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As of 13-Jan-2021 number of released structures: 11166
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Polymer Type: All + Protein Function: All + Structural Features: All + Experimental Method: All

Results: 7570  Download results as an excel file       Gallery view

NDB ID:

 6L75

PDB ID:

6L75 

Release:

2021-01-13

Title:

Crystal structure of d(GTGGGCCGAC)2 DNA duplex

Classification:

DNA

Authors:

Hou, M.H., Satange, R.B., Zeng, J.Y.

Citation:

Crystal structure of d(GTGGGCCGAC)2 DNA duplex
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:1.578Å R work:0.199R free:0.227

NDB ID:

 6L76

PDB ID:

6L76 

Release:

2021-01-13

Title:

Crystal structure of the Ni(II)(Chro)2-d(TTGGGCCGAA/TTCGGCCCAA) complex at 2.94 angstrom resolution

Classification:

DNA

Authors:

Hou, M.H., Jhan, C.R., Satange, R.B., Lin, S.M.

Citation:

Crystal structure of the Ni(II)(Chro)2-d(TTGGGCCGAA/TTCGGCCCAA) complex at 2.94 angstrom resolution
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.94Å R work:0.234R free:0.276

NDB ID:

 6LNZ

PDB ID:

6LNZ 

Release:

2021-01-13

Title:

NMR solution structure of VEGF G-quadruplex bound a non-planar cyclometalated-carbene platinum(II) complex

Classification:

DNA

Authors:

Zhu, B.C., Liu, W., Mao, Z.W.

Citation:

Adaptive Binding, Solution Structure and Functional Regulation of VEGF G-quadruplex Bound the Non-planar Platinum(II) Complex
To Be Published pp. - 0

Experiment:

 SOLUTION NMR

NDB ID:

 6M2V

PDB ID:

6M2V 

Release:

2021-01-13

Title:

Crystal structure of UHRF1 SRA complexed with fully-mCHG DNA.

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Abhishek, S., Nakarakanti, N.K., Deeksha, W., Rajakumara, E.

Citation:

Mechanistic insights into recognition of symmetric methylated cytosines in CpG and non-CpG DNA by UHRF1 SRA.
Int.J.Biol.Macromol. pp. - 2020

Experiment:

 X-RAY DIFFRACTION Resolution:3.0Å R work:0.234R free:0.276

NDB ID:

 6S3H

PDB ID:

6S3H 

Release:

2021-01-13

Title:

Crystal structure of helicase Pif1 from Thermus oshimai in complex with ADP-AlF4 and (dT)7ds11bp

Classification:

HYDROLASE

Authors:

Dai, Y.X., Chen, W.F., Teng, F.Y., Liu, N.N., Hou, X.M., Dou, S.X., Rety, S., Xi, X.G.

Citation:

Unraveling the structural and mechanistic basis of SF1B helicase dimerization: inhibitory regulation of Thermus oshimau Pif1 activity
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.06Å R work:0.201R free:0.226

NDB ID:

 6S3I

PDB ID:

6S3I 

Release:

2021-01-13

Title:

Crystal structure of helicase Pif1 from Thermus oshimai in complex with ssDNA (dT)18 and ADP-MgF4

Classification:

HYDROLASE

Authors:

Dai, Y.X., Chen, W.F., Teng, F.Y., Liu, N.N., Hou, X.M., Dou, S.X., Rety, S., Xi, X.G.

Citation:

Unraveling the structural and mechanistic basis of SF1B helicase dimerization: inhibitory regulation of Thermus oshimau Pif1 activity
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.455Å R work:0.243R free:0.301

NDB ID:

 6S3M

PDB ID:

6S3M 

Release:

2021-01-13

Title:

Crystal structure of helicase Pif1 from Thermus oshimai in complex with ssDNA (dT)18 and ADP-AlF4

Classification:

HYDROLASE

Authors:

Dai, Y.X., Chen, W.F., Teng, F.Y., Liu, N.N., Hou, X.M., Dou, S.X., Rety, S., Xi, X.G.

