATP)

Classification:

RNA

Authors:

Huang, L., Wang, J., Lilley, D.M.J.

Citation:

Structure and ligand binding of the ADP-binding domain of the NAD+ riboswitch.
Rna 26 pp.878 - 887 2020

Experiment:

X-RAY DIFFRACTION Resolution:2.66Å R work:0.211R free:0.241

NDB ID:

6TFE

PDB ID:

6TFE 

Release:

2020-09-23

Title:

Crystal structure of the ADP-binding domain of the NAD+ riboswitch with N6-Methyl-adenosine-5'-triphosphate (m6ATP)

Classification:

RNA

Authors:

Huang, L., Wang, J., Lilley, D.M.J.

Citation:

Structure and ligand binding of the ADP-binding domain of the NAD+ riboswitch.
Rna 26 pp.878 - 887 2020

Experiment:

X-RAY DIFFRACTION Resolution:2.3Å R work:0.239R free:0.257

NDB ID:

6TFF

PDB ID:

6TFF 

Release:

2020-09-23

Title:

Crystal structure of the ADP-binding domain of the NAD+ riboswitch with Nicotinamide adenine dinucleotide (NAD+)

Classification:

RNA

Authors:

Huang, L., Wang, J., Lilley, D.M.J.

Citation:

Structure and ligand binding of the ADP-binding domain of the NAD+ riboswitch.
Rna 26 pp.878 - 887 2020

Experiment:

X-RAY DIFFRACTION Resolution:2.52Å R work:0.213R free:0.225

NDB ID:

6TFG

PDB ID:

6TFG 

Release:

2020-09-23

Title:

Crystal structure of the ADP-binding domain of the NAD+ riboswitch with Adenosine 3-phosphate 5-phosphosulfate (APPS)

Classification:

RNA

Authors:

Huang, L., Wang, J., Lilley, D.M.J.

Citation:

Structure and ligand binding of the ADP-binding domain of the NAD+ riboswitch.
Rna 26 pp.878 - 887 2020

Experiment:

X-RAY DIFFRACTION Resolution:2.45Å R work:0.192R free:0.225

NDB ID:

6TFH

PDB ID:

6TFH 

Release:

2020-09-23

Title:

Crystal structure of the ADP-binding domain of the NAD+ riboswitch with Nicotinamide adenine dinucleotide, reduced (NADH); soaking with Manganese(II) (Mn2+)

Classification:

RNA

Authors:

Huang, L., Wang, J., Lilley, D.M.J.

Citation:

Structure and ligand binding of the ADP-binding domain of the NAD+ riboswitch.
Rna 26 pp.878 - 887 2020

Experiment:

X-RAY DIFFRACTION Resolution:2.95Å R work:0.221R free:0.266

NDB ID:

6W3M

PDB ID:

6W3M 

Release:

2020-09-23

Title:

Solution NMR Structure of 5'UTR Stem Loop B in DENV4 Flavivirus.

Classification:

RNA

Authors:

Sharma, S., Varani, G.

Citation:

NMR structure of Dengue West Nile viruses stem-loop B: A key cis-acting element for flavivirus replication.
Biochem.Biophys.Res.Commun. pp. - 2020

Experiment:

SOLUTION NMR

NDB ID:

7K1Z

PDB ID:

7K1Z 

Release:

2020-09-23

Title:

Solution structure of the HIV-1 PBS-segment

Classification:

RNA

Authors:

Song, Z., Heng, X.

Citation:

Structure of the HIV-1 PBS-segment is conserved for viral infectivity
To Be Published pp. - 0

Experiment:

SOLUTION NMR

NDB ID:

7K1Z

PDB ID:

7K1Z 

Release:

2020-09-23

Title:

Solution structure of the HIV-1 PBS-segment

Classification:

RNA

Authors:

Song, Z., Heng, X.

Citation:

Structure of the HIV-1 PBS-segment is conserved for viral infectivity
To Be Published pp. - 0

Experiment:

SOLUTION SCATTERING

NDB ID:

6KXZ

PDB ID:

6KXZ 

Release:

2020-09-16

Title:

HUMAN PARALLEL STRANDED 7-MER G-QUADRUPLEX COMPLEXED WITH 2 EPIRUBICIN (EPI) MOLECULES

Classification:

DNA

Authors:

Barthwal, R., Raje, S., Pandav, K.

