A Portal for Three-dimensional Structural Information about Nucleic Acids
As of 19-Oct-2017 number of released structures: 9178
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Polymer Type: All + Protein Function: All + Structural Features: All + Experimental Method: All

Results: 6193  Download results as an excel file       Gallery view

NDB ID:

5OLA

PDB ID:

5OLA 

Release:

2017-10-18

Title:

Structure of mitochondrial transcription elongation complex in complex with elongation factor TEFM

Classification:

TRANSCRIPTION

Authors:

Hillen, H.S., Parshin, A.V., Agaronyan, K., Morozov, Y., Graber, J.J., Chernev, A., Schwinghammer, K., Urlaub, H., Anikin, M., Cramer, P., Temiakov, D.

Citation:

Mechanism of Transcription Anti-termination in Human Mitochondria
Cell(Cambridge,Mass.) pp. - 2017

Experiment:

X-RAY DIFFRACTION Resolution:3.904Å R work:0.242R free:0.275

NDB ID:

5OQN

PDB ID:

5OQN 

Release:

2017-10-18

Title:

Crystal structure of the S. cerevisiae condensin Ycg1-Brn1 subcomplex bound to DNA (short kleisin loop)

Classification:

CELL CYCLE

Authors:

Kschonsak, M., Merkel, F., Bisht, S., Metz, J., Rybin, V., Hassler, M., Haering, C.H.

Citation:

Structural Basis for a Safety-Belt Mechanism That Anchors Condensin to Chromosomes.
Cell pp. - 2017

Experiment:

X-RAY DIFFRACTION Resolution:3.15Å R work:0.249R free:0.28

NDB ID:

5OQO

PDB ID:

5OQO 

Release:

2017-10-18

Title:

Crystal structure of the S. cerevisiae condensin Ycg1-Brn1 subcomplex bound to DNA (crystal form II)

Classification:

CELL CYCLE

Authors:

Kschonsak, M., Merkel, F., Bisht, S., Metz, J., Rybin, V., Hassler, M., Haering, C.H.

Citation:

Structural Basis for a Safety-Belt Mechanism That Anchors Condensin to Chromosomes.
Cell pp. - 2017

Experiment:

X-RAY DIFFRACTION Resolution:3.25Å R work:0.235R free:0.273

NDB ID:

5OQP

PDB ID:

5OQP 

Release:

2017-10-18

Title:

Crystal structure of the S. cerevisiae condensin Ycg1-Brn1 subcomplex bound to DNA (crystal form I)

Classification:

CELL CYCLE

Authors:

Kschonsak, M., Merkel, F., Bisht, S., Metz, J., Rybin, V., Hassler, M., Haering, C.H.

Citation:

Structural Basis for a Safety-Belt Mechanism That Anchors Condensin to Chromosomes.
Cell pp. - 2017

Experiment:

X-RAY DIFFRACTION Resolution:2.98Å R work:0.218R free:0.261

NDB ID:

5OV2

PDB ID:

5OV2 

Release:

2017-10-18

Title:

2'F-ANA-G modified quadruplex with a flipped tetrad

Classification:

DNA

Authors:

Dickerhoff, J., Weisz, K.

Citation:

Nonconventional C-HF Hydrogen Bonds Support a Tetrad Flip in Modified G-Quadruplexes.
J Phys Chem Lett pp.5148 - 5152 2017

Experiment:

SOLUTION NMR

NDB ID:

5UAN

PDB ID:

5UAN 

Release:

2017-10-18

Title:

Crystal structure of multi-domain RAR-beta-RXR-alpha heterodimer on DNA

Classification:

TRANSCRIPTION/DNA

Authors:

Chandra, V., Wu, D., Li, S., Potluri, N., Kim, Y., Rastinejad, F.

