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As of 5-Aug-2020 number of released structures: 10886
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Polymer Type: All + Protein Function: All + Structural Features: All + Experimental Method: All

Results: 7389  Download results as an excel file       Gallery view

NDB ID:

 6K2J

PDB ID:

6K2J 

Release:

2020-08-05

Title:

Crystal Structure of the DNA Complex of C. crescentus GapR

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Huang, Q., Duan, B., Dong, X., Fan, S., Xia, B.

Citation:

GapR Binds DNA through Dynamic Opening of Its Tetrameric Interface.
Nucleic Acids Res. pp. - 2020

Experiment:

 X-RAY DIFFRACTION Resolution:2.4Å R work:0.22R free:0.268

NDB ID:

 6Y93

PDB ID:

6Y93 

Release:

2020-08-05

Title:

Crystal structure of the DNA-binding domain of the Nucleoid Occlusion Factor (Noc) complexed to the Noc-binding site (NBS)

Classification:

DNA BINDING PROTEIN

Authors:

Jalal, A.S.B., Tran, N.T., Stevenson, C.E., Chan, E.W., Lo, R., Tan, X., Noy, A., Lawson, D.M., Le, T.B.K.

Citation:

Diversification of DNA-Binding Specificity by Permissive and Specificity-Switching Mutations in the ParB/Noc Protein Family.
Cell Rep 32 pp.107928 - 107928 2020

Experiment:

 X-RAY DIFFRACTION Resolution:2.23Å R work:0.231R free:0.279

NDB ID:

 6M6J

PDB ID:

6M6J 

Release:

2020-07-29

Title:

NMR solution structure of a DNA minidumbbell containing an abasic bulge between two CTTG repeats

Classification:

DNA

Authors:

Wan, L., Lam, S.L., Lee, H.K., Guo, P.

Citation:

Rational Design of a Reversible Mg2+/EDTA-controlled Molecular Switch Based on a DNA Minidumbbell
Chem.Commun.(Camb.) pp. - 2020

Experiment:

 SOLUTION NMR

NDB ID:

 6M6K

PDB ID:

6M6K 

Release:

2020-07-29

Title:

NMR solution structure of a DNA minidumbbell containing an abasic bulge between two CCTG repeats

Classification:

DNA

Authors:

Wan, L., Lam, S.L., Lee, H.K., Guo, P.

Citation:

Rational Design of a Reversible Mg2+/EDTA-controlled Molecular Switch Based on a DNA Minidumbbell
Chem.Commun.(Camb.) pp. - 2020

Experiment:

 SOLUTION NMR

NDB ID:

 6SYK

PDB ID:

6SYK 

Release:

2020-07-29

Title:

Guanine-rich oligonucleotide with 5'- and 3'-GC ends form G-quadruplex with A(GGGG)A hexad, GCGC- and G-quartets and two symmetric GG and AA base pair

Classification:

DNA

Authors:

Pavc, D., Wang, B., Spindler, L., Drevensek-Olenik, I., Plavec, J., Sket, P.

Citation:

GC ends control topology of DNA G-quadruplexes and their cation-dependent assembly.
Nucleic Acids Res. 48 pp.2749 - 2761 2020

Experiment:

 SOLUTION NMR

NDB ID:

 6KXV

PDB ID:

6KXV 

Release:

2020-07-22

Title:

Crystal structure of a nucleosome containing Leishmania histone H3

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Dacher, M., Tachiwana, H., Horikoshi, N., Kujirai, T., Taguchi, H., Kimura, H., Kurumizaka, H.

Citation:

Incorporation and influence of Leishmania histone H3 in chromatin.
Nucleic Acids Res. 47 pp.11637 - 11648 2019

Experiment:

 X-RAY DIFFRACTION Resolution:3.63Å R work:0.22R free:0.263

NDB ID:

 6LMR

PDB ID:

6LMR 

Release:

2020-07-22

Title:

Solution structure of cold shock domain and ssDNA complex

Classification:

DNA BINDING PROTEIN

Authors:

Fan, J., Yang, D.

