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As of 16-Apr-2014 number of released structures: 7127
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Polymer Type: All + Protein Function: All + Structural Features: All + Experimental Method: All

Results: 4676   (Gallery view)

NDB ID:

 NA2657

PDB ID:

4MF2 

Release:

2014-04-16

Title:

Structure of human DNA polymerase beta complexed with O6MG as the template base in a 1-nucleotide gapped DNA

Classification:

TRANSFERASE/DNA

Authors:

Koag, M.C., Lee, S.

Citation:

Metal-Dependent Conformational Activation Explains Highly Promutagenic Replication across O6-Methylguanine by Human DNA Polymerase beta
J.Am.Chem.Soc. pp. - 2014

Experiment:

 X-RAY DIFFRACTION Resolution:2.4Å R work:0.198R free:0.279

NDB ID:

 NA2660

PDB ID:

4MFC 

Release:

2014-04-16

Title:

Structure of human DNA polymerase beta complexed with O6MG in the template base paired with incoming non-hydrolyzable CTP

Classification:

TRANSFERASE/DNA

Authors:

Koag, M.C., Lee, S.

Citation:

Metal-Dependent Conformational Activation Explains Highly Promutagenic Replication across O6-Methylguanine by Human DNA Polymerase beta
J.Am.Chem.Soc. pp. - 2014

Experiment:

 X-RAY DIFFRACTION Resolution:2.13Å R work:0.213R free:0.274

NDB ID:

 NA2661

PDB ID:

4MFF 

Release:

2014-04-16

Title:

Structure of human DNA polymerase beta complexed with O6MG in the template base paired with incoming non-hydrolyzable TTP

Classification:

TRANSFERASE/DNA

Authors:

Koag, M.C., Lee, S.

Citation:

Metal-Dependent Conformational Activation Explains Highly Promutagenic Replication across O6-Methylguanine by Human DNA Polymerase beta
J.Am.Chem.Soc. pp. - 2014

Experiment:

 X-RAY DIFFRACTION Resolution:2.55Å R work:0.222R free:0.294

NDB ID:

 NA2762

PDB ID:

4NID 

Release:

2014-04-16

Title:

Crystal structure of AlkB protein with cofactors bound to dsDNA containing m6A

Classification:

OXIDOREDUCTASE/DNA

Authors:

Zhu, C., Yi, C.

Citation:

Switching Demethylation Activities between AlkB Family RNA/DNA Demethylases through Exchange of Active-Site Residues.
Angew.Chem.Int.Ed.Engl. 53 pp.3659 - 3662 2014

Experiment:

 X-RAY DIFFRACTION Resolution:1.58Å R work:0.178R free:0.197

NDB ID:

 NA2763

PDB ID:

4NIG 

Release:

2014-04-16

Title:

Crystal structure of AlkB D135I/E136H mutant protein with cofactors bound to dsDNA containing m6A/A

Classification:

OXIDOREDUCTASE/DNA

Authors:

Zhu, C., Yi, C.

Citation:

Switching Demethylation Activities between AlkB Family RNA/DNA Demethylases through Exchange of Active-Site Residues.
Angew.Chem.Int.Ed.Engl. 53 pp.3659 - 3662 2014

Experiment:

 X-RAY DIFFRACTION Resolution:1.52Å R work:0.179R free:0.211

NDB ID:

 NA2764

PDB ID:

4NIH 

Release:

2014-04-16

Title:

Crystal structure of AlkB E136L mutant protein with cofactors bound to dsDNA containing m6A/A

Classification:

OXIDOREDUCTASE/DNA

Authors:

Zhu, C., Yi, C.

Citation:

Switching Demethylation Activities between AlkB Family RNA/DNA Demethylases through Exchange of Active-Site Residues.
Angew.Chem.Int.Ed.Engl. 53 pp.3659 - 3662 2014

Experiment:

 X-RAY DIFFRACTION Resolution:1.374Å R work:0.158R free:0.18

NDB ID:

 NA2765

PDB ID:

4NII 

Release:

2014-04-16

Title:

Crystal structure of AlkB D135I mutant protein with cofactors bound to dsDNA containing m6A/A

Classification:

OXIDOREDUCTASE/DNA

Authors:

Zhu, C., Yi, C.

