A Portal for Three-dimensional Structural Information about Nucleic Acids
As of 1-Jul-2015 number of released structures: 7543
Search for released structures

DNA Search Options:

Polymer

All
DNA Only
Protein DNA Complexes
Drug DNA Complexes
Hybrids and Chimera
Peptide Nucleic Acid / Mimetics

Protein Function

All
Enzymes
Structural
Regulatory
Other

Structural Features

All
Single Stranded
A DNA
B DNA
Z DNA
Other Double
       Helical Structures
Triple helices
Quadruple helices

Experimental Method

All
XRAY
NMR

Text Search

Filter results by text search

Use this option to narrow your results down considerably (>50% reduction) using any word seen in the results page. Eg: Any author name found in the right side



Polymer Type: All + Protein Function: All + Structural Features: All + Experimental Method: All

Results: 5094  Download results as an excel file       Gallery view

NDB ID:

4Z8F

PDB ID:

4Z8F 

Release:

2015-06-24

Title:

Fab structure of antibody S1-15 in complex with ssDNA DNA, 5'-p5(dT)p-3'

Classification:

IMMUNE SYSTEM/DNA

Authors:

Haji-Ghassemi, O., Muller-Loennies, S., Rodriguez, T., Brade, L., Kosma, P., Brade, H., Evans, S.V.

Citation:

Structural Basis for Antibody Recognition of Lipid A: Insights to Polyspecificity Toward Single Stranded DNA.
J.Biol.Chem. pp. - 2015

Experiment:

X-RAY DIFFRACTION Resolution:1.75Å R work:0.208R free:0.239

NDB ID:

4YIG

PDB ID:

4YIG 

Release:

2015-06-10

Title:

vaccinia virus D4/A20(1-50) in complex with dsDNA containing an abasic site and free uracyl

Classification:

HYDROLASE

Authors:

Burmeister, W.P., Tarbouriech, N., Fender, P., Contesto-Richefeu, C., Peyrefitte, C.N., Iseni, F.

Citation:

Crystal Structure of the Vaccinia Virus Uracil-DNA Glycosylase in Complex with DNA.
J.Biol.Chem. pp. - 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.7Å R work:0.179R free:0.227

NDB ID:

4ZBN

PDB ID:

4ZBN 

Release:

2015-06-10

Title:

Non-helical DNA Triplex Forms a Unique Aptamer Scaffold for High Affinity Recognition of Nerve Growth Factor

Classification:

Immune system/DNA

Authors:

Jarvis, T.C., Davies, D.R., Hisaminato, A., Resnicow, D.I., Gupta, S., Waugh, S.M., Nagabukuro, A., Wadatsu, T., Hishigaki, H., Gawande, B., Zhang, C., Wolk, S.K., Mayfield, W.S., Nakaishi, Y., Burgin, A.B., Stewart, L.J., Edwards, T.E., Gelinas, A.D., Schneider, D.J., Janjic, N.

Citation:

Non-helical DNA Triplex Forms a Unique Aptamer Scaffold for High Affinity Recognition of Nerve Growth Factor.
Structure pp. - 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.447Å R work:0.201R free:0.256

NDB ID:

4YKL

PDB ID:

4YKL 

Release:

2015-06-03

Title:

Hnt3 in complex with DNA and guanosine

Classification:

Hydrolase/DNA

Authors:

Chauleau, M., Jacewicz, A., Shuman, S.

Citation:

DNA3'pp5'G de-capping activity of aprataxin: effect of cap nucleoside analogs and structural basis for guanosine recognition.
Nucleic Acids Res. pp. - 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.25Å R work:0.18R free:0.24

NDB ID:

4XNO

PDB ID:

4XNO 

Release:

2015-05-27

Title:

Crystal structure of 5'-CTTATPPPZZZATAAG

Classification:

DNA

Authors:

Georgiadis, M.M., Singh, I., Kellett, W.F., Hoshika, S., Benner, S.A., Richards, N.G.J.