Citation:

Solution structure of cold shock domain and ssDNA complex
To Be Published pp. - 0

Experiment:

 SOLUTION NMR

NDB ID:

 6SX6

PDB ID:

6SX6 

Release:

2020-07-22

Title:

Guanine-rich oligonucleotide with 5'-GC end form G-quadruplex with A(GGGG)A hexad, GCGC- and G-quartets and two symmetric GG and AA base pairs

Classification:

DNA

Authors:

Pavc, D., Wang, B., Spindler, L., Drevensek-Olenik, I., Plavec, J., Sket, P.

Citation:

GC ends control topology of DNA G-quadruplexes and their cation-dependent assembly.
Nucleic Acids Res. 48 pp.2749 - 2761 2020

Experiment:

 SOLUTION NMR

NDB ID:

 6W2M

PDB ID:

6W2M 

Release:

2020-07-22

Title:

Abortive ternary complex crystal structure of DNA polymerase Beta with 8OG-dC base pair at the primer terminus and flipped out dA

Classification:

TRANSFERASE/DNA

Authors:

Batra, V.K., Wilson, S.H.

Citation:

Structure of a DNA polymerase abortive complex with the 8OG:dA base pair at the primer terminus.
Commun Biol 3 pp.348 - 348 2020

Experiment:

 X-RAY DIFFRACTION Resolution:1.998Å R work:0.193R free:0.238

NDB ID:

 6WC2

PDB ID:

6WC2 

Release:

2020-07-22

Title:

Crystal Structure of a Ternary MEF2 Chimera/NKX2-5/myocardin enhancer DNA Complex

Classification:

TRANSCRIPTION

Authors:

Lei, X., Zhao, J., Sagendorf, J., Rajashekar, N., Xu, J., Machado, A.C.D., Sen, C., Rohs, R., Feng, P., Chen, L.

Citation:

Crystal Structures of Ternary Complexes of MEF2 and NKX2-5 Bound to DNA Reveal a Disease Related Protein-Protein Interaction Interface.
J.Mol.Biol. pp. - 2020

Experiment:

 X-RAY DIFFRACTION Resolution:2.1Å R work:0.185R free:0.224

NDB ID:

 6WC5

PDB ID:

6WC5 

Release:

2020-07-22

Title:

Crystal Structure of a Ternary MEF2B/NKX2-5/myocardin enhancer DNA Complex

Classification:

TRANSCRIPTION

Authors:

Lei, X., Zhao, J., Sagendorf, J., Rajashekar, N., Xu, J., Machado, A.C.D., Sen, C., Rohs, R., Feng, P., Chen, L.

Citation:

Crystal Structures of Ternary Complexes of MEF2 and NKX2-5 Bound to DNA Reveal a Disease Related Protein-Protein Interaction Interface.
J.Mol.Biol. pp. - 2020

Experiment:

 X-RAY DIFFRACTION Resolution:2.9Å R work:0.205R free:0.25

NDB ID:

 6WK7

PDB ID:

6WK7 

Release:

2020-07-22

Title:

Crystal Structure Analysis of a poly(thymine) DNA duplex

Classification:

DNA

Authors:

Li, Q., Zhao, J., Liu, L., Jonchhe, S., Rizzuto, F.J., Mandal, S., He, H., Wei, S., Sleiman, H.F., Mao, H., Mao, C.

Citation:

A poly(thymine)-melamine duplex for the assembly of DNA nanomaterials.
Nat Mater pp. - 2020

Experiment:

 X-RAY DIFFRACTION Resolution:2.423Å R work:0.227R free:0.262

NDB ID:

 6WPA

PDB ID:

6WPA 

Release:

2020-07-22

Title:

Structure of AvaR1 bound to DNA half-site

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Kapoor, I., Olivares, P., Nair, S.K.

Citation:

Biochemical basis for the regulation of biosynthesis of antiparasitics by bacterial hormones.
Elife 9 pp. - 2020

Experiment:

 X-RAY DIFFRACTION Resolution:3.09Å R work:0.21R free:0.264

NDB ID:

 6LBR

PDB ID:

6LBR 

Release:

2020-07-15

Title:

Crystal structure of yeast Cdc13 and ssDNA

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Ge, Y., Wu, Z., Chen, H., Zhong, Q., Shi, S., Li, G., Wu, J., Lei, M.

