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As of 17-Apr-2018 number of released structures: 9452
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Polymer Type: All + Protein Function: All + Structural Features: All + Experimental Method: All

Results: 6386  Download results as an excel file       Gallery view

NDB ID:

5USB

PDB ID:

5USB 

Release:

2018-04-18

Title:

Crystal Structure of Schizosaccharomyces pombe Pot1pC bound to ssRNA/ssDNA chimera (rGGTTACGGT)

Classification:

DNA BINDING PROTEIN/DNA/RNA

Authors:

Lloyd, N.R., Wuttke, D.S.

Citation:

Discrimination against RNA backbones by a ssDNA binding protein
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.615Å R work:0.175R free:0.202

NDB ID:

5USN

PDB ID:

5USN 

Release:

2018-04-18

Title:

Crystal Structure of Schizosaccharomyces pombe Pot1pC bound to ssRNA/ssDNA chimera (rGrGrUTACGGT)

Classification:

DNA BINDING PROTEIN/DNA/RNA

Authors:

Lloyd, N.R., Wuttke, D.S.

Citation:

Discrimination against RNA backbones by a ssDNA binding protein
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.9Å R work:0.183R free:0.223

NDB ID:

5USO

PDB ID:

5USO 

Release:

2018-04-18

Title:

Crystal Structure of Schizosaccharomyces pombe Pot1pC bound to ssRNA/ssDNA chimera (GGTTACrGrGrU)

Classification:

DNA BINDING PROTEIN/DNA/RNA

Authors:

Lloyd, N.R., Wuttke, D.S.

Citation:

Discrimination against RNA backbones by a ssDNA binding protein
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.0Å R work:0.21R free:0.245

NDB ID:

5VFX

PDB ID:

5VFX 

Release:

2018-04-18

Title:

Structure of an accessory protein of the pCW3 relaxosome in complex with the origin of transfer (oriT) DNA

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Traore, D.A.K., Wisniewski, J.A., Flanigan, S.F., Conroy, P.J., Panjikar, S., Mok, Y.-F., Lao, C., Griffin, M.D.W., Adams, V., Rood, J.I., Whisstock, J.C.

Citation:

Structure of an accessory protein of the pCW3 relaxosome in complex with the origin of transfer (oriT) DNA
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.81Å R work:0.197R free:0.232

NDB ID:

5XP8

PDB ID:

5XP8 

Release:

2018-04-18

Title:

Crystal structure of T. thermophilus Argonaute protein complexed with a bulge 4A5 on the guide strand

Classification:

DNA BINDING PROTEIN

Authors:

Sheng, G., Gogakos, T., Wang, J., Zhao, H., Serganov, A., Juranek, S., Tuschl, T., Patel, J.D., Wang, Y.

Citation:

Crystal structure of T. thermophilus Argonaute protein complexed with a bulge 4A5 on the guide strand
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.1Å R work:0.214R free:0.275

NDB ID:

5XPA

PDB ID:

5XPA 

Release:

2018-04-18

Title:

Crystal structure of T. thermophilus Argonaute protein complexed with a bulge 9'U10' on the target strand

Classification:

DNA BINDING PROTEIN

Authors:

Sheng, G., Gogakos, T., Wang, J., Zhao, H., Serganov, A., Juranek, S., Tuschl, T., Patel, J.D., Wang, Y.

Citation:

Crystal structure of T. thermophilus Argonaute protein complexed with a bulge 4A5 on the guide strand
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.9Å R work:0.215R free:0.28

NDB ID:

5XPG

PDB ID:

5XPG 

Release:

2018-04-18

Title:

Crystal structure of T. thermophilus Argonaute protein complexed with a bulge 6'U7' on the target strand

Classification:

DNA BINDING PROTEIN

Authors:

Sheng, G., Gogakos, T., Wang, J., Zhao, H., Serganov, A., Juranek, S., Tuschl, T., Patel, J.D., Wang, Y.

