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As of 23-Nov-2022 number of released structures: 12471
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Polymer Type: All + Protein Function: All + Structural Features: All + Experimental Method: All

Results: 8564  Download results as an excel file       Gallery view

NDB ID:

7SM0

PDB ID:

7SM0 

Release:

2022-11-23

Title:

[T:Hg2+/Hg2+:T--pH 8.5] Metal-mediated DNA base pair in tensegrity triangle in Ag+ and Hg2+ solution

Classification:

DNA

Authors:

Lu, B., Ohayon, Y.P., Sha, R., Woloszyn, K., Rothschild, L., Wind, S., Hendrickson, W., Mao, C., Seeman, N.C., Vecchioni, S.

Citation:

Crystallographic pH Titration of Silver and Mercury Mediated DNA Base Pairs
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:4.18Å R work:0.207R free:0.269

NDB ID:

7SM1

PDB ID:

7SM1 

Release:

2022-11-23

Title:

[T:Hg2+/Hg2+:T--pH 9] Metal-mediated DNA base pair in tensegrity triangle in Ag+ and Hg2+ solution

Classification:

DNA

Authors:

Lu, B., Ohayon, Y.P., Sha, R., Woloszyn, K., Rothschild, L., Wind, S., Hendrickson, W., Mao, C., Seeman, N.C., Vecchioni, S.

Citation:

Crystallographic pH Titration of Silver and Mercury Mediated DNA Base Pairs
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.81Å R work:0.255R free:0.323

NDB ID:

7SM2

PDB ID:

7SM2 

Release:

2022-11-23

Title:

[T:Hg2+/Ag+:T--pH 9.5] Metal-mediated DNA base pair in tensegrity triangle in Ag+ and Hg2+ solution

Classification:

DNA

Authors:

Lu, B., Ohayon, Y.P., Sha, R., Woloszyn, K., Rothschild, L., Wind, S., Hendrickson, W., Mao, C., Seeman, N.C., Vecchioni, S.

Citation:

Crystallographic pH Titration of Silver and Mercury Mediated DNA Base Pairs
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.92Å R work:0.2R free:0.211

NDB ID:

7SM3

PDB ID:

7SM3 

Release:

2022-11-23

Title:

[T:Hg2+/Ag+:T--pH 10] Metal-mediated DNA base pair in tensegrity triangle in Ag+ and Hg2+ solution

Classification:

DNA

Authors:

Lu, B., Ohayon, Y.P., Sha, R., Woloszyn, K., Rothschild, L., Wind, S., Hendrickson, W., Mao, C., Seeman, N.C., Vecchioni, S.

Citation:

Crystallographic pH Titration of Silver and Mercury Mediated DNA Base Pairs
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.74Å R work:0.231R free:0.238

NDB ID:

7SM4

PDB ID:

7SM4 

Release:

2022-11-23

Title:

[T:Hg2+/Ag+:T--pH 10.5] Metal-mediated DNA base pair in tensegrity triangle in Ag+ and Hg2+ solution

Classification:

DNA

Authors:

Lu, B., Ohayon, Y.P., Sha, R., Woloszyn, K., Rothschild, L., Wind, S., Hendrickson, W., Mao, C., Seeman, N.C., Vecchioni, S.

Citation:

Crystallographic pH Titration of Silver and Mercury Mediated DNA Base Pairs
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:4.01Å R work:0.226R free:0.27

NDB ID:

7SM5

PDB ID:

7SM5 

Release:

2022-11-23

Title:

[T:Ag+/Ag+:T--pH 11] Metal-mediated DNA base pair in tensegrity triangle in Ag+ and Hg2+ solution

Classification:

DNA

Authors:

Lu, B., Ohayon, Y.P., Sha, R., Woloszyn, K., Rothschild, L., Wind, S., Hendrickson, W., Mao, C., Seeman, N.C., Vecchioni, S.

Citation:

Crystallographic pH Titration of Silver and Mercury Mediated DNA Base Pairs
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:4.84Å R work:0.169R free:0.179

NDB ID:

7SM6

PDB ID:

7SM6 

Release:

2022-11-23

Title:

[U:Hg2+/Hg2+:U--pH 8.5] Metal-mediated DNA base pair in tensegrity triangle in Ag+ and Hg2+ solution

Classification:

DNA

Authors:

Lu, B., Ohayon, Y.P., Sha, R., Woloszyn, K., Rothschild, L., Wind, S., Hendrickson, W., Mao, C., Seeman, N.C., Vecchioni, S.

