A Portal for Three-dimensional Structural Information about Nucleic Acids
As of 20-Feb-2019 number of released structures: 10049
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

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: 6806  Download results as an excel file       Gallery view

NDB ID:

 6DV9

PDB ID:

6DV9 

Release:

2019-02-20

Title:

Crystal structure of Mycobacterium tuberculosis transcription initiation complex(ECF sigma factor L) containing 5nt RNA with 4nt spacer

Classification:

TRANSFERASE/DNA/RNA

Authors:

Lin, W., Mandal, S., Degen, D., Cho, M.S., Feng, Y., Das, K., Ebright, R.H.

Citation:

Structural basis of ECF-sigma-factor-dependent transcription initiation
Nat Commun pp. - 2019

Experiment:

 X-RAY DIFFRACTION Resolution:3.8Å R work:0.184R free:0.231

NDB ID:

 6DVB

PDB ID:

6DVB 

Release:

2019-02-20

Title:

Crystal structure of Mycobacterium tuberculosis transcription initiation complex(ECF sigma factor L) containing 5nt RNA with 5nt spacer

Classification:

TRANSFERASE/DNA/RNA

Authors:

Lin, W., Mandal, S., Degen, D., Cho, M.S., Feng, Y., Das, K., Ebright, R.H.

Citation:

Structural basis of ECF-sigma-factor-dependent transcription initiation
Nat Commun pp. - 2019

Experiment:

 X-RAY DIFFRACTION Resolution:3.8Å R work:0.201R free:0.24

NDB ID:

 6DVC

PDB ID:

6DVC 

Release:

2019-02-20

Title:

Crystal structure of Mycobacterium tuberculosis transcription initiation complex(ECF sigma factor L) containing 5nt RNA with 6nt spacer

Classification:

TRANSFERASE/DNA/RNA

Authors:

Lin, W., Mandal, S., Degen, D., Cho, M.S., Feng, Y., Das, K., Ebright, R.H.

Citation:

Structural basis of ECF-sigma-factor-dependent transcription initiation
Nat Commun pp. - 2019

Experiment:

 X-RAY DIFFRACTION Resolution:3.3Å R work:0.197R free:0.234

NDB ID:

 6DVD

PDB ID:

6DVD 

Release:

2019-02-20

Title:

Crystal structure of Mycobacterium tuberculosis transcription initiation complex(ECF sigma factor L) with 6 nt spacer and bromine labelled in position ""-11

Classification:

TRANSFERASE/DNA

Authors:

Lin, W., Mandal, S., Degen, D., Cho, M.S., Feng, Y., Das, K., Ebright, R.H.

Citation:

Structural basis of ECF-sigma-factor-dependent transcription initiation
Nat Commun pp. - 2019

Experiment:

 X-RAY DIFFRACTION Resolution:3.899Å R work:0.22R free:0.246

NDB ID:

 6DVE

PDB ID:

6DVE 

Release:

2019-02-20

Title:

Crystal structure of Mycobacterium tuberculosis transcription initiation complex(ECF selenomethionine-labelled sigma factor L) with 6 nt spacer

Classification:

TRANSFERASE/DNA

Authors:

Lin, W., Mandal, S., Degen, D., Cho, M.S., Feng, Y., Das, K., Ebright, R.H.

Citation:

Structural basis of ECF-sigma-factor-dependent transcription initiation
Nat Commun pp. - 2019

Experiment:

 X-RAY DIFFRACTION Resolution:3.812Å R work:0.199R free:0.248

NDB ID:

 6IR8

PDB ID:

6IR8 

Release:

2019-02-20

Title:

Rice WRKY/DNA complex

Classification:

TRANSCRIPTION/DNA

Authors:

Cheng, X., Zhao, Y., Jiang, Q., Yang, J., Zhao, W., Taylor, I.A., Peng, Y., Wang, D., Liu, J.

Citation:

Structural basis of dimerization and dual W-box DNA recognition by rice WRKY domain
Nucleic Acids Res. pp. - 2019

Experiment:

 X-RAY DIFFRACTION Resolution:2.3Å R work:0.192R free:0.244

NDB ID:

 5Z23

PDB ID:

5Z23 

Release:

2019-02-13

Title:

Crystal structure of the nucleosome containing a chimeric histone H3/CENP-A CATD

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Arimura, Y., Tachiwana, H., Takagi, H., Hori, T., Kimura, H., Fukagawa, T., Kurumizaka, H.