Citation:

Crystal Structures of Non-Natural Nucleobase Pairs in A- and B-DNA
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.985Å R work:0.212R free:0.237

NDB ID:

4XO0

PDB ID:

4XO0 

Release:

2015-05-27

Title:

Crystal structure of 5'-CTTATPPTAZZATAAG in a host-guest complex

Classification:

TRANSFERASE/DNA

Authors:

Georgiadis, M.M., Singh, I., Kellett, W.F., Hoshika, S., Benner, S.A., Richards, N.G.J.

Citation:

Crystal Structures of Non-Natural Nucleobase Pairs in A- and B-DNA
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.7Å R work:0.219R free:0.24

NDB ID:

4XPC

PDB ID:

4XPC 

Release:

2015-05-27

Title:

Crystal structure of 5'- CTTATAAATTTATAAG in a host-guest complex

Classification:

TRANSFERASE/DNA

Authors:

Georgiadis, M.M., Singh, I., Kellett, W.F., Hoshika, S., Benner, S.A., Richards, N.G.J.

Citation:

Crystal Structures of Non-Natural Nucleobase Pairs in A- and B-DNA
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.68Å R work:0.215R free:0.24

NDB ID:

4XPE

PDB ID:

4XPE 

Release:

2015-05-27

Title:

Crystal structure of 5'-CTTATGGGCCCATAAG in a host-guest complex

Classification:

transferase/DNA

Authors:

Georgiadis, M.M., Singh, I., Kellett, W.F., Hoshika, S., Benner, S.A., Richards, N.G.J.

Citation:

Crystal Structures of Non-Natural Nucleobase Pairs in A- and B-DNA
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.78Å R work:0.215R free:0.237

NDB ID:

4YJ0

PDB ID:

4YJ0 

Release:

2015-05-27

Title:

Crystal structure of the DM domain of human DMRT1 bound to 25mer target DNA

Classification:

TRANSCRIPTION

Authors:

Murphy, M.W., Lee, J.K., Rojo, S., Gearhart, M.D., Kurahashi, K., Banerjee, S., Loeuille, G.A., Bashamboo, A., McElreavey, K., Zarkower, D., Aihara, H., Bardwell, V.J.

Citation:

An ancient protein-DNA interaction underlying metazoan sex determination.
Nat.Struct.Mol.Biol. 22 pp.442 - 451 2015

Experiment:

X-RAY DIFFRACTION Resolution:3.814Å R work:0.228R free:0.262

NDB ID:

4YNQ

PDB ID:

4YNQ 

Release:

2015-05-27

Title:

TREX1-dsDNA complex

Classification:

Hydrolase/DNA

Authors:

Grieves, J.L., Fye, J.M., Harvey, S., Grayson, J.M., Hollis, T., Perrino, F.W.

Citation:

Exonuclease TREX1 degrades double-stranded DNA to prevent spontaneous lupus-like inflammatory disease.
Proc.Natl.Acad.Sci.USA 112 pp.5117 - 5122 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.8Å R work:0.217R free:0.266

NDB ID:

4YOQ

PDB ID:

4YOQ 

Release:

2015-05-27

Title:

Crystal Structure of MutY bound to its anti-substrate

Classification:

Hydrolase/DNA

Authors:

Wang, L., Lee, S.J., Verdine, G.

Citation:

Structural Basis for Avoidance of Promutagenic DNA Repair by MutY Adenine DNA Glycosylase.
J.Biol.Chem. pp. - 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.21Å R work:0.184R free:0.249

NDB ID:

4YPH

PDB ID:

4YPH 

Release:

2015-05-27

Title:

Crystal Structure of MutY bound to its anti-substrate with the disulfide cross-linker reduced

Classification:

Hydrolase/DNA

Authors:

Wang, L., Lee, S.J., Verdine, G.