Citation:

Unraveling the structural and mechanistic basis of SF1B helicase dimerization: inhibitory regulation of Thermus oshimau Pif1 activity
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.113Å R work:0.224R free:0.268

NDB ID:

 6S3N

PDB ID:

6S3N 

Release:

2021-01-13

Title:

Crystal structure of helicase Pif1 from Thermus oshimai in complex with ssDNA (dT)18 and ADP-VO4

Classification:

HYDROLASE

Authors:

Dai, Y.X., Chen, W.F., Teng, F.Y., Liu, N.N., Hou, X.M., Dou, S.X., Rety, S., Xi, X.G.

Citation:

Unraveling the structural and mechanistic basis of SF1B helicase dimerization: inhibitory regulation of Thermus oshimau Pif1 activity
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.533Å R work:0.198R free:0.255

NDB ID:

 6S3O

PDB ID:

6S3O 

Release:

2021-01-13

Title:

Crystal structure of helicase Pif1 from Thermus oshimai in complex with ssDNA (dT)18 and ADP

Classification:

HYDROLASE

Authors:

Dai, Y.X., Chen, W.F., Teng, F.Y., Liu, N.N., Hou, X.M., Dou, S.X., Rety, S., Xi, X.G.

Citation:

Unraveling the structural and mechanistic basis of SF1B helicase dimerization: inhibitory regulation of Thermus oshimau Pif1 activity
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:1.974Å R work:0.186R free:0.223

NDB ID:

 6S3P

PDB ID:

6S3P 

Release:

2021-01-13

Title:

Crystal structure of helicase Pif1 from Thermus oshimai in complex with (dT)18

Classification:

HYDROLASE

Authors:

Dai, Y.X., Chen, W.F., Teng, F.Y., Liu, N.N., Hou, X.M., Dou, S.X., Rety, S., Xi, X.G.

Citation:

Unraveling the structural and mechanistic basis of SF1B helicase dimerization: inhibitory regulation of Thermus oshimau Pif1 activity
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:1.926Å R work:0.174R free:0.207

NDB ID:

 7AHX

PDB ID:

7AHX 

Release:

2021-01-13

Title:

HIV-1 REVERSE TRANSCRIPTASE COMPLEX WITH DNA AND D-ASPARTATE TENOFOVIR WITH BOUND MANGANESE

Classification:

TRANSFERASE

Authors:

Gu, W., Martinez, S., Nguyen, H., Xu, H., Herdewijn, P., De Jonghe, S., Das, K.

Citation:

Tenofovir-Amino Acid Conjugates Act as Polymerase Substrates-Implications for Avoiding Cellular Phosphorylation in the Discovery of Nucleotide Analogues.
J.Med.Chem. pp. - 2020

Experiment:

 X-RAY DIFFRACTION Resolution:2.73Å R work:0.214R free:0.253

NDB ID:

 7AID

PDB ID:

7AID 

Release:

2021-01-13

Title:

HIV-1 REVERSE TRANSCRIPTASE COMPLEX WITH DNA AND D-ASPARTATE TENOFOVIR

Classification:

TRANSFERASE

Authors:

Gu, W., Martinez, S., Nguyen, H., Xu, H., Herdewijn, P., De Jonghe, S., Das, K.

Citation:

Tenofovir-Amino Acid Conjugates Act as Polymerase Substrates-Implications for Avoiding Cellular Phosphorylation in the Discovery of Nucleotide Analogues.
J.Med.Chem. pp. - 2020

Experiment:

 X-RAY DIFFRACTION Resolution:3.15Å R work:0.213R free:0.25

NDB ID:

 7AIF

PDB ID:

7AIF 

Release:

2021-01-13

Title:

HIV-1 REVERSE TRANSCRIPTASE COMPLEX WITH DNA AND L-GLUTAMATE TENOFOVIR WITH BOUND MANGANESE

Classification:

TRANSFERASE

Authors:

Gu, W., Martinez, S., Nguyen, H., Xu, H., Herdewijn, P., De Jonghe, S., Das, K.