Citation:

Switching Demethylation Activities between AlkB Family RNA/DNA Demethylases through Exchange of Active-Site Residues.
Angew.Chem.Int.Ed.Engl. 53 pp.3659 - 3662 2014

Experiment:

 X-RAY DIFFRACTION Resolution:1.622Å R work:0.174R free:0.208

NDB ID:

 NA2824

PDB ID:

4NXZ 

Release:

2014-04-16

Title:

DNA polymerase beta with O6mG in the template base opposite to incoming non-hydrolyzable TTP with manganese in the active site

Classification:

TRANSFERASE, LYASE/DNA

Authors:

Koag, M.C., Lee, S.

Citation:

Metal-Dependent Conformational Activation Explains Highly Promutagenic Replication across O6-Methylguanine by Human DNA Polymerase beta
J.Am.Chem.Soc. pp. - 2014

Experiment:

 X-RAY DIFFRACTION Resolution:2.557Å R work:0.189R free:0.255

NDB ID:

 NA2825

PDB ID:

4NY8 

Release:

2014-04-16

Title:

DNA polymerase beta with O6mG in the template base opposite to incoming non-hydrolyzable CTP with manganese in the active site

Classification:

TRANSFERASE, LYASE/DNA

Authors:

Koag, M.C., Lee, S.

Citation:

Metal-Dependent Conformational Activation Explains Highly Promutagenic Replication across O6-Methylguanine by Human DNA Polymerase beta
J.Am.Chem.Soc. pp. - 2014

Experiment:

 X-RAY DIFFRACTION Resolution:2.246Å R work:0.206R free:0.264

NDB ID:

 NA2896

PDB ID:

4OMY 

Release:

2014-04-16

Title:

Crystal Structure of SeMet NolR from Sinorhizobium fredii in complex with oligo AT DNA

Classification:

TRANSCRIPTION/DNA

Authors:

Lee, S.G., Krishnan, H.B., Jez, J.M.

Citation:

Structural Basis for Structural Basis for Regulation of Rhizobial Nodulation and Symbiosis Gene Expression by NolR
Proc.Natl.Acad.Sci.USA pp. - 2014

Experiment:

 X-RAY DIFFRACTION Resolution:3.062Å R work:0.131R free:0.178

NDB ID:

 NA2911

PDB ID:

4ON0 

Release:

2014-04-16

Title:

Crystal Structure of NolR from Sinorhizobium fredii in complex with oligo AA DNA

Classification:

TRANSCRIPTION/DNA

Authors:

Lee, S.G., Krishnan, H.B., Jez, J.M.

Citation:

Structural Basis for Regulation of Rhizobial Nodulation and Symbiosis Gene Expression by NolR
Proc.Natl.Acad.Sci.USA pp. - 2014

Experiment:

 X-RAY DIFFRACTION Resolution:3.0Å R work:0.185R free:0.209

NDB ID:

 NA2733

PDB ID:

3WKJ 

Release:

2014-04-09

Title:

The nucleosome containing human TSH2B

Classification:

STRUCTURAL PROTEIN/DNA

Authors:

Urahama, T., Horikoshi, N., Osakabe, A., Tachiwana, H., Kurumizaka, H.

Citation:

Structure of human nucleosome containing the testis-specific histone variant TSH2B
Acta Crystallogr.,Sect.F 70 pp.444 - 449 2014

Experiment:

 X-RAY DIFFRACTION Resolution:2.8Å R work:0.235R free:0.29

NDB ID:

 NA2940

PDB ID:

4POG 

Release:

2014-04-09

Title:

MCM-ssDNA co-crystal structure

Classification:

REPLICATION, DNA BINDING PROTEIN/DNA

Authors:

Froelich, C.A., Kang, S., Epling, L.B., Bell, S.P., Enemark, E.J.