Citation:

Structural insights into telomere protection and homeostasis regulation by yeast CST complex.
Nat.Struct.Mol.Biol. pp. - 2020

Experiment:

 X-RAY DIFFRACTION Resolution:2.5Å R work:0.201R free:0.251

NDB ID:

 6LTY

PDB ID:

6LTY 

Release:

2020-07-15

Title:

DNA bound antitoxin HigA3

Classification:

ANTITOXIN, DNA BINDING PROTEIN/DNA

Authors:

Park, J.Y., Kim, H.J., Pathak, C., Yoon, H.J., Kim, D.H., Park, S.J., Lee, B.J.

Citation:

Induced DNA bending by unique dimerization of HigA antitoxin.
Iucrj 7 pp.748 - 760 2020

Experiment:

 X-RAY DIFFRACTION Resolution:3.28Å R work:0.277R free:0.325

NDB ID:

 6M4T

PDB ID:

6M4T 

Release:

2020-07-15

Title:

U shaped head to head four-way junction in d(TTCTGCTGCTGAA) sequence

Classification:

DNA

Authors:

Chien, C.M., Wu, P.C., Satange, R., Chang, C.C., Lai, Z.L., Hagler, L.D., Zimmerman, S.C., Hou, M.H.

Citation:

Structural Basis for Targeting T:T Mismatch with Triaminotriazine-Acridine Conjugate Induces a U-Shaped Head-to-Head Four-Way Junction in CTG Repeat DNA.
J.Am.Chem.Soc. 142 pp.11165 - 11172 2020

Experiment:

 X-RAY DIFFRACTION Resolution:1.55Å R work:0.165R free:0.189

NDB ID:

 6M5J

PDB ID:

6M5J 

Release:

2020-07-15

Title:

U shaped head to head four-way junction in d(TTCTGCTGCTGAA/TTCTGCAGCTGAA) sequence

Classification:

DNA

Authors:

Chien, C.M., Wu, P.C., Satange, R., Chang, C.C., Lai, Z.L., Hagler, L.D., Zimmerman, S.C., Hou, M.H.

Citation:

Structural Basis for Targeting T:T Mismatch with Triaminotriazine-Acridine Conjugate Induces a U-Shaped Head-to-Head Four-Way Junction in CTG Repeat DNA.
J.Am.Chem.Soc. 142 pp.11165 - 11172 2020

Experiment:

 X-RAY DIFFRACTION Resolution:1.65Å R work:0.186R free:0.207

NDB ID:

 6S6H

PDB ID:

6S6H 

Release:

2020-07-15

Title:

Crystal structure of the DNA binding domain of the chromosome-partitioning protein ParB complexed to the centromeric parS site

Classification:

DNA BINDING PROTEIN

Authors:

Jalal, A.S.B., Tran, N.T., Stevenson, C.E.M., Tan, E.X., Lawson, D.M., Le, T.B.K.

Citation:

Evolving a new protein-DNA interface via a sequential introduction of permissive and specificity-switching mutations
To be published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.4Å R work:0.216R free:0.232

NDB ID:

 6WAA

PDB ID:

6WAA 

Release:

2020-07-15

Title:

K. pneumoniae Topoisomerase IV (ParE-ParC) in complex with DNA and compound 34 (7-[(1S,5R)-1-amino-3-azabicyclo[3.1.0]hexan-3-yl]-4-(aminomethyl)-1-cyclopropyl-3,6-difluoro-8-methylquinolin-2(1H)-one)

Classification:

ISOMERASE/DNA/ISOMERASE INHIBITOR

Authors:

Skepper, C.K., Armstrong, D., Balibar, C.J., Bauer, D., Bellamacina, C., Benton, B.M., Bussiere, D., De Pascale, G., De Vicente, J., Dean, C.R., Dhumale, B., Fisher, L.M., Fuller, J., Fulsunder, M., Holder, L.M., Hu, C., Kantariya, B., Lapointe, G., Leeds, J.A., Li, X., Lu, P., Lvov, A., Ma, S., Madhavan, S., Malekar, S., McKenney, D., Mergo, W., Metzger, L., Moser, H.E., Mutnick, D., Noeske, J., Osborne, C., Patel, A., Patel, D., Patel, T., Prajapati, K., Prosen, K.R., Reck, F., Richie, D.L., R