Citation:

Structural Basis for Avoidance of Promutagenic DNA Repair by MutY Adenine DNA Glycosylase.
J.Biol.Chem. pp. - 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.32Å R work:0.187R free:0.258

NDB ID:

4YPR

PDB ID:

4YPR 

Release:

2015-05-27

Title:

Crystal Structure of D144N MutY bound to its anti-substrate

Classification:

Hydrolase/DNA

Authors:

Wang, L., Lee, S.J., Verdine, G.

Citation:

Structural Basis for Avoidance of Promutagenic DNA Repair by MutY Adenine DNA Glycosylase.
J.Biol.Chem. pp. - 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.59Å R work:0.169R free:0.228

NDB ID:

4X18

PDB ID:

4X18 

Release:

2015-05-13

Title:

[Ru(TAP)2(dppz-11-Me)]2+ bound to d(TCGGCGCCGA)

Classification:

DNA

Authors:

Hall, J.P., Beer, H., Buchner, K., Cardin, D.J., Cardin, C.J.

Citation:

The Structural Effect of Methyl Substitution on the Binding of Polypyridyl Ru-dppz Complexes to DNA
Organometallics pp. - 2015

Experiment:

X-RAY DIFFRACTION Resolution:1.05Å R work:0.095R free:0.104

NDB ID:

4X1A

PDB ID:

4X1A 

Release:

2015-05-13

Title:

Lambda-[Ru(TAP)2(dppz-10,12-Me)]2+ bound to d(TCGGCGCCGA)

Classification:

DNA

Authors:

Hall, J.P., Beer, H., Buchner, K., Cardin, D.J., Cardin, C.J.

Citation:

The Structural Effect of Methyl Substitution on the Binding of Polypyridyl Ru-dppz Complexes to DNA
Organometallics pp. - 2015

Experiment:

X-RAY DIFFRACTION Resolution:0.89Å R work:0.095R free:0.106

NDB ID:

4X9J

PDB ID:

4X9J 

Release:

2015-05-13

Title:

EGR-1 with Doubly Methylated DNA

Classification:

Transcription Regulator/DNA

Authors:

Zandarashvili, L., White, M.A., Esadze, A., Iwahara, J.

Citation:

Structural impact of complete CpG methylation within target DNA on specific complex formation of the inducible transcription factor Egr-1.
Febs Lett. pp. - 2015

Experiment:

X-RAY DIFFRACTION Resolution:1.412Å R work:0.171R free:0.2

NDB ID:

4YP3

PDB ID:

4YP3 

Release:

2015-05-13

Title:

Mutant Human DNA Polymerase Eta Q38A/R61A Inserting dCTP Opposite an 8-Oxoguanine Lesion

Classification:

Transferase/DNA

Authors:

Su, Y., Patra, A., Harp, J.M., Egli, M., Guengerich, F.P.

Citation:

Roles of Residues Arg-61 and Gln-38 of Human DNA Polymerase Eta in Bypass of Deoxyguanosine and 7,8-Dihydro-8-oxo-2'-deoxyguanosine.
J.Biol.Chem. pp. - 2015

Experiment:

X-RAY DIFFRACTION Resolution:1.89Å R work:0.168R free:0.215

NDB ID:

4YQW

PDB ID:

4YQW 

Release:

2015-05-13

Title:

Mutant Human DNA Polymerase Eta Q38A/R61A Inserting dCTP Opposite Template G

Classification:

Transferase/DNA

Authors:

Su, Y., Patra, A., Harp, J.M., Egli, M., Guengerich, F.P.

Citation:

Roles of Residues Arg-61 and Gln-38 of Human DNA Polymerase Eta in Bypass of Deoxyguanosine and 7,8-Dihydro-8-oxo-2'-deoxyguanosine.
J.Biol.Chem. pp. - 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.064Å R work:0.174R free:0.226

NDB ID:

4YR0

PDB ID:

4YR0 

Release:

2015-05-13

Title:

Mutant Human DNA Polymerase Eta R61M Inserting dCTP Opposite an 8-Oxoguanine Lesion

Classification:

Transferase/DNA

Authors:

Su, Y., Patra, A., Harp, J.M., Egli, M., Guengerich, F.P.