Citation:

A conserved MCM single-stranded DNA binding element is essential for replication initiation
eLife 3 pp.e01993 - e01993 2014

Experiment:

 X-RAY DIFFRACTION Resolution:3.203Å R work:0.256R free:0.293

NDB ID:

 2M2W

PDB ID:

2M2W 

Release:

2014-04-02

Title:

Ternary complex of ASFV Pol X with DNA and MgdGTP

Classification:

TRANSFERASE/DNA

Authors:

Wu, W.J., Su, M.I., Wu, J.L., Kumar, S., Lim, L.H., Wang, C.W., Nelissen, F.H., Chen, M.C., Doreleijers, J.F., Wijmenga, S.S., Tsai, M.D.

Citation:

How a low-fidelity DNA polymerase chooses non-Watson-Crick from Watson-Crick incorporation.
J.Am.Chem.Soc. pp. - 2014

Experiment:

 SOLUTION NMR

NDB ID:

 2MIV

PDB ID:

2MIV 

Release:

2014-04-02

Title:

NMR studies of N2-guanine adducts derived from the tumorigen dibenzo[a,l]pyrene in DNA: Impact of adduct stereochemistry, size, and local DNA structure on solution conformations

Classification:

DNA

Authors:

Rodriguez, F.A., Liu, Z., Lin, C.H., Ding, S., Cai, Y., Kolbanovskiy, A., Kolbanovskiy, M., Amin, S., Broyde, S., Geacintov, N.E.

Citation:

Nuclear Magnetic Resonance Studies of an N(2)-Guanine Adduct Derived from the Tumorigen Dibenzo[a,l]pyrene in DNA: Impact of Adduct Stereochemistry, Size, and Local DNA Sequence on Solution Conformations.
Biochemistry 53 pp.1827 - 1841 2014

Experiment:

 SOLUTION NMR

NDB ID:

 2MIW

PDB ID:

2MIW 

Release:

2014-04-02

Title:

Nuclear magnetic resonance studies of N2-guanine adducts derived from the tumorigen dibenzo[a,l]pyrene in DNA: Impact of adduct stereochemistry, size, and local DNA structure on solution conformations

Classification:

DNA

Authors:

Rodriguez, F.A., Liu, Z., Lin, C.H., Ding, S., Cai, Y., Kolbanovskiy, A., Kolbanovskiy, M., Amin, S., Broyde, S., Geacintov, N.E.

Citation:

Nuclear Magnetic Resonance Studies of an N(2)-Guanine Adduct Derived from the Tumorigen Dibenzo[a,l]pyrene in DNA: Impact of Adduct Stereochemistry, Size, and Local DNA Sequence on Solution Conformations.
Biochemistry 53 pp.1827 - 1841 2014

Experiment:

 SOLUTION NMR

NDB ID:

 NA2299

PDB ID:

4JQD 

Release:

2014-04-02

Title:

Crystal structure of the Restriction-Modification Controller Protein C.Csp231I OL operator complex

Classification:

TRANSCRIPTION/DNA

Authors:

Shevtsov, M.B., Streeter, S.D., Thresh, S.J., McGeehan, J.E., Kneale, G.G.

Citation:

Restriction-Modification Controller Protein C.Csp231I bound to its operator sites OL and OR
To be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.75Å R work:0.205R free:0.235

NDB ID:

 NA2941

PDB ID:

4PPX 

Release:

2014-04-02

Title:

DNA Polymerase Beta E295K with Spiroiminodihydantoin in Templating Position

Classification:

TRANSFERASE, LYASE/DNA

Authors:

Eckenroth, B.E., Fleming, A.M., Sweasy, J.B., Burrows, C.J., Doublie, S.

Citation:

Crystal Structure of DNA Polymerase beta with DNA Containing the Base Lesion Spiroiminodihydantoin in Templating Position.
Biochemistry pp. - 2014

Experiment:

 X-RAY DIFFRACTION Resolution:2.08Å R work:0.177R free:0.217

NDB ID:

 NA2460

PDB ID:

4KGC 

Release:

2014-03-26

Title:

Nucleosome Core Particle Containing (ETA6-P-CYMENE)-(1, 2-ETHYLENEDIAMINE)-RUTHENIUM

Classification:

STRUCTURAL PROTEIN/DNA

Authors:

Adhireksan, Z., Davey, G.E., Campomanes, P., Groessl, M., Clavel, C.M., Yu, H., Nazarov, A.A., Yeo, C.H., Ang, W.H., Droge, P., Rothlisberger, U., Dyson, P.J., Davey, C.A.