Citation:

Tenofovir-Amino Acid Conjugates Act as Polymerase Substrates-Implications for Avoiding Cellular Phosphorylation in the Discovery of Nucleotide Analogues.
J.Med.Chem. pp. - 2020

Experiment:

 X-RAY DIFFRACTION Resolution:2.75Å R work:0.218R free:0.249

NDB ID:

 7AIG

PDB ID:

7AIG 

Release:

2021-01-13

Title:

HIV-1 REVERSE TRANSCRIPTASE COMPLEX WITH DNA AND L-GLUTAMATE TENOFOVIR

Classification:

TRANSFERASE

Authors:

Gu, W., Martinez, S., Nguyen, H., Xu, H., Herdewijn, P., De Jonghe, S., Das, K.

Citation:

Tenofovir-Amino Acid Conjugates Act as Polymerase Substrates-Implications for Avoiding Cellular Phosphorylation in the Discovery of Nucleotide Analogues.
J.Med.Chem. pp. - 2020

Experiment:

 X-RAY DIFFRACTION Resolution:2.95Å R work:0.213R free:0.256

NDB ID:

 7AII

PDB ID:

7AII 

Release:

2021-01-13

Title:

HIV-1 REVERSE TRANSCRIPTASE COMPLEX WITH DNA AND L-METHIONINE TENOFOVIR WITH BOUND MANGANESE

Classification:

TRANSFERASE

Authors:

Gu, W., Martinez, S., Nguyen, H., Xu, H., Herdewijn, P., De Jonghe, S., Das, K.

Citation:

Tenofovir-Amino Acid Conjugates Act as Polymerase Substrates-Implications for Avoiding Cellular Phosphorylation in the Discovery of Nucleotide Analogues.
J.Med.Chem. pp. - 2020

Experiment:

 X-RAY DIFFRACTION Resolution:2.62Å R work:0.222R free:0.254

NDB ID:

 7AIJ

PDB ID:

7AIJ 

Release:

2021-01-13

Title:

HIV-1 REVERSE TRANSCRIPTASE COMPLEX WITH DNA AND L-METHIONINE TENOFOVIR

Classification:

TRANSFERASE

Authors:

Gu, W., Martinez, S., Nguyen, H., Xu, H., Herdewijn, P., De Jonghe, S., Das, K.

Citation:

Tenofovir-Amino Acid Conjugates Act as Polymerase Substrates-Implications for Avoiding Cellular Phosphorylation in the Discovery of Nucleotide Analogues.
J.Med.Chem. pp. - 2020

Experiment:

 X-RAY DIFFRACTION Resolution:2.95Å R work:0.225R free:0.263

NDB ID:

 7B0H

PDB ID:

7B0H 

Release:

2021-01-13

Title:

TgoT_6G12 Ternary complex

Classification:

DNA BINDING PROTEIN

Authors:

Samson, C., Legrand, P., Tekpinar, M., Rozenski, J., Abramov, M., Holliger, P., Pinheiro, V.B., Herdwijn, P., Delarue, M.

Citation:

Structural Studies of HNA Substrate Specificity in Mutants of an Archaeal DNA Polymerase Obtained by Directed Evolution.
Biomolecules 10 pp. - 2020

Experiment:

 X-RAY DIFFRACTION Resolution:3.15Å R work:0.231R free:0.247

NDB ID:

 7B71

PDB ID:

7B71 

Release:

2021-01-13

Title:

Single modified phosphoryl guanidine DNA duplex, Sp diastereomer

Classification:

DNA

Authors:

Lomzov, A.A., Shernuykov, A.V., Apukhtina, V.S., Pyshnyi, D.V.