Citation:

Crystal structure of T. thermophilus Argonaute protein complexed with a bulge 4A5 on the guide strand
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.8Å R work:0.202R free:0.246

NDB ID:

5Y3J

PDB ID:

5Y3J 

Release:

2018-04-18

Title:

Crystal structure of horse TLR9 in complex with two DNAs (CpG DNA and TCGCAC DNA)

Classification:

IMMUNE SYSTEM

Authors:

Ohto, U., Ishida, H., Shibata, T., Sato, R., Miyake, K., Shimizu, T.

Citation:

Toll-like Receptor 9 Contains Two DNA Binding Sites that Function Cooperatively to Promote Receptor Dimerization and Activation
Immunity pp. - 2018

Experiment:

X-RAY DIFFRACTION Resolution:1.81Å R work:0.177R free:0.206

NDB ID:

5Y3K

PDB ID:

5Y3K 

Release:

2018-04-18

Title:

Crystal structure of horse TLR9 in complex with two DNAs (CpG DNA and GCGCAC DNA)

Classification:

IMMUNE SYSTEM

Authors:

Ohto, U., Ishida, H., Shibata, T., Sato, R., Miyake, K., Shimizu, T.

Citation:

Toll-like Receptor 9 Contains Two DNA Binding Sites that Function Cooperatively to Promote Receptor Dimerization and Activation
Immunity pp. - 2018

Experiment:

X-RAY DIFFRACTION Resolution:2.7Å R work:0.205R free:0.245

NDB ID:

5Y3L

PDB ID:

5Y3L 

Release:

2018-04-18

Title:

Crystal structure of horse TLR9 in complex with two DNAs (CpG DNA and CCGCAC DNA)

Classification:

IMMUNE SYSTEM

Authors:

Ohto, U., Ishida, H., Shibata, T., Sato, R., Miyake, K., Shimizu, T.

Citation:

Toll-like Receptor 9 Contains Two DNA Binding Sites that Function Cooperatively to Promote Receptor Dimerization and Activation
Immunity pp. - 2018

Experiment:

X-RAY DIFFRACTION Resolution:2.6Å R work:0.211R free:0.259

NDB ID:

5Y3M

PDB ID:

5Y3M 

Release:

2018-04-18

Title:

Crystal structure of bovine TLR9 in complex with two DNAs (CpG DNA and TCGTTT DNA)

Classification:

IMMUNE SYSTEM

Authors:

Ohto, U., Ishida, H., Shibata, T., Sato, R., Miyake, K., Shimizu, T.

Citation:

Toll-like Receptor 9 Contains Two DNA Binding Sites that Function Cooperatively to Promote Receptor Dimerization and Activation
Immunity pp. - 2018

Experiment:

X-RAY DIFFRACTION Resolution:2.5Å R work:0.225R free:0.244

NDB ID:

5ZEV

PDB ID:

5ZEV 

Release:

2018-04-18

Title:

Solution structure of G-quadruplex formed in vegfr-2 proximal promoter sequence

Classification:

DNA

Authors:

Liu, Y., Cao, C.

Citation:

A putative G-quadruplex structure in the proximal promoter of vegfr-2 has implications for drug design to inhibit tumor angiogenesis
To Be Published pp. - 0

Experiment:

SOLUTION NMR

NDB ID:

6BWY

PDB ID:

6BWY 

Release:

2018-04-18

Title:

DNA substrate selection by APOBEC3G

Classification:

HYDROLASE

Authors:

Ziegler, S.J., Liu, C., Landau, M., Buzovetsky, O., Desimmie, B.A., Zhao, Q., Sasaki, T., Burdick, R.C., Pathak, V.K., Anderson, K.S., Xiong, Y.

Citation:

Insights into DNA substrate selection by APOBEC3G from structural, biochemical, and functional studies.
PLoS ONE 13 pp.e0195048 - e0195048 2018

Experiment:

X-RAY DIFFRACTION Resolution:2.9Å R work:0.233R free:0.286

NDB ID:

6FAS

PDB ID:

6FAS 

Release:

2018-04-18

Title:

Crystal structure of VAL1 B3 domain in complex with cognate DNA

Classification:

DNA BINDING PROTEIN

Authors:

Sasnauskas, G., Kauneckaite, K., Siksnys, V.