Citation:

Ligand substitutions between ruthenium-cymene compounds can control protein versus DNA targeting and anticancer activity
Nat Commun 5 pp.3462 - 3462 2014

Experiment:

 X-RAY DIFFRACTION Resolution:2.69Å R work:0.247R free:0.282

NDB ID:

 NA2485

PDB ID:

4L0Y 

Release:

2014-03-26

Title:

Crystal structure of Runx1 and Ets1 bound to TCR alpha promoter (crystal form 1)

Classification:

TRANSCRIPTION/DNA

Authors:

Shrivastava, T., Mino, K., Babayeva, N.D., Baranovskaya, O.I., Rizzino, A., Tahirov, T.H.

Citation:

Structural basis of Ets1 activation by Runx1.
Leukemia pp. - 2014

Experiment:

 X-RAY DIFFRACTION Resolution:2.5Å R work:0.224R free:0.245

NDB ID:

 NA2486

PDB ID:

4L0Z 

Release:

2014-03-26

Title:

Crystal structure of Runx1 and Ets1 bound to TCR alpha promoter (crystal form 2)

Classification:

TRANSCRIPTION/DNA

Authors:

Shrivastava, T., Mino, K., Babayeva, N.D., Baranovskaya, O.I., Rizzino, A., Tahirov, T.H.

Citation:

Structural basis of Ets1 activation by Runx1.
Leukemia pp. - 2014

Experiment:

 X-RAY DIFFRACTION Resolution:2.7Å R work:0.219R free:0.272

NDB ID:

 NA2487

PDB ID:

4L18 

Release:

2014-03-26

Title:

Crystal structure of Runx1 and Ets1 bound to TCR alpha promoter (crystal form 3)

Classification:

TRANSCRIPTION/DNA

Authors:

Shrivastava, T., Mino, K., Babayeva, N.D., Baranovskaya, O.I., Rizzino, A., Tahirov, T.H.

Citation:

Structural basis of Ets1 activation by Runx1.
Leukemia pp. - 2014

Experiment:

 X-RAY DIFFRACTION Resolution:2.3Å R work:0.231R free:0.28

NDB ID:

 NA2436

PDB ID:

4KDP 

Release:

2014-03-19

Title:

TcaR-ssDNA complex crystal structure reveals the novel ssDNA binding mechanism of the MarR family proteins

Classification:

TRANSCRIPTION/DNA

Authors:

Chang, Y.M., Ho, C.H., Chen, C.K., Maestre-Reyna, M., Chang-Chien, M.W., Wang, A.H.

Citation:

TcaR-ssDNA complex crystal structure reveals new DNA binding mechanism of the MarR family proteins.
Nucleic Acids Res. pp. - 2014

Experiment:

 X-RAY DIFFRACTION Resolution:3.6Å R work:0.273R free:0.284

NDB ID:

 NA2647

PDB ID:

4M94 

Release:

2014-03-12

Title:

d(ATCCGTTATAACGGAT) complexed with Moloney Murine Leukemia virus reverse transcriptase catalytic fragment

Classification:

TRANSFERASE/DNA

Authors:

Singh, I., Lian, Y., Li, L., Georgiadis, M.M.

Citation:

The structure of an authentic spore photoproduct lesion in DNA suggests a basis for recognition.
Acta Crystallogr.,Sect.D 70 pp.752 - 759 2014

Experiment:

 X-RAY DIFFRACTION Resolution:2.14Å R work:0.201R free:0.238

NDB ID:

 NA2648

PDB ID:

4M95 

Release:

2014-03-12

Title:

d(ATCCGTTATAACGGAT)complexed with Moloney Murine Leukemia virus reverse transcriptase catalytic fragment

Classification:

TRANSFERASE/DNA

Authors:

Singh, I., Lian, Y., Li, L., Georgiadis, M.M.