Citation:

Quaternary architecture of multi-domain RAR-beta-RXR-alpha on DNA
Nat Commun pp. - 2017

Experiment:

X-RAY DIFFRACTION Resolution:3.508Å R work:0.221R free:0.27

NDB ID:

5W2A

PDB ID:

5W2A 

Release:

2017-10-18

Title:

Structure of human DNA polymerase kappa in complex with Lucidin-derived DNA adduct and incoming dCMPNPP

Classification:

REPLICATION

Authors:

Yockey, O., Jha, V., Ghodke, P.P., Xu, T., Xu, W., Ling, H., Pradeepkumar, P.I., Zhao, L.

Citation:

Mechanism of Error-Free DNA Replication Past Lucidin-Derived DNA Damage by Human DNA Polymerase kappa.
Chem. Res. Toxicol. pp. - 2017

Experiment:

X-RAY DIFFRACTION Resolution:2.9Å R work:0.231R free:0.269

NDB ID:

5W2C

PDB ID:

5W2C 

Release:

2017-10-18

Title:

Structure of human DNA polymerase kappa in complex with Lucidin-derived DNA adduct and incoming dAMPNPP

Classification:

REPLICATION

Authors:

Yockey, O., Jha, V., Ghodke, P.P., Xu, T., Xu, W., Ling, H., Pradeepkumar, P.I., Zhao, L.

Citation:

Mechanism of Error-Free DNA Replication Past Lucidin-Derived DNA Damage by Human DNA Polymerase kappa.
Chem. Res. Toxicol. pp. - 2017

Experiment:

X-RAY DIFFRACTION Resolution:2.5Å R work:0.211R free:0.253

NDB ID:

5W9Q

PDB ID:

5W9Q 

Release:

2017-10-18

Title:

Zinc finger region of MBD1 in complex with CpG DNA

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Liu, K., Xu, C., Tempel, W., Walker, J.R., Arrowsmith, C.H., Bountra, C., Edwards, A.M., Min, J.

Citation:

Zinc finger region of MBD1 in complex with CpG DNA
to be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.8Å R work:0.226R free:0.253

NDB ID:

5W9S

PDB ID:

5W9S 

Release:

2017-10-18

Title:

Zinc finger of human CXXC5 in complex with CpG DNA

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Liu, K., Xu, C., Tempel, W., Walker, J.R., Bountra, C., Arrowsmith, C.H., Edwards, A.M., Min, J., Structural Genomics Consortium (SGC)

Citation:

Zinc finger of human CXXC5 in complex with CpG DNA
to be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.1Å R work:0.218R free:0.253

NDB ID:

6ASB

PDB ID:

6ASB 

Release:

2017-10-18

Title:

CXXC and PHD-type zinc finger regions of FBXL19 in complex with DNA

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Liu, K., Tempel, W., Walker, J.R., Arrowsmith, C.H., Bountra, C., Edwards, A.M., Min, J., Structural Genomics Consortium (SGC)

Citation:

CXXC and PHD-type zinc finger regions of FBXL19 in complex with DNA
to be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.85Å R work:0.212R free:0.25

NDB ID:

6ASD

PDB ID:

6ASD 

Release:

2017-10-18

Title:

Zinc finger region of human TET1 in complex with CpG DNA

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Liu, K., Xu, C., Tempel, W., Walker, J.R., Arrowsmith, C.H., Bountra, C., Edwards, A.M., Min, J., Structural Genomics Consortium (SGC)

Citation:

Zinc finger region of human TET1 in complex with CpG DNA
to be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.85Å R work:0.201R free:0.234

NDB ID:

6EO7

PDB ID:

6EO7 

Release:

2017-10-18

Title:

X-ray structure of the complex between human alpha-thrombin and modified 15-mer DNA aptamer containing 5-(3-(acetamide-N-yl)-1-propen-1-yl)-2'-deoxyuridine residue

Classification:

HYDROLASE/DNA

Authors:

Dolot, R.M., Nawrot, B., Yang, X.

Citation:

Structures of human alpha-thrombin with modified 15-mer DNA aptamers
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.24Å R work:0.16R free:0.208

NDB ID:

5OXV

PDB ID:

5OXV 

Release:

2017-10-11

Title:

Structure of the 4_601_157 tetranucleosome (C2 form)

Classification:

GENE REGULATION

Authors:

Ekundayo, B., Richmond, T.J., Schalch, T.