Citation:

HUMAN PARALLEL STRANDED 7-MER G-QUADRUPLEX COMPLEXED WITH 2 EPIRUBICIN (DM6) MOLECULES
To Be Published pp. - 0

Experiment:

SOLUTION NMR

NDB ID:

7JYY

PDB ID:

7JYY 

Release:

2020-09-16

Title:

Crystal Structure of SARS-CoV-2 Nsp16/10 Heterodimer in Complex with (m7GpppA)pUpUpApApA (Cap-0) and S-Adenosylmethionine (SAM).

Classification:

VIRAL PROTEIN/RNA

Authors:

Minasov, G., Shuvalova, L., Rosas-Lemus, M., Kiryukhina, O., Brunzelle, J.S., Satchell, K.J.F., Center for Structural Genomics of Infectious Diseases (CSGID)

Citation:

Crystal Structure of SARS-CoV-2 Nsp16/10 Heterodimer in Complex with (m7GpppA)pUpUpApApA (Cap-0) and S-Adenosylmethionine (SAM).
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.05Å R work:0.165R free:0.184

Equivalence Class: 

NR_all_11762.1 

Eq. Class Rep:

7JYY

NDB ID:

7JZ0

PDB ID:

7JZ0 

Release:

2020-09-16

Title:

Crystal Structure of SARS-CoV-2 Nsp16/10 Heterodimer in Complex with (m7GpppA2m)pUpUpApApA (Cap-1) and S-Adenosyl-L-homocysteine (SAH).

Classification:

VIRAL PROTEIN/RNA

Authors:

Minasov, G., Shuvalova, L., Rosas-Lemus, M., Kiryukhina, O., Brunzelle, J.S., Satchell, K.J.F., Center for Structural Genomics of Infectious Diseases (CSGID)

Citation:

Crystal Structure of SARS-CoV-2 Nsp16/10 Heterodimer in Complex with (m7GpppA2m)pUpUpApApA (Cap-1) and S-Adenosyl-L-homocysteine (SAH).
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.15Å R work:0.173R free:0.198

Equivalence Class: 

NR_all_11762.1 

Eq. Class Rep:

7JYY

NDB ID:

6M0V

PDB ID:

6M0V 

Release:

2020-09-09

Title:

Crsytal structure of streptococcus thermophilus Cas9 in complex with the GGAA PAM

Classification:

HYDROLASE/DNA/RNA

Authors:

Zhang, Y., Zhang, H., Xu, X., Wang, Y., Chen, W., Wang, Y., Wu, Z., Tang, N., Wang, Y., Zhao, S., Gan, J., Ji, Q.

Citation:

Catalytic-state structure and engineering of Streptococcus thermophilus Cas9
Nat Catal pp. - 2020

Experiment:

X-RAY DIFFRACTION Resolution:3.0Å R work:0.213R free:0.256

Equivalence Class: 

NR_all_59327.1 

Eq. Class Rep:

6M0X

NDB ID:

6M0W

PDB ID:

6M0W 

Release:

2020-09-09

Title:

Crystal structure of Streptococcus thermophilus Cas9 in complex with the AGAA PAM

Classification:

HYDROLASE/DNA/RNA

Authors:

Zhang, Y., Zhang, H., Xu, X., Wang, Y., Chen, W., Wang, Y., Wu, Z., Tang, N., Wang, Y., Zhao, S., Gan, J., Ji, Q.

Citation:

Catalytic-state structure and engineering of Streptococcus thermophilus Cas9
Nat Catal pp. - 2020

Experiment:

X-RAY DIFFRACTION Resolution:2.76Å R work:0.219R free:0.259

Equivalence Class: 

NR_all_59327.1 

Eq. Class Rep:

6M0X

NDB ID:

6M0X

PDB ID:

6M0X 

Release:

2020-09-09

Title:

Crystal structure of Streptococcus thermophilus Cas9 in complex with AGGA PAM

Classification:

DNA BINDING PROTEIN

Authors:

Zhang, Y., Zhang, H., Xu, X., Wang, Y., Chen, W., Wang, Y., Wu, Z., Tang, N., Wang, Y., Zhao, S., Gan, J., Ji, Q.