Citation:

Roles of Residues Arg-61 and Gln-38 of Human DNA Polymerase Eta in Bypass of Deoxyguanosine and 7,8-Dihydro-8-oxo-2'-deoxyguanosine.
J.Biol.Chem. pp. - 2015

Experiment:

X-RAY DIFFRACTION Resolution:1.78Å R work:0.172R free:0.212

NDB ID:

4YR2

PDB ID:

4YR2 

Release:

2015-05-13

Title:

Mutant Human DNA Polymerase Eta R61M Inserting dATP Opposite an 8-Oxoguanine Lesion

Classification:

Transferase/DNA

Authors:

Su, Y., Patra, A., Harp, J.M., Egli, M., Guengerich, F.P.

Citation:

Roles of Residues Arg-61 and Gln-38 of Human DNA Polymerase Eta in Bypass of Deoxyguanosine and 7,8-Dihydro-8-oxo-2'-deoxyguanosine.
J.Biol.Chem. pp. - 2015

Experiment:

X-RAY DIFFRACTION Resolution:1.95Å R work:0.167R free:0.217

NDB ID:

4YR3

PDB ID:

4YR3 

Release:

2015-05-13

Title:

Mutant Human DNA Polymerase Eta R61M Inserting dCTP Opposite Template G

Classification:

Transferase/DNA

Authors:

Su, Y., Patra, A., Harp, J.M., Egli, M., Guengerich, F.P.

Citation:

Roles of Residues Arg-61 and Gln-38 of Human DNA Polymerase Eta in Bypass of Deoxyguanosine and 7,8-Dihydro-8-oxo-2'-deoxyguanosine.
J.Biol.Chem. pp. - 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.0Å R work:0.175R free:0.218

NDB ID:

4PGY

PDB ID:

4PGY 

Release:

2015-05-06

Title:

Structure of human DNA polymerase beta complexed with a nicked DNA containing a GT at N-1 position and GC at N position

Classification:

Transferase,Lyase/DNA

Authors:

Koag, M.C., Lee, S.

Citation:

The spontaneous base substitution mechanisms of human DNA polymerase beta
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.26Å R work:0.209R free:0.264

NDB ID:

4PH5

PDB ID:

4PH5 

Release:

2015-05-06

Title:

Structure of human DNA polymerase beta complexed with a nicked DNA containing a AC at N-1 position and GC at N position

Classification:

Transferase,Lyase/DNA

Authors:

Koag, M.C., Lee, S.

Citation:

The spontaneous base substitution mechanisms of human DNA polymerase beta
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.55Å R work:0.19R free:0.261

NDB ID:

4PHE

PDB ID:

4PHE 

Release:

2015-05-06

Title:

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

Classification:

Transferase,Lyase/DNA

Authors:

Koag, M.C., Lee, S.

Citation:

The spontaneous base substitution mechanisms of human DNA polymerase beta
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.15Å R work:0.215R free:0.26

NDB ID:

4PHP

PDB ID:

4PHP 

Release:

2015-05-06

Title:

Structure of human DNA polymerase beta complexed with T in the template base paired with incoming non-hydrolyzable GTP and MANGANESE

Classification:

Transferase,Lyase/DNA

Authors:

Koag, M.C., Lee, S.

Citation:

The spontaneous base substitution mechanisms of human DNA polymerase beta
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.6Å R work:0.181R free:0.261

NDB ID:

4WB2

PDB ID:

4WB2 

Release:

2015-05-06

Title:

Crystal structure of the mirror-image L-RNA/L-DNA aptamer NOX-D20 in complex with mouse C5a complement anaphylatoxin

Classification:

DNA-RNA HYBRID

Authors:

Yatime, L., Maasch, C., Hoehlig, K., Klussmann, S., Andersen, G.R., Vater, A.