Citation:

The CENP-A centromere targeting domain facilitates H4K20 monomethylation in the nucleosome by structural polymorphism.
Nat Commun 10 pp.576 - 576 2019

Experiment:

 X-RAY DIFFRACTION Resolution:2.73Å R work:0.202R free:0.261

NDB ID:

 5ZAS

PDB ID:

5ZAS 

Release:

2019-02-13

Title:

Crystal structure of 5-formylcytosine containing decamer dsDNA

Classification:

DNA

Authors:

Zhang, L., Fu, T.R.

Citation:

Crystal structure of 5-formylcytosine containing decamer dsDNA
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:1.56Å R work:0.146R free:0.162

NDB ID:

 5ZAT

PDB ID:

5ZAT 

Release:

2019-02-13

Title:

Crystal structure of 5-carboxylcytosine containing decamer dsDNA

Classification:

DNA

Authors:

Zhang, L., Fu, T.R.

Citation:

Crystal structure of 5-carboxylcytosine containing decamer dsDNA
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:1.06Å R work:0.156R free:0.181

NDB ID:

 5ZBX

PDB ID:

5ZBX 

Release:

2019-02-13

Title:

The crystal structure of the nucleosome containing histone H3.1 CATD(V76Q, K77D)

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Arimura, Y., Tachiwana, H., Takagi, H., Hori, T., Kimura, H., Fukagawa, T., Kurumizaka, H.

Citation:

The CENP-A centromere targeting domain facilitates H4K20 monomethylation in the nucleosome by structural polymorphism.
Nat Commun 10 pp.576 - 576 2019

Experiment:

 X-RAY DIFFRACTION Resolution:2.58Å R work:0.213R free:0.249

NDB ID:

 6HP7

PDB ID:

6HP7 

Release:

2019-02-13

Title:

ARBITRIUM PEPTIDE RECEPTOR FROM SPBETA PHAGE in complex with 43 mer DNA

Classification:

DNA BINDING PROTEIN

Authors:

Gallego Del Sol, F., Penades, J.R., Marina, A.

Citation:

Deciphering the Molecular Mechanism Underpinning Phage Arbitrium Communication Systems.
Mol. Cell pp. - 2019

Experiment:

 X-RAY DIFFRACTION Resolution:2.2Å R work:0.216R free:0.246

NDB ID:

 6IDG

PDB ID:

6IDG 

Release:

2019-02-13

Title:

antibody 64M-5 Fab in complex with dT(6-4)T

Classification:

IMMUNE SYSTEM

Authors:

Yokoyama, H., Mizutani, R., Noguchi, S., Hayashida, N.

Citation:

Structures of the antibody 64M-5 Fab and its complex with dT(6-4)T indicate induced-fit and high-affinity mechanisms
Acta Crystallogr.,Sect.F 75 pp.80 - 88 2019

Experiment:

 X-RAY DIFFRACTION Resolution:2.0Å R work:0.192R free:0.239

NDB ID:

 6IUC

PDB ID:

6IUC 

Release:

2019-02-13

Title:

Structure of Helicobacter pylori Soj-ATP complex bound to DNA

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Chu, C.H., Yen, C.Y., Chen, B.W., Lin, M.G., Wang, L.H., Tang, K.Z., Hsiao, C.D., Sun, Y.J.

Citation:

Crystal structures of HpSoj-DNA complexes and the nucleoid-adaptor complex formation in chromosome segregation.
Nucleic Acids Res. pp. - 2018

Experiment:

 X-RAY DIFFRACTION Resolution:3.4Å R work:0.202R free:0.263

NDB ID:

 6IUD

PDB ID:

6IUD 

Release:

2019-02-13

Title:

Structure of Helicobacter pylori Soj-ADP complex bound to DNA

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Chu, C.H., Yen, C.Y., Chen, B.W., Lin, M.G., Wang, L.H., Tang, K.Z., Hsiao, C.D., Sun, Y.J.

Citation:

Crystal structures of HpSoj-DNA complexes and the nucleoid-adaptor complex formation in chromosome segregation.
Nucleic Acids Res. pp. - 2018

Experiment:

 X-RAY DIFFRACTION Resolution:2.506Å R work:0.204R free:0.257

NDB ID:

 6MXO

PDB ID:

6MXO 

Release:

2019-02-13

Title:

Structure of HPoleta incorporating dCTP opposite the 3-prime Pt(DACH)-GG

Classification:

NUCLEAR PROTEIN/DNA

Authors:

Ouzon-Shubeita, H., Baker, M., Koag, M.C., Lee, S.