Citation:

Single modified phosphoryl guanidine DNA duplex, Sp diastereomer
To Be Published pp. - 0

Experiment:

 SOLUTION NMR

NDB ID:

 7B72

PDB ID:

7B72 

Release:

2021-01-13

Title:

DNA duplex with phosphoryl guanidine moiety, Rp-diastereomer

Classification:

DNA

Authors:

Lomzov, A.A., Pyshnyi, D.V., Shernuykov, A.V., Apukhtina, V.S.

Citation:

DNA duplex with phosphoryl guanidine moiety, Rp-diastereomer
To Be Published pp. - 0

Experiment:

 SOLUTION NMR

NDB ID:

 7CD5

PDB ID:

7CD5 

Release:

2021-01-13

Title:

mAPE1-blunt-ended dsDNA product complex

Classification:

HYDROLASE/DNA

Authors:

Liu, T.C., Hsiao, Y.Y.

Citation:

APE1 distinguishes DNA substrates in exonucleolytic cleavage by induced space-filling
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.7Å R work:0.188R free:0.215

NDB ID:

 7CD6

PDB ID:

7CD6 

Release:

2021-01-13

Title:

mAPE1-recessed dsDNA product complex

Classification:

HYDROLASE/DNA

Authors:

Liu, T.C., Hsiao, Y.Y.

Citation:

APE1 distinguishes DNA substrates in exonucleolytic cleavage by induced space-filling
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.701Å R work:0.178R free:0.219

NDB ID:

 7CSW

PDB ID:

7CSW 

Release:

2021-01-13

Title:

Pseudomonas aeruginosa antitoxin HigA with pa2440 promoter

Classification:

ANTITOXIN/DNA

Authors:

Song, Y., Luo, G., Zhu, Y., Li, T., Li, C., He, L., Zhao, N., Zhao, C., Yang, J., Huang, Q., Mu, X., Tang, X., Kang, M., Wu, S., He, Y., Bao, R.

Citation:

Pseudomonas aeruginosa antitoxin HigA functions as a diverse regulatory factor by recognizing specific pseudopalindromic DNA motifs.
Environ.Microbiol. pp. - 2020

Experiment:

 X-RAY DIFFRACTION Resolution:1.97Å R work:0.196R free:0.233

NDB ID:

 7CSY

PDB ID:

7CSY 

Release:

2021-01-13

Title:

Pseudomonas aeruginosa antitoxin HigA with higBA promoter

Classification:

ANTITOXIN/DNA

Authors:

Song, Y., Luo, G., Zhu, Y., Li, T., Li, C., He, L., Zhao, N., Zhao, C., Yang, J., Huang, Q., Mu, X., Tang, X., Kang, M., Wu, S., He, Y., Bao, R.

Citation:

Pseudomonas aeruginosa antitoxin HigA functions as a diverse regulatory factor by recognizing specific pseudopalindromic DNA motifs.
Environ.Microbiol. pp. - 2020

Experiment:

 X-RAY DIFFRACTION Resolution:2.29Å R work:0.209R free:0.246

NDB ID:

 7L34

PDB ID:

7L34 

Release:

2021-01-13

Title:

Human DNA Ligase 1 - R641L nicked DNA complex

Classification:

LIGASE/DNA

Authors:

Jurkiw, T.J., Tumbale, P.P., Schellenberg, M.J., Cunningham-Rundles, C., Williams, R.S., O'Brien, P.J.

Citation:

LIG1 syndrome mutations remodel a cooperative network of ligand binding interactions to compromise ligation efficiency
To be published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:1.901Å R work:0.169R free:0.193

NDB ID:

 7L35

PDB ID:

7L35 

Release:

2021-01-13

Title:

Human DNA Ligase 1 - R771W nicked DNA complex

Classification:

LIGASE/DNA

Authors:

Jurkiw, T.J., Tumbale, P.P., Schellenberg, M.J., Cunningham-Rundles, C., Williams, R.S., O'Brien, P.J.