Citation:

Topoisomerase Inhibitors Addressing Fluoroquinolone Resistance in Gram-Negative Bacteria.
J.Med.Chem. 63 pp.7773 - 7816 2020

Experiment:

 X-RAY DIFFRACTION Resolution:3.2Å R work:0.273R free:0.3

NDB ID:

 6WE9

PDB ID:

6WE9 

Release:

2020-07-15

Title:

YTH domain of human YTHDC1 with 11mer ssDNA Containing N6mA

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Woodcock, C.B., Horton, J.R., Zhou, J., Bedford, M.T., Blumenthal, R.M., Zhang, X., Cheng, X.

Citation:

Biochemical and structural basis for YTH domain of human YTHDC1 binding to methylated adenine in DNA.
Nucleic Acids Res. pp. - 2020

Experiment:

 X-RAY DIFFRACTION Resolution:1.59Å R work:0.222R free:0.245

NDB ID:

 6WEA

PDB ID:

6WEA 

Release:

2020-07-15

Title:

YTH domain of human YTHDC1 with a 10mer Oligo Containing N6mA

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Woodcock, C.B., Horton, J.R., Zhou, J., Bedford, M.T., Blumenthal, R.M., Zhang, X., Cheng, X.

Citation:

Biochemical and structural basis for YTH domain of human YTHDC1 binding to methylated adenine in DNA.
Nucleic Acids Res. pp. - 2020

Experiment:

 X-RAY DIFFRACTION Resolution:1.8Å R work:0.21R free:0.237

NDB ID:

 7CE1

PDB ID:

7CE1 

Release:

2020-07-15

Title:

Complex STRUCTURE OF TRANSCRIPTION FACTOR SghR with its COGNATE DNA

Classification:

TRANSCRIPTION

Authors:

Ye, F., Wang, C., Fu, Q., Yan, X.F., Bharath, S.R., Casanas, A., Wang, M., Song, H., Zhang, L.H., Gao, Y.G.

Citation:

Structural basis of a novel repressor SghR controlling Agrobacterium infection by cross-talking to plants.
J.Biol.Chem. pp. - 2020

Experiment:

 X-RAY DIFFRACTION Resolution:3.2Å R work:0.233R free:0.28

NDB ID:

 6KFI

PDB ID:

6KFI 

Release:

2020-07-08

Title:

NMR solution structure of the 1:1 complex of Tel26 G-quadruplex and a tripodal cationic fluorescent probe NBTE

Classification:

DNA

Authors:

Liu, L.Y., Liu, W., Wang, K.N., Zhu, B.C., Xia, X.Y., Mao, Z.W.

Citation:

A Live-cell G-quadruplex DNA Visual Method with Synchronous Quantification
To Be Published pp. - 0

Experiment:

 SOLUTION NMR

NDB ID:

 6KFL

PDB ID:

6KFL 

Release:

2020-07-08

Title:

Crystal structure of a two-quartet DNA G-quadruplex complexed with the porphyrin TMPyP4

Classification:

DNA

Authors:

Zhang, Y.S., Parkinson, G.N., Wei, D.G.

Citation:

Crystal structure of a two-quartet DNA G-quadruplex complexed with the porphyrin TMPyP4
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:1.92Å R work:0.218R free:0.261

NDB ID:

 6L84

PDB ID:

6L84 

Release:

2020-07-08

Title:

Complex of DNA polymerase IV and D-DNA duplex

Classification:

DNA BINDING PROTEIN/DNA

Authors:

An, J., Choi, J., Hwang, D., Park, J., Pemble 4th, C.W., Duong, T.H.M., Kim, K.R., Ahn, H., Chung, H.S., Ahn, D.R.

