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As of 13-Nov-2019 number of released structures: 10455
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Polymer Type: All + Protein Function: All + Structural Features: All + Experimental Method: All

Results: 7090  Download results as an excel file       Gallery view

NDB ID:

 6KKS

PDB ID:

6KKS 

Release:

2019-11-13

Title:

Structural insights into target DNA recognition by R2R3-type MYB transcription factor

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Wang, B., Luo, Q., Li, Y., Yin, L., Zhou, N., Li, X., Gan, J., Dong, A.

Citation:

Structural insights into target DNA recognition by R2R3-MYB transcription factors
Nucleic Acids Res. pp. - 2019

Experiment:

 X-RAY DIFFRACTION Resolution:2.15Å R work:0.213R free:0.245

NDB ID:

 6JDV

PDB ID:

6JDV 

Release:

2019-11-06

Title:

Crystal structure of Nme1Cas9 in complex with sgRNA and target DNA (ATATGATT PAM) in catalytic state

Classification:

HYDROLASE/RNA/DNA

Authors:

Sun, W., Yang, J., Cheng, Z., Amrani, N., Liu, C., Wang, K., Ibraheim, R., Edraki, A., Huang, X., Wang, M., Wang, J., Liu, L., Sheng, G., Yang, Y., Lou, J., Sontheimer, E.J., Wang, Y.

Citation:

Structures of Neisseria meningitidis Cas9 Complexes in Catalytically Poised and Anti-CRISPR-Inhibited States.
Mol.Cell pp. - 2019

Experiment:

 X-RAY DIFFRACTION Resolution:3.1Å R work:0.212R free:0.231

NDB ID:

 6JE3

PDB ID:

6JE3 

Release:

2019-11-06

Title:

Crystal structure of Nme2Cas9 in complex with sgRNA and target DNA (AGGCCC PAM) with 5 nt overhang

Classification:

HYDROLASE/RNA/DNA

Authors:

Sun, W., Yang, J., Cheng, Z., Amrani, N., Liu, C., Wang, K., Ibraheim, R., Edraki, A., Huang, X., Wang, M., Wang, J., Liu, L., Sheng, G., Yang, Y., Lou, J., Sontheimer, E.J., Wang, Y.

Citation:

Structures of Neisseria meningitidis Cas9 Complexes in Catalytically Poised and Anti-CRISPR-Inhibited States.
Mol.Cell pp. - 2019

Experiment:

 X-RAY DIFFRACTION Resolution:2.931Å R work:0.226R free:0.256

NDB ID:

 6JE4

PDB ID:

6JE4 

Release:

2019-11-06

Title:

Crystal structure of Nme1Cas9-sgRNA-dsDNA dimer mediated by double protein inhibitor AcrIIC3 monomers

Classification:

HYDROLASE/HYDROLASE INHIBITOR/DNA/RNA

Authors:

Sun, W., Yang, J., Cheng, Z., Amrani, N., Liu, C., Wang, K., Ibraheim, R., Edraki, A., Huang, X., Wang, M., Wang, J., Liu, L., Sheng, G., Yang, Y., Lou, J., Sontheimer, E.J., Wang, Y.

Citation:

Structures of Neisseria meningitidis Cas9 Complexes in Catalytically Poised and Anti-CRISPR-Inhibited States.
Mol.Cell pp. - 2019

Experiment:

 X-RAY DIFFRACTION Resolution:3.069Å R work:0.21R free:0.24

NDB ID:

 6JFU

PDB ID:

6JFU 

Release:

2019-11-06

Title:

Crystal structure of Nme2Cas9 in complex with sgRNA and target DNA (AGGCCC PAM)

Classification:

HYDROLASE/RNA/DNA

Authors:

Sun, W., Yang, J., Cheng, Z., Amrani, N., Liu, C., Wang, K., Ibraheim, R., Edraki, A., Huang, X., Wang, M., Wang, J., Liu, L., Sheng, G., Yang, Y., Lou, J., Sontheimer, E.J., Wang, Y.