Citation:

LIG1 syndrome mutations remodel a cooperative network of ligand binding interactions to compromise ligation efficiency
To be published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.0Å R work:0.162R free:0.194

NDB ID:

 6VG6

PDB ID:

6VG6 

Release:

2021-01-06

Title:

Crystal structure of DPO4 with 8-oxoadenine (oxoA) and dGTP*

Classification:

TRANSFERASE/DNA

Authors:

Jung, H., Lee, S.

Citation:

Promutagenic bypass of 7,8-dihydro-8-oxoadenine by translesion synthesis DNA polymerase Dpo4.
Biochem.J. 477 pp.2859 - 2871 2020

Experiment:

 X-RAY DIFFRACTION Resolution:3.08Å R work:0.254R free:0.302

NDB ID:

 6VGM

PDB ID:

6VGM 

Release:

2021-01-06

Title:

Crystal structure of DPO4 with 8-oxoadenine (oxoA) and dTTP*

Classification:

TRANSFERASE

Authors:

Jung, H., Lee, S.

Citation:

Promutagenic bypass of 7,8-dihydro-8-oxoadenine by translesion synthesis DNA polymerase Dpo4.
Biochem.J. 477 pp.2859 - 2871 2020

Experiment:

 X-RAY DIFFRACTION Resolution:2.84Å R work:0.23R free:0.279

NDB ID:

 6WK6

PDB ID:

6WK6 

Release:

2021-01-06

Title:

Crystal structure of human polymerase eta complexed with Xanthine containing DNA

Classification:

DNA BINDING PROTEIN

Authors:

Jung, H., Hawkins, M., Lee, S.

Citation:

Structural insights into the bypass of the major deaminated purines by translesion synthesis DNA polymerase.
Biochem.J. pp. - 2020

Experiment:

 X-RAY DIFFRACTION Resolution:2.35Å R work:0.188R free:0.237

NDB ID:

 6XT7

PDB ID:

6XT7 

Release:

2020-12-30

Title:

Tel25 Hybrid Four-quartet G-quadruplex with K+

Classification:

DNA

Authors:

Li, K., Yatsunyk, L., Neidle, S.

Citation:

Water spines and networks in G-quadruplex structures.
Nucleic Acids Res. pp. - 2020

Experiment:

 X-RAY DIFFRACTION Resolution:1.56Å R work:0.16R free:0.185

NDB ID:

 7B0F

PDB ID:

7B0F 

Release:

2020-12-30

Title:

TgoT_6G12 Binary complex

Classification:

DNA BINDING PROTEIN

Authors:

Samson, C., Legrand, P., Tekpinar, M., Rozenski, J., Abramov, M., Holliger, P., Pinheiro, V.B., Herdwijn, P., Delarue, M.

Citation:

Structural Studies of HNA Substrate Specificity in Mutants of an Archaeal DNA Polymerase Obtained by Directed Evolution.
Biomolecules 10 pp. - 2020

Experiment:

 X-RAY DIFFRACTION Resolution:2.797Å R work:0.23R free:0.242

NDB ID:

 7B0G

PDB ID:

7B0G 

Release:

2020-12-30

Title:

TgoT_6G12 binary with 2 hCTPs

Classification:

DNA BINDING PROTEIN

Authors:

Samson, C., Legrand, P., Tekpinar, M., Rozenski, J., Abramov, M., Holliger, P., Pinheiro, V.B., Herdwijn, P., Delarue, M.

Citation:

Structural Studies of HNA Substrate Specificity in Mutants of an Archaeal DNA Polymerase Obtained by Directed Evolution.
Biomolecules 10 pp. - 2020

Experiment:

 X-RAY DIFFRACTION Resolution:3.0Å R work:0.225R free:0.242

NDB ID:

 7CY6

PDB ID:

7CY6 

Release:

2020-12-30

Title:

Crystal Structure of CMD1 in complex with 5mC-DNA

Classification:

TRANSFERASE

Authors:

Li, W., Zhang, T., Sun, M., Shi, Y., Zhang, X., Xu, G., Ding, J.