Citation:

Structural basis for the targeting of complement anaphylatoxin C5a using a mixed L-RNA/L-DNA aptamer.
Nat Commun 6 pp.6481 - 6481 2015

Experiment:

X-RAY DIFFRACTION Resolution:1.8Å R work:0.166R free:0.192

NDB ID:

4WB3

PDB ID:

4WB3 

Release:

2015-05-06

Title:

Crystal structure of the mirror-image L-RNA/L-DNA aptamer NOX-D20 in complex with mouse C5a-desArg complement anaphylatoxin

Classification:

DNA-RNA HYBRID

Authors:

Yatime, L., Maasch, C., Hoehlig, K., Klussmann, S., Andersen, G.R., Vater, A.

Citation:

Structural basis for the targeting of complement anaphylatoxin C5a using a mixed L-RNA/L-DNA aptamer.
Nat Commun 6 pp.6481 - 6481 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.0Å R work:0.162R free:0.199

NDB ID:

4WU4

PDB ID:

4WU4 

Release:

2015-05-06

Title:

Crystal structure of E. faecalis DNA binding domain LiaRD191N complexed with 22bp DNA

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Davlieva, M., Shi, Y., Leonard, P.G., Johnson, T.A., Zianni, M.R., Arias, C.A., Ladbury, J.E., Shamoo, Y.

Citation:

A variable DNA recognition site organization establishes the LiaR-mediated cell envelope stress response of enterococci to daptomycin.
Nucleic Acids Res. 43 pp.4758 - 4773 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.3Å R work:0.208R free:0.263

NDB ID:

4WUH

PDB ID:

4WUH 

Release:

2015-05-06

Title:

Crystal structure of E. faecalis DNA binding domain LiaR wild type complexed with 22bp DNA

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Davlieva, M., Shi, Y., Leonard, P.G., Johnson, T.A., Zianni, M.R., Arias, C.A., Ladbury, J.E., Shamoo, Y.

Citation:

A variable DNA recognition site organization establishes the LiaR-mediated cell envelope stress response of enterococci to daptomycin.
Nucleic Acids Res. 43 pp.4758 - 4773 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.294Å R work:0.214R free:0.259

NDB ID:

4WUL

PDB ID:

4WUL 

Release:

2015-05-06

Title:

Crystal structure of E. faecalis DNA binding domain LiaRD191N complexed with 26bp DNA

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Davlieva, M., Shi, Y., Leonard, P.G., Johnson, T.A., Zianni, M.R., Arias, C.A., Ladbury, J.E., Shamoo, Y.

Citation:

A variable DNA recognition site organization establishes the LiaR-mediated cell envelope stress response of enterococci to daptomycin.
Nucleic Acids Res. 43 pp.4758 - 4773 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.4Å R work:0.218R free:0.275

NDB ID:

4Z3C

PDB ID:

4Z3C 

Release:

2015-04-29

Title:

Zinc finger region of human TET3 in complex with CpG DNA

Classification:

DNA Binding protein/DNA

Authors:

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

Citation:

Zinc finger region of human TET3 in complex with CpG DNA
to be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.57Å R work:0.214R free:0.252

NDB ID:

4YLN

PDB ID:

4YLN 

Release:

2015-04-22

Title:

E. coli Transcription Initiation Complex - 17-bp spacer and 4-nt RNA

Classification:

TRANSCRIPTION/DNA/RNA

Authors:

Zuo, Y., Steitz, T.A.

Citation:

Crystal Structures of the E. coli Transcription Initiation Complexes with a Complete Bubble.
Mol.Cell 58 pp.534 - 540 2015

Experiment:

X-RAY DIFFRACTION Resolution:5.5Å R work:0.244R free:0.328

NDB ID:

4YLO

PDB ID:

4YLO 

Release:

2015-04-22

Title:

E. coli Transcription Initiation Complex - 16-bp spacer and 4-nt RNA

Classification:

TRANSCRIPTION/DNA/RNA

Authors:

Zuo, Y., Steitz, T.A.