Citation:

Catalytic-state structure and engineering of Streptococcus thermophilus Cas9
Nat Catal pp. - 2020

Experiment:

X-RAY DIFFRACTION Resolution:2.561Å R work:0.225R free:0.255

Equivalence Class: 

NR_all_59327.1 

Eq. Class Rep:

6M0X

NDB ID:

7JJU

PDB ID:

7JJU 

Release:

2020-09-09

Title:

Crystal structure of en exoribonuclease-resistant RNA (xrRNA) from Potato leafroll virus (PLRV)

Classification:

RNA

Authors:

Steckelberg, A.L., Vicens, Q., Costantino, D.A., Nix, J.C., Kieft, J.S.

Citation:

The crystal structure of a Polerovirus exoribonuclease-resistant RNA shows how diverse sequences are integrated into a conserved fold.
Rna pp. - 2020

Experiment:

X-RAY DIFFRACTION Resolution:2.604Å R work:0.224R free:0.253

Equivalence Class: 

NR_all_29875.1 

Eq. Class Rep:

7JJU

NDB ID:

6U6Y

PDB ID:

6U6Y 

Release:

2020-09-02

Title:

Human SAMHD1 bound to ribo(CGCCU)-oligonucleotide

Classification:

HYDROLASE

Authors:

Yu, C.H., Bhattacharya, A., Wang, Z., Taylor, A.B., Persaud, M., Bulnes-Ramos, A., Xu, J., Selyutina, A., Martinez-Lopez, A., Demeler, B., Kim, B., Diaz-Griffero, F., Ivanov, D.N.

Citation:

The GpsN modification enhances affinity of nucleic acid binding by SAMHD1
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.47Å R work:0.18R free:0.234

Equivalence Class: 

NR_all_05533.1 

Eq. Class Rep:

6U6Y

NDB ID:

6U6Y

PDB ID:

6U6Y 

Release:

2020-09-02

Title:

Human SAMHD1 bound to ribo(CGCCU)-oligonucleotide

Classification:

HYDROLASE

Authors:

Yu, C.H., Bhattacharya, A., Wang, Z., Taylor, A.B., Persaud, M., Bulnes-Ramos, A., Xu, J., Selyutina, A., Martinez-Lopez, A., Demeler, B., Kim, B., Diaz-Griffero, F., Ivanov, D.N.

Citation:

The GpsN modification enhances affinity of nucleic acid binding by SAMHD1
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.47Å R work:0.18R free:0.234

Equivalence Class: 

NR_all_08270.1 

Eq. Class Rep:

6U6Y

NDB ID:

6U6Y

PDB ID:

6U6Y 

Release:

2020-09-02

Title:

Human SAMHD1 bound to ribo(CGCCU)-oligonucleotide

Classification:

HYDROLASE

Authors:

Yu, C.H., Bhattacharya, A., Wang, Z., Taylor, A.B., Persaud, M., Bulnes-Ramos, A., Xu, J., Selyutina, A., Martinez-Lopez, A., Demeler, B., Kim, B., Diaz-Griffero, F., Ivanov, D.N.

Citation:

The GpsN modification enhances affinity of nucleic acid binding by SAMHD1
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.47Å R work:0.18R free:0.234

Equivalence Class: 

NR_all_67009.1 

Eq. Class Rep:

6U6Y

NDB ID:

6U6Y

PDB ID:

6U6Y 

Release:

2020-09-02

Title:

Human SAMHD1 bound to ribo(CGCCU)-oligonucleotide

Classification:

HYDROLASE

Authors:

Yu, C.H., Bhattacharya, A., Wang, Z., Taylor, A.B., Persaud, M., Bulnes-Ramos, A., Xu, J., Selyutina, A., Martinez-Lopez, A., Demeler, B., Kim, B., Diaz-Griffero, F., Ivanov, D.N.