Citation:

Capturing Structural Heterogeneity in Chromatin Fibers.
J. Mol. Biol. 429 pp.3031 - 3042 2017

Experiment:

X-RAY DIFFRACTION Resolution:6.721Å R work:0.317R free:0.352

NDB ID:

5TVP

PDB ID:

5TVP 

Release:

2017-10-11

Title:

SUMO2 bound to Mouse Tdp2 catalytic domain with a 5'-phosphorylated DNA ternary complex

Classification:

hydrolase/dna

Authors:

Schellenberg, M.J., Lieberman, J.A., Herrero-Ruiz, A., Butler, L.R., Williams, J.G., Munoz-Cabello, A.M., Mueller, G.A., London, R.E., Cortes-Ledesma, F., Williams, R.S.

Citation:

ZATT (ZNF451)-mediated resolution of topoisomerase 2 DNA-protein cross-links.
Science 357 pp.1412 - 1416 2017

Experiment:

X-RAY DIFFRACTION Resolution:2.399Å R work:0.19R free:0.233

NDB ID:

5UC6

PDB ID:

5UC6 

Release:

2017-10-11

Title:

Structural insights into IL-1 alpha recognition by a naphthyl-modified aptamer that mimics IL-1RI Domain III

Classification:

IMMUNE SYSTEM/DNA

Authors:

Ren, X., Gelinas, A.D., von Carlowitz, I., Janjic, N., Pyle, A.M.

Citation:

Structural basis for IL-1 alpha recognition by a modified DNA aptamer that specifically inhibits IL-1 alpha signaling.
Nat Commun 8 pp.810 - 810 2017

Experiment:

X-RAY DIFFRACTION Resolution:2.1Å R work:0.177R free:0.219

NDB ID:

5XF3

PDB ID:

5XF3 

Release:

2017-10-11

Title:

Nucleosome core particle with an adduct of a binuclear RAPTA (Ru-arene-phosphaadamantane) compound having a 1,2-diphenylethylenediamine linker (R,R-configuration)

Classification:

STRUCTURAL PROTEIN/DNA

Authors:

Davey, G.E., Adhireksan, Z., Ma, Z., Riedel, T., Sharma, D., Padavattan, S., Rhodes, D., Ludwig, A., Sandin, S., Murray, B.S., Dyson, P., Davey, C.A.

Citation:

Nucleosome Acidic Patch-Targeting Binuclear Ruthenium Compounds Induce Aberrant Chromatin Condensation
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.6Å R work:0.234R free:0.27

NDB ID:

5XF4

PDB ID:

5XF4 

Release:

2017-10-11

Title:

Nucleosome core particle with an adduct of a binuclear RAPTA (Ru-arene-phosphaadamantane) compound having a 1,2-diphenylethylenediamine linker (S,S-configuration)

Classification:

STRUCTURAL PROTEIN/DNA

Authors:

Davey, G.E., Adhireksan, Z., Ma, Z., Riedel, T., Sharma, D., Padavattan, S., Rhodes, D., Ludwig, A., Sandin, S., Murray, B.S., Dyson, P., Davey, C.A.

Citation:

Nucleosome Acidic Patch-Targeting Binuclear Ruthenium Compounds Induce Aberrant Chromatin Condensation
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.87Å R work:0.226R free:0.265

NDB ID:

5XF5

PDB ID:

5XF5 

Release:

2017-10-11

Title:

Nucleosome core particle with an adduct of a binuclear RAPTA (Ru-arene-phosphaadamantane) compound having a 1,2-diphenylethylenediamine linker (R,S-configuration)

Classification:

STRUCTURAL PROTEIN/DNA

Authors:

Davey, G.E., Adhireksan, Z., Ma, Z., Riedel, T., Sharma, D., Padavattan, S., Rhodes, D., Ludwig, A., Sandin, S., Murray, B.S., Dyson, P., Davey, C.A.