Citation:

Structural basis for the bypass of the major oxaliplatin-DNA adducts by human DNA polymerase eta.
Biochem. J. pp. - 2019

Experiment:

 X-RAY DIFFRACTION Resolution:2.04Å R work:0.174R free:0.229

NDB ID:

 6NEB

PDB ID:

6NEB 

Release:

2019-02-13

Title:

MYC Promoter G-Quadruplex with 1:6:1 loop length

Classification:

DNA

Authors:

Dickerhoff, J., Onel, B., Chen, L., Chen, Y., Yang, D.

Citation:

Solution Structure of a MYC Promoter G-Quadruplex with 1:6:1 Loop Length
Acs Omega 4 pp.2533 - 2539 2019

Experiment:

 SOLUTION NMR

NDB ID:

 6AKO

PDB ID:

6AKO 

Release:

2019-02-06

Title:

Crystal Structure of FOXC2 DBD Bound to DBE2 DNA

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Chen, X., Wei, H., Li, J., Liang, X., Dai, S., Jiang, L., Guo, M., Qu, L., Chen, Z., Chen, L., Chen, Y.

Citation:

Structural basis for DNA recognition by FOXC2.
Nucleic Acids Res. pp. - 2019

Experiment:

 X-RAY DIFFRACTION Resolution:2.396Å R work:0.227R free:0.25

NDB ID:

 6AKP

PDB ID:

6AKP 

Release:

2019-02-06

Title:

Crystal Structural of FOXC2 DNA binding domain bound to PC promoter

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Chen, X., Wei, H., Li, J., Liang, X., Dai, S., Jiang, L., Guo, M., Qu, L., Chen, Z., Chen, L., Chen, Y.

Citation:

Structural basis for DNA recognition by FOXC2.
Nucleic Acids Res. pp. - 2019

Experiment:

 X-RAY DIFFRACTION Resolution:2.323Å R work:0.217R free:0.246

NDB ID:

 6FL1

PDB ID:

6FL1 

Release:

2019-02-06

Title:

Crystal structure of the complex between the Lactococcus lactis FPG mutant T221P and a Fapy-dG containing DNA

Classification:

HYDROLASE

Authors:

Coste, F., Castaing, B., Ober, M., Carell, T.

Citation:

Crystal structure of the complex between the Lactococcus lactis FPG mutant T221P and a Fapy-dG containing DNA
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:1.6Å R work:0.163R free:0.178

NDB ID:

 6G1L

PDB ID:

6G1L 

Release:

2019-02-06

Title:

MITF/CLEARbox structure

Classification:

TRANSCRIPTION

Authors:

Moller, K., Sigurbjornsdottir, S., Arnthorsson, A.O., Pogenberg, V., Dilshat, R., Fock, V., Brynjolfsdottir, S.H., Bindesboll, C., Bessadottir, M., Ogmundsdottir, H.M., Simonsen, A., Larue, L., Wilmanns, M., Thorsson, V., Steingrimsson, E., Ogmundsdottir, M.H.

Citation:

MITF has a central role in regulating starvation-induced autophagy in melanoma.
Sci Rep 9 pp.1055 - 1055 2019

Experiment:

 X-RAY DIFFRACTION Resolution:2.4Å R work:0.214R free:0.252

NDB ID:

 5Z7D

PDB ID:

5Z7D 

Release:

2019-01-30

Title:

p204HINab-dsDNA complex structure

Classification:

IMMUNE SYSTEM

Authors:

Jin, T., Jiang, J., Xiao, T.S.

Citation:

p204-HINab:dsDNA complex structure
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:4.504Å R work:0.265R free:0.29

NDB ID:

 5ZOE

PDB ID:

5ZOE 

Release:

2019-01-30

Title:

Crystal Structure of D181A hFen1 in complex with DNA

Classification:

HYDROLASE/DNA

Authors:

Xu, H., Shi, R., Han, W., Cheng, J., Xu, X., Cheng, K., Wang, L., Tian, B., Zheng, L., Shen, B., Hua, Y., Zhao, Y.