Citation:

The GpsN modification enhances affinity of nucleic acid binding by SAMHD1
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.47Å R work:0.18R free:0.234

Equivalence Class: 

NR_all_84250.1 

Eq. Class Rep:

6U6Y

NDB ID:

6VZC

PDB ID:

6VZC 

Release:

2020-09-02

Title:

Tandem UU:GA mismatch within an RNA helix

Classification:

RNA

Authors:

Chang, A.T., Chen, L., Song, L., Zhang, S., Nikonowicz, E.P.

Citation:

2-Amino-1,3-benzothiazole-6-carboxamide Preferentially Binds the Tandem Mismatch Motif r(UY:GA).
Biochemistry 59 pp.3225 - 3234 2020

Experiment:

SOLUTION NMR

Equivalence Class: 

NR_all_86477.1 

Eq. Class Rep:

6VZC

NDB ID:

6WJR

PDB ID:

6WJR 

Release:

2020-09-02

Title:

Apo structure of the FMN riboswitch aptamer domain in the presence of sulfate

Classification:

RNA

Authors:

Wilt, H.M., Yu, P., Tan, K., Wang, Y.-X., Stagno, J.R.

Citation:

FMN riboswitch aptamer symmetry facilitates conformational switching through mutually exclusive coaxial stacking configurations
J Struct Biol X pp. - 2020

Experiment:

X-RAY DIFFRACTION Resolution:2.7Å R work:0.22R free:0.257

Equivalence Class: 

NR_all_47203.2 

Eq. Class Rep:

3F2X

NDB ID:

6WJS

PDB ID:

6WJS 

Release:

2020-09-02

Title:

Apo structure of the FMN riboswitch aptamer domain in the presence of phosphate

Classification:

RNA

Authors:

Wilt, H.M., Yu, P., Tan, K., Wang, Y.-X., Stagno, J.R.

Citation:

FMN riboswitch aptamer symmetry facilitates conformational switching through mutually exclusive coaxial stacking configurations
J Struct Biol X pp. - 2020

Experiment:

X-RAY DIFFRACTION Resolution:3.8Å R work:0.27R free:0.327

Equivalence Class: 

NR_all_47203.2 

Eq. Class Rep:

3F2X

NDB ID:

6WY2

PDB ID:

6WY2 

Release:

2020-09-02

Title:

Crystal structure of RNA-10mer: CCGG(N4-methyl-C)GCCGG

Classification:

RNA

Authors:

Sekula, B., Ruszkowski, M., Mao, S., Haruehanroengra, P., Sheng, J.

Citation:

Crystal structure of RNA-10mer: CCGG(N4-methyl-C)GCCGG
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.928Å R work:0.187R free:0.218

Equivalence Class: 

NR_all_71188.2 

Eq. Class Rep:

5TDJ

NDB ID:

6WY3

PDB ID:

6WY3 

Release:

2020-09-02

Title:

Crystal structure of RNA-10mer: CCGG(N4,N4-dimethyl-C)GCCGG; P212121 form

Classification:

RNA

Authors:

Sekula, B., Ruszkowski, M., Mao, S., Haruehanroengra, P., Sheng, J.

Citation:

Crystal structure of RNA-10mer: CCGG(N4,N4-dimethyl-C)GCCGG; P212121 form
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.647Å R work:0.189R free:0.214

Equivalence Class: 

NR_all_71188.2 

Eq. Class Rep:

5TDJ

NDB ID:

6XB7

PDB ID:

6XB7 

Release:

2020-09-02

Title:

IRES-targeting Small Molecule Inhibits Enterovirus 71 Replication via Allosteric Stabilization of a Ternary Complex

Classification:

RNA

Authors:

Davila Calderon, J., Tolbert, B.S.

Citation:

Small Molecule Targeting IRES Domain Inhibits Enterovirus 71 Replication via an Allosteric Mechanism that Stabilizes a Ternary Complex
To Be Published pp. - 0

Experiment:

SOLUTION NMR

Equivalence Class: 

NR_all_39508.1 

Eq. Class Rep:

6XB7

NDB ID:

6YFT

PDB ID:

6YFT 

Release:

2020-09-02

Title:

Virus-like particle of Wenzhou levi-like virus 1

Classification:

VIRUS LIKE PARTICLE

Authors:

Rumnieks, J., Kalnins, G., Sisovs, M., Lieknina, i., Tars, K.