Citation:

Nucleosome Acidic Patch-Targeting Binuclear Ruthenium Compounds Induce Aberrant Chromatin Condensation
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.82Å R work:0.227R free:0.263

NDB ID:

5XF6

PDB ID:

5XF6 

Release:

2017-10-11

Title:

Nucleosome core particle with an adduct of a binuclear RAPTA (Ru-arene-phosphaadamantane) compound having an ethylenediamine linker

Classification:

STRUCTURAL PROTEIN/DNA

Authors:

Davey, G.E., Adhireksan, Z., Ma, Z., Riedel, T., Sharma, D., Padavattan, S., Rhodes, D., Ludwig, A., Sandin, S., Murray, B.S., Dyson, P., Davey, C.A.

Citation:

Nucleosome Acidic Patch-Targeting Binuclear Ruthenium Compounds Induce Aberrant Chromatin Condensation
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.63Å R work:0.208R free:0.254

NDB ID:

5XZE

PDB ID:

5XZE 

Release:

2017-10-11

Title:

Mouse cGAS bound to the inhibitor RU332

Classification:

IMMUNE SYSTEM/INHIBITOR

Authors:

Vincent, J., Adura, C., Gao, P., Luz, A., Lama, L., Asano, Y., Okamoto, R., Imaeda, T., Aida, J., Rothamel, K., Gogakos, T., Steinberg, J., Reasoner, S., Aso, K., Tuschl, T., Patel, D.J., Glickman, J.F., Ascano, M.

Citation:

Small molecule inhibition of cGAS reduces interferon expression in primary macrophages from autoimmune mice.
Nat Commun 8 pp.750 - 750 2017

Experiment:

X-RAY DIFFRACTION Resolution:2.177Å R work:0.242R free:0.28

NDB ID:

5XZG

PDB ID:

5XZG 

Release:

2017-10-11

Title:

Mouse cGAS bound to the inhibitor RU521

Classification:

IMMUNE SYSTEM/INHIBITOR

Authors:

Vincent, J., Adura, C., Gao, P., Luz, A., Lama, L., Asano, Y., Okamoto, R., Imaeda, T., Aida, J., Rothamel, K., Gogakos, T., Steinberg, J., Reasoner, S., Aso, K., Tuschl, T., Patel, D.J., Glickman, J.F., Ascano, M.

Citation:

Small molecule inhibition of cGAS reduces interferon expression in primary macrophages from autoimmune mice.
Nat Commun 8 pp.750 - 750 2017

Experiment:

X-RAY DIFFRACTION Resolution:1.828Å R work:0.193R free:0.231

NDB ID:

5XOU

PDB ID:

5XOU 

Release:

2017-10-04

Title:

Crystal structure of T. thermophilus Argonaute protein complexed with a bulge 7T8 on the guide strand

Classification:

DNA BINDING PROTEIN

Authors:

Sheng, G., Gogakos, T., Wang, J., Zhao, H., Serganov, A., Juranek, S., Tuschl, T., Patel, D.J., Wang, Y.

Citation:

Structure/cleavage-based insights into helical perturbations at bulge sites within T. thermophilus Argonaute silencing complexes
Nucleic Acids Res. 45 pp.9149 - 9163 2017

Experiment:

X-RAY DIFFRACTION Resolution:2.63Å R work:0.234R free:0.275

NDB ID:

5XOW

PDB ID:

5XOW 

Release:

2017-10-04

Title:

Crystal structure of T. thermophilus Argonaute protein complexed with a bulge 6'A7' on the target strand

Classification:

DNA BINDING PROTEIN

Authors:

Sheng, G., Gogakos, T., Wang, J., Zhao, H., Serganov, A., Juranek, S., Tuschl, T., Patel, D.J., Wang, Y.

Citation:

Structure/cleavage-based insights into helical perturbations at bulge sites within T. thermophilus Argonaute silencing complexes
Nucleic Acids Res. 45 pp.9149 - 9163 2017

Experiment:

X-RAY DIFFRACTION Resolution:2.902Å R work:0.214R free:0.256

NDB ID:

5XQ2

PDB ID:

5XQ2 

Release:

2017-10-04

Title:

Crystal structure of T. thermophilus Argonaute protein complexed with a bulge 5A6 on the guide strand

Classification:

DNA BINDING PROTEIN

Authors:

Sheng, G., Gogakos, T., Wang, J., Zhao, H., Serganov, A., Juranek, S., Tuschl, T., Patel, D.J., Wang, Y.