Citation:

Crystallographic pH Titration of Silver and Mercury Mediated DNA Base Pairs
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.8Å R work:0.192R free:0.271

NDB ID:

7SM7

PDB ID:

7SM7 

Release:

2022-11-23

Title:

[U:Hg2+/Ag+:U--pH 9] Metal-mediated DNA base pair in tensegrity triangle in Ag+ and Hg2+ solution

Classification:

DNA

Authors:

Lu, B., Ohayon, Y.P., Sha, R., Woloszyn, K., Rothschild, L., Wind, S., Hendrickson, W., Mao, C., Seeman, N.C., Vecchioni, S.

Citation:

Crystallographic pH Titration of Silver and Mercury Mediated DNA Base Pairs
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.9Å R work:0.192R free:0.22

NDB ID:

7SM8

PDB ID:

7SM8 

Release:

2022-11-23

Title:

[U:Hg2+/Ag+:U--pH 9.5] Metal-mediated DNA base pair in tensegrity triangle in Ag+ and Hg2+ solution

Classification:

DNA

Authors:

Lu, B., Ohayon, Y.P., Sha, R., Woloszyn, K., Rothschild, L., Wind, S., Hendrickson, W., Mao, C., Seeman, N.C., Vecchioni, S.

Citation:

Crystallographic pH Titration of Silver and Mercury Mediated DNA Base Pairs
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.62Å R work:0.207R free:0.228

NDB ID:

7SM9

PDB ID:

7SM9 

Release:

2022-11-23

Title:

[U:Hg2+/Ag+:U--pH 10] Metal-mediated DNA base pair in tensegrity triangle in Ag+ and Hg2+ solution

Classification:

DNA

Authors:

Lu, B., Ohayon, Y.P., Sha, R., Woloszyn, K., Rothschild, L., Wind, S., Hendrickson, W., Mao, C., Seeman, N.C., Vecchioni, S.

Citation:

Crystallographic pH Titration of Silver and Mercury Mediated DNA Base Pairs
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.24Å R work:0.228R free:0.275

NDB ID:

7SMA

PDB ID:

7SMA 

Release:

2022-11-23

Title:

[U:Hg2+/Ag+:U--pH 10.5] Metal-mediated DNA base pair in tensegrity triangle in Ag+ and Hg2+ solution

Classification:

DNA

Authors:

Lu, B., Ohayon, Y.P., Sha, R., Woloszyn, K., Rothschild, L., Wind, S., Hendrickson, W., Mao, C., Seeman, N.C., Vecchioni, S.

Citation:

Crystallographic pH Titration of Silver and Mercury Mediated DNA Base Pairs
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.64Å R work:0.19R free:0.237

NDB ID:

7SMB

PDB ID:

7SMB 

Release:

2022-11-23

Title:

[U:Ag+/Ag+:U--pH 11] Metal-mediated DNA base pair in tensegrity triangle in Ag+ and Hg2+ solution

Classification:

DNA

Authors:

Lu, B., Ohayon, Y.P., Sha, R., Woloszyn, K., Rothschild, L., Wind, S., Hendrickson, W., Mao, C., Seeman, N.C., Vecchioni, S.

Citation:

Crystallographic pH Titration of Silver and Mercury Mediated DNA Base Pairs
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:4.63Å R work:0.246R free:0.283

NDB ID:

7UPZ

PDB ID:

7UPZ 

Release:

2022-11-23

Title:

Structural basis for cell type specific DNA binding of C/EBPbeta: the case of cell cycle inhibitor p15INK4b promoter

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Lountos, G.T., Cherry, S., Tropea, J.E., Wlodawer, A., Miller, M.

Citation:

Structural basis for cell type specific DNA binding of C/EBP beta : The case of cell cycle inhibitor p15INK4b promoter.
J.Struct.Biol. 214 pp.107918 - 107918 2022

Experiment:

X-RAY DIFFRACTION Resolution:2.487Å R work:0.212R free:0.264

NDB ID:

7Q3O

PDB ID:

7Q3O 

Release:

2022-11-16

Title:

Structure of CDX1 bound to hydroxymethylated DNA

Classification:

TRANSCRIPTION

Authors:

Morgunova, E., Yin, Y., Popov, A., Taipale, J.

Citation:

Structure of CDX1 bound to hydroxymethylated DNA
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.78Å R work:0.216R free:0.285

NDB ID:

7Q4N

PDB ID:

7Q4N 

Release:

2022-11-16

Title:

transcription factor CDX2 bound to hydroxymethylated DNA

Classification:

TRANSCRIPTION

Authors:

Morgunova, E., Yin, Y., Popov, A., Taipale, J.

Citation:

transcription factor CDX2 bound to hydroxymethylated DNA
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.2Å R work:0.237R free:0.279

NDB ID:

7QA9

PDB ID:

7QA9 

Release:

2022-11-16

Title:

10bp DNA/DNA duplex

Classification:

DNA

Authors:

Li, Q., Trajkovski, M., Fan, C., Chen, J., Zhou, Y., Lu, K., Li, H., Su, X., Xi, Z., Plavec, J., Zhou, C.

Citation:

4'-SCF 3 -Labeling Constitutes a Sensitive 19 F NMR Probe for Characterization of Interactions in the Minor Groove of DNA.
Angew.Chem.Int.Ed.Engl. 61 pp.e202201848 - e202201848 2022

Experiment:

SOLUTION NMR

NDB ID:

7W0V

PDB ID:

7W0V 

Release:

2022-11-16

Title:

C4'-SCF3-DT modifeid DNA-DNA duplex

Classification:

DNA

Authors:

Li, Q., Trajkovski, M., Fan, C., Chen, J., Zhou, Y., Lu, K., Li, H., Su, X., Xi, Z., Plavec, J., Zhou, C.

Citation:

4'-SCF 3 -Labeling Constitutes a Sensitive 19 F NMR Probe for Characterization of Interactions in the Minor Groove of DNA.
Angew.Chem.Int.Ed.Engl. pp.e202201848 - e202201848 2022

Experiment:

SOLUTION NMR

NDB ID:

7YZ7

PDB ID:

7YZ7 

Release:

2022-11-16

Title:

Crystal structure of the zebrafish FoxH1 bound to the TGTGGATT site

Classification:

DNA BINDING PROTEIN

Authors:

Pluta, R., Aragon, E., Prescott, N., Baginski, B., Ruiz, L., Flood, J., Martin-Malpartida, P., Massague, J., David, Y., Macias, M.J.

Citation:

Molecular basis for DNA recognition by the maternal pioneer transcription factor FoxH1
To Be Published pp. - 2022

Experiment:

X-RAY DIFFRACTION Resolution:0.98Å R work:0.132R free:0.141

NDB ID:

7YZA

PDB ID:

7YZA 

Release:

2022-11-16

Title:

Crystal structure of the zebrafish FoxH1 bound to the TGTGTATT site

Classification:

DNA BINDING PROTEIN

Authors:

Pluta, R., Aragon, E., Prescott, N., Baginski, B., Ruiz, L., Flood, J., Martin-Malpartida, P., Massague, J., David, Y., Macias, M.J.

Citation:

Molecular basis for DNA recognition by the maternal pioneer transcription factor FoxH1
To Be Published pp. - 2022

Experiment:

X-RAY DIFFRACTION Resolution:1.18Å R work:0.14R free:0.148

NDB ID:

7YZB

PDB ID:

7YZB 

Release:

2022-11-16

Title:

Crystal structure of the human FoxH1 bound to the TGTGGATT site

Classification:

DNA BINDING PROTEIN

Authors:

Pluta, R., Aragon, E., Prescott, N., Baginski, B., Ruiz, L., Flood, J., Martin-Malpartida, P., Massague, J., David, Y., Macias, M.J.

Citation:

Molecular basis for DNA recognition by the maternal pioneer transcription factor FoxH1
To Be Published pp. - 2022

Experiment:

X-RAY DIFFRACTION Resolution:1.47Å R work:0.162R free:0.19

NDB ID:

7YZC

PDB ID:

7YZC 

Release:

2022-11-16

Title:

Crystal structure of the zebrafish FoxH1 bound to the TGTTTATT site

Classification:

DNA BINDING PROTEIN

Authors:

Pluta, R., Aragon, E., Prescott, N., Baginski, B., Ruiz, L., Flood, J., Martin-Malpartida, P., Massague, J., David, Y., Macias, M.J.

Citation:

Molecular basis for DNA recognition by the maternal pioneer transcription factor FoxH1
To Be Published pp. - 2022

Experiment:

X-RAY DIFFRACTION Resolution:2.17Å R work:0.21R free:0.241

NDB ID:

7YZD

PDB ID:

7YZD 

Release:

2022-11-16

Title:

Crystal structure of the zebrafish FoxH1 bound to the TGTTTACT site (fkh motif GTAAACA)

Classification:

DNA BINDING PROTEIN

Authors:

Pluta, R., Aragon, E., Prescott, N., Baginski, B., Ruiz, L., Flood, J., Martin-Malpartida, P., Massague, J., David, Y., Macias, M.J.

Citation:

Molecular basis for DNA recognition by the maternal pioneer transcription factor FoxH1
To Be Published pp. - 2022

Experiment:

X-RAY DIFFRACTION Resolution:2.13Å R work:0.21R free:0.252

NDB ID:

7YZE

PDB ID:

7YZE 

Release:

2022-11-16

Title:

Crystal structure of the human FoxA2 bound to the TGTTTACT site (forkhead motif GTAAACA)

Classification:

DNA BINDING PROTEIN

Authors:

Pluta, R., Aragon, E., Prescott, N., Baginski, B., Ruiz, L., Flood, J., Martin-Malpartida, P., Massague, J., David, Y., Macias, M.J.

Citation:

Molecular basis for DNA recognition by the maternal pioneer transcription factor FoxH1
To Be Published pp. - 2022

Experiment:

X-RAY DIFFRACTION Resolution:1.99Å R work:0.208R free:0.215

NDB ID:

7YZF

PDB ID:

7YZF 

Release:

2022-11-16

Title:

Crystal structure of the human FoxA2 bound to the TGTTTATT site (forkhead motif ATAAACA)

Classification:

DNA BINDING PROTEIN

Authors:

Pluta, R., Aragon, E., Prescott, N., Baginski, B., Ruiz, L., Flood, J., Martin-Malpartida, P., Massague, J., David, Y., Macias, M.J.

Citation:

Molecular basis for DNA recognition by the maternal pioneer transcription factor FoxH1
To Be Published pp. - 2022

Experiment:

X-RAY DIFFRACTION Resolution:2.18Å R work:0.221R free:0.257

NDB ID:

7YZG

PDB ID:

7YZG 

Release:

2022-11-16

Title:

Crystal structure of the Xenopus FoxH1 bound to the TGTGGATT site

Classification:

DNA BINDING PROTEIN

Authors:

Pluta, R., Aragon, E., Prescott, N., Baginski, B., Ruiz, L., Flood, J., Martin-Malpartida, P., Massague, J., David, Y., Macias, M.J.

Citation:

Molecular basis for DNA recognition by the maternal pioneer transcription factor FoxH1
To Be Published pp. - 2022

Experiment:

X-RAY DIFFRACTION Resolution:2.82Å R work:0.199R free:0.255

NDB ID:

8ABN

PDB ID:

8ABN 

Release:

2022-11-16

Title:

Solution structure of a phenyl-indoloquinoline intercalating into a quadruplex-duplex hybrid

Classification:

DNA

Authors:

Vianney, Y.M., Weisz, K.

Citation:

High-Affinity Binding at Quadruplex-Duplex Junctions: Rather the Rule than the Exception
Nucleic Acids Res. pp. - 2022

Experiment:

SOLUTION NMR

NDB ID:

7Q8A

PDB ID:

7Q8A 

Release:

2022-11-09

Title:

Crystal structure of tandem domain RRM1-2 of FUBP-interacting repressor (FIR) bound to FUSE ssDNA fragment

Classification:

TRANSCRIPTION

Authors:

Ni, X., Chaikuad, A., Knapp, S., Structural Genomics Consortium (SGC)

Citation:

Crystal structure of tandem domain RRM1-2 of FIR bound to FUSE ssDNA fragment
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.05Å R work:0.193R free:0.246

NDB ID:

7Q94

PDB ID:

7Q94 

Release:

2022-11-09

Title:

Crystal Structure of Agrobacterium tumefaciens NADQ, DNA complex.

Classification:

TRANSCRIPTION

Authors:

Minazzato, G., Gasparrini, M., Heroux, A., Sernova, N.V., Rodionov, D.A., Cianci, M., Sorci, L., Raffaelli, N.

Citation:

Bacterial NadQ (COG4111) is a Nudix-like, ATP-responsive regulator of NAD biosynthesis.
J.Struct.Biol. 214 pp.107917 - 107917 2022

Experiment:

X-RAY DIFFRACTION Resolution:4.3Å R work:0.253R free:0.3

NDB ID:

7R8I

PDB ID:

7R8I 

Release:

2022-11-09

Title:

Crystal structure of Pseudooceanicola lipolyticus Argonaute bound to 5' OH guide DNA in the presence of Mg2+

Classification:

HYDROLASE/DNA

Authors:

Shin, Y., Murakami, K.S.

Citation:

Crystal structure of Pseudooceanicola lipolyticus Argonaute bound to 5' OH guide DNA in the presence of Mg2+
To be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.4Å R work:0.213R free:0.248

NDB ID:

7SPL

PDB ID:

7SPL 

Release:

2022-11-09

Title:

[2T3] Self-assembling 3D DNA triangle with three inter-junction base pairs containing the L1 junction and a zero-linked center strand

Classification:

DNA

Authors:

Vecchioni, S., Lu, B., Sha, R., Ohayon, Y.P., Seeman, N.C.

Citation:

[2T3] Self-assembling zero-linking-number anti-tensegrity triangle with three inter-junction base pairs
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:6.09Å R work:0.234R free:0.334

NDB ID:

7X5E

PDB ID:

7X5E 

Release:

2022-11-09

Title:

Nrf2-MafG heterodimer bound with CsMBE1

Classification:

TRANSCRIPTION/DNA

Authors:

Sengoku, T., Shiina, M., Suzuki, K., Hamada, K., Sato, K., Uchiyama, A., Okada, C., Baba, S., Ohta, T., Motohashi, H., Yamamoto, M., Ogata, K.

Citation:

Structural basis of transcription regulation by CNC family transcription factor, Nrf2
Nucleic Acids Res. pp. - 2022

Experiment:

X-RAY DIFFRACTION Resolution:2.3Å R work:0.211R free:0.241

NDB ID:

7X5F

PDB ID:

7X5F 

Release:

2022-11-09

Title:

Nrf2-MafG heterodimer bound with CsMBE2

Classification:

TRANSCRIPTION/DNA

Authors:

Sengoku, T., Shiina, M., Suzuki, K., Hamada, K., Sato, K., Uchiyama, A., Okada, C., Baba, S., Ohta, T., Motohashi, H., Yamamoto, M., Ogata, K.

Citation:

Structural basis of transcription regulation by CNC family transcription factor, Nrf2
Nucleic Acids Res. pp. - 2022

Experiment:

X-RAY DIFFRACTION Resolution:2.6Å R work:0.225R free:0.259

NDB ID:

7X5G

PDB ID:

7X5G 

Release:

2022-11-09

Title:

Nrf2 (A510Y)-MafG heterodimer bound with CsMBE2

Classification:

TRANSCRIPTION

Authors:

Sengoku, T., Shiina, M., Suzuki, K., Hamada, K., Sato, K., Uchiyama, A., Okada, C., Baba, S., Ohta, T., Motohashi, H., Yamamoto, M., Ogata, K.

Citation:

Structural basis of transcription regulation by CNC family transcription factor, Nrf2.
Nucleic Acids Res. pp. - 2022

Experiment:

X-RAY DIFFRACTION Resolution:2.3Å R work:0.218R free:0.249

NDB ID:

7Z3X

PDB ID:

7Z3X 

Release:

2022-11-09

Title:

Crystal structure of FIR RRM1-2 Y115F mutant bound to FUSE ssDNA

Classification:

DNA BINDING PROTEIN

Authors:

Ni, X., Chaikuad, A., Knapp, S.

Citation:

Crystal structure of FIR RRM1-2 Y115F mutant bound to FUSE ssDNA
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.65Å R work:0.215R free:0.223

NDB ID:

7EOF

PDB ID:

7EOF 

Release:

2022-11-02

Title:

Structure of CCDC25-DNA complex

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Liu, Y.R.

Citation:

Structure of CCDC25-DNA complex
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.733Å R work:0.229R free:0.261

NDB ID:

7PZA

PDB ID:

7PZA 

Release:

2022-11-02

Title:

Structure of the Clr-cAMP-DNA complex

Classification:

SIGNALING PROTEIN

Authors:

Werel, L., Farmani, N., Krol, E., Essen, L.-O., Becker, A.

Citation:

Bifunctionality of a cAMP receptor protein: Sinorhizobium meliloti Clr is active with both cAMP and cGMP
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.72Å R work:0.27R free:0.303

NDB ID:

7PZB

PDB ID:

7PZB 

Release:

2022-11-02

Title:

Structure of the Clr-cAMP-DNA complex

Classification:

SIGNALING PROTEIN

Authors:

Werel, L., Farmani, N., Krol, E., Essen, L.-O., Becker, A.

Citation:

Bifunctionality of a cAMP receptor protein: Sinorhizobium meliloti Clr is active with both cAMP and cGMP
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.12Å R work:0.289R free:0.333

NDB ID:

7VYX

PDB ID:

7VYX 

Release:

2022-11-02

Title:

Crystal structure of the selenomethionine(SeMet)-derived Cas12c1 (D969A) ternary complex

Classification:

RNA BINDING PROTEIN/RNA/DNA

Authors:

Zhang, B., Lin, J.Y., Perculija, V., OuYang, S.Y.

Citation:

Crystal structure of the selenomethionine(SeMet)-derived Cas12c1 (D969A) ternary complex
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.2Å R work:0.255R free:0.292

NDB ID:

7XHV

PDB ID:

7XHV 

Release:

2022-11-02

Title:

Crystal Structure of the NPAS4-ARNT heterodimer in complex with DNA

Classification:

TRANSCRIPTION/DNA

Authors:

Sun, X.N., Wu, D.L.

Citation:

Structural Basis of Two NPAS4 Heterodimers Distinct from Each Other and Rest of bHLH-PAS Transcription Factors
to be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.996Å R work:0.272R free:0.33

NDB ID:

7XI3

PDB ID:

7XI3 

Release:

2022-11-02

Title:

Crystal Structure of the NPAS4-ARNT2 heterodimer in complex with DNA

Classification:

TRANSCRIPTION/DNA

Authors:

Sun, X.N., Wu, D.L.

Citation:

Structural Basis of Two NPAS4 Heterodimers Distinct from Each Other and Rest of bHLH-PAS Transcription Factors
to be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:4.274Å R work:0.248R free:0.314

NDB ID:

7XI4

PDB ID:

7XI4 

Release:

2022-11-02

Title:

Crystal Structure of the NPAS4-ARNT heterodimer in complex with DNA

Classification:

TRANSCRIPTION

Authors:

Sun, X.N., Wu, D.L.

Citation:

Structural Basis of Two NPAS4 Heterodimers Distinct from Each Other and Rest of bHLH-PAS Transcription Factors
to be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:4.707Å R work:0.313R free:0.35

NDB ID:

8ABD

PDB ID:

8ABD 

Release:

2022-11-02

Title:

Solution structure of Phen-DC3 intercalating into a quadruplex-duplex hybrid

Classification:

DNA

Authors:

Vianney, Y.M., Weisz, K.

Citation:

High-Affinity Binding at Quadruplex-Duplex Junctions: Rather the Rule than the Exception
Nucleic Acids Res. pp. - 2022

Experiment:

SOLUTION NMR

NDB ID:

7QQO

PDB ID:

7QQO 

Release:

2022-10-26

Title:

SpCas9 bound to AAVS1 off-target1 DNA substrate

Classification:

HYDROLASE

Authors:

Pacesa, M., Lin, C.H., Clery, A., Saha, A., Arantes, P.R., Bargsten, K., Irby, M.J., Allain, F.H., Palermo, G., Cameron, P., Donohoue, P.D., Jinek, M.

Citation:

Structural basis for Cas9 off-target activity.
Cell 185 pp.4067 - 4081.e21 2022

Experiment:

X-RAY DIFFRACTION Resolution:3.0Å R work:0.212R free:0.246

NDB ID:

7QQP

PDB ID:

7QQP 

Release:

2022-10-26

Title:

SpCas9 bound to AAVS1 off-target3 DNA substrate

Classification:

HYDROLASE

Authors:

Pacesa, M., Lin, C.H., Clery, A., Saha, A., Arantes, P.R., Bargsten, K., Irby, M.J., Allain, F.H., Palermo, G., Cameron, P., Donohoue, P.D., Jinek, M.

Citation:

Structural basis for Cas9 off-target activity.
Cell 185 pp.4067 - 4081.e21 2022

Experiment:

X-RAY DIFFRACTION Resolution:2.6Å R work:0.194R free:0.224

NDB ID:

7QQQ

PDB ID:

7QQQ 

Release:

2022-10-26

Title:

SpCas9 bound to AAVS1 off-target4 DNA substrate

Classification:

HYDROLASE

Authors:

Pacesa, M., Lin, C.H., Clery, A., Saha, A., Arantes, P.R., Bargsten, K., Irby, M.J., Allain, F.H., Palermo, G., Cameron, P., Donohoue, P.D., Jinek, M.

Citation:

Structural basis for Cas9 off-target activity.
Cell 185 pp.4067 - 4081.e21 2022

Experiment:

X-RAY DIFFRACTION Resolution:2.65Å R work:0.189R free:0.235

NDB ID:

7QQR

PDB ID:

7QQR 

Release:

2022-10-26

Title:

SpCas9 bound to AAVS1 off-target5 DNA substrate

Classification:

HYDROLASE

Authors:

Pacesa, M., Lin, C.H., Clery, A., Saha, A., Arantes, P.R., Bargsten, K., Irby, M.J., Allain, F.H., Palermo, G., Cameron, P., Donohoue, P.D., Jinek, M.

Citation:

Structural basis for Cas9 off-target activity.
Cell 185 pp.4067 - 4081.e21 2022

Experiment:

X-RAY DIFFRACTION Resolution:2.75Å R work:0.188R free:0.23

NDB ID:

7QQS

PDB ID:

7QQS 

Release:

2022-10-26

Title:

SpCas9 bound to FANCF on-target DNA substrate

Classification:

HYDROLASE

Authors:

Pacesa, M., Lin, C.H., Clery, A., Saha, A., Arantes, P.R., Bargsten, K., Irby, M.J., Allain, F.H., Palermo, G., Cameron, P., Donohoue, P.D., Jinek, M.

Citation:

Structural basis for Cas9 off-target activity.
Cell 185 pp.4067 - 4081.e21 2022

Experiment:

X-RAY DIFFRACTION Resolution:2.4Å R work:0.197R free:0.228

NDB ID:

7QQT

PDB ID:

7QQT 

Release:

2022-10-26

Title:

SpCas9 bound to FANCF off-target1 DNA substrate

Classification:

HYDROLASE

Authors:

Pacesa, M., Lin, C.H., Clery, A., Saha, A., Arantes, P.R., Bargsten, K., Irby, M.J., Allain, F.H., Palermo, G., Cameron, P., Donohoue, P.D., Jinek, M.

Citation:

Structural basis for Cas9 off-target activity.
Cell 185 pp.4067 - 4081.e21 2022

Experiment:

X-RAY DIFFRACTION Resolution:2.5Å R work:0.202R free:0.237

NDB ID:

7QQU

PDB ID:

7QQU 

Release:

2022-10-26

Title:

SpCas9 bound to FANCF off-target2 DNA substrate

Classification:

HYDROLASE

Authors:

Pacesa, M., Lin, C.H., Clery, A., Saha, A., Arantes, P.R., Bargsten, K., Irby, M.J., Allain, F.H., Palermo, G., Cameron, P., Donohoue, P.D., Jinek, M.

Citation:

Structural basis for Cas9 off-target activity.
Cell 185 pp.4067 - 4081.e21 2022

Experiment:

X-RAY DIFFRACTION Resolution:2.45Å R work:0.202R free:0.231

NDB ID:

7QQV

PDB ID:

7QQV 

Release:

2022-10-26

Title:

SpCas9 bound to FANCF off-target3 DNA substrate

Classification:

HYDROLASE

Authors:

Pacesa, M., Lin, C.H., Clery, A., Saha, A., Arantes, P.R., Bargsten, K., Irby, M.J., Allain, F.H., Palermo, G., Cameron, P., Donohoue, P.D., Jinek, M.

Citation:

Structural basis for Cas9 off-target activity.
Cell 185 pp.4067 - 4081.e21 2022

Experiment:

X-RAY DIFFRACTION Resolution:2.25Å R work:0.194R free:0.23