Citation:

Crystal Structures of the E. coli Transcription Initiation Complexes with a Complete Bubble.
Mol.Cell 58 pp.534 - 540 2015

Experiment:

X-RAY DIFFRACTION Resolution:6.0Å R work:0.226R free:0.314

NDB ID:

4YLP

PDB ID:

4YLP 

Release:

2015-04-22

Title:

E. coli Transcription Initiation Complex - 16-bp spacer and 5-nt RNA

Classification:

TRANSCRIPTION/DNA/RNA

Authors:

Zuo, Y., Steitz, T.A.

Citation:

Crystal Structures of the E. coli Transcription Initiation Complexes with a Complete Bubble.
Mol.Cell 58 pp.534 - 540 2015

Experiment:

X-RAY DIFFRACTION Resolution:5.5Å R work:0.23R free:0.313

NDB ID:

4Z1X

PDB ID:

4Z1X 

Release:

2015-04-22

Title:

Crystal structure of LAGLIDADG homing endonuclease I-GzeII in complex with DNA target

Classification:

Hydrolase/DNA

Authors:

Stoddard, B.L., Lambert, A.R., Kulshina, N.

Citation:

Crystal structure of LAGLIDADG homing endonuclease I-GzeII in complex with DNA target
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.8Å R work:0.172R free:0.24

NDB ID:

4XZF

PDB ID:

4XZF 

Release:

2015-04-15

Title:

Crystal structure of HIRAN domain of human HLTF in complex with DNA

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Hishiki, A., Hara, K., Ikegaya, Y., Yokoyama, H., Shimizu, T., Sato, M., Hashimoto, H.

Citation:

Structure of a Novel DNA-binding Domain of Helicase-like Transcription Factor (HLTF) and Its Functional Implication in DNA Damage Tolerance
J.Biol.Chem. 290 pp.13215 - 13223 2015

Experiment:

X-RAY DIFFRACTION Resolution:1.38Å R work:0.164R free:0.206

NDB ID:

NA3280

PDB ID:

4RPX 

Release:

2015-04-15

Title:

Precatalytic ternary complex of Human DNA Polymerase Beta With Gapped DNA Containing an 8-oxo-7,8-dihydro-Guanine (8-oxoG) and dCTP in the presence of CaCl2

Classification:

TRANSFERASE/DNA

Authors:

Vyas, R., Reed, A.J., Tokarsky, E.J., Suo, Z.

Citation:

Viewing Human DNA Polymerase beta Faithfully and Unfaithfully Bypass an Oxidative Lesion by Time-Dependent Crystallography.
J.Am.Chem.Soc. 137 pp.5225 - 5230 2015

Experiment:

X-RAY DIFFRACTION Resolution:1.9Å R work:0.188R free:0.226

NDB ID:

NA3281

PDB ID:

4RPY 

Release:

2015-04-15

Title:

Human DNA Polymerase Beta With Gapped DNA Containing an 8-oxo-7,8-dihydro-Guanine(8-oxoG) and dCTP soaked with MgCl2 for 30 s

Classification:

TRANSFERASE/DNA

Authors:

Vyas, R., Reed, A.J., Tokarsky, E.J., Suo, Z.

Citation:

Viewing Human DNA Polymerase beta Faithfully and Unfaithfully Bypass an Oxidative Lesion by Time-Dependent Crystallography.
J.Am.Chem.Soc. 137 pp.5225 - 5230 2015

Experiment:

X-RAY DIFFRACTION Resolution:1.9Å R work:0.189R free:0.229

NDB ID:

NA3282

PDB ID:

4RPZ 

Release:

2015-04-15

Title:

Human DNA Polymerase Beta With Gapped DNA Containing an 8-oxo-7,8-dihydro-Guanine (8-oxoG)and dCTP soaked with MgCl2 for 60 s

Classification:

TRANSFERASE/DNA

Authors:

Vyas, R., Reed, A.J., Tokarsky, E.J., Suo, Z.