Citation:

Expansion of the structural diversity of single-stranded RNA bacteriophages
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.5Å R work:0.261R free:0.26

Equivalence Class: 

NR_all_16664.1 

Eq. Class Rep:

6YFT

NDB ID:

6Z18

PDB ID:

6Z18 

Release:

2020-09-02

Title:

Crystal structure of RNA-10mer: CCGG(N4,N4-dimethyl-C)GCCGG; R32 form

Classification:

RNA

Authors:

Sekula, B., Ruszkowski, M., Mao, S., Haruehanroengra, P., Sheng, J.

Citation:

Crystal structure of RNA-10mer: CCGG(N4,N4-dimethyl-C)GCCGG; R32 form
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.81Å R work:0.253R free:0.287

Equivalence Class: 

NR_all_71188.2 

Eq. Class Rep:

5TDJ

NDB ID:

6U79

PDB ID:

6U79 

Release:

2020-08-26

Title:

Solution NMR structure of 5' UTR stem loop B from West Nile Virus

Classification:

RNA

Authors:

Sharma, S., Varani, G.

Citation:

NMR structure of Dengue West Nile viruses stem-loop B: A key cis-acting element for flavivirus replication.
Biochem.Biophys.Res.Commun. pp. - 2020

Experiment:

SOLUTION NMR

Equivalence Class: 

NR_all_78082.1 

Eq. Class Rep:

6U79

NDB ID:

6UTV

PDB ID:

6UTV 

Release:

2020-08-26

Title:

E. coli sigma-S transcription initiation complex with a 6-nt RNA (""Fresh"" crystal soaked with CTP, UTP, GTP, and ddATP for 150 seconds)

Classification:

TRANSCRIPTION, TRANSFERASE/DNA/RNA

Authors:

Zuo, Y., De, S., Feng, Y., Steitz, T.A.

Citation:

Structural Insights into Transcription Initiation from De Novo RNA Synthesis to Transitioning into Elongation.
Iscience 23 pp.101445 - 101445 2020

Experiment:

X-RAY DIFFRACTION Resolution:3.45Å R work:0.281R free:0.347

Equivalence Class: 

NR_all_75510.1 

Eq. Class Rep:

6UTV

NDB ID:

6UTW

PDB ID:

6UTW 

Release:

2020-08-26

Title:

E. coli sigma-S transcription initiation complex with a 4-nt RNA (""Fresh"" crystal)

Classification:

TRANSCRIPTION, TRANSFERASE/DNA/RNA

Authors:

Zuo, Y., De, S., Feng, Y., Steitz, T.A.

Citation:

Structural Insights into Transcription Initiation from De Novo RNA Synthesis to Transitioning into Elongation.
Iscience 23 pp.101445 - 101445 2020

Experiment:

X-RAY DIFFRACTION Resolution:3.854Å R work:0.268R free:0.329

Equivalence Class: 

NR_all_95963.4 

Eq. Class Rep:

5IPL

NDB ID:

6UTZ

PDB ID:

6UTZ 

Release:

2020-08-26

Title:

E. coli sigma-S transcription initiation complex with a 6-nt RNA (""Fresh"" crystal soaked with CTP and UTP for 30 minutes)

Classification:

TRANSCRIPTION, TRANSFERASE/DNA/RNA

Authors:

Zuo, Y., De, S., Feng, Y., Steitz, T.A.

Citation:

Structural Insights into Transcription Initiation from De Novo RNA Synthesis to Transitioning into Elongation.
Iscience 23 pp.101445 - 101445 2020

Experiment:

X-RAY DIFFRACTION Resolution:3.803Å R work:0.273R free:0.343

Equivalence Class: 

NR_all_75510.1 

Eq. Class Rep:

6UTV

NDB ID:

6UU0

PDB ID:

6UU0 

Release:

2020-08-26

Title:

E. coli sigma-S transcription initiation complex with a 3-nt RNA and a mismatching GTP (""Fresh"" crystal soaked with GTP for 1 hour)

Classification:

TRANSCRIPTION, TRANSFERASE/DNA/RNA

Authors:

Zuo, Y., De, S., Feng, Y., Steitz, T.A.