Citation:

Structural basis of DNA target recognition by the B3 domain of Arabidopsis epigenome reader VAL1
Nucleic Acids Res. pp. - 2018

Experiment:

X-RAY DIFFRACTION Resolution:1.9Å R work:0.169R free:0.216

NDB ID:

6FTU

PDB ID:

6FTU 

Release:

2018-04-18

Title:

Structure of a Quadruplex forming sequence from D. discoideum

Classification:

DNA

Authors:

Guedin, A., Linda, L., Armane, S., Lacroix, L., Mergny, J.L., Thore, S., Yatsunyk, L.A.

Citation:

Quadruplexes in ""Dicty"": Crystal structure of a four-quartet G-quadruplex formed by G-rich motif found in the Dictyostelium discoideum genome.
Nucleic Acids Res. pp. - 2018

Experiment:

X-RAY DIFFRACTION Resolution:2.95Å R work:0.217R free:0.287

NDB ID:

5NYS

PDB ID:

5NYS 

Release:

2018-04-11

Title:

M2 G-quadruplex dilute solution

Classification:

DNA

Authors:

Trajkovski, M., Plavec, J., Endoh, T., Tateishi-Karimata, H., Sugimoto, N.

Citation:

M2 G-quadruplex
Nucleic Acids Res. pp. - 2018

Experiment:

SOLUTION NMR

NDB ID:

5NYT

PDB ID:

5NYT 

Release:

2018-04-11

Title:

M2 G-quadruplex 20 wt% ethylene glycol

Classification:

DNA

Authors:

Trajkovski, M., Plavec, J., Endoh, T., Tateishi-Karimata, H., Sugimoto, N.

Citation:

M2 G-quadruplex
Nucleic Acids Res. pp. - 2018

Experiment:

SOLUTION NMR

NDB ID:

5NYU

PDB ID:

5NYU 

Release:

2018-04-11

Title:

M2 G-quadruplex 10 wt% PEG8000

Classification:

DNA

Authors:

Trajkovski, M., Plavec, J., Endoh, T., Tateishi-Karimata, H., Sugimoto, N.

Citation:

M2 G-quadruplex
Nucleic Acids Res. pp. - 2018

Experiment:

SOLUTION NMR

NDB ID:

5ZLD

PDB ID:

5ZLD 

Release:

2018-04-11

Title:

SOLUTION NMR STRUCTURE OF A 14-MER DOUBLE STRANDED DNA DUPLEX CGCGAAATTTCGCG

Classification:

DNA

Authors:

Ganguly, S., Basu, G.

Citation:

SOLUTION NMR STRUCTURE OF A 14-MER DOUBLE STRANDED DNA DUPLEX
To Be Published pp. - 0

Experiment:

SOLUTION NMR

NDB ID:

5VMU

PDB ID:

5VMU 

Release:

2018-04-04

Title:

Kaiso (ZBTB33) zinc finger DNA binding domain in complex with a double CpG-methylated DNA resembling the specific Kaiso binding sequence (KBS)

Classification:

TRANSCRIPTION/DNA

Authors:

Nikolova, E.N., Stanfield, R.L., Dyson, H.J., Wright, P.E.

Citation:

CH···O Hydrogen Bonds Mediate Highly Specific Recognition of Methylated CpG Sites by the Zinc Finger Protein Kaiso.
Biochemistry pp. - 2018

Experiment:

X-RAY DIFFRACTION Resolution:2.346Å R work:0.178R free:0.216

NDB ID:

5VMV

PDB ID:

5VMV 

Release:

2018-04-04

Title:

Kaiso (ZBTB33) zinc finger DNA binding domain in complex with its double CpG-methylated DNA consensus binding site

Classification:

TRANSCRIPTION/DNA

Authors:

Nikolova, E.N., Stanfield, R.L., Dyson, H.J., Wright, P.E.