Citation:

Structure/cleavage-based insights into helical perturbations at bulge sites within T. thermophilus Argonaute silencing complexes
Nucleic Acids Res. 45 pp.9149 - 9163 2017

Experiment:

X-RAY DIFFRACTION Resolution:3.33Å R work:0.252R free:0.293

NDB ID:

5XVN

PDB ID:

5XVN 

Release:

2017-10-04

Title:

E. far Cas1-Cas2/prespacer binary complex

Classification:

IMMUNE SYSTEM

Authors:

Xiao, Y., Ng, S., Hyun Nam, K., Ke, A.

Citation:

How type II CRISPR-Cas establish immunity through Cas1-Cas2-mediated spacer integration.
Nature 550 pp.137 - 141 2017

Experiment:

X-RAY DIFFRACTION Resolution:3.25Å R work:0.205R free:0.249

NDB ID:

5XVO

PDB ID:

5XVO 

Release:

2017-10-04

Title:

E. fae Cas1-Cas2/prespacer/target ternary complex revealing DNA sampling and half-integration states

Classification:

IMMUNE SYSTEM

Authors:

Xiao, Y., Ng, S., Hyun Nam, K., Ke, A.

Citation:

How type II CRISPR-Cas establish immunity through Cas1-Cas2-mediated spacer integration.
Nature 550 pp.137 - 141 2017

Experiment:

X-RAY DIFFRACTION Resolution:3.1Å R work:0.193R free:0.233

NDB ID:

5XVP

PDB ID:

5XVP 

Release:

2017-10-04

Title:

E. fae Cas1-Cas2/prespacer/target ternary complex revealing the fully integrated states

Classification:

IMMUNE SYSTEM

Authors:

Xiao, Y., Ng, S., Hyun Nam, K., Ke, A.

Citation:

How type II CRISPR-Cas establish immunity through Cas1-Cas2-mediated spacer integration.
Nature 550 pp.137 - 141 2017

Experiment:

X-RAY DIFFRACTION Resolution:3.0Å R work:0.193R free:0.232

NDB ID:

5U01

PDB ID:

5U01 

Release:

2017-09-27

Title:

Cooperative DNA binding by two RelA dimers

Classification:

TRANSCRIPTION/DNA

Authors:

Mulero, M.C., Huang, D.B., Nguyen, H.T., Wang, V., Li, Y., Biswas, T., Ghosh, G.

Citation:

DNA-binding affinity and transcriptional activity of the RelA homodimer of nuclear factor kappa B are not correlated.
J. Biol. Chem. pp. - 2017

Experiment:

X-RAY DIFFRACTION Resolution:2.5Å R work:0.221R free:0.273

NDB ID:

5V0Q

PDB ID:

5V0Q 

Release:

2017-09-27

Title:

Original engineered variant of I-OnuI meganuclease targeting the HIV integrase gene; harbors 49 point mutations relative to wild-type I-OnuI

Classification:

HYDROLASE/DNA

Authors:

Niyonzima, N., Lambert, A.R., Werther, R., De Silva Feelixge, H., Roychoudhury, P., Greninger, A.L., Stone, D., Stoddard, B.L., Jerome, K.R.

Citation:

Tuning DNA binding affinity and cleavage specificity of an engineered gene-targeting nuclease via surface display, flow cytometry and cellular analyses.
Protein Eng. Des. Sel. 30 pp.503 - 522 2017

Experiment:

X-RAY DIFFRACTION Resolution:2.4Å R work:0.185R free:0.229

NDB ID:

6B01

PDB ID:

6B01 

Release:

2017-09-27

Title:

Crystal Structure of Z-DNA with untypically coordinated Ca2+ ion

Classification:

DNA

Authors:

Luo, Z., Dauter, Z.