Citation:

Structural Insights into Transcription Initiation from De Novo RNA Synthesis to Transitioning into Elongation.
Iscience 23 pp.101445 - 101445 2020

Experiment:

X-RAY DIFFRACTION Resolution:3.9Å R work:0.313R free:0.367

Equivalence Class: 

NR_all_93339.1 

Eq. Class Rep:

6UU4

NDB ID:

6UU1

PDB ID:

6UU1 

Release:

2020-08-26

Title:

E. coli sigma-S transcription initiation complex with a 4-nt RNA and a CTP (""Fresh"" crystal soaked with CTP, GTP, and ddTTP for 30 minutes)

Classification:

TRANSCRIPTION, TRANSFERASE/DNA/RNA

Authors:

Zuo, Y., De, S., Feng, Y., Steitz, T.A.

Citation:

Structural Insights into Transcription Initiation from De Novo RNA Synthesis to Transitioning into Elongation.
Iscience 23 pp.101445 - 101445 2020

Experiment:

X-RAY DIFFRACTION Resolution:4.097Å R work:0.332R free:0.395

Equivalence Class: 

NR_all_08809.1 

Eq. Class Rep:

6UU3

NDB ID:

6UU2

PDB ID:

6UU2 

Release:

2020-08-26

Title:

E. coli sigma-S transcription initiation complex with 3-nt RNA (""Old"" crystal soaked with GTP and ATP for 30 minutes)

Classification:

TRANSCRIPTION, TRANSFERASE/DNA/RNA

Authors:

Zuo, Y., De, S., Feng, Y., Steitz, T.A.

Citation:

Structural Insights into Transcription Initiation from De Novo RNA Synthesis to Transitioning into Elongation.
Iscience 23 pp.101445 - 101445 2020

Experiment:

X-RAY DIFFRACTION Resolution:4.404Å R work:0.296R free:0.362

Equivalence Class: 

NR_all_93339.1 

Eq. Class Rep:

6UU4

NDB ID:

6UU3

PDB ID:

6UU3 

Release:

2020-08-26

Title:

E. coli sigma-S transcription initiation complex with a 4-nt RNA and a CTP (""Old"" crystal soaked with GTP, ATP, CTP, and ddTTP for 30 minutes)

Classification:

TRANSCRIPTION, TRANSFERASE/DNA/RNA

Authors:

Zuo, Y., De, S., Feng, Y., Steitz, T.A.

Citation:

Structural Insights into Transcription Initiation from De Novo RNA Synthesis to Transitioning into Elongation.
Iscience 23 pp.101445 - 101445 2020

Experiment:

X-RAY DIFFRACTION Resolution:4.002Å R work:0.303R free:0.38

Equivalence Class: 

NR_all_08809.1 

Eq. Class Rep:

6UU3

NDB ID:

6UU4

PDB ID:

6UU4 

Release:

2020-08-26

Title:

E. coli sigma-S transcription initiation complex with a 3-nt RNA (""old"" crystal soaked with GTP and dinucleotide GpA for 30 minutes)

Classification:

TRANSCRIPTION, TRANSFERASE/DNA/RNA

Authors:

Zuo, Y., De, S., Feng, Y., Steitz, T.A.

Citation:

Structural Insights into Transcription Initiation from De Novo RNA Synthesis to Transitioning into Elongation.
Iscience 23 pp.101445 - 101445 2020

Experiment:

X-RAY DIFFRACTION Resolution:4.305Å R work:0.304R free:0.363

Equivalence Class: 

NR_all_93339.1 

Eq. Class Rep:

6UU4

NDB ID:

6UU5

PDB ID:

6UU5 

Release:

2020-08-26

Title:

E. coli sigma-S transcription initiation complex with a 6-nt RNA (""Old"" crystal soaked with GTP, UTP, CTP, and dinucleotide GpA for 30 minutes)

Classification:

TRANSCRIPTION, TRANSFERASE/DNA/RNA

Authors:

Zuo, Y., De, S., Feng, Y., Steitz, T.A.