Citation:

CH···O Hydrogen Bonds Mediate Highly Specific Recognition of Methylated CpG Sites by the Zinc Finger Protein Kaiso.
Biochemistry pp. - 2018

Experiment:

X-RAY DIFFRACTION Resolution:2.313Å R work:0.202R free:0.246

NDB ID:

5VMW

PDB ID:

5VMW 

Release:

2018-04-04

Title:

Kaiso (ZBTB33) zinc finger DNA binding domain in complex with a double CpG-methylated DNA resembling the specific Kaiso binding sequence (KBS)

Classification:

TRANSCRIPTION/DNA

Authors:

Nikolova, E.N., Stanfield, R.L., Dyson, H.J., Wright, P.E.

Citation:

CH···O Hydrogen Bonds Mediate Highly Specific Recognition of Methylated CpG Sites by the Zinc Finger Protein Kaiso.
Biochemistry pp. - 2018

Experiment:

X-RAY DIFFRACTION Resolution:2.397Å R work:0.176R free:0.216

NDB ID:

5VMX

PDB ID:

5VMX 

Release:

2018-04-04

Title:

Kaiso (ZBTB33) zinc finger DNA binding domain in complex with a hemi CpG-methylated DNA resembling the specific Kaiso binding sequence (KBS)

Classification:

TRANSCRIPTION/DNA

Authors:

Nikolova, E.N., Stanfield, R.L., Dyson, H.J., Wright, P.E.

Citation:

CH···O Hydrogen Bonds Mediate Highly Specific Recognition of Methylated CpG Sites by the Zinc Finger Protein Kaiso.
Biochemistry pp. - 2018

Experiment:

X-RAY DIFFRACTION Resolution:2.05Å R work:0.162R free:0.187

NDB ID:

5VMY

PDB ID:

5VMY 

Release:

2018-04-04

Title:

Kaiso (ZBTB33) zinc finger DNA binding domain in complex with a hemi CpG-methylated DNA resembling the specific Kaiso binding sequence (KBS)

Classification:

Transcription/DNA

Authors:

Nikolova, E.N., Stanfield, R.L., Dyson, H.J., Wright, P.E.

Citation:

CH···O Hydrogen Bonds Mediate Highly Specific Recognition of Methylated CpG Sites by the Zinc Finger Protein Kaiso.
Biochemistry pp. - 2018

Experiment:

X-RAY DIFFRACTION Resolution:2.002Å R work:0.163R free:0.188

NDB ID:

5VMZ

PDB ID:

5VMZ 

Release:

2018-04-04

Title:

Kaiso (ZBTB33) E535Q mutant zinc finger DNA binding domain in complex with a double CpG-methylated DNA resembling the specific Kaiso binding sequence (KBS)

Classification:

TRANSCRIPTION/DNA

Authors:

Nikolova, E.N., Stanfield, R.L., Dyson, H.J., Wright, P.E.

Citation:

CH···O Hydrogen Bonds Mediate Highly Specific Recognition of Methylated CpG Sites by the Zinc Finger Protein Kaiso.
Biochemistry pp. - 2018

Experiment:

X-RAY DIFFRACTION Resolution:2.319Å R work:0.167R free:0.198

NDB ID:

5Z2T

PDB ID:

5Z2T 

Release:

2018-04-04

Title:

Crystal structure of DNA-bound DUX4-HD2

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Dong, X., Zhang, W., Wu, H., Huang, J., Zhang, M., Wang, P., Zhang, H., Chen, Z., Chen, S.J., Meng, G.