Citation:

Structures of Neisseria meningitidis Cas9 Complexes in Catalytically Poised and Anti-CRISPR-Inhibited States.
Mol.Cell pp. - 2019

Experiment:

 X-RAY DIFFRACTION Resolution:3.2Å R work:0.253R free:0.27

NDB ID:

 6KC7

PDB ID:

6KC7 

Release:

2019-11-06

Title:

Crystal structure of Nme1Cas9 in complex with sgRNA and target DNA (ATATGATT PAM) in seed-base paring state

Classification:

HYDROLASE/RNA/DNA

Authors:

Sun, W., Yang, J., Cheng, Z., Amrani, N., Liu, C., Wang, K., Ibraheim, R., Edraki, A., Huang, X., Wang, M., Wang, J., Liu, L., Sheng, G., Yang, Y., Lou, J., Sontheimer, E.J., Wang, Y.

Citation:

Structures of Neisseria meningitidis Cas9 Complexes in Catalytically Poised and Anti-CRISPR-Inhibited States.
Mol.Cell pp. - 2019

Experiment:

 X-RAY DIFFRACTION Resolution:3.3Å R work:0.252R free:0.274

NDB ID:

 6KC8

PDB ID:

6KC8 

Release:

2019-11-06

Title:

Crystal structure of WT Nme1Cas9 in complex with sgRNA and target DNA (ATATGATT PAM) in post-cleavage state

Classification:

HYDROLASE/RNA/DNA

Authors:

Sun, W., Yang, J., Cheng, Z., Amrani, N., Liu, C., Wang, K., Ibraheim, R., Edraki, A., Huang, X., Wang, M., Wang, J., Liu, L., Sheng, G., Yang, Y., Lou, J., Sontheimer, E.J., Wang, Y.

Citation:

Structures of Neisseria meningitidis Cas9 Complexes in Catalytically Poised and Anti-CRISPR-Inhibited States.
Mol.Cell pp. - 2019

Experiment:

 X-RAY DIFFRACTION Resolution:2.9Å R work:0.202R free:0.256

NDB ID:

 6RS3

PDB ID:

6RS3 

Release:

2019-11-06

Title:

2'-F-riboguanosine modified G-quadruplex with V-loop

Classification:

DNA

Authors:

Haase, L., Dickerhoff, J., Weisz, K.

Citation:

Sugar Puckering Drives G-Quadruplex Refolding: Implications for V-Shaped Loops.
Chemistry pp. - 2019

Experiment:

 SOLUTION NMR

NDB ID:

 6S7D

PDB ID:

6S7D 

Release:

2019-11-06

Title:

Self-complementary duplex DNA containing an internucleoside phosphoroselenolate

Classification:

DNA

Authors:

Conlon, P.F., Eguaogie, O., Wilson, J.J., Sweet, J.S.T., Steinhoegl, J., Hancox, O., Englert, K., Law, C.J., Allman, S.A., Tucker, J.H.R., Hall, J.P., Vyle, J.S.

Citation:

Solid-phase synthesis and structural characterisation of phosphoroselenolate-modified DNA: a backbone analogue which does not impose conformational bias and facilitates SAD X-ray crystallography
Chem Sci pp. - 2019

Experiment:

 X-RAY DIFFRACTION Resolution:1.45Å R work:0.184R free:0.236

NDB ID:

 6HWG

PDB ID:

6HWG 

Release:

2019-10-30

Title:

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

Classification:

DNA

Authors:

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

Citation:

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

Experiment:

 X-RAY DIFFRACTION Resolution:1.74Å R work:0.193R free:0.205

NDB ID:

 6IQ4

PDB ID:

6IQ4 

Release:

2019-10-30

Title:

Nucleosome core particle cross-linked with a hetero-binuclear molecule possessing RAPTA and gold(I) 4-(diphenylphosphino)benzoic acid groups.

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Batchelor, L.K., De Falco, L., von Erlach, T., Sharma, D., Adhireksan, Z., Roethlisberger, U., Davey, C.A., Dyson, P.J.