Citation:

Structural basis of 5' flap recognition and protein-protein interactions of human flap endonuclease 1.
Nucleic Acids Res. 46 pp.11315 - 11325 2018

Experiment:

 X-RAY DIFFRACTION Resolution:1.95Å R work:0.215R free:0.227

NDB ID:

 5ZOF

PDB ID:

5ZOF 

Release:

2019-01-30

Title:

Crystal Structure of D181A/R192F hFen1 in complex with DNA

Classification:

HYDROLASE/DNA

Authors:

Xu, H., Shi, R., Han, W., Cheng, J., Xu, X., Cheng, K., Wang, L., Tian, B., Zheng, L., Shen, B., Hua, Y., Zhao, Y.

Citation:

Structural basis of 5' flap recognition and protein-protein interactions of human flap endonuclease 1.
Nucleic Acids Res. 46 pp.11315 - 11325 2018

Experiment:

 X-RAY DIFFRACTION Resolution:2.249Å R work:0.235R free:0.268

NDB ID:

 5ZOG

PDB ID:

5ZOG 

Release:

2019-01-30

Title:

Crystal Structure of R192F hFen1 in complex with DNA

Classification:

HYDROLASE/DNA

Authors:

Xu, H., Shi, R., Han, W., Cheng, J., Xu, X., Cheng, K., Wang, L., Tian, B., Zheng, L., Shen, B., Hua, Y., Zhao, Y.

Citation:

Structural basis of 5' flap recognition and protein-protein interactions of human flap endonuclease 1.
Nucleic Acids Res. 46 pp.11315 - 11325 2018

Experiment:

 X-RAY DIFFRACTION Resolution:2.299Å R work:0.208R free:0.231

NDB ID:

 6CST

PDB ID:

6CST 

Release:

2019-01-30

Title:

Structure of human DNA polymerase kappa with DNA

Classification:

REPLICATION, TRANSFERASE/DNA

Authors:

Jha, V., Ling, H.

Citation:

2.0 angstrom resolution crystal structure of human pol kappa reveals a new catalytic function of N-clasp in DNA replication.
Sci Rep 8 pp.15125 - 15125 2018

Experiment:

 X-RAY DIFFRACTION Resolution:2.0Å R work:0.198R free:0.234

NDB ID:

 6DIA

PDB ID:

6DIA 

Release:

2019-01-30

Title:

DNA polymerase beta substrate complex with templating cytosine and incoming Fapy-dGTP analog

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Smith, M.R., Shock, D.D., Beard, W.A., Greenberg, M.M., Freudenthal, B.D., Wilson, S.H.

Citation:

A guardian residue hinders insertion of a Fapy•dGTP analog by modulating the open-closed DNA polymerase transition.
Nucleic Acids Res. pp. - 2019

Experiment:

 X-RAY DIFFRACTION Resolution:1.969Å R work:0.196R free:0.246

NDB ID:

 6DIC

PDB ID:

6DIC 

Release:

2019-01-30

Title:

D276G DNA polymerase beta substrate complex with templating cytosine and incoming Fapy-dGTP analog

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Smith, M.R., Shock, D.D., Beard, W.A., Greenberg, M.M., Freudenthal, B.D., Wilson, S.H.

Citation:

A guardian residue hinders insertion of a Fapy•dGTP analog by modulating the open-closed DNA polymerase transition.
Nucleic Acids Res. pp. - 2019

Experiment:

 X-RAY DIFFRACTION Resolution:1.992Å R work:0.175R free:0.231

NDB ID:

 6FBU

PDB ID:

6FBU 

Release:

2019-01-30

Title:

Crystal structure of the DNA repair enzyme endonuclease-VIII (Nei) from E. coli (E2Q) in complex with AP-site containing DNA substrate

Classification:

HYDROLASE

Authors:

Pomyalov, S., Lansky, S., Golan, G., Zharkov, D.O., Grollman, A.P., Shoham, G.

Citation:

Crystal structure of the DNA repair enzyme endonuclease-VIII (Nei) from E. coli (E2Q) in complex with AP-site containing DNA substrate
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.0Å R work:0.24R free:0.28

NDB ID:

 6FIX

PDB ID:

6FIX 

Release:

2019-01-30

Title:

antitoxin GraA in complex with its operator

Classification:

ANTITOXIN

Authors:

Talavera, A., Loris, R.