Citation:

Crystal Structure of Z-DNA with untypically coordinated Ca2+ ion
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.45Å R work:0.122R free:0.161

NDB ID:

5NT5

PDB ID:

5NT5 

Release:

2017-09-20

Title:

The effect of Berenil and Cacodylateon the crystal structure of d(CGTGAATTCACG)

Classification:

DNA

Authors:

Sbirkova, H.I., Shivachev, B.L.

Citation:

The effect of Berenil and Cacodylateon the crystal structure of d(CGTGAATTCACG)
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.3Å R work:0.244R free:0.312

NDB ID:

5OY7

PDB ID:

5OY7 

Release:

2017-09-20

Title:

Structure of the 4_601_157 tetranucleosome (P1 form)

Classification:

GENE REGULATION

Authors:

Ekundayo, B., Richmond, T.J., Schalch, T.

Citation:

Capturing Structural Heterogeneity in Chromatin Fibers.
J. Mol. Biol. 429 pp.3031 - 3042 2017

Experiment:

X-RAY DIFFRACTION Resolution:5.774Å R work:0.218R free:0.238

NDB ID:

5XUV

PDB ID:

5XUV 

Release:

2017-09-20

Title:

Crystal structure of DNA duplex containing 4-thiothymine-2Ag(I)-4-thiothymine base pairs

Classification:

DNA

Authors:

Kondo, J., Sugawara, T., Saneyoshi, H., Ono, A.

Citation:

Crystal structure of a DNA duplex containing four Ag(I) ions in consecutive dinuclear Ag(I)-mediated base pairs: 4-thiothymine-2Ag(I)-4-thiothymine
Chem.Commun.(Camb.) pp. - 2017

Experiment:

X-RAY DIFFRACTION Resolution:1.9Å R work:0.185R free:0.221

NDB ID:

6ALT

PDB ID:

6ALT 

Release:

2017-09-20

Title:

Solution structure of a DNA dodecamer with 5-methylcytosine at the 3rd and 9th position

Classification:

DNA

Authors:

Gruber, D.R., Hoppins, J.J., Miears, H.L., Zharkov, D.O., Smirnov, S.L.

Citation:

Solution structure of a DNA dodecamer with 5-methylcytosine at the 3rd and 9th position
To Be Published pp. - 0

Experiment:

SOLUTION NMR

NDB ID:

5N6I

PDB ID:

5N6I 

Release:

2017-09-13

Title:

Crystal structure of mouse cGAS in complex with 39 bp DNA

Classification:

TRANSFERASE

Authors:

Andreeva, L., Hiller, B., Kostrewa, D., Lassig, C., de Oliveira Mann, C.C., Jan Drexler, D., Maiser, A., Gaidt, M., Leonhardt, H., Hornung, V., Hopfner, K.P.

Citation:

cGAS senses long and HMGB/TFAM-bound U-turn DNA by forming protein-DNA ladders.
Nature 549 pp.394 - 398 2017

Experiment:

X-RAY DIFFRACTION Resolution:3.6Å R work:0.203R free:0.256

NDB ID:

5VAJ

PDB ID:

5VAJ 

Release:

2017-09-13

Title:

BhRNase H - amide-RNA/DNA complex

Classification:

hydrolase/rna/dna

Authors:

Mutisya, D., Hardcastle, T., Cheruiyot, S.K., Pallan, P.S., Kennedy, S.D., Egli, M., Kelley, M.L., Smith, A.V.B., Rozners, E.

Citation:

Amide linkages mimic phosphates in RNA interactions with proteins and are well tolerated in the guide strand of short interfering RNAs.
Nucleic Acids Res. 45 pp.8142 - 8155 2017

Experiment:

X-RAY DIFFRACTION Resolution:1.95Å R work:0.165R free:0.216

NDB ID:

5WNX

PDB ID:

5WNX 

Release:

2017-09-13

Title:

DNA polymerase beta substrate complex with incoming 6-TdGTP

Classification:

DNA LIGASE/DNA, TRANSFERASE

Authors:

Schaich, M.A., Smith, M.R., Cloud, A.S., Holloran, S.M., Freudenthal, B.D.