Citation:

The crystal structure of a natural DNA polymerase complexed with mirror DNA.
Chem.Commun.(Camb.) 56 pp.2186 - 2189 2020

Experiment:

 X-RAY DIFFRACTION Resolution:2.602Å R work:0.182R free:0.226

NDB ID:

 6L97

PDB ID:

6L97 

Release:

2020-07-08

Title:

Complex of DNA polymerase IV and L-DNA duplex

Classification:

DNA BINDING PROTEIN/DNA

Authors:

An, J., Choi, J., Hwang, D., Park, J., Pemble 4th, C.W., Duong, T.H.M., Kim, K.R., Ahn, H., Chung, H.S., Ahn, D.R.

Citation:

The crystal structure of a natural DNA polymerase complexed with mirror DNA.
Chem.Commun.(Camb.) 56 pp.2186 - 2189 2020

Experiment:

 X-RAY DIFFRACTION Resolution:2.362Å R work:0.229R free:0.265

NDB ID:

 6PNK

PDB ID:

6PNK 

Release:

2020-07-08

Title:

Crystal structure of the G-quadruplex formed by (GGGTT)3GGG in complex with N-methylmesoporphryin IX

Classification:

DNA

Authors:

Yatsunyk, L.A., Lin, L.Y.

Citation:

Biophysical and X-ray structural characterization of the (GGGTT)3GGG G-quadruplex in complex with N-methylmesoporphryin IX
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.39Å R work:0.235R free:0.248

NDB ID:

 6ROR

PDB ID:

6ROR 

Release:

2020-07-08

Title:

REP related 18-mer DNA

Classification:

DNA

Authors:

Kolenko, P., Svoboda, J., Schneider, B.

Citation:

REP related 18-mer DNA
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.601Å R work:0.23R free:0.303

NDB ID:

 6ROS

PDB ID:

6ROS 

Release:

2020-07-08

Title:

REP related 18-mer DNA

Classification:

DNA

Authors:

Kolenko, P., Svoboda, J., Schneider, B.

Citation:

REP related 18-mer DNA
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.7Å R work:0.241R free:0.278

NDB ID:

 6ROU

PDB ID:

6ROU 

Release:

2020-07-08

Title:

REP related 18-mer DNA

Classification:

DNA

Authors:

Kolenko, P., Svoboda, J., Schneider, B.

Citation:

REP related 18-mer DNA
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.902Å R work:0.263R free:0.311

NDB ID:

 6RSO

PDB ID:

6RSO 

Release:

2020-07-08

Title:

L-[Ru(TAP)2(dppz)]2+ bound to the G-quadruplex forming sequence d(TAGGGTT)

Classification:

DNA

Authors:

McQuaid, K.T., Hall, J.P., Cardin, C.J.

Citation:

Structure of [Ru(phen)2(10-NO2-dppz)]2+ bound to the DNA sequence d(TCGGCGCCGA)
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:1.97Å R work:0.206R free:0.247

NDB ID:

 6RSP

PDB ID:

6RSP 

Release:

2020-07-08

Title:

L-[Ru(phen)2(11-NO2-dppz)]2+ bound to the Oligonucleotide sequence d(TCGGCGCCGA)

Classification:

DNA

Authors:

McQuaid, K.T., Hall, J.P., Cardin, C.J.

Citation:

L-[Ru(phen)2(11-NO2-dppz)]2+ bound to the Oligonucleotide sequence d(TCGGCGCCGA)
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:1.91Å R work:0.186R free:0.21

NDB ID:

 6W8V

PDB ID:

6W8V 

Release:

2020-07-08

Title:

Crystal structure of mouse DNMT1 in complex with ACG DNA

Classification:

TRANSFERASE/DNA

Authors:

Adam, S., Anteneh, H., Hornisch, M., Wagner, V., Lu, J., Radde, N.E., Bashtrykov, P., Song, J., Jeltsch, A.

Citation:

DNMT1 activity, base flipping mechanism and genome-wide DNA methylation are regulated by the DNA sequence context
Nat Commun pp. - 2020

Experiment:

 X-RAY DIFFRACTION Resolution:3.12Å R work:0.245R free:0.278

NDB ID:

 6W8W

PDB ID:

6W8W 

Release:

2020-07-08

Title:

Crystal structure of mouse DNMT1 in complex with CCG DNA

Classification:

TRANSFERASE/DNA

Authors:

Adam, S., Anteneh, H., Hornisch, M., Wagner, V., Lu, J., Radde, N.E., Bashtrykov, P., Song, J., Jeltsch, A.