Citation:

Crystal structures of algal TET homologue CMD1 provide insight into the molecular mechanism for vitamin C-derived C5-glyceryl-methylcytosine DNA modification
To be published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.1Å R work:0.182R free:0.227

NDB ID:

 7CY7

PDB ID:

7CY7 

Release:

2020-12-30

Title:

Crystal Structure of CMD1 in complex with DNA

Classification:

TRANSFERASE

Authors:

Li, W., Zhang, T., Sun, M., Shi, Y., Zhang, X., Xu, G., Ding, J.

Citation:

Crystal structures of algal TET homologue CMD1 provide insight into the molecular mechanism for vitamin C-derived C5-glyceryl-methylcytosine DNA modification
To be published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.15Å R work:0.187R free:0.22

NDB ID:

 7CY8

PDB ID:

7CY8 

Release:

2020-12-30

Title:

Crystal Structure of CMD1 in complex with 5mC-DNA and vitamin C

Classification:

TRANSFERASE

Authors:

Li, W., Zhang, T., Sun, M., Shi, Y., Zhang, X., Xu, G., Ding, J.

Citation:

Crystal structures of algal TET homologue CMD1 provide insight into the molecular mechanism for vitamin C-derived C5-glyceryl-methylcytosine DNA modification
To be published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.4Å R work:0.189R free:0.235

NDB ID:

 7KLP

PDB ID:

7KLP 

Release:

2020-12-30

Title:

Crystal structure of a three-tetrad, parallel, K+ stabilized human telomeric G-quadruplex

Classification:

DNA

Authors:

Li, K., Yatsunyk, L., Neidle, S.

Citation:

Water spines and networks in G-quadruplex structures.
Nucleic Acids Res. pp. - 2020

Experiment:

 X-RAY DIFFRACTION Resolution:1.35Å R work:0.142R free:0.176

NDB ID:

 6LXN

PDB ID:

6LXN 

Release:

2020-12-23

Title:

Crystal structure of C-terminal DNA-binding domain of Escherichia coli OmpR in complex with F1-DNA

Classification:

DNA BINDING PROTEIN

Authors:

Sadotra, S., Lou, Y.C., Tang, H.C., Chiu, Y.C., Hsu, C.H., Chen, C.

Citation:

Structural basis for promoter DNA recognition by the response regulator OmpR.
J.Struct.Biol. 213 pp.107638 - 107638 2020

Experiment:

 X-RAY DIFFRACTION Resolution:2.93Å R work:0.17R free:0.241

NDB ID:

 6WMA

PDB ID:

6WMA 

Release:

2020-12-23

Title:

Crystal structure of a soluble variant of full-length human APOBEC3G (pH 7.6)

Classification:

HYDROLASE/DNA

Authors:

Maiti, A., Myint, W., Delviks-Frankenberry, K.A., Hou, S., Kanai, T., Balachandran, V., Sierra Rodriguez, C., Tripathi, R., Kurt Yilmaz, N., Pathak, V.K., Schiffer, C.A., Matsuo, H.

Citation:

Crystal Structure of a Soluble APOBEC3G Variant Suggests ssDNA to Bind in a Channel that Extends between the Two Domains.
J.Mol.Biol. 432 pp.6042 - 6060 2020

Experiment:

 X-RAY DIFFRACTION Resolution:2.5Å R work:0.196R free:0.247

NDB ID:

 6WMB

PDB ID:

6WMB 

Release:

2020-12-23

Title:

Crystal structure of a soluble variant of full-length human APOBEC3G (pH 8.0)

Classification:

HYDROLASE/DNA

Authors:

Maiti, A., Myint, W., Delviks-Frankenberry, K.A., Hou, S., Kanai, T., Balachandran, V., Sierra Rodriguez, C., Tripathi, R., Kurt Yilmaz, N., Pathak, V.K., Schiffer, C.A., Matsuo, H.