Citation:

A dual role in regulation and toxicity for the intrinsically disordered N-terminus of the toxin GraT
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:3.8Å R work:0.246R free:0.285

NDB ID:

 6FWK

PDB ID:

6FWK 

Release:

2019-01-30

Title:

The crystal structure of Pol2CORE-M644G in complex with DNA and an incoming nucleotide

Classification:

DNA BINDING PROTEIN

Authors:

Parkash, V., Kulkarni, Y., Ter Beek, J., Shcherbakova, P.V., Kamerlin, S.C.L., Johansson, E.

Citation:

Structural consequence of the most frequently recurring cancer-associated substitution in DNA polymerase epsilon.
Nat Commun 10 pp.373 - 373 2019

Experiment:

 X-RAY DIFFRACTION Resolution:2.503Å R work:0.222R free:0.262

NDB ID:

 6G0A

PDB ID:

6G0A 

Release:

2019-01-30

Title:

The crystal structure of the Pol2 catalytic domain of DNA polymerase epsilon carrying a P301R substitution.

Classification:

DNA BINDING PROTEIN

Authors:

Parkash, V., Kulkarni, Y., Ter Beek, J., Shcherbakova, P.V., Kamerlin, S.C.L., Johansson, E.

Citation:

Structural consequence of the most frequently recurring cancer-associated substitution in DNA polymerase epsilon.
Nat Commun 10 pp.373 - 373 2019

Experiment:

 X-RAY DIFFRACTION Resolution:2.62Å R work:0.224R free:0.265

NDB ID:

 6H5R

PDB ID:

6H5R 

Release:

2019-01-30

Title:

Structure of the complex of a human telomeric DNA with bis(1-butyl-3-methyl-imidazole-2-ylidene) gold(I)

Classification:

DNA

Authors:

Guarra, F., Marzo, T., Ferraroni, M., Papi, F., Bazzicalupi, C., Gratteri, P., Pescitelli, G., Messori, L., Biver, T., Gabbiani, C.

Citation:

Interaction of a gold(i) dicarbene anticancer drug with human telomeric DNA G-quadruplex: solution and computationally aided X-ray diffraction analysis.
Dalton Trans 47 pp.16132 - 16138 2018

Experiment:

 X-RAY DIFFRACTION Resolution:2.0Å R work:0.228R free:0.252

NDB ID:

 6I8A

PDB ID:

6I8A 

Release:

2019-01-30

Title:

The crystal structure of the Pol2 catalytic domain of DNA polymerase epsilon carrying a P301R substitution.

Classification:

DNA BINDING PROTEIN

Authors:

Parkash, V., Kulkarni, Y., Ter Beek, J., Shcherbakova, P.V., Kamerlin, S.C.L., Johansson, E.

Citation:

Structural consequence of the most frequently recurring cancer-associated substitution in DNA polymerase epsilon.
Nat Commun 10 pp.373 - 373 2019

Experiment:

 X-RAY DIFFRACTION Resolution:2.652Å R work:0.228R free:0.279

NDB ID:

 6IA0

PDB ID:

6IA0 

Release:

2019-01-30

Title:

Human telomeric G-quadruplex with 8-oxo-G substitution in the central G-quartet

Classification:

DNA

Authors:

Bielskute, S., Plavec, J., Podbevsek, P.

Citation:

Impact of Oxidative Lesions on the Human Telomeric G-Quadruplex.
J. Am. Chem. Soc. 141 pp.2594 - 2603 2019

Experiment:

 SOLUTION NMR

NDB ID:

 6IA4

PDB ID:

6IA4 

Release:

2019-01-30

Title:

Human telomeric G-quadruplex with 8-oxo-G substitution in the outer G-quartet

Classification:

DNA

Authors:

Bielskute, S., Plavec, J., Podbevsek, P.

Citation:

Impact of Oxidative Lesions on the Human Telomeric G-Quadruplex.
J. Am. Chem. Soc. 141 pp.2594 - 2603 2019

Experiment:

 SOLUTION NMR

NDB ID:

 6IK9

PDB ID:

6IK9 

Release:

2019-01-30

Title:

HIV-1 reverse transcriptase with Q151M/G112S/D113A/Y115F/F116Y/F160L/I159L:DNA:dGTP ternary complex

Classification:

TRANSFERASE/DNA

Authors:

Yasutake, Y., Hattori, S.I., Tamura, N., Matsuda, K., Kohgo, S., Maeda, K., Mitsuya, H.