Citation:

Viewing Human DNA Polymerase beta Faithfully and Unfaithfully Bypass an Oxidative Lesion by Time-Dependent Crystallography.
J.Am.Chem.Soc. 137 pp.5225 - 5230 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.19Å R work:0.195R free:0.251

NDB ID:

NA3283

PDB ID:

4RQ0 

Release:

2015-04-15

Title:

Human DNA Polymerase Beta With Gapped DNA Containing an 8-oxo-7,8-dihydro-Guanine (8-oxoG)and dCTP soaked with MgCl2 for 80 s

Classification:

TRANSFERASE/DNA

Authors:

Vyas, R., Reed, A.J., Tokarsky, E.J., Suo, Z.

Citation:

Viewing Human DNA Polymerase beta Faithfully and Unfaithfully Bypass an Oxidative Lesion by Time-Dependent Crystallography.
J.Am.Chem.Soc. 137 pp.5225 - 5230 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.2Å R work:0.207R free:0.268

NDB ID:

NA3284

PDB ID:

4RQ1 

Release:

2015-04-15

Title:

Human DNA Polymerase Beta With Gapped DNA Containing an 8-oxo-7,8-dihydro-Guanine(8-oxoG) and dCTP soaked with MgCl2 for 1hr

Classification:

TRANSFERASE/DNA

Authors:

Vyas, R., Reed, A.J., Tokarsky, E.J., Suo, Z.

Citation:

Viewing Human DNA Polymerase beta Faithfully and Unfaithfully Bypass an Oxidative Lesion by Time-Dependent Crystallography.
J.Am.Chem.Soc. 137 pp.5225 - 5230 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.7Å R work:0.203R free:0.28

NDB ID:

NA3285

PDB ID:

4RQ2 

Release:

2015-04-15

Title:

Human DNA Polymerase Beta With Gapped DNA Containing an 8-oxo-7,8-dihydro-Guanine (8-oxoG)and dCTP soaked with MnCl2 for 35 s

Classification:

TRANSFERASE/DNA

Authors:

Vyas, R., Reed, A.J., Tokarsky, E.J., Suo, Z.

Citation:

Viewing Human DNA Polymerase beta Faithfully and Unfaithfully Bypass an Oxidative Lesion by Time-Dependent Crystallography.
J.Am.Chem.Soc. 137 pp.5225 - 5230 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.2Å R work:0.194R free:0.268

NDB ID:

NA3286

PDB ID:

4RQ3 

Release:

2015-04-15

Title:

Precatalytic ternary complex of Human DNA Polymerase Beta With Gapped DNA Containing an 8-oxo-7,8-dihydro-Guanine (8-oxoG) and dATP in the presence of CaCl2

Classification:

TRANSFERASE/DNA

Authors:

Vyas, R., Reed, A.J., Tokarsky, E.J., Suo, Z.

Citation:

Viewing Human DNA Polymerase beta Faithfully and Unfaithfully Bypass an Oxidative Lesion by Time-Dependent Crystallography.
J.Am.Chem.Soc. 137 pp.5225 - 5230 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.0Å R work:0.191R free:0.245

NDB ID:

NA3287

PDB ID:

4RQ4 

Release:

2015-04-15

Title:

Human DNA Polymerase Beta With Gapped DNA Containing an 8-oxo-7,8-dihydro-Guanine(8-oxoG) and dATP soaked with MgCl2 for 30 s

Classification:

TRANSFERASE/DNA

Authors:

Vyas, R., Reed, A.J., Tokarsky, E.J., Suo, Z.

Citation:

Viewing Human DNA Polymerase beta Faithfully and Unfaithfully Bypass an Oxidative Lesion by Time-Dependent Crystallography.
J.Am.Chem.Soc. 137 pp.5225 - 5230 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.1Å R work:0.189R free:0.243

NDB ID:

NA3289

PDB ID:

4RQ5 

Release:

2015-04-15

Title:

Human DNA Polymerase Beta With Gapped DNA Containing an 8-oxo-7,8-dihydro-Guanine (8-oxoG)and dATP soaked with MgCl2 for 60 s

Classification:

TRANSFERASE/DNA

Authors:

Vyas, R., Reed, A.J., Tokarsky, E.J., Suo, Z.