Citation:

Crystal Structure of a Soluble APOBEC3G Variant Suggests ssDNA to Bind in a Channel that Extends between the Two Domains.
J.Mol.Biol. 432 pp.6042 - 6060 2020

Experiment:

 X-RAY DIFFRACTION Resolution:3.02Å R work:0.246R free:0.304

NDB ID:

 6WMC

PDB ID:

6WMC 

Release:

2020-12-23

Title:

Crystal structure of a soluble variant of full-length human APOBEC3G (pH 9.0)

Classification:

HYDROLASE/DNA

Authors:

Maiti, A., Myint, W., Delviks-Frankenberry, K.A., Hou, S., Kanai, T., Balachandran, V., Sierra Rodriguez, C., Tripathi, R., Kurt Yilmaz, N., Pathak, V.K., Schiffer, C.A., Matsuo, H.

Citation:

Crystal Structure of a Soluble APOBEC3G Variant Suggests ssDNA to Bind in a Channel that Extends between the Two Domains.
J.Mol.Biol. 432 pp.6042 - 6060 2020

Experiment:

 X-RAY DIFFRACTION Resolution:3.49Å R work:0.216R free:0.274

NDB ID:

 6YJB

PDB ID:

6YJB 

Release:

2020-12-23

Title:

VcaM4I restriction endonuclease 5hmC-ssDNA complex

Classification:

HYDROLASE

Authors:

Pastor, M., Czapinska, H., Lutz, T., Helbrecht, I., Xu, S., Bochtler, M.

Citation:

Crystal structures of the EVE-HNH endonuclease VcaM4I in the presence and absence of DNA
Nucleic Acids Res. pp. - 2020

Experiment:

 X-RAY DIFFRACTION Resolution:1.55Å R work:0.142R free:0.163

NDB ID:

 6YKF

PDB ID:

6YKF 

Release:

2020-12-23

Title:

VcaM4I restriction endonuclease in the presence of 5mC-modified ssDNA

Classification:

HYDROLASE

Authors:

Pastor, M., Czapinska, H., Lutz, T., Helbrecht, I., Xu, S., Bochtler, M.

Citation:

Crystal structures of the EVE-HNH endonuclease VcaM4I in the presence and absence of DNA
Nucleic Acids Res. pp. - 2020

Experiment:

 X-RAY DIFFRACTION Resolution:1.48Å R work:0.169R free:0.188

NDB ID:

 6YMG

PDB ID:

6YMG 

Release:

2020-12-23

Title:

VcaM4I restriction endonuclease in complex with 5mC-modified dsDNA

Classification:

HYDROLASE

Authors:

Pastor, M., Czapinska, H., Lutz, T., Helbrecht, I., Xu, S., Bochtler, M.

Citation:

Crystal structures of the EVE-HNH endonuclease VcaM4I in the presence and absence of DNA
Nucleic Acids Res. pp. - 2020

Experiment:

 X-RAY DIFFRACTION Resolution:3.14Å R work:0.241R free:0.266

NDB ID:

 7KZL

PDB ID:

7KZL 

Release:

2020-12-23

Title:

Cyclopentane peptide nucleic acid in complex with DNA

Classification:

PEPTIDE NUCLEIC ACID/DNA

Authors:

Zheng, H., Botos, I., Nikolayevskiy, H., Rastede, E.E., Fouz, M., Appella, D.H.

Citation:

Conformational Constraints of Cyclopentane Peptide Nucleic Acids Facilitate Tunable Binding to DNA
to be published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:1.3Å R work:0.171R free:0.188

NDB ID:

 6WDZ

PDB ID:

6WDZ 

Release:

2020-12-16

Title:

Porcine circovirus 2 Rep domain complexed with a single-stranded DNA 10-mer comprising the cleavage site

Classification:

REPLICATION/DNA

Authors:

Tompkins, K.