Citation:

The structure of an authentic spore photoproduct lesion in DNA suggests a basis for recognition.
Acta Crystallogr.,Sect.D 70 pp.752 - 759 2014

Experiment:

 X-RAY DIFFRACTION Resolution:1.72Å R work:0.21R free:0.233

NDB ID:

 NA2662

PDB ID:

4M6F 

Release:

2014-03-12

Title:

Dimer of the G-Segment Invertase bound to a DNA substrate

Classification:

HYDROLASE/DNA

Authors:

Ritacco, C.J., Steitz, T.A., Wang, J.

Citation:

Exploiting large non-isomorphous differences for phase determination of a G-segment invertase-DNA complex.
Acta Crystallogr.,Sect.D 70 pp.685 - 693 2014

Experiment:

 X-RAY DIFFRACTION Resolution:4.99Å R work:0.229R free:0.287

NDB ID:

 NA2807

PDB ID:

4O3M 

Release:

2014-03-12

Title:

Ternary complex of Bloom's syndrome helicase

Classification:

Hydrolase/DNA

Authors:

Swan, M.K., Legris, V., Tanner, A., Reaper, P.M., Vial, S., Bordas, R., Pollard, J.R., Charlton, P.A., Golec, J.M.C., Bertrand, J.

Citation:

Structure of Human Bloom Syndrome Helicase in complex with ADP and duplex DNA
Acta Crystallogr.,Sect.D pp. - 2014

Experiment:

 X-RAY DIFFRACTION Resolution:2.3Å R work:0.181R free:0.215

NDB ID:

 NA2949

PDB ID:

4CEH 

Release:

2014-03-12

Title:

Crystal structure of AddAB with a forked DNA substrate

Classification:

HYDROLASE/DNA

Authors:

Krajewski, W.W., Fu, X., Wilkinson, M., Cronin, N.B., Dillingham, M.S., Wigley, D.B.

Citation:

Structural Basis for Translocation by Addab Helicase/Nuclease and its Arrest at Chi Sites
Nature pp. - 2014

Experiment:

 X-RAY DIFFRACTION Resolution:3.24Å R work:0.229R free:0.263

NDB ID:

 NA2950

PDB ID:

4CEI 

Release:

2014-03-12

Title:

Crystal structure of ADPNP-bound AddAB with a forked DNA substrate

Classification:

HYDROLASE/DNA

Authors:

Krajewski, W.W., Fu, X., Wilkinson, M., Cronin, N.B., Dillingham, M.S., Wigley, D.B.

Citation:

Structural Basis for Translocation by Addab Helicase/Nuclease and its Arrest at Chi Sites
Nature pp. - 2014

Experiment:

 X-RAY DIFFRACTION Resolution:2.8Å R work:0.195R free:0.239

NDB ID:

 NA2951

PDB ID:

4CEJ 

Release:

2014-03-12

Title:

Crystal structure of ADPNP-bound AddAB bound to Chi

Classification:

HYDROLASE/DNA

Authors:

Krajewski, W.W., Fu, X., Wilkinson, M., Cronin, N.B., Dillingham, M.S., Wigley, D.B.

Citation:

Structural Basis for Translocation by Addab Helicase/Nuclease and its Arrest at Chi Sites
Nature pp. - 2014

Experiment:

 X-RAY DIFFRACTION Resolution:3.0Å R work:0.202R free:0.243

NDB ID:

 2MJX

PDB ID:

2MJX 

Release:

2014-03-05

Title:

Solution NMR structure of a mismatch DNA

Classification:

DNA

Authors:

Ghosh, A., Kumar, K.R., Chatterjee, S., Bhunia, A.

Citation:

Solution NMR structure of mismatch DNA
To be Published pp. - 0

Experiment:

 SOLUTION NMR

NDB ID:

 2RT8

PDB ID:

2RT8 

Release:

2014-03-05

Title:

Structure of metallo-dna in solution

Classification:

DNA

Authors:

Yamaguchi, H., Sebera, J., Kondo, J., Oda, S., Komuro, T., Kawamura, T., Dairaku, T., Kondo, Y., Okamoto, I., Ono, A., Burda, J.V., Kojima, C., Sychrovsky, V., Tanaka, Y.