Citation:

Structures of a DNA Polymerase Inserting Therapeutic Nucleotide Analogues.
Chem. Res. Toxicol. pp. - 2017

Experiment:

X-RAY DIFFRACTION Resolution:2.55Å R work:0.206R free:0.289

NDB ID:

5WNY

PDB ID:

5WNY 

Release:

2017-09-13

Title:

DNA polymerase beta substrate complex with incoming 5-FdUTP

Classification:

DNA LIGASE/DNA, TRANSFERASE

Authors:

Schaich, M.A., Smith, M.R., Cloud, A.S., Holloran, S.M., Freudenthal, B.D.

Citation:

Structures of a DNA Polymerase Inserting Therapeutic Nucleotide Analogues.
Chem. Res. Toxicol. pp. - 2017

Experiment:

X-RAY DIFFRACTION Resolution:2.1Å R work:0.18R free:0.237

NDB ID:

5WNZ

PDB ID:

5WNZ 

Release:

2017-09-13

Title:

DNA polymerase beta substrate complex with incoming 5-FodCTP

Classification:

DNA LIGASE/DNA, TRANSFERASE

Authors:

Schaich, M.A., Smith, M.R., Cloud, A.S., Holloran, S.M., Freudenthal, B.D.

Citation:

Structures of a DNA Polymerase Inserting Therapeutic Nucleotide Analogues.
Chem. Res. Toxicol. pp. - 2017

Experiment:

X-RAY DIFFRACTION Resolution:2.2Å R work:0.192R free:0.254

NDB ID:

5WO0

PDB ID:

5WO0 

Release:

2017-09-13

Title:

DNA polymerase beta substrate complex with incoming 5-FodUTP

Classification:

DNA LIGASE/DNA, TRANSFERASE

Authors:

Schaich, M.A., Smith, M.R., Cloud, A.S., Holloran, S.M., Freudenthal, B.D.

Citation:

Structures of a DNA Polymerase Inserting Therapeutic Nucleotide Analogues.
Chem. Res. Toxicol. pp. - 2017

Experiment:

X-RAY DIFFRACTION Resolution:1.6Å R work:0.2R free:0.23

NDB ID:

5XFP

PDB ID:

5XFP 

Release:

2017-09-13

Title:

Binary complex of PHF1 and a double stranded DNA

Classification:

TRANSCRIPTION/DNA

Authors:

Li, H., Liefke, R., Jiang, J., Kurland, J.V., Tian, W., Deng, P., Zhang, W., He, Q., Patel, D.J., Bulyk, M.L., Shi, Y., Wang, Z.

Citation:

Polycomb-like proteins link the PRC2 complex to CpG islands
Nature 549 pp.287 - 291 2017

Experiment:

X-RAY DIFFRACTION Resolution:2.3Å R work:0.208R free:0.243

NDB ID:

5XFQ

PDB ID:

5XFQ 

Release:

2017-09-13

Title:

Ternary complex of PHF1, a DNA duplex and a histone peptide

Classification:

TRANSCRIPTION/DNA

Authors:

Li, H., Liefke, R., Jiang, J., Kurland, J.V., Tian, W., Deng, P., Zhang, W., He, Q., Patel, D.J., Bulyk, M.L., Shi, Y., Wang, Z.

Citation:

Polycomb-like proteins link the PRC2 complex to CpG islands
Nature 549 pp.287 - 291 2017

Experiment:

X-RAY DIFFRACTION Resolution:2.4Å R work:0.222R free:0.257

NDB ID:

5XFR

PDB ID:

5XFR 

Release:

2017-09-13

Title:

Ternary complex of MTF2, DNA and histone

Classification:

TRANSCRIPTION/DNA

Authors:

Li, H., Liefke, R., Jiang, J., Kurland, J.V., Tian, W., Deng, P., Zhang, W., He, Q., Patel, D.J., Bulyk, M.L., Shi, Y., Wang, Z.