Citation:

Viewing Human DNA Polymerase beta Faithfully and Unfaithfully Bypass an Oxidative Lesion by Time-Dependent Crystallography.
J.Am.Chem.Soc. 137 pp.5225 - 5230 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.32Å R work:0.196R free:0.265

NDB ID:

NA3290

PDB ID:

4RQ6 

Release:

2015-04-15

Title:

Human DNA Polymerase Beta With Gapped DNA Containing an 8-oxo-7,8-dihydro-Guanine(8-oxoG) and dATP soaked with MgCl2 for 80 s

Classification:

TRANSFERASE/DNA

Authors:

Vyas, R., Reed, A.J., Tokarsky, E.J., Suo, Z.

Citation:

Viewing Human DNA Polymerase beta Faithfully and Unfaithfully Bypass an Oxidative Lesion by Time-Dependent Crystallography.
J.Am.Chem.Soc. 137 pp.5225 - 5230 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.25Å R work:0.197R free:0.252

NDB ID:

NA3291

PDB ID:

4RQ7 

Release:

2015-04-15

Title:

Human DNA Polymerase Beta With Gapped DNA Containing an 8-oxo-7,8-dihydro-Guanine (8-oxoG)and dATP soaked with MgCl2 for 1hr

Classification:

TRANSFERASE/DNA

Authors:

Vyas, R., Reed, A.J., Tokarsky, E.J., Suo, Z.

Citation:

Viewing Human DNA Polymerase beta Faithfully and Unfaithfully Bypass an Oxidative Lesion by Time-Dependent Crystallography.
J.Am.Chem.Soc. 137 pp.5225 - 5230 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.0Å R work:0.206R free:0.26

NDB ID:

NA3293

PDB ID:

4RQ8 

Release:

2015-04-15

Title:

Human DNA Polymerase Beta With Gapped DNA Containing an 8-oxo-7,8-dihydro-Guanine(8-oxoG) and dATP soaked with MnCl2 for 35 s

Classification:

TRANSFERASE/DNA

Authors:

Vyas, R., Reed, A.J., Tokarsky, E.J., Suo, Z.

Citation:

Viewing Human DNA Polymerase beta Faithfully and Unfaithfully Bypass an Oxidative Lesion by Time-Dependent Crystallography.
J.Am.Chem.Soc. 137 pp.5225 - 5230 2015

Experiment:

X-RAY DIFFRACTION Resolution:2.0Å R work:0.206R free:0.27

NDB ID:

NA3301

PDB ID:

4RTJ 

Release:

2015-04-15

Title:

A non-cognate complex of Escherichia coli DNA Adenine Methyltransferase (DAM) with DNA and Sinefungin

Classification:

Transferase/DNA

Authors:

Horton, J.R., Zhang, X., Blumenthal, R.M., Cheng, X.

Citation:

Structures of Escherichia coli DNA adenine methyltransferase (Dam) in complex with a non-GATC sequence: potential implications for methylation-independent transcriptional repression.
Nucleic Acids Res. 43 pp.4296 - 4308 2015

Experiment:

X-RAY DIFFRACTION Resolution:1.99Å R work:0.214R free:0.236

NDB ID:

NA3302

PDB ID:

4RTK 

Release:

2015-04-15

Title:

Complex of Escherichia coli DNA Adenine Methyltransferase (DAM) with SAH and with DNA Containing Distal Pap Regulon Sequence

Classification:

Transferase/DNA

Authors:

Horton, J.R., Zhang, X., Blumenthal, R.M., Cheng, X.

Citation:

Structures of Escherichia coli DNA adenine methyltransferase (Dam) in complex with a non-GATC sequence: potential implications for methylation-independent transcriptional repression.
Nucleic Acids Res. 43 pp.4296 - 4308 2015

Experiment:

X-RAY DIFFRACTION Resolution:1.96Å R work:0.21R free:0.223