Citation:

Structural Insights into Transcription Initiation from De Novo RNA Synthesis to Transitioning into Elongation.
Iscience 23 pp.101445 - 101445 2020

Experiment:

X-RAY DIFFRACTION Resolution:5.403Å R work:0.295R free:0.362

Equivalence Class: 

NR_all_75510.1 

Eq. Class Rep:

6UTV

NDB ID:

6UU6

PDB ID:

6UU6 

Release:

2020-08-26

Title:

E. coli sigma-S transcription initiation complex with a 4-nt RNA and a UTP (""Old"" crystal soaked with UTP, ddCTP, and dinucleotide ApG for 30 minutes)

Classification:

TRANSCRIPTION, TRANSFERASE/DNA/RNA

Authors:

Zuo, Y., De, S., Feng, Y., Steitz, T.A.

Citation:

Structural Insights into Transcription Initiation from De Novo RNA Synthesis to Transitioning into Elongation.
Iscience 23 pp.101445 - 101445 2020

Experiment:

X-RAY DIFFRACTION Resolution:4.201Å R work:0.342R free:0.388

Equivalence Class: 

NR_all_82877.1 

Eq. Class Rep:

6UU6

NDB ID:

6UU7

PDB ID:

6UU7 

Release:

2020-08-26

Title:

E. coli sigma-S transcription initiation complex with a 6-nt RNA and an NTP (""Old"" crystal soaked with UTP, CTP, ddGTP, and dinucleotide ApG for 30 minutes)

Classification:

TRANSCRIPTION, TRANSFERASE/RNA

Authors:

Zuo, Y., De, S., Feng, Y., Steitz, T.A.

Citation:

Structural Insights into Transcription Initiation from De Novo RNA Synthesis to Transitioning into Elongation.
Iscience 23 pp.101445 - 101445 2020

Experiment:

X-RAY DIFFRACTION Resolution:4.4Å R work:0.344R free:0.389

Equivalence Class: 

NR_all_29211.1 

Eq. Class Rep:

6UU7

NDB ID:

6UU8

PDB ID:

6UU8 

Release:

2020-08-26

Title:

E. coli mutant sigma-S transcription initiation complex with a 7-nt RNA (""Fresh"" mutant crystal soaked with GTP, UTP, and CTP for 30 minutes)

Classification:

TRANSCRIPTION, TRANSFERASE/DNA/RNA

Authors:

Zuo, Y., De, S., Feng, Y., Steitz, T.A.

Citation:

Structural Insights into Transcription Initiation from De Novo RNA Synthesis to Transitioning into Elongation.
Iscience 23 pp.101445 - 101445 2020

Experiment:

X-RAY DIFFRACTION Resolution:4.4Å R work:0.357R free:0.379

Equivalence Class: 

NR_all_88909.1 

Eq. Class Rep:

6UU8

NDB ID:

6UU9

PDB ID:

6UU9 

Release:

2020-08-26

Title:

E. coli mutant sigma-S transcription initiation complex with an 8-nt RNA (""Fresh"" mutant crystal soaked with GTP, UTP, CTP, and ddATP for 30 minutes)

Classification:

TRANSCRIPTION, TRANSFERASE/DNA/RNA

Authors:

Zuo, Y., De, S., Feng, Y., Steitz, T.A.

Citation:

Structural Insights into Transcription Initiation from De Novo RNA Synthesis to Transitioning into Elongation.
Iscience 23 pp.101445 - 101445 2020

Experiment:

X-RAY DIFFRACTION Resolution:5.4Å R work:0.314R free:0.362

Equivalence Class: 

NR_all_52942.1 

Eq. Class Rep:

6UU9

NDB ID:

6UUC

PDB ID:

6UUC 

Release:

2020-08-26

Title:

E. coli sigma-S transcription initiation complex with a 3-nt RNA and a mismatching ATP (""Fresh"" crystal soaked with ATP for 2 hours)

Classification:

TRANSCRIPTION, TRANSFERASE/DNA/RNA

Authors:

Zuo, Y., De, S., Feng, Y., Steitz, T.A.