Citation:

The structure of metallo-DNA with consecutive thymine-HgII-thymine base pairs explains positive entropy for the metallo base pair formation.
Nucleic Acids Res. pp. - 2013

Experiment:

 SOLUTION NMR

NDB ID:

 NA2051

PDB ID:

4GQJ 

Release:

2014-03-05

Title:

Complex of a binuclear Ruthenium compound D,D-([mu-(11,11')-bi(dppz)-(1,10-phenanthroline)4-Ru2]4+) bound to d(CGTACG)

Classification:

DNA

Authors:

Boer, D.R., Wu, L., Lincoln, P., Coll, M.

Citation:

Thread Insertion of a Bis(dipyridophenazine) Diruthenium Complex into the DNA Double Helix by the Extrusion of AT Base Pairs and Cross-Linking of DNA Duplexes.
Angew.Chem.Int.Ed.Engl. 53 pp.1949 - 1952 2014

Experiment:

 X-RAY DIFFRACTION Resolution:2.951Å R work:0.177R free:0.206

NDB ID:

 NA2379

PDB ID:

4KAZ 

Release:

2014-03-05

Title:

Crystal structure of RNase T in complex with a Y structured DNA

Classification:

Hydrolase/dna

Authors:

Hsiao, Y.-Y., Fang, W.-H., Lee, C.-C., Chen, Y.-P., Hsu, P.-C., Yuan, H.S.

Citation:

Structural insights into DNA repair by RNase T, an exonuclease processing 3′ end of structured DNA in repair pathways
Plos One 12 pp.e1001803 - e1001803 2014

Experiment:

 X-RAY DIFFRACTION Resolution:1.9Å R work:0.188R free:0.218

NDB ID:

 NA2380

PDB ID:

4KB0 

Release:

2014-03-05

Title:

Crystal structure of RNase T in complex with a bluge DNA (Two nucleotide insertion CC )

Classification:

Hydrolase/dna

Authors:

Hsiao, Y.-Y., Fang, W.-H., Lee, C.-C., Chen, Y.-P., Hsu, P.-C., Yuan, H.S.

Citation:

Structural insights into DNA repair by RNase T, an exonuclease processing 3′ end of structured DNA in repair pathways
Plos One 12 pp.e1001803 - e1001803 2014

Experiment:

 X-RAY DIFFRACTION Resolution:2.004Å R work:0.188R free:0.21

NDB ID:

 NA2381

PDB ID:

4KB1 

Release:

2014-03-05

Title:

Crystal structure of RNase T in complex with a bluge DNA (two nucleotide insertion CT )

Classification:

Hydrolase/dna

Authors:

Hsiao, Y.-Y., Fang, W.-H., Lee, C.-C., Chen, Y.-P., Hsu, P.-C., Yuan, H.S.

Citation:

Structural insights into DNA repair by RNase T, an exonuclease processing 3′ end of structured DNA in repair pathways
Plos One 12 pp.e1001803 - e1001803 2014

Experiment:

 X-RAY DIFFRACTION Resolution:1.8Å R work:0.183R free:0.198

NDB ID:

 NA2481

PDB ID:

4L0A 

Release:

2014-03-05

Title:

X-ray structure of an all LNA quadruplex

Classification:

DNA, RNA

Authors:

Russo Krauss, I., Parkinson, G.N., Merlino, A., Mattia, C.A., Randazzo, A., Novellino, E., Mazzarella, L., Sica, F.

Citation:

A regular thymine tetrad and a peculiar supramolecular assembly in the first crystal structure of an all-LNA G-quadruplex.
Acta Crystallogr.,Sect.D 70 pp.362 - 370 2014

Experiment:

 X-RAY DIFFRACTION Resolution:1.7Å R work:0.159R free:0.18

NDB ID:

 NA2491

PDB ID:

4L24 

Release:

2014-03-05

Title:

Crystal structure of metallo-DNA duplex containing consecutive T-Hg(II)-T base pairs

Classification:

DNA

Authors:

Kondo, J., Yamada, T., Hirose, C., Okamoto, I., Tanaka, Y., Ono, A.