Citation:

Structural basis of DUX4/IGH-driven transactivation.
Leukemia pp. - 2018

Experiment:

X-RAY DIFFRACTION Resolution:2.623Å R work:0.276R free:0.299

NDB ID:

6CC8

PDB ID:

6CC8 

Release:

2018-04-04

Title:

Crystal structure MBD3 MBD domain in complex with methylated CpG DNA

Classification:

DNA BINDING PROTEIN/DNA

Authors:

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

Citation:

Crystal structure MBD3 MBD domain in complex with methylated CpG DNA
To be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.95Å R work:0.224R free:0.259

NDB ID:

6EMY

PDB ID:

6EMY 

Release:

2018-04-04

Title:

Structure of the Tn1549 transposon Integrase (aa 82-397, Y379F) in complex with transposon right end DNA

Classification:

RECOMBINATION

Authors:

Rubio-Cosials, A., Schulz, E.C., Lambertsen, L., Smyshlyaev, G., Rojas-Cordova, C., Forslund, K., Karaca, E., Bebel, A., Bork, P., Barabas, O.

Citation:

Transposase-DNA Complex Structures Reveal Mechanisms for Conjugative Transposition of Antibiotic Resistance.
Cell 173 pp.208 - 220.e20 2018

Experiment:

X-RAY DIFFRACTION Resolution:2.5Å R work:0.16R free:0.183

NDB ID:

6EMZ

PDB ID:

6EMZ 

Release:

2018-04-04

Title:

Structure of the Tn1549 transposon Integrase (aa 82-397, R225K) in complex with circular intermediate DNA (CI5-DNA)

Classification:

RECOMBINATION

Authors:

Rubio-Cosials, A., Schulz, E.C., Lambertsen, L., Smyshlyaev, G., Rojas-Cordova, C., Forslund, K., Karaca, E., Bebel, A., Bork, P., Barabas, O.

Citation:

Transposase-DNA Complex Structures Reveal Mechanisms for Conjugative Transposition of Antibiotic Resistance.
Cell 173 pp.208 - 220.e20 2018

Experiment:

X-RAY DIFFRACTION Resolution:2.79Å R work:0.196R free:0.255

NDB ID:

6EN0

PDB ID:

6EN0 

Release:

2018-04-04

Title:

Structure of the Tn1549 transposon Integrase (aa 82-397) in complex with circular intermediate DNA (CI5-DNA)

Classification:

RECOMBINATION

Authors:

Rubio-Cosials, A., Schulz, E.C., Lambertsen, L., Smyshlyaev, G., Rojas-Cordova, C., Forslund, K., Karaca, E., Bebel, A., Bork, P., Barabas, O.

Citation:

Transposase-DNA Complex Structures Reveal Mechanisms for Conjugative Transposition of Antibiotic Resistance.
Cell 173 pp.208 - 220.e20 2018

Experiment:

X-RAY DIFFRACTION Resolution:2.8Å R work:0.226R free:0.254

NDB ID:

6EN1

PDB ID:

6EN1 

Release:

2018-04-04

Title:

Structure of the Tn1549 transposon Integrase (aa 82-397, R225K) in complex with a circular intermediate DNA (CI6a-DNA)

Classification:

RECOMBINATION

Authors:

Rubio-Cosials, A., Schulz, E.C., Lambertsen, L., Smyshlyaev, G., Rojas-Cordova, C., Forslund, K., Karaca, E., Bebel, A., Bork, P., Barabas, O.

Citation:

Transposase-DNA Complex Structures Reveal Mechanisms for Conjugative Transposition of Antibiotic Resistance.
Cell 173 pp.208 - 220.e20 2018

Experiment:

X-RAY DIFFRACTION Resolution:2.67Å R work:0.188R free:0.243

NDB ID:

6EN2

PDB ID:

6EN2 

Release:

2018-04-04

Title:

Structure of the Tn1549 transposon Integrase (aa 82-397, R225K) in complex with a circular intermediate DNA (CI6b-DNA)

Classification:

RECOMBINATION

Authors:

Rubio-Cosials, A., Schulz, E.C., Lambertsen, L., Smyshlyaev, G., Rojas-Cordova, C., Forslund, K., Karaca, E., Bebel, A., Bork, P., Barabas, O.