Citation:

Porcine circovirus 2 Rep domain complexed with a single-stranded DNA 10-mer comprising the cleavage site
to be published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.03Å R work:0.229R free:0.28

NDB ID:

 6WE0

PDB ID:

6WE0 

Release:

2020-12-16

Title:

Wheat dwarf virus Rep domain complexed with a single-stranded DNA 10-mer comprising the cleavage site

Classification:

REPLICATION/DNA

Authors:

Tompkins, K.

Citation:

Wheat dwarf virus Rep domain complexed with a single-stranded DNA 10-mer comprising the cleavage site
to be published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:1.8Å R work:0.191R free:0.216

NDB ID:

 6WE1

PDB ID:

6WE1 

Release:

2020-12-16

Title:

Wheat dwarf virus Rep domain complexed with a single-stranded DNA 8-mer comprising the cleavage site

Classification:

REPLICATION/DNA

Authors:

Tompkins, K.

Citation:

Wheat dwarf virus Rep domain complexed with a single-stranded DNA 8-mer comprising the cleavage site
to be published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.612Å R work:0.187R free:0.243

NDB ID:

 7AUD

PDB ID:

7AUD 

Release:

2020-12-16

Title:

Structure of an engineered helicase domain construct for human Bloom syndrome protein (BLM)

Classification:

NUCLEAR PROTEIN

Authors:

Chen, X., Ali, Y., Fisher, C.E.L., Arribas-Bosacoma, R., Rajasekaran, M.B., Williams, G., Walker, S., Roe, S.M., Pearl, L.H., Ward, S.E., Pearl, F.M.G., Oliver, A.W.

Citation:

Uncovering an allosteric mode of action for a selective inhibitor of human Bloom syndrome protein
Biorxiv pp. - 2020

Experiment:

 X-RAY DIFFRACTION Resolution:2.96Å R work:0.229R free:0.268

NDB ID:

 7B4Z

PDB ID:

7B4Z 

Release:

2020-12-16

Title:

Synthetic DNA duplex dodecamer

Classification:

DNA

Authors:

Lomzov, A.A., Sviridov, E.A., Shernuykov, A.V., Shevelev, G.Y., Pyshnyi, D.V., Bagryanskaya, E.G.

Citation:

Study of a DNA Duplex by Nuclear Magnetic Resonance and Molecular Dynamics Simulations. Validation of Pulsed Dipolar Electron Paramagnetic Resonance Distance Measurements Using Triarylmethyl-Based Spin Labels.
J Phys Chem B 120 pp.5125 - 5133 2016

Experiment:

 SOLUTION NMR

NDB ID:

 7BSE

PDB ID:

7BSE 

Release:

2020-12-16

Title:

Crystal structure of a NIR-emitting DNA-stabilized Ag16 nanocluster (T5A mutant)

Classification:

DNA

Authors:

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

Citation:

Mutation of position 5 as a crystal engineering tool for a NIR-emitting DNA-stabilized Ag16 nanocluster.
CrystEngComm 22 pp.8136 - 8141 2020

Experiment:

 X-RAY DIFFRACTION Resolution:1.5Å R work:0.124R free:0.137

NDB ID:

 7BSF

PDB ID:

7BSF 

Release:

2020-12-16

Title:

Crystal structure of a NIR-emitting DNA-stabilized Ag16 nanocluster (T5C mutant)

Classification:

DNA

Authors:

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

Citation:

Mutation of position 5 as a crystal engineering tool for a NIR-emitting DNA-stabilized Ag16 nanocluster.
CrystEngComm 22 pp.8136 - 8141 2020

Experiment:

 X-RAY DIFFRACTION Resolution:1.1Å R work:0.074R free:0.083

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