Citation:

Crystal Structure of Metallo DNA Duplex Containing Consecutive Watson-Crick-like T-Hg(II) -T Base Pairs
Angew.Chem.Int.Ed.Engl. 53 pp.2385 - 2388 2014

Experiment:

 X-RAY DIFFRACTION Resolution:2.7Å R work:0.257R free:0.266

NDB ID:

 NA2492

PDB ID:

4L25 

Release:

2014-03-05

Title:

Crystal structure of DNA duplex containing consecutive T-T mispairs

Classification:

DNA

Authors:

Kondo, J., Yamada, T., Hirose, C., Okamoto, I., Tanaka, Y., Ono, A.

Citation:

Crystal Structure of Metallo DNA Duplex Containing Consecutive Watson-Crick-like T-Hg(II) -T Base Pairs
Angew.Chem.Int.Ed.Engl. 53 pp.2385 - 2388 2014

Experiment:

 X-RAY DIFFRACTION Resolution:1.1Å R work:0.23R free:0.24

NDB ID:

 NA2493

PDB ID:

4L26 

Release:

2014-03-05

Title:

Crystal structure of DNA duplex containing consecutive T-T mispairs (Br-derivative)

Classification:

DNA

Authors:

Kondo, J., Yamada, T., Hirose, C., Okamoto, I., Tanaka, Y., Ono, A.

Citation:

Crystal Structure of Metallo DNA Duplex Containing Consecutive Watson-Crick-like T-Hg(II) -T Base Pairs
Angew.Chem.Int.Ed.Engl. 53 pp.2385 - 2388 2014

Experiment:

 X-RAY DIFFRACTION Resolution:1.4Å R work:0.232R free:0.266

NDB ID:

 NA2600

PDB ID:

4LMG 

Release:

2014-03-05

Title:

Crystal structure of AFT2 in complex with DNA

Classification:

TRANSCRIPTION ACTIVATOR/DNA

Authors:

Poor, C.B., Wegner, S., Li, H., Dlouhy, A., Schuermann, J., Sanishvili, R., Hinshaw, J., Riggs-Gelasco, P., Outten, C., He, C.

Citation:

Molecular mechanism and structure of the S. cerevisiae iron regulator Aft2
Proc.Natl.Acad.Sci.USA pp. - 2014

Experiment:

 X-RAY DIFFRACTION Resolution:2.2Å R work:0.188R free:0.236

NDB ID:

 NA2899

PDB ID:

4OL8 

Release:

2014-03-05

Title:

Ty3 reverse transcriptase bound to DNA/RNA

Classification:

TRANSFERASE, HYDROLASE/RNA/DNA

Authors:

Nowak, E., Miller, J.T., Bona, M.K., Studnicka, J., Szczepanowski, R.H., Jurkowski, J., Le Grice, S.F., Nowotny, M.

Citation:

Ty3 reverse transcriptase complexed with an RNA-DNA hybrid shows structural and functional asymmetry.
Nat.Struct.Mol.Biol. 21 pp.389 - 396 2014

Experiment:

 X-RAY DIFFRACTION Resolution:3.1Å R work:0.226R free:0.295

NDB ID:

 NA2205

PDB ID:

4JCX 

Release:

2014-02-26

Title:

Crystal structure of the Restriction-Modification Controller Protein C.Csp231I OL operator complex

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Shevtsov, M.B., Streeter, S.D., Thresh, S.J., Mcgeehan, J.E., Kneale, G.G.

Citation:

Restriction-Modification Controller Protein C.Csp231I bound to its operator sites OL and OR
To be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.3Å R work:0.171R free:0.196

NDB ID:

 NA2271

PDB ID:

4JCY 

Release:

2014-02-26

Title:

Crystal structure of the Restriction-Modification Controller Protein C.Csp231I OR operator complex

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Shevtsov, M.B., Streeter, S.D., Thresh, S.J., Mcgeehan, J.E., Kneale, G.G.