Citation:

Transposase-DNA Complex Structures Reveal Mechanisms for Conjugative Transposition of Antibiotic Resistance.
Cell 173 pp.208 - 220.e20 2018

Experiment:

X-RAY DIFFRACTION Resolution:2.67Å R work:0.184R free:0.244

NDB ID:

6FQM

PDB ID:

6FQM 

Release:

2018-04-04

Title:

3.06A COMPLEX OF S.AUREUS GYRASE with imidazopyrazinone T1 AND DNA

Classification:

ISOMERASE

Authors:

Germe, T., Voros, J., Jeannot, F., Taillier, T., Stavenger, R.A., Bacque, E., Maxwell, A., Bax, B.D.

Citation:

A new class of antibacterials, the imidazopyrazinones, reveal structural transitions involved in DNA gyrase poisoning and mechanisms of resistance.
Nucleic Acids Res. pp. - 2018

Experiment:

X-RAY DIFFRACTION Resolution:3.06Å R work:0.194R free:0.234

NDB ID:

6FQS

PDB ID:

6FQS 

Release:

2018-04-04

Title:

3.11A complex of S.Aureus gyrase with imidazopyrazinone T3 and DNA

Classification:

ISOMERASE

Authors:

Germe, T., Voros, J., Jeannot, F., Taillier, T., Stavenger, R.A., Bacque, E., Maxwell, A., Bax, B.D.

Citation:

A new class of antibacterials, the imidazopyrazinones, reveal structural transitions involved in DNA gyrase poisoning and mechanisms of resistance.
Nucleic Acids Res. pp. - 2018

Experiment:

X-RAY DIFFRACTION Resolution:3.11Å R work:0.178R free:0.209

NDB ID:

6FQV

PDB ID:

6FQV 

Release:

2018-04-04

Title:

2.60A BINARY COMPLEX OF S.AUREUS GYRASE with UNCLEAVED DNA

Classification:

ISOMERASE

Authors:

Germe, T., Voros, J., Jeannot, F., Taillier, T., Stavenger, R.A., Bacque, E., Maxwell, A., Bax, B.D.

Citation:

A new class of antibacterials, the imidazopyrazinones, reveal structural transitions involved in DNA gyrase poisoning and mechanisms of resistance.
Nucleic Acids Res. pp. - 2018

Experiment:

X-RAY DIFFRACTION Resolution:2.6Å R work:0.199R free:0.236

NDB ID:

5W34

PDB ID:

5W34 

Release:

2018-03-28

Title:

Crystal structure of the RNA polymerase domain (RPD) of Mycobacterium tuberculosis primase DnaG in complex with double-stranded DNA GACCGGAAGTGG

Classification:

TRANSFERASE

Authors:

Hou, C., Biswas, T., Tsodikov, O.V.

Citation:

Structures of the Catalytic Domain of Bacterial Primase DnaG in Complexes with DNA Provide Insight into Key Priming Events.
Biochemistry 57 pp.2084 - 2093 2018

Experiment:

X-RAY DIFFRACTION Resolution:2.95Å R work:0.235R free:0.285

NDB ID:

5W35

PDB ID:

5W35 

Release:

2018-03-28

Title:

Crystal structure of the RNA polymerase domain (RPD) of Mycobacterium tuberculosis primase DnaG in complex with a double-stranded DNA oligomer with a 1-nucleotide overhang

Classification:

TRANSFERASE/DNA

Authors:

Hou, C., Biswas, T., Tsodikov, O.V.

Citation:

Structures of the Catalytic Domain of Bacterial Primase DnaG in Complexes with DNA Provide Insight into Key Priming Events.
Biochemistry 57 pp.2084 - 2093 2018

Experiment:

X-RAY DIFFRACTION Resolution:3.31Å R work:0.223R free:0.278

NDB ID:

5W36

PDB ID:

5W36 

Release:

2018-03-28

Title:

Crystal structure of the RNA polymerase domain (RPD) of Mycobacterium tuberculosis primase DnaG in complex with a double-stranded DNA oligomer with a 6-nucleotide overhang

Classification:

TRANSFERASE

Authors:

Hou, C., Biswas, T., Tsodikov, O.V.