Citation:

DNMT1 activity, base flipping mechanism and genome-wide DNA methylation are regulated by the DNA sequence context
Nat Commun pp. - 2020

Experiment:

 X-RAY DIFFRACTION Resolution:3.0Å R work:0.238R free:0.28

NDB ID:

 7CC9

PDB ID:

7CC9 

Release:

2020-07-08

Title:

Sulfur binding domain of SprMcrA complexed with phosphorothioated DNA

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Yu, H., Li, J., Liu, G., Zhao, G., Wang, Y., Hu, W., Deng, Z., Gan, J., Zhao, Y., He, X.

Citation:

Sulfur binding domain of SprMcrA complexed with phosphorothioated DNA
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.063Å R work:0.21R free:0.231

NDB ID:

 7CCD

PDB ID:

7CCD 

Release:

2020-07-08

Title:

Sulfur binding domain of SprMcrA complexed with phosphorothioated DNA

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Yu, H., Li, J., Liu, G., Zhao, G., Wang, Y., Hu, W., Deng, Z., Gan, J., Zhao, Y., He, X.

Citation:

Sulfur binding domain of SprMcrA complexed with phosphorothioated DNA
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.42Å R work:0.201R free:0.248

NDB ID:

 7CCJ

PDB ID:

7CCJ 

Release:

2020-07-08

Title:

Sulfur binding domain of SprMcrA complexed with phosphorothioated DNA

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Yu, H., Li, J., Liu, G., Zhao, G., Wang, Y., Hu, W., Deng, Z., Gan, J., Zhao, Y., He, X.

Citation:

Sulfur binding domain of SprMcrA complexed with phosphorothioated DNA
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:3.3Å R work:0.24R free:0.293

NDB ID:

 6KCO

PDB ID:

6KCO 

Release:

2020-07-01

Title:

Shuguo PWWP in complex with ssDNA

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Liu, Y.C., Huang, Y.

Citation:

Shuguo PWWP in complex with ssDNA
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.4Å R work:0.198R free:0.235

NDB ID:

 6KCP

PDB ID:

6KCP 

Release:

2020-07-01

Title:

Shuguo PWWP in complex with ssDNA

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Liu, Y.C., Huang, Y.

Citation:

Shuguo PWWP in complex with ssDNA
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:1.8Å R work:0.181R free:0.218

NDB ID:

 6KFJ

PDB ID:

6KFJ 

Release:

2020-07-01

Title:

NMR solution structure of the 1:1 complex of wtTel26 G-quadruplex and a tripodal cationic fluorescent probe NBTE

Classification:

DNA

Authors:

Liu, L.Y., Liu, W., Wang, K.N., Zhu, B.C., Xia, X.Y., Mao, Z.W.

Citation:

A Live-cell G-quadruplex DNA Visual Method with Synchronous Quantification
To Be Published pp. - 0

Experiment:

 SOLUTION NMR

NDB ID:

 6M2P

PDB ID:

6M2P 

Release:

2020-07-01

Title:

Crystal structure of a NIR-emitting DNA-stabilized Ag16 nanocluster (A10-deletion mutant)

Classification:

DNA

Authors:

Cerretani, C., Kondo, J., Vosch, T.

Citation:

Removal of the A10 adenosine in a DNA-stabilized Ag16 nanocluster.
Rsc Adv 10 pp.23854 - 23860 2020

Experiment:

 X-RAY DIFFRACTION Resolution:1.125Å R work:0.085R free:0.095

NDB ID:

 6PKZ

PDB ID:

6PKZ 

Release:

2020-07-01

Title:

Structure of human DNA polymerase beta N279A complexed with 8OA in the template base paired with incoming non-hydrolyzable GTP

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Koag, M.C., Lee, S.

Citation:

Structure of human DNA polymerase beta N279A complexed with 8OA in the template base paired with incoming non-hydrolyzable GTP
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.74Å R work:0.174R free:0.248

NDB ID:

 6PL7

PDB ID:

6PL7 

Release:

2020-07-01

Title:

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

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Koag, M.C., Lee, S.