Citation:

Polycomb-like proteins link the PRC2 complex to CpG islands
Nature 549 pp.287 - 291 2017

Experiment:

X-RAY DIFFRACTION Resolution:2.25Å R work:0.202R free:0.23

NDB ID:

5VPE

PDB ID:

5VPE 

Release:

2017-09-06

Title:

Transcription factor FosB/JunD bZIP domain in complex with cognate DNA, type-I crystal

Classification:

transcription/dna

Authors:

Yin, Z., Machius, M., Nestler, E.J., Rudenko, G.

Citation:

Activator Protein-1: redox switch controlling structure and DNA-binding.
Nucleic Acids Res. pp. - 2017

Experiment:

X-RAY DIFFRACTION Resolution:2.053Å R work:0.217R free:0.253

NDB ID:

5VPF

PDB ID:

5VPF 

Release:

2017-09-06

Title:

Transcription factor FosB/JunD bZIP domain in complex with cognate DNA, type-II crystal

Classification:

transcription/dna

Authors:

Yin, Z., Machius, M., Nestler, E.J., Rudenko, G.

Citation:

Activator Protein-1: redox switch controlling structure and DNA-binding.
Nucleic Acids Res. pp. - 2017

Experiment:

X-RAY DIFFRACTION Resolution:2.694Å R work:0.21R free:0.248

NDB ID:

6ALS

PDB ID:

6ALS 

Release:

2017-09-06

Title:

Solution structure of a DNA dodecamer with 5-methylcytosine at the 3rd and 9th position and 8-oxoguanine at the 4th position

Classification:

DNA

Authors:

Gruber, D.R., Shernyukov, A.V., Endutkin, A.V., Bagryanskaya, E.G., Zharkov, D.O., Smirnov, S.L.

Citation:

Solution structure of a DNA dodecamer with 5-methylcytosine at the 3rd and 9th position and 8-oxoguanine at the 4th position
To Be Published pp. - 0

Experiment:

SOLUTION NMR

NDB ID:

6ALU

PDB ID:

6ALU 

Release:

2017-09-06

Title:

Solution structure of a DNA dodecamer with 5-methylcytosine at the 3rd and 8-oxoguanine at the 4th position

Classification:

DNA

Authors:

Gruber, D.R., Shernyukov, A.V., Endutkin, A.V., Bagryanskaya, E.G., Zharkov, D.O., Smirnov, S.L.

Citation:

Solution structure of a DNA dodecamer with 5-methylcytosine at the 3rd and 8-oxoguanine at the 4th position
To Be Published pp. - 0

Experiment:

SOLUTION NMR

NDB ID:

5GUN

PDB ID:

5GUN 

Release:

2017-08-30

Title:

Crystal structure of d(GTGGAATGGAAC)

Classification:

DNA

Authors:

Huang, T.Y., Chang, C.K., Kao, Y.F., Chin, C.H., Ni, C.W., Hsu, H.Y., Hu, N.J., Hsieh, L.C., Chou, S.H., Lee, I.R., Hou, M.H.

Citation:

Parity-dependent hairpin configurations of repetitive DNA sequence promote slippage associated with DNA expansion
Proc. Natl. Acad. Sci. U.S.A. 114 pp.9535 - 9540 2017

Experiment:

X-RAY DIFFRACTION Resolution:2.588Å R work:0.242R free:0.287

NDB ID:

5TXX

PDB ID:

5TXX 

Release:

2017-08-30

Title:

DNA Polymerase Mu Pre-Catalytic Ground State Ternary Complex, Ca2+

Classification:

TRANSFERASE/DNA

Authors:

Jamsen, J.A., Beard, W.A., Pedersen, L.C., Shock, D.D., Moon, A.F., Krahn, J.M., Bebenek, K., Kunkel, T.A., Wilson, S.H.

Citation:

Time-lapse crystallography snapshots of a double-strand break repair polymerase in action.
Nat Commun 8 pp.253 - 253 2017

Experiment:

X-RAY DIFFRACTION Resolution:1.948Å R work:0.158R free:0.195