Citation:

Structures of the Catalytic Domain of Bacterial Primase DnaG in Complexes with DNA Provide Insight into Key Priming Events.
Biochemistry 57 pp.2084 - 2093 2018

Experiment:

X-RAY DIFFRACTION Resolution:2.46Å R work:0.215R free:0.269

NDB ID:

6AMA

PDB ID:

6AMA 

Release:

2018-03-28

Title:

Structure of S. coelicolor/S. venezuelae BldC-smeA-ssfA complex to 3.09 Angstrom

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Schumacher, M.A., den Hengst, C.D., Bush, M.J., Le, T.B.K., Tran, N.T., Chandra, G., Zeng, W., Travis, B., Brennan, R.G., Buttner, M.J.

Citation:

The MerR-like protein BldC binds DNA direct repeats as cooperative multimers to regulate Streptomyces development.
Nat Commun 9 pp.1139 - 1139 2018

Experiment:

X-RAY DIFFRACTION Resolution:3.09Å R work:0.21R free:0.281

NDB ID:

6AMK

PDB ID:

6AMK 

Release:

2018-03-28

Title:

Structure of Streptomyces venezuelae BldC-whiI opt complex

Classification:

dna binding protein/dna

Authors:

Schumacher, M.A., den Hengst, C.D., Bush, M.J., Le, T.B.K., Tran, N.T., Chandra, G., Zeng, W., Travis, B., Brennan, R.G., Buttner, M.J.

Citation:

The MerR-like protein BldC binds DNA direct repeats as cooperative multimers to regulate Streptomyces development.
Nat Commun 9 pp.1139 - 1139 2018

Experiment:

X-RAY DIFFRACTION Resolution:3.288Å R work:0.223R free:0.263

NDB ID:

6CNP

PDB ID:

6CNP 

Release:

2018-03-28

Title:

Crystal structure of MBD2 complex with methylated CpG island

Classification:

TRANSCRIPTION/DNA

Authors:

Liu, K., Xu, C., Lei, M., Yang, A., Loppnau, P., Hughes, T.R., Min, J.

Citation:

Structural basis for the ability of MBD domains to bind methyl-CG and TG sites in DNA.
J. Biol. Chem. pp. - 2018

Experiment:

X-RAY DIFFRACTION Resolution:2.1Å R work:0.188R free:0.217

NDB ID:

6CNQ

PDB ID:

6CNQ 

Release:

2018-03-28

Title:

MBD2 in complex with methylated DNA

Classification:

TRANSCRIPTION/DNA

Authors:

Liu, K., Xu, C., Lei, M., Yang, A., Loppnau, P., Hughes, T.R., Min, J.

Citation:

Structural basis for the ability of MBD domains to bind methyl-CG and TG sites in DNA.
J. Biol. Chem. pp. - 2018

Experiment:

X-RAY DIFFRACTION Resolution:2.151Å R work:0.205R free:0.228

NDB ID:

6FI8

PDB ID:

6FI8 

Release:

2018-03-28

Title:

Crystal structure of the IS608 transposase in complex with left end 29-mer DNA hairpin and a 6-mer DNA representing the intact target site: pre-cleavage target capture complex

Classification:

DNA BINDING PROTEIN

Authors:

Morero, N.R., Zuliani, C., Kumar, B., Bebel, A., Okamoto, S., Guynet, C., Hickman, A.B., Chandler, M., Dyda, F., Barabas, O.

Citation:

Targeting IS608 transposon integration to highly specific sequences by structure-based transposon engineering.
Nucleic Acids Res. pp. - 2018

Experiment:

X-RAY DIFFRACTION Resolution:2.598Å R work:0.196R free:0.238

NDB ID:

5N9E

PDB ID:

5N9E 

Release:

2018-03-21

Title:

Crystal Structure of Drosophila DHX36 helicase in complex with TGGGGATTT

Classification:

HYDROLASE

Authors:

Chen, W.-F., Rety, S., Hai-Lei Guo, H.-L., Wu, W.-Q., Liu, N.-N., Liu, Q.-W., Dai, Y.-X., Xi, X.-G.