Citation:

Active-site deformation in the structure of HIV-1 RT with HBV-associated septuple amino acid substitutions rationalizes the differential susceptibility of HIV-1 and HBV against 4'-modified nucleoside RT inhibitors.
Biochem. Biophys. Res. Commun. 509 pp.943 - 948 2019

Experiment:

 X-RAY DIFFRACTION Resolution:2.435Å R work:0.186R free:0.225

NDB ID:

 6IKA

PDB ID:

6IKA 

Release:

2019-01-30

Title:

HIV-1 reverse transcriptase with Q151M/G112S/D113A/Y115F/F116Y/F160L/I159L:DNA:entecavir-triphosphate ternary complex

Classification:

TRANSFERASE/DNA

Authors:

Yasutake, Y., Hattori, S.I., Tamura, N., Matsuda, K., Kohgo, S., Maeda, K., Mitsuya, H.

Citation:

Active-site deformation in the structure of HIV-1 RT with HBV-associated septuple amino acid substitutions rationalizes the differential susceptibility of HIV-1 and HBV against 4'-modified nucleoside RT inhibitors.
Biochem. Biophys. Res. Commun. 509 pp.943 - 948 2019

Experiment:

 X-RAY DIFFRACTION Resolution:2.598Å R work:0.185R free:0.231

NDB ID:

 6MR7

PDB ID:

6MR7 

Release:

2019-01-30

Title:

DNA polymerase beta substrate complex with templating adenine and incoming Fapy-dGTP analog

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Smith, M.R., Shock, D.D., Beard, W.A., Greenberg, M.M., Freudenthal, B.D., Wilson, S.H.

Citation:

A guardian residue hinders insertion of a Fapy•dGTP analog by modulating the open-closed DNA polymerase transition.
Nucleic Acids Res. pp. - 2019

Experiment:

 X-RAY DIFFRACTION Resolution:2.144Å R work:0.185R free:0.251

NDB ID:

 6MR8

PDB ID:

6MR8 

Release:

2019-01-30

Title:

D276G DNA polymerase beta substrate complex with templating adenine and incoming Fapy-dGTP analog

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Smith, M.R., Shock, D.D., Beard, W.A., Greenberg, M.M., Freudenthal, B.D., Wilson, S.H.

Citation:

A guardian residue hinders insertion of a Fapy•dGTP analog by modulating the open-closed DNA polymerase transition.
Nucleic Acids Res. pp. - 2019

Experiment:

 X-RAY DIFFRACTION Resolution:1.897Å R work:0.196R free:0.238

NDB ID:

 6NLC

PDB ID:

6NLC 

Release:

2019-01-30

Title:

Crystal structure of HMCES SRAP domain in complex with 6-nucleotide 3' overhang DNA

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Halabelian, L., Li, Y., Ravichandran, M., Zeng, H., Bountra, C., Edwards, A.M., Arrowsmith, C.H.

Citation:

Crystal structure of HMCES SRAP domain in complex with 3' overhang DNA
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.0Å R work:0.22R free:0.273

NDB ID:

 6NLD

PDB ID:

6NLD 

Release:

2019-01-30

Title:

Crystal Structure of HMCES SRAP Domain in Complex With 3' Overhang DNA

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Halabelian, L., Li, Y., Ravichandran, M., Zeng, H., Bountra, C., Edwards, A.M., Arrowsmith, C.H.

Citation:

Crystal Structure of HMCES SRAP Domain in Complex With 3' Overhang DNA
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.05Å R work:0.21R free:0.26

NDB ID:

 6DWT

PDB ID:

6DWT 

Release:

2019-01-23

Title:

Crystal structure of double-stranded DNA GAGGCCTC, crystals grown in Mg2+

Classification:

DNA

Authors:

Hou, C., Tsodikov, O.V.

Citation:

Utilizing guanine coordinated Zn2+ to determine DNA crystal structures by single-wavelength anomalous diffraction
Acta Crystallogr.,Sect.D 75 pp.32 - 2019

Experiment:

 X-RAY DIFFRACTION Resolution:1.6Å R work:0.186R free:0.219

NDB ID:

 6DXJ

PDB ID:

6DXJ 

Release:

2019-01-23

Title:

Crystal structure of double-stranded DNA GAGGCCTC; crystals grown in Zn2+

Classification:

DNA

Authors:

Hou, C., Tsodikov, O.V.