Citation:

Restriction-Modification Controller Protein C.Csp231I bound to its operator sites OL and OR
To be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:1.8Å R work:0.147R free:0.162

NDB ID:

 NA2711

PDB ID:

4MG2 

Release:

2014-02-26

Title:

ALKBH2 F102A cross-linked to undamaged dsDNA

Classification:

OXIDOREDUCTASE/DNA

Authors:

Chen, B., Gan, J., Yang, C.G.

Citation:

The complex structures of ALKBH2 mutants cross-linked to dsDNA reveal the conformational swing of β-hairpin
Sci China Chem 57 pp.307 - 313 2014

Experiment:

 X-RAY DIFFRACTION Resolution:2.3Å R work:0.233R free:0.278

NDB ID:

 NA2712

PDB ID:

4MGT 

Release:

2014-02-26

Title:

ALKBH2 R110A cross-linked to undamaged dsDNA

Classification:

OXIDOREDUCTASE/DNA

Authors:

Chen, B., Gan, J., Yang, C.G.

Citation:

The complex structures of ALKBH2 mutants cross-linked to dsDNA reveal the conformational swing of β-hairpin
Sci China Chem 57 pp.307 - 313 2014

Experiment:

 X-RAY DIFFRACTION Resolution:2.6Å R work:0.23R free:0.275

NDB ID:

 NA2799

PDB ID:

4NQA 

Release:

2014-02-26

Title:

Crystal structure of liganded hRXR-alpha/hLXR-beta heterodimer on DNA

Classification:

TRANSCRIPTION REGULATOR/DNA

Authors:

Lou, X., Toresson, G., Benod, C., Suh, J.H., Philips, K.J., Webb, P., Gustafsson, J.A.

Citation:

Structure of the retinoid X receptor alpha-liver X receptor beta (RXR alpha-LXR beta ) heterodimer on DNA.
Nat.Struct.Mol.Biol. 21 pp.277 - 281 2014

Experiment:

 X-RAY DIFFRACTION Resolution:3.102Å R work:0.18R free:0.217

NDB ID:

 NA2910

PDB ID:

4OO8 

Release:

2014-02-26

Title:

Crystal structure of Streptococcus pyogenes Cas9 in complex with guide RNA and target DNA

Classification:

Hydrolase/DNA/RNA

Authors:

Nishimasu, H., Ran, F.A., Hsu, P.D., Konermann, S., Shehata, S.I., Dohmae, N., Ishitani, R., Zhang, F., Nureki, O.

Citation:

Crystal Structure of Cas9 in Complex with Guide RNA and Target DNA
Cell(Cambridge,Mass.) pp. - 2014

Experiment:

 X-RAY DIFFRACTION Resolution:2.5Å R work:0.221R free:0.253

NDB ID:

 2MAP

PDB ID:

2MAP 

Release:

2014-02-19

Title:

Solution structure of the complex formed by the region 2 of E. coli sigmaE and its cognate -10 promoter element non template strand TGTCAAA.

Classification:

TRANSCRIPTION/DNA

Authors:

Campagne, S., Marsh, M.E., Capitani, G., Vorholt, J.A., Allain, F.H.

Citation:

Structural basis for -10 promoter element melting by environmentally induced sigma factors.
Nat.Struct.Mol.Biol. 21 pp.269 - 276 2014

Experiment:

 SOLUTION NMR

NDB ID:

 NA2229

PDB ID:

4J2E 

Release:

2014-02-19

Title:

RB69 DNA Polymerase L415M Ternary Complex

Classification:

Transferase/DNA

Authors:

Xia, S., Wood, M., Bradley, M.J., De La Cruz, E.M., Konigsberg, W.H.

Citation:

Alteration in the cavity size adjacent to the active site of RB69 DNA polymerase changes its conformational dynamics.
Nucleic Acids Res. 41 pp.9077 - 9089 2013

Experiment:

 X-RAY DIFFRACTION Resolution:2.02Å R work:0.178R free:0.213

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