Citation:

Structural and mechanistic insights into DHX36-mediated innate immunity and G-quadruplex unfolding
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.007Å R work:0.181R free:0.256

NDB ID:

5N9F

PDB ID:

5N9F 

Release:

2018-03-21

Title:

Crystal Structure of Drosophila DHX36 helicase in complex with ssDNA CpG_A

Classification:

HYDROLASE

Authors:

Chen, W.-F., Rety, S., Hai-Lei Guo, H.-L., Wu, W.-Q., Liu, N.-N., Liu, Q.-W., Dai, Y.-X., Xi, X.-G.

Citation:

Structural and mechanistic insights into DHX36-mediated innate immunity and G-quadruplex unfolding
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.969Å R work:0.214R free:0.269

NDB ID:

5NBE

PDB ID:

5NBE 

Release:

2018-03-21

Title:

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

Classification:

DNA

Authors:

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

Citation:

[Ru(TAP)2(dppz-11-CN)]2+ bound to d(TCGGCGCCGA)2
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.51Å R work:0.164R free:0.19

NDB ID:

5NNU

PDB ID:

5NNU 

Release:

2018-03-21

Title:

KSHV uracil-DNA glycosylase, product complex with dsDNA exhibiting duplex nucleotide flipping

Classification:

HYDROLASE

Authors:

Earl, C., Bagneris, C., Zeman, K., Cole, A., Barrett, T., Savva, R.

Citation:

A structurally conserved motif in gamma-herpesvirus uracil-DNA glycosylases elicits duplex nucleotide-flipping.
Nucleic Acids Res. pp. - 2018

Experiment:

X-RAY DIFFRACTION Resolution:2.97Å R work:0.243R free:0.269

NDB ID:

5YIV

PDB ID:

5YIV 

Release:

2018-03-21

Title:

Caulobacter crescentus GcrA DNA-binding domain(DBD) in complex with methylated dsDNA(crystal form 1)

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Wu, X., Haakonsen, D.L., Sanderlin, A.G., Liu, Y.J., Shen, L., Zhuang, N., Laub, M.T., Zhang, Y.

Citation:

Structural insights into the unique mechanism of transcription activation by Caulobacter crescentus GcrA.
Nucleic Acids Res. 46 pp.3245 - 3256 2018

Experiment:

X-RAY DIFFRACTION Resolution:2.914Å R work:0.2R free:0.242

NDB ID:

5YIW

PDB ID:

5YIW 

Release:

2018-03-21

Title:

Caulobacter crescentus GcrA DNA-binding domain (DBD) in complex with methylated dsDNA (crystal form 2)

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Wu, X., Haakonsen, D.L., Sanderlin, A.G., Liu, Y.J., Shen, L., Zhuang, N., Laub, M.T., Zhang, Y.

Citation:

Structural insights into the unique mechanism of transcription activation by Caulobacter crescentus GcrA.
Nucleic Acids Res. 46 pp.3245 - 3256 2018

Experiment:

X-RAY DIFFRACTION Resolution:1.551Å R work:0.203R free:0.233

NDB ID:

5Z7I

PDB ID:

5Z7I 

Release:

2018-03-21

Title:

Caulobacter crescentus GcrA DNA-binding domain(DBD)in complex with unmethylated dsDNA

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Wu, X., Haakonsen, D.L., Sanderlin, A.G., Liu, Y.J., Shen, L., Zhuang, N., Laub, M.T., Zhang, Y.

Citation:

Structural insights into the unique mechanism of transcription activation by Caulobacter crescentus GcrA.
Nucleic Acids Res. 46 pp.3245 - 3256 2018

Experiment:

X-RAY DIFFRACTION Resolution:1.601Å R work:0.2R free:0.223