Citation:

Structure of human DNA polymerase eta complexed with A in the template base paired with incoming non-hydrolyzable TTP
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.5Å R work:0.21R free:0.28

NDB ID:

 6PL8

PDB ID:

6PL8 

Release:

2020-07-01

Title:

Structure of human DNA polymerase eta complexed with 8OA in the template base paired with incoming non-hydrolyzable TTP

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Koag, M.C., Lee, S.

Citation:

Structure of human DNA polymerase eta complexed with 8OA in the template base paired with incoming non-hydrolyzable TTP
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.17Å R work:0.181R free:0.243

NDB ID:

 6K8O

PDB ID:

6K8O 

Release:

2020-06-24

Title:

Crystal structure of the Sulfolobus solfataricus topoisomerase III in complex with DNA

Classification:

ISOMERASE, DNA BINDING PROTEIN/DNA

Authors:

Wang, H.Q., Zhang, J.H., Zheng, X., Zheng, Z.F., Dong, Y.H., Huang, L., Gong, Y.

Citation:

Crystal structures of the Sulfolobus solfataricus topoisomerase III reveal that its C-terminal novel zinc finger part is a unique decatenation domain
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.5Å R work:0.22R free:0.259

NDB ID:

 6M5B

PDB ID:

6M5B 

Release:

2020-06-24

Title:

X-ray crystal structure of cyclic-PIP and DNA complex in a reverse binding orientation

Classification:

DNA

Authors:

Abe, K., Hirose, Y., Eki, H., Takeda, K., Bando, T., Endo, M., Sugiyama, H.

Citation:

X-ray Crystal Structure of a Cyclic-PIP-DNA Complex in the Reverse-Binding Orientation.
J.Am.Chem.Soc. 142 pp.10544 - 10549 2020

Experiment:

 X-RAY DIFFRACTION Resolution:1.501Å R work:0.184R free:0.189

NDB ID:

 6M0B

PDB ID:

6M0B 

Release:

2020-06-17

Title:

Solution NMR structures of DNA minidumbbell formed by 5'-CTTG CGTG-3'.

Classification:

DNA

Authors:

Ngai, C.K., Lam, S.L., Lee, H.K., Guo, P.

Citation:

High-Resolution Structures of DNA Minidumbbells Comprising Type II Tetraloops with a Purine Minor Groove Residue.
J.Phys.Chem.B 124 pp.5131 - 5138 2020

Experiment:

 SOLUTION NMR

NDB ID:

 6M0C

PDB ID:

6M0C 

Release:

2020-06-17

Title:

Solution NMR Structures of DNA minidumbbell formed by 5'-CTTG CATG-3'.

Classification:

DNA

Authors:

Ngai, C.K., Lam, S.L., Lee, H.K., Guo, P.

Citation:

High-Resolution Structures of DNA Minidumbbells Comprising Type II Tetraloops with a Purine Minor Groove Residue.
J.Phys.Chem.B 124 pp.5131 - 5138 2020

Experiment:

 SOLUTION NMR

NDB ID:

 6P4F

PDB ID:

6P4F 

Release:

2020-06-17

Title:

Crystal structure of the XPB-Bax1-forked DNA ternary complex

Classification:

HYDROLASE/DNA

Authors:

He, F., Hilario, E., Fan, L.

Citation:

Crystal structure of the XPB-Bax1-forked DNA ternary complex
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:3.55Å R work:0.25R free:0.271

NDB ID:

 6USO

PDB ID:

6USO 

Release:

2020-06-17

Title:

Telomerase Reverse Transcriptase prenucleotide binary complex, TERT:DNA

Classification:

NUCLEAR PROTEIN, TRANSFERASE/RNA/DNA

Authors:

Schaich, M.A., Sanford, S.L., Welfer, G., Khoang, T.H., Johnson, S.A., Opresko, P.L., Freudenthal, B.D.

Citation:

Telomerase Reverse Transcriptase binary complex, TERT:DNA
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.54Å R work:0.24R free:0.264

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