Citation:

Crosslinking Allosteric Sites on the Nucleosome.
Angew.Chem.Int.Ed.Engl. 58 pp.15660 - 15664 2019

Experiment:

 X-RAY DIFFRACTION Resolution:2.25Å R work:0.232R free:0.257

NDB ID:

 6IYQ

PDB ID:

6IYQ 

Release:

2019-10-30

Title:

Crystal structure of a DNA duplex cross-linked by 6-thioguanine-6-thioguanine disulfides

Classification:

DNA

Authors:

Ono, A., Atsugi, T., Goto, M., Saneyoshi, H., Tomori, T., Seio, K., Dairaku, T., Kondo, J.

Citation:

Crystal structure of a DNA duplex cross-linked by 6-thioguanine-6-thioguanine disulfides: reversible formation and cleavage catalyzed by Cu(II) ion and glutathione
Rsc Adv pp. - 2019

Experiment:

 X-RAY DIFFRACTION Resolution:2.01Å R work:0.246R free:0.281

NDB ID:

 6JJ0

PDB ID:

6JJ0 

Release:

2019-10-30

Title:

NMR structure of the 1:1 complex of a carbazole derivative BMVC bound to c-MYC G-quadruplex

Classification:

DNA

Authors:

Liu, W., Lin, C., Wu, G., Chang, T.C., Yang, D.

Citation:

Solution structures of the c-MYC Promoter G-quadruplex bound to a carbazole derivative: Insights into small molecule conformational switch for optimal G4-binding
Nucleic Acids Res. pp. - 2019

Experiment:

 SOLUTION NMR

NDB ID:

 6NJQ

PDB ID:

6NJQ 

Release:

2019-10-30

Title:

Structure of TBP-Hoogsteen containing DNA complex

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Schumacher, M.A., Stelling, A.

Citation:

Structure of TBP-Hoogsteen containing DNA complex
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.75Å R work:0.23R free:0.277

NDB ID:

 6T22

PDB ID:

6T22 

Release:

2019-10-30

Title:

N-terminal domain of EcoKMcrA restriction endonuclease (NEco) in complex with T5hmCGA target sequence

Classification:

HYDROLASE

Authors:

Slyvka, A., Zagorskaite, E., Czapinska, H., Sasnauskas, G., Bochtler, M.

Citation:

Crystal structure of the EcoKMcrA N-terminal domain (NEco): recognition of modified cytosine bases without flipping
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.21Å R work:0.157R free:0.203

NDB ID:

 6T51

PDB ID:

6T51 

Release:

2019-10-30

Title:

NMR structure of KRAS22RT G-quadruplex forming within KRAS promoter region at physological temperature

Classification:

DNA

Authors:

Marquevielle, J., Kumar, M.V.V., Mergny, J.L., Salgado, G.F.

Citation:

1H,13C, and15N chemical shift assignments of a G-quadruplex forming sequence within the KRAS proto-oncogene promoter region.
Biomol.Nmr Assign. 12 pp.123 - 127 2018

Experiment:

 SOLUTION NMR

NDB ID:

 6HT5

PDB ID:

6HT5 

Release:

2019-10-23

Title:

Oct4/Sox2:UTF1 structure

Classification:

TRANSCRIPTION

Authors:

Vahokoski, J., Pogenberg, V., Wilmanns, M.

Citation:

Oct4/Sox2:UTF1 structure
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:3.451Å R work:0.201R free:0.248

NDB ID:

 6IS8

PDB ID:

6IS8 

Release:

2019-10-23

Title:

Crystal structure of ZmMoc1 D115N mutant in complex with Holliday junction

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Lin, H., Zhang, D., Zuo, K., Yuan, C., Li, J., Huang, M., Lin, Z.

Citation:

Structural basis of sequence-specific Holliday junction cleavage by MOC1.
Nat.Chem.Biol. pp. - 2019

Experiment:

 X-RAY DIFFRACTION Resolution:1.68Å R work:0.157R free:0.203

NDB ID:

 6JRF

PDB ID:

6JRF 

Release:

2019-10-23

Title:

Crystal structure of ZmMoc1-Holliday junction Complex in the presence of Calcium

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Lin, H., Zhang, D., Zuo, K., Yuan, C., Li, J., Huang, M., Lin, Z.

Citation:

Structural basis of sequence-specific Holliday junction cleavage by MOC1.
Nat.Chem.Biol. pp. - 2019

Experiment:

 X-RAY DIFFRACTION Resolution:2.047Å R work:0.208R free:0.264

NDB ID:

 6JRG

PDB ID:

6JRG 

Release:

2019-10-23

Title:

Crystal structure of ZmMoc1 H253A mutant in complex with Holliday junction

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Lin, H., Zhang, D., Zuo, K., Yuan, C., Li, J., Huang, M., Lin, Z.

Citation:

Structural basis of sequence-specific Holliday junction cleavage by MOC1.
Nat.Chem.Biol. pp. - 2019

Experiment:

 X-RAY DIFFRACTION Resolution:2.005Å R work:0.185R free:0.231

NDB ID:

 6MQ8

PDB ID:

6MQ8 

Release:

2019-10-23

Title:

Binary structure of DNA polymerase eta in complex with templating hypoxanthine

Classification:

TRANSFERASE/DNA

Authors:

Hawkins, M.A., Hunmin, J., Lee, S.

Citation:

Structural Analysis of Translesion Synthesis Across Hypoxanthine Lesion Using Human DNA Polymerase Eta
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:1.969Å R work:0.17R free:0.207

NDB ID:

 6O2L

PDB ID:

6O2L 

Release:

2019-10-23

Title:

NMR structure of the 2:1 complex of a carbazole derivative BMVC bound to c-MYC G-quadruplex

Classification:

DNA

Authors:

Liu, W., Lin, C., Wu, G., Chang, T.C., Yang, D.

Citation:

Solution structures of the c-MYC Promoter G-quadruplex bound to a carbazole derivative: Insights into small molecule conformational switch for optimal G4-binding
To Be Published pp. - 0

Experiment:

 SOLUTION NMR

NDB ID:

 6O9E

PDB ID:

6O9E 

Release:

2019-10-23

Title:

Structure of HIV-1 Reverse Transcriptase in complex with DNA and INDOPY-1

Classification:

TRANSFERASE/DNA

Authors:

Ruiz, F.X., Hoang, A., Das, K., Arnold, E.

Citation:

Structural Basis of HIV-1 Inhibition by Nucleotide-Competing Reverse Transcriptase Inhibitor INDOPY-1.
J.Med.Chem. pp. - 2019

Experiment:

 X-RAY DIFFRACTION Resolution:2.4Å R work:0.202R free:0.241

NDB ID:

 6PBD

PDB ID:

6PBD 

Release:

2019-10-23

Title:

DNA N6-Adenine Methyltransferase CcrM In Complex with Double-Stranded DNA Oligonucleotide Containing Its Recognition Sequence GAATC

Classification:

TRANSFERASE/DNA

Authors:

Horton, J.R., Woodcock, C.B., Opot, S.B., Reich, N.O., Zhang, X., Cheng, X.

Citation:

The cell cycle-regulated DNA adenine methyltransferase CcrM opens a bubble at its DNA recognition site.
Nat Commun 10 pp.4600 - 4600 2019

Experiment:

 X-RAY DIFFRACTION Resolution:2.343Å R work:0.172R free:0.208

NDB ID:

 6R64

PDB ID:

6R64 

Release:

2019-10-23

Title:

N-terminal domain of modification dependent EcoKMcrA restriction endonuclease (NEco) in complex with C5mCGG target sequence

Classification:

HYDROLASE

Authors:

Slyvka, A., Zagorskaite, E., Czapinska, H., Sasnauskas, G., Bochtler, M.

Citation:

Crystal structure of the EcoKMcrA N-terminal domain (NEco): recognition of modified cytosine bases without flipping
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.64Å R work:0.19R free:0.229

NDB ID:

 6T21

PDB ID:

6T21 

Release:

2019-10-23

Title:

N-terminal domain of EcoKMcrA restriction endonuclease (NEco) in complex with T5mCGA target sequence

Classification:

HYDROLASE

Authors:

Slyvka, A., Zagorskaite, E., Czapinska, H., Sasnauskas, G., Bochtler, M.

Citation:

Crystal structure of the EcoKMcrA N-terminal domain (NEco): recognition of modified cytosine bases without flipping
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.07Å R work:0.158R free:0.201

NDB ID:

 6IUE

PDB ID:

6IUE 

Release:

2019-10-16