Citation:

Utilizing guanine coordinated Zn2+ to determine DNA crystal structures by single-wavelength anomalous diffraction
Acta Crystallogr.,Sect.D 75 pp.32 - 2019

Experiment:

 X-RAY DIFFRACTION Resolution:1.65Å R work:0.213R free:0.255

NDB ID:

 6DY5

PDB ID:

6DY5 

Release:

2019-01-23

Title:

Crystal structure of double-stranded DNA AGGGATCCCT in complex with Zn2+

Classification:

DNA

Authors:

Hou, C., Tsodikov, O.V.

Citation:

Utilizing guanine coordinated Zn2+ to determine DNA crystal structures by single-wavelength anomalous diffraction
Acta Crystallogr.,Sect.D 75 pp.32 - 2019

Experiment:

 X-RAY DIFFRACTION Resolution:1.26Å R work:0.214R free:0.253

NDB ID:

 6DY9

PDB ID:

6DY9 

Release:

2019-01-23

Title:

Crystal structure of double-stranded DNA GGGATCCC; crystals grown in Zn2+

Classification:

DNA

Authors:

Hou, C., Tsodikov, O.V.

Citation:

Utilizing guanine coordinated Zn2+ to determine DNA crystal structures by single-wavelength anomalous diffraction
Acta Crystallogr.,Sect.D 75 pp.32 - 2019

Experiment:

 X-RAY DIFFRACTION Resolution:2.3Å R work:0.253R free:0.275

NDB ID:

 6I1K

PDB ID:

6I1K 

Release:

2019-01-23

Title:

Crystal structure of catalytically inactive FnCas12a in complex with a crRNA guide and a dsDNA target

Classification:

HYDROLASE

Authors:

Swarts, D.C., Jinek, M.

Citation:

Mechanistic Insights into the cis- and trans-Acting DNase Activities of Cas12a.
Mol. Cell 73 pp.589 - 600.e4 2019

Experiment:

 X-RAY DIFFRACTION Resolution:2.65Å R work:0.248R free:0.263

NDB ID:

 6I1L

PDB ID:

6I1L 

Release:

2019-01-23

Title:

Crystal structure of FnCas12a in complex with a crRNA guide and ssDNA target

Classification:

HYDROLASE

Authors:

Swarts, D.C., Jinek, M.

Citation:

Mechanistic Insights into the cis- and trans-Acting DNase Activities of Cas12a.
Mol. Cell 73 pp.589 - 600.e4 2019

Experiment:

 X-RAY DIFFRACTION Resolution:2.98Å R work:0.203R free:0.231

NDB ID:

 6A1O

PDB ID:

6A1O 

Release:

2019-01-16

Title:

Crystal structures of disordered Z-type helices

Classification:

DNA

Authors:

Karthik, S., Mandal, P.K., Thirugnanasambandam, A., Gautham, N.

Citation:

Crystal structures of disordered Z-type helices.
Nucleosides Nucleotides Nucleic Acids pp.1 - 15 2018

Experiment:

 X-RAY DIFFRACTION Resolution:2.49Å R work:0.279R free:0.299

NDB ID:

 6A1Q

PDB ID:

6A1Q 

Release:

2019-01-16

Title:

Crystal structures of disordered Z-type helices

Classification:

DNA

Authors:

Karthik, S., Mandal, P.K., Thirugnanasambandam, A., Gautham, N.

Citation:

Crystal structures of disordered Z-type helices.
Nucleosides Nucleotides Nucleic Acids pp.1 - 15 2018

Experiment:

 X-RAY DIFFRACTION Resolution:2.501Å R work:0.274R free:0.276

NDB ID:

 6A2H

PDB ID:

6A2H 

Release:

2019-01-16

Title:

Architectural roles of Cren7 in folding crenarchaeal chromatin filament

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Zhang, Z., Zhao, M., Chen, Y., Wang, L., Liu, Q., Dong, Y., Gong, Y., Huang, L.

Citation:

Architectural roles of Cren7 in folding crenarchaeal chromatin filament.
Mol. Microbiol. pp. - 2018

Experiment:

 X-RAY DIFFRACTION Resolution:2.3Å R work:0.21R free:0.277

ndbadmin@ndbserver.rutgers.edu ©1995-2019 The Nucleic Acid Database Project | Rutgers, The State University of New Jersey