Citation:

Structural Insights into Transcription Initiation from De Novo RNA Synthesis to Transitioning into Elongation.
Iscience 23 pp.101445 - 101445 2020

Experiment:

X-RAY DIFFRACTION Resolution:4.096Å R work:0.321R free:0.379

Equivalence Class: 

NR_all_93339.1 

Eq. Class Rep:

6UU4

NDB ID:

7JQL

PDB ID:

7JQL 

Release:

2020-08-26

Title:

Crystal structure of the Thermus thermophilus 70S ribosome in complex with Bac7-001, mRNA, and deacylated P-site tRNA at 3.00A resolution

Classification:

RIBOSOME

Authors:

Mardirossian, M., Sola, R., Beckert, B., Valencic, E., Collis, D.W.P., Borisek, J., Armas, F., Di Stasi, A., Buchmann, J., Syroegin, E.A., Polikanov, Y.S., Magistrato, A., Hilpert, K., Wilson, D.N., Scocchi, M.

Citation:

Peptide Inhibitors of Bacterial Protein Synthesis with Broad Spectrum and SbmA-Independent Bactericidal Activity against Clinical Pathogens.
J.Med.Chem. 63 pp.9590 - 9602 2020

Experiment:

X-RAY DIFFRACTION Resolution:3.0Å R work:0.225R free:0.285

Equivalence Class: 

NR_all_65795.55 

Eq. Class Rep:

4LFB

NDB ID:

7JQL

PDB ID:

7JQL 

Release:

2020-08-26

Title:

Crystal structure of the Thermus thermophilus 70S ribosome in complex with Bac7-001, mRNA, and deacylated P-site tRNA at 3.00A resolution

Classification:

RIBOSOME

Authors:

Mardirossian, M., Sola, R., Beckert, B., Valencic, E., Collis, D.W.P., Borisek, J., Armas, F., Di Stasi, A., Buchmann, J., Syroegin, E.A., Polikanov, Y.S., Magistrato, A., Hilpert, K., Wilson, D.N., Scocchi, M.

Citation:

Peptide Inhibitors of Bacterial Protein Synthesis with Broad Spectrum and SbmA-Independent Bactericidal Activity against Clinical Pathogens.
J.Med.Chem. 63 pp.9590 - 9602 2020

Experiment:

X-RAY DIFFRACTION Resolution:3.0Å R work:0.225R free:0.285

Equivalence Class: 

NR_all_97519.50 

Eq. Class Rep:

4Y4O

NDB ID:

7JQL

PDB ID:

7JQL 

Release:

2020-08-26

Title:

Crystal structure of the Thermus thermophilus 70S ribosome in complex with Bac7-001, mRNA, and deacylated P-site tRNA at 3.00A resolution

Classification:

RIBOSOME

Authors:

Mardirossian, M., Sola, R., Beckert, B., Valencic, E., Collis, D.W.P., Borisek, J., Armas, F., Di Stasi, A., Buchmann, J., Syroegin, E.A., Polikanov, Y.S., Magistrato, A., Hilpert, K., Wilson, D.N., Scocchi, M.

Citation:

Peptide Inhibitors of Bacterial Protein Synthesis with Broad Spectrum and SbmA-Independent Bactericidal Activity against Clinical Pathogens.
J.Med.Chem. 63 pp.9590 - 9602 2020

Experiment:

X-RAY DIFFRACTION Resolution:3.0Å R work:0.225R free:0.285

Equivalence Class: 

NR_all_42622.50 

Eq. Class Rep:

5FDV

NDB ID:

7JQL

PDB ID:

7JQL 

Release:

2020-08-26

Title:

Crystal structure of the Thermus thermophilus 70S ribosome in complex with Bac7-001, mRNA, and deacylated P-site tRNA at 3.00A resolution

Classification:

RIBOSOME

Authors:

Mardirossian, M., Sola, R., Beckert, B., Valencic, E., Collis, D.W.P., Borisek, J., Armas, F., Di Stasi, A., Buchmann, J., Syroegin, E.A., Polikanov, Y.S., Magistrato, A., Hilpert, K., Wilson, D.N., Scocchi, M.

Citation:

Peptide Inhibitors of Bacterial Protein Synthesis with Broad Spectrum and SbmA-Independent Bactericidal Activity against Clinical Pathogens.
J.Med.Chem. 63 pp.9590 - 9602 2020

Experiment:

X-RAY DIFFRACTION Resolution:3.0Å R work:0.225R free:0.285

Equivalence Class: 

NR_all_35542.74 

Eq. Class Rep:

5L4O