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As of 21-Sep-2022 number of released structures: 12282
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Polymer Type: All + Protein Function: All + Structural Features: All + Experimental Method: All

Results: 8410  Download results as an excel file       Gallery view

NDB ID:

7PNL

PDB ID:

7PNL 

Release:

2022-09-21

Title:

Complex between monomolecular human telomeric G-quadruplex and a sulfonamide derivative of the natural alkaloid Berberine

Classification:

DNA

Authors:

Bazzicalupi, C., Gratteri, P., Petreni, A., Nocentini, A., Supuran, C., Randazzo, A.

Citation:

Complex between monomolecular human telomeric G-quadruplex and a sulfonamide derivative of the natural alkaloid Berberine
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.83Å R work:0.204R free:0.321

NDB ID:

7VG8

PDB ID:

7VG8 

Release:

2022-09-21

Title:

TYLCV Rep-DNA

Classification:

VIRAL PROTEIN

Authors:

Zhang, S.Y., Wang, C.N.

Citation:

structure of TYLCV Rep complexed with ssDNA
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.04Å R work:0.221R free:0.266

NDB ID:

7RCU

PDB ID:

7RCU 

Release:

2022-09-14

Title:

Synthetic Max homodimer mimic in complex with DNA

Classification:

TRANSCRIPTION

Authors:

Shuangguan, S., Qiao, Z., Fanning, S., Greene, J., Moellering, R.

Citation:

Programmable and Hyperstable Synthetic DNA-Binding Domains Derived from MAX
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.69Å R work:0.235R free:0.275

NDB ID:

7VF1

PDB ID:

7VF1 

Release:

2022-09-14

Title:

Solution structure of a duplex-quadruplex hybrid formed by d[G4C2] repeats

Classification:

DNA

Authors:

Maity, A., Lim, K.W., Shneider, N.A., Chen, G., Phan, A.T.

Citation:

A duplex-quadruplex hybrid formed by d[G4C2] repeats
To be published pp. - 0

Experiment:

SOLUTION NMR

NDB ID:

7ZVN

PDB ID:

7ZVN 

Release:

2022-09-14

Title:

Crystal structure of human Annexin A2 in complex with full phosphorothioate 5-10 2'-methoxyethyl DNA gapmer antisense oligonucleotide solved at 1.87 A resolution

Classification:

LIPID BINDING PROTEIN

Authors:

Hyjek-Skladanowska, M., Anderson, B.A., Mykhaylyk, V., Orr, C., Wagner, A., Poznanski, J.T., Skowronek, K., Seth, P., Nowotny, M.

Citation:

Structures of annexin A2-PS DNA complexes show dominance of hydrophobic interactions in phosphorothioate binding
Nucleic Acids Res. pp. - 2022

Experiment:

X-RAY DIFFRACTION Resolution:1.87Å R work:0.167R free:0.198

NDB ID:

7ZVX

PDB ID:

7ZVX 

Release:

2022-09-14

Title:

Crystal structure of human Annexin A2 in complex with full phosphorothioate 5-10 2'-methoxyethyl DNA gapmer antisense oligonucleotide solved at 2.4 A resolution

Classification:

LIPID BINDING PROTEIN

Authors:

Hyjek-Skladanowska, M., Anderson, B.A., Mykhaylyk, V., Orr, C., Wagner, A., Poznanski, J.T., Skowronek, K., Seth, P., Nowotny, M.

Citation:

Structures of annexin A2-PS DNA complexes show dominance of hydrophobic interactions in phosphorothioate binding
Nucleic Acids Res. pp. - 2022

Experiment:

X-RAY DIFFRACTION Resolution:2.4Å R work:0.185R free:0.241

NDB ID:

7R07

PDB ID:

7R07 

Release:

2022-09-07

Title:

Abortive infection DNA polymerase AbiK from Lactococcus lactis

Classification:

ANTIVIRAL PROTEIN

Authors:

Figiel, M., Gapinska, M., Czarnocki-Cieciura, M., Zajko, W., Nowotny, M.

Citation:

Mechanism of protein-primed template-independent DNA synthesis by Abi polymerases
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.1Å R work:0.189R free:0.232

NDB ID:

7SUV

PDB ID:

7SUV 

Release:

2022-09-07

Title:

APE1 exonuclease substrate complex with 8oxoG opposite A

Classification:

HYDROLASE/DNA

Authors:

Whitaker, A.M., Stark, W.J., Freudenthal, B.D.

Citation:

Processing oxidatively damaged bases at DNA strand breaks by APE1.
Nucleic Acids Res. pp. - 2022

Experiment:

X-RAY DIFFRACTION Resolution:1.99Å R work:0.225R free:0.264

NDB ID:

7SVB

PDB ID:

7SVB 

Release:

2022-09-07

Title:

APE1 exonuclease substrate complex with 8oxoG opposite C

Classification:

HYDROLASE/DNA

Authors:

Whitaker, A.M., Stark, W.J., Freudenthal, B.D.

Citation:

Processing oxidatively damaged bases at DNA strand breaks by APE1.
Nucleic Acids Res. pp. - 2022

Experiment:

X-RAY DIFFRACTION Resolution:2.24Å R work:0.199R free:0.245

NDB ID:

7X8M

PDB ID:

7X8M 

Release:

2022-09-07

Title:

NMR Solution Structure of the 2:1 Berberine-KRAS-G4 Complex

Classification:

DNA

Authors:

Wang, K.B., Liu, Y., Li, J., Xiao, C., Gu, W., Li, Y., Xia, Y.Z., Yang, T., Yang, M.H., Kong, L.Y.

Citation:

NMR Solution Structure of the 2:1 Berberine-KRAS-G4 Complex
To Be Published pp. - 0

Experiment:

SOLUTION NMR

NDB ID:

7X8N

PDB ID:

7X8N 

Release:

2022-09-07

Title:

NMR Solution Structure of the Wild-type Bulge-containing KRAS-G4

Classification:

DNA

Authors:

Wang, K.B., Liu, Y., Li, J., Xiao, C., Gu, W., Li, Y., Xia, Y.Z., Yang, T., Yang, M.H., Kong, L.Y.

Citation:

NMR Solution Structure of the Wild-type Bulge-containing KRAS-G4
To Be Published pp. - 0

Experiment:

SOLUTION NMR

NDB ID:

7X8O

PDB ID:

7X8O 

Release:

2022-09-07

Title:

NMR Solution Structure of the 2:1 Coptisine-KRAS-G4 Complex

Classification:

DNA

Authors:

Wang, K.B., Liu, Y., Li, J., Xiao, C., Gu, W., Li, Y., Xia, Y.Z., Yang, T., Yang, M.H., Kong, L.Y.

Citation:

NMR Solution Structure of the 2:1 Coptisine-KRAS-G4 Complex
To Be Published pp. - 0

Experiment:

SOLUTION NMR

NDB ID:

7MWH

PDB ID:

7MWH 

Release:

2022-08-31

Title:

Crystal structure of BAZ2A with DNA

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Liu, K., Dong, A., Li, Y., Loppnau, P., Edwards, A.M., Arrowsmith, C.H., Min, J., Structural Genomics Consortium (SGC)

Citation:

Crystal structure of BAZ2A with DNA
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.28Å R work:0.218R free:0.246

NDB ID:

7TQW

PDB ID:

7TQW 

Release:

2022-08-31

Title:

Kod RSGA incorporating PMT, n+2

Classification:

TRANSFERASE/DNA

Authors:

Hajjar, M., Chim, N., Herdewijn, P., Chaput, J.C.

Citation:

Crystal Structure of an Engineered Polymerase Incorporating Phosphonomethyl-Threosyl Nucleotides
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.01Å R work:0.176R free:0.27

NDB ID:

7WQ5

PDB ID:

7WQ5 

Release:

2022-08-31

Title:

Crystal structure of Arabidopsis transcriptional factor WRINKLED1 with dsDNA

Classification:

DNA BINDING PROTEIN

Authors:

Qiao, Z., Kong, Q., Tee, W.T., Lim, A.R.Q., Teo, M.X., Olieric, V., Low, P.M., Yang, Y., Qian, G., Ma, W., Gao, Y.G.

Citation:

Molecular basis of the key regulator WRINKLED1 in plant oil biosynthesis.
Sci Adv 8 pp.eabq1211 - eabq1211 2022

Experiment:

X-RAY DIFFRACTION Resolution:2.35Å R work:0.242R free:0.277

NDB ID:

7Z4D

PDB ID:

7Z4D 

Release:

2022-08-31

Title:

Crystal structure of SpCas9 bound to a 10 nucleotide complementary DNA substrate

Classification:

HYDROLASE

Authors:

Pacesa, M., Loeff, L., Querques, I., Muckenfuss, L.M., Sawicka, M., Jinek, M.

Citation:

R-loop formation and conformational activation mechanisms of Cas9.
Nature 609 pp.191 - 196 2022

Experiment:

X-RAY DIFFRACTION Resolution:3.1Å R work:0.246R free:0.275

NDB ID:

7Z9L

PDB ID:

7Z9L 

Release:

2022-08-31

Title:

Phen-DC3 intercalation causes hybrid-to-antiparallel transformation of human telomeric DNA G-quadruplex

Classification:

DNA

Authors:

Ghosh, A., Trajkovski, M., Teulade-Fichou, M.P., Gabelica, V., Plavec, J.

Citation:

Phen-DC 3 Induces Refolding of Human Telomeric DNA into a Chair-Type Antiparallel G-Quadruplex through Ligand Intercalation.
Angew.Chem.Int.Ed.Engl. pp.e202207384 - e202207384 2022

Experiment:

SOLUTION NMR

NDB ID:

8CTY

PDB ID:

8CTY 

Release:

2022-08-31

Title:

12-mer DNA structure of ExBIM bound to RNase-H

Classification:

DNA

Authors:

Kellum Jr., A.H., Pallan, P.S., Nilforoushan, A., Sturla, S.J., Stone, M.P., Egli, M.

Citation:

Conformation and Pairing Properties of an O 6 -Methyl-2'-deoxyguanosine-Directed Benzimidazole Nucleoside Analog in Duplex DNA.
Chem.Res.Toxicol. pp. - 2022

Experiment:

X-RAY DIFFRACTION Resolution:2.3Å R work:0.195R free:0.26

NDB ID:

8CTZ

PDB ID:

8CTZ 

Release:

2022-08-31

Title:

12-mer DNA structure of ExBIM & O6Me-G bound to RNase-H

Classification:

DNA

Authors:

Kellum Jr., A.H., Pallan, P.S., Nilforoushan, A., Sturla, S.J., Stone, M.P., Egli, M.

Citation:

Conformation and Pairing Properties of an O 6 -Methyl-2'-deoxyguanosine-Directed Benzimidazole Nucleoside Analog in Duplex DNA.
Chem.Res.Toxicol. pp. - 2022

Experiment:

X-RAY DIFFRACTION Resolution:2.32Å R work:0.195R free:0.265

NDB ID:

8CU0

PDB ID:

8CU0 

Release:

2022-08-31

Title:

12-mer DNA structure of ExBIM bound to RNaseH -modified DDD

Classification:

DNA

Authors:

Kellum Jr., A.H., Pallan, P.S., Nilforoushan, A., Sturla, S.J., Stone, M.P., Egli, M.

Citation:

Conformation and Pairing Properties of an O 6 -Methyl-2'-deoxyguanosine-Directed Benzimidazole Nucleoside Analog in Duplex DNA.
Chem.Res.Toxicol. pp. - 2022

Experiment:

X-RAY DIFFRACTION Resolution:1.74Å R work:0.201R free:0.246

NDB ID:

8DF7

PDB ID:

8DF7 

Release:

2022-08-31

Title:

Structure of M. kandleri topoisomerase V in complex with DNA. 38 base pair symmetric DNA complex

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Osterman, A., Mondragon, A.

Citation:

Structures of topoisomerase V in complex with DNA reveal unusual DNA binding mode and novel relaxation mechanism.
Elife 11 pp. - 2022

Experiment:

X-RAY DIFFRACTION Resolution:3.52Å R work:0.229R free:0.274

NDB ID:

8DF8

PDB ID:

8DF8 

Release:

2022-08-31

Title:

Structure of M. kandleri topoisomerase V in complex with DNA. 40 base pair symmetric DNA complex

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Osterman, A., Mondragon, A.

Citation:

Structures of topoisomerase V in complex with DNA reveal unusual DNA binding mode and novel relaxation mechanism.
Elife 11 pp. - 2022

Experiment:

X-RAY DIFFRACTION Resolution:2.92Å R work:0.257R free:0.287

NDB ID:

8DF9

PDB ID:

8DF9 

Release:

2022-08-31

Title:

Structure of M. kandleri topoisomerase V in complex with DNA. 38 base pair asymmetric DNA complex

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Osterman, A., Mondragon, A.

Citation:

Structures of topoisomerase V in complex with DNA reveal unusual DNA binding mode and novel relaxation mechanism.
Elife 11 pp. - 2022

Experiment:

X-RAY DIFFRACTION Resolution:3.24Å R work:0.234R free:0.265

NDB ID:

8DFB

PDB ID:

8DFB 

Release:

2022-08-31

Title:

Structure of M. kandleri topoisomerase V in complex with DNA. 39 base pair symmetric DNA complex

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Osterman, A., Mondragon, A.

Citation:

Structures of topoisomerase V in complex with DNA reveal unusual DNA binding mode and novel relaxation mechanism.
Elife 11 pp. - 2022

Experiment:

X-RAY DIFFRACTION Resolution:3.17Å R work:0.218R free:0.251

NDB ID:

7LIU

PDB ID:

7LIU 

Release:

2022-08-24

Title:

DDX3X bound to ATP analog and remodeled RNA:DNA hybrid

Classification:

RNA-BINDING PROTEIN/DNA,RNA

Authors:

Enemark, E.J., Yu, S.

Citation:

DDX3X bound to ATP analog and remodeled RNA:DNA hybrid
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.001Å R work:0.209R free:0.241

NDB ID:

7R6T

PDB ID:

7R6T 

Release:

2022-08-24

Title:

Human EXOG complexed with dRP-containing DNA

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Szymanski, M.R., Yin, Y.W.

Citation:

Human EXOG possesses strong AP hydrolysis activity
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.9Å R work:0.229R free:0.286

NDB ID:

7R6V

PDB ID:

7R6V 

Release:

2022-08-24

Title:

Human EXOG complexed with dRP-containing DNA

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Szymanski, M.R., Yin, Y.W.

Citation:

Human EXOG possesses strong AP hydrolysis activity
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.16Å R work:0.2R free:0.239

NDB ID:

7RSR

PDB ID:

7RSR 

Release:

2022-08-24

Title:

Kod-RI incorporating PMT, n+2

Classification:

TRANSFERASE/DNA

Authors:

Hajjar, M., Chim, N., Herdewijn, P., Chaput, J.C.

Citation:

Crystal Structure of an Engineered Polymerase Incorporating Phosphonomethyl-Threosyl Nucleotides
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.98Å R work:0.175R free:0.21

NDB ID:

7RSS

PDB ID:

7RSS 

Release:

2022-08-24

Title:

Kod-RI incorporating DNA, n+2

Classification:

TRANSFERASE/DNA

Authors:

Hajjar, M., Chim, N., Herdewijn, P., Chaput, J.C.

Citation:

Crystal Structure of an Engineered Polymerase Incorporating Phosphonomethyl-Threosyl Nucleotides
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.71Å R work:0.159R free:0.224

NDB ID:

7RTE

PDB ID:

7RTE 

Release:

2022-08-24

Title:

X-ray structure of wild type RBPJ-L3MBTL3-DNA complex

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Hall, D.P., Yuan, Z., Oswald, F., Kovall, R.A.

Citation:

The structure, binding, and function of a Notch transcription complex involving RBPJ and the epigenetic reader protein L3MBTL3
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.06Å R work:0.198R free:0.235

NDB ID:

7RTI

PDB ID:

7RTI 

Release:

2022-08-24

Title:

X-ray structure of RBPJ-L3MBTL3(dT62)-DNA complex

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Hall, D.P., Yuan, Z., Oswald, F., Kovall, R.A.

Citation:

The structure, binding, and function of a Notch transcription complex involving RBPJ and the epigenetic reader protein L3MBTL3
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.05Å R work:0.188R free:0.222

NDB ID:

7RQT

PDB ID:

7RQT 

Release:

2022-08-17

Title:

THE B-DNA DODECAMER With HIGH RESOLUTION

Classification:

DNA

Authors:

Chen, C., Fang, Z., Zheng, L., Huang, Z.

Citation:

2'-beta-Selenium atom on thymidine to control B-form DNA conformation and large crystal formation
To be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.26Å R work:0.206R free:0.231

NDB ID:

7UGW

PDB ID:

7UGW 

Release:

2022-08-17

Title:

M. tuberculosis DNA gyrase cleavage core bound to DNA and evybactin

Classification:

ISOMERASE/ANTIBIOTIC/DNA

Authors:

Imai, Y., Hauk, G., Quigley, J., Liang, L., Son, S., Ghiglieri, M., Gates, M.F., Morrissette, M., Shahsavari, N., Niles, S., Baldisseri, D., Honrao, C., Ma, X., Guo, J.J., Berger, J.M., Lewis, K.

Citation:

Evybactin is a DNA gyrase inhibitor that selectively kills Mycobacterium tuberculosis.
Nat.Chem.Biol. pp. - 2022

Experiment:

X-RAY DIFFRACTION Resolution:3.0Å R work:0.201R free:0.286

NDB ID:

7VOU

PDB ID:

7VOU 

Release:

2022-08-17

Title:

The crystal structure of human forkhead box protein in complex with DNA 1

Classification:

TRANSCRIPTION/DNA

Authors:

Choi, Y., Luo, Y., Lee, S., Jin, H., Yoon, H.J., Hahn, Y., Bae, J., Lee, H.H.

Citation:

FOXL2 and FOXA1 cooperatively assemble on the TP53 promoter in alternative dimer configurations.
Nucleic Acids Res. 50 pp.8929 - 8946 2022

Experiment:

X-RAY DIFFRACTION Resolution:3.1Å R work:0.221R free:0.28

NDB ID:

7VOV

PDB ID:

7VOV 

Release:

2022-08-17

Title:

The crystal structure of human forkhead box protein in complex with DNA 2

Classification:

TRANSCRIPTION/DNA

Authors:

Choi, Y., Luo, Y., Lee, S., Jin, H., Yoon, H.J., Hahn, Y., Bae, J., Lee, H.H.

Citation:

FOXL2 and FOXA1 cooperatively assemble on the TP53 promoter in alternative dimer configurations.
Nucleic Acids Res. 50 pp.8929 - 8946 2022

Experiment:

X-RAY DIFFRACTION Resolution:3.15Å R work:0.248R free:0.275

NDB ID:

7VOX

PDB ID:

7VOX 

Release:

2022-08-17

Title:

The crystal structure of human forkhead box protein A in complex with DNA 2

Classification:

TRANSCRIPTION/DNA

Authors:

Choi, Y., Luo, Y., Lee, S., Jin, H., Yoon, H.J., Hahn, Y., Bae, J., Lee, H.H.

Citation:

FOXL2 and FOXA1 cooperatively assemble on the TP53 promoter in alternative dimer configurations.
Nucleic Acids Res. 50 pp.8929 - 8946 2022

Experiment:

X-RAY DIFFRACTION Resolution:2.1Å R work:0.185R free:0.211

NDB ID:

7P9Z

PDB ID:

7P9Z 

Release:

2022-08-10

Title:

Crystal structure of a trapped Pab-AGOG/double-standed DNA covalent intermediate (DNA containing adenine opposite to lesion)

Classification:

HYDROLASE

Authors:

Coste, F., Goffinont, S., Flament, D., Castaing, B.

Citation:

Crystal structure of a trapped Pab-AGOG/double-standed DNA covalent intermediate (DNA containing adenine opposite to lesion)
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.33Å R work:0.173R free:0.186

NDB ID:

7TDW

PDB ID:

7TDW 

Release:

2022-08-10

Title:

Structure of FOXP3-DNA complex

Classification:

TRANSCRIPTION/DNA

Authors:

Leng, F., Zhang, W., Ramirez, R.N., Leon, J., Zhong, Y., Hou, L., Yuki, K., van der Veeken, J., Rudensky, A.Y., Benoist, C., Hur, S.

Citation:

The transcription factor FoxP3 can fold into two dimerization states with divergent implications for regulatory T cell function and immune homeostasis.
Immunity 55 pp.1354 - 2022

Experiment:

X-RAY DIFFRACTION Resolution:4.0Å R work:0.334R free:0.359

NDB ID:

7TDX

PDB ID:

7TDX 

Release:

2022-08-10

Title:

Structure of FOXP3-DNA complex

Classification:

TRANSCRIPTION/DNA

Authors:

Leng, F., Zhang, W., Ramirez, R.N., Leon, J., Zhong, Y., Hou, L., Yuki, K., van der Veeken, J., Rudensky, A.Y., Benoist, C., Hur, S.

Citation:

The transcription factor FoxP3 can fold into two dimerization states with divergent implications for regulatory T cell function and immune homeostasis.
Immunity 55 pp.1354 - 2022

Experiment:

X-RAY DIFFRACTION Resolution:3.1Å R work:0.297R free:0.314

NDB ID:

8CSH

PDB ID:

8CSH 

Release:

2022-08-10

Title:

Structure of the DNA binding domain of pSK1 Par partition protein bound to centromere DNA

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Chan, H.Y., Jensen, S.O., LeBard, R.J., Figgett, W.A., Lai, E., Simpson, A.E., Brzoska, A.J., Davies, D.S., Connolly, A.M., Cordwell, S.J., Travis, B.A., Salinas, R., Skurray, R.A., Firth, N., Schumacher, M.A.

Citation:

Molecular Analysis of pSK1 par: A Novel Plasmid Partitioning System Encoded by Staphylococcal Multiresistance Plasmids.
J.Mol.Biol. 434 pp.167770 - 167770 2022

Experiment:

X-RAY DIFFRACTION Resolution:2.25Å R work:0.202R free:0.249

NDB ID:

7FGT

PDB ID:

7FGT 

Release:

2022-08-03

Title:

Discovery of DS15060524; Gene targeting chimera (GeneTAC) for the treatment of Friedreich's Ataxia (FRDA)

Classification:

DNA

Authors:

Igarashi, W., Takase, N., Kawai, G., Katagiri, T.

Citation:

Discovery of DS15060524; Gene targeting chimera (GeneTAC) for the treatment of Friedreich's Ataxia (FRDA)
To be published pp. - 0

Experiment:

SOLUTION NMR

NDB ID:

7OOO

PDB ID:

7OOO 

Release:

2022-08-03

Title:

The crystal structure of a DNA:RNA hybrid duplex sequence CTTTTCTTTG containing an LNA-Amide-LNA modification

Classification:

DNA-RNA HYBRID

Authors:

Baker, Y.R., Thorpe, C., Chen, J., Poller, L.M., Cox, L., Kumar, P., Lim, W.F., Lie, L., McClorey, G., Epple, S., Singleton, D., McDonough, M.A., Hardwick, J.S., Christensen, K.E., Wood, M.J.A., Hall, J.P., El-Sagheer, A.H., Brown, T.

Citation:

An LNA-amide modification that enhances the cell uptake and activity of phosphorothioate exon-skipping oligonucleotides.
Nat Commun 13 pp.4036 - 4036 2022

Experiment:

X-RAY DIFFRACTION Resolution:2.57Å R work:0.232R free:0.251

NDB ID:

7OOS

PDB ID:

7OOS 

Release:

2022-08-03

Title:

The crystal structure of a DNA:RNA hybrid duplex sequence CTTTTCTTTG

Classification:

DNA-RNA HYBRID

Authors:

Baker, Y.R., Thorpe, C., Chen, J., Poller, L.M., Cox, L., Kumar, P., Lim, W.F., Lie, L., McClorey, G., Epple, S., Singleton, D., McDonough, M.A., Hardwick, J.S., Christensen, K.E., Wood, M.J.A., Hall, J.P., El-Sagheer, A.H., Brown, T.

Citation:

An LNA-amide modification that enhances the cell uptake and activity of phosphorothioate exon-skipping oligonucleotides.
Nat Commun 13 pp.4036 - 4036 2022

Experiment:

X-RAY DIFFRACTION Resolution:2.6Å R work:0.217R free:0.234

NDB ID:

7OZZ

PDB ID:

7OZZ 

Release:

2022-08-03

Title:

The crystal structure of a DNA:RNA hybrid duplex sequence CTTTTCTTTG with LNA-amide modification

Classification:

DNA-RNA HYBRID

Authors:

Baker, Y.R., Thorpe, C., Chen, J., Poller, L.M., Cox, L., Kumar, P., Lim, W.F., Lie, L., McClorey, G., Epple, S., Singleton, D., McDonough, M.A., Hardwick, J.S., Christensen, K.E., Wood, M.J.A., Hall, J.P., El-Sagheer, A.H., Brown, T.

Citation:

An LNA-amide modification that enhances the cell uptake and activity of phosphorothioate exon-skipping oligonucleotides.
Nat Commun 13 pp.4036 - 4036 2022

Experiment:

X-RAY DIFFRACTION Resolution:2.7Å R work:0.2R free:0.236

NDB ID:

7P8L

PDB ID:

7P8L 

Release:

2022-08-03

Title:

Crystal structure of Pyrococcus abyssi 8-oxoguanine DNA glycosylase (PabAGOG) in complex with dsDNA containing cytosine opposite to 8-oxoG

Classification:

HYDROLASE

Authors:

Coste, F., Flament, D., Castaing, B.

Citation:

Crystal structure of Pyrococcus abyssi 8-oxoguanine DNA glycosylase (PabAGOG) in complex with dsDNA containing cytosine opposite to 8-oxoG
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.25Å R work:0.135R free:0.16

NDB ID:

7S03

PDB ID:

7S03 

Release:

2022-08-03

Title:

DNA-binding domain of human SETMAR in complex with Hsmar1 terminal inverted repeat (TIR) DNA

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Chen, Q., Bates, A.M., Hanquier, J.N., Simpson, E., Rusch, D.B., Podicheti, R., Liu, Y., Wek, R.C., Cornett, E.M., Georgiadis, M.M.

Citation:

Structural and genome-wide analyses suggest that transposon-derived protein SETMAR alters transcription and splicing.
J.Biol.Chem. 298 pp.101894 - 101894 2022

Experiment:

X-RAY DIFFRACTION Resolution:2.37Å R work:0.21R free:0.234

NDB ID:

7S9J

PDB ID:

7S9J 

Release:

2022-08-03

Title:

Crystal Structure of DNA Polymerase Beta with Fapy-dG base-paired with a dC

Classification:

DNA BNDING PROTEIN/DNA

Authors:

Ryan, B.J., Yang, H., Bacurio, J.H.T., Smith, M.R., Basu, A.K., Greenberg, M.M., Freudenthal, B.D.

Citation:

Structural Dynamics of a Common Mutagenic Oxidative DNA Lesion in Duplex DNA and during DNA Replication.
J.Am.Chem.Soc. 144 pp.8054 - 8065 2022

Experiment:

X-RAY DIFFRACTION Resolution:1.91Å R work:0.187R free:0.237

NDB ID:

7S9K

PDB ID:

7S9K 

Release:

2022-08-03

Title:

Crystal Structure of DNA Polymerase Beta with Fapy-dG base-paired with a dA

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Ryan, B.J., Yang, H., Bacurio, J.H.T., Smith, M.R., Basu, A.K., Greenberg, M.M., Freudenthal, B.D.

Citation:

Structural Dynamics of a Common Mutagenic Oxidative DNA Lesion in Duplex DNA and during DNA Replication.
J.Am.Chem.Soc. 144 pp.8054 - 8065 2022

Experiment:

X-RAY DIFFRACTION Resolution:1.97Å R work:0.171R free:0.224

NDB ID:

7S9L

PDB ID:

7S9L 

Release:

2022-08-03

Title:

Crystal Structure of DNA Polymerase Beta with Ring open intermediate Fapy-dG base-paired with a dC

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Ryan, B.J., Yang, H., Bacurio, J.H.T., Smith, M.R., Basu, A.K., Greenberg, M.M., Freudenthal, B.D.

Citation:

Structural Dynamics of a Common Mutagenic Oxidative DNA Lesion in Duplex DNA and during DNA Replication.
J.Am.Chem.Soc. 144 pp.8054 - 8065 2022

Experiment:

X-RAY DIFFRACTION Resolution:2.05Å R work:0.196R free:0.262

NDB ID:

7S9M

PDB ID:

7S9M 

Release:

2022-08-03

Title:

Crystal Structure of DNA Polymerase Beta with Ring open intermediate Fapy-dG base-paired with a dA

Classification:

DNA BINDING/DNA

Authors:

Ryan, B.J., Yang, H., Bacurio, J.H.T., Smith, M.R., Basu, A.K., Greenberg, M.M., Freudenthal, B.D.

Citation:

Structural Dynamics of a Common Mutagenic Oxidative DNA Lesion in Duplex DNA and during DNA Replication.
J.Am.Chem.Soc. 144 pp.8054 - 8065 2022

Experiment:

X-RAY DIFFRACTION Resolution:2.31Å R work:0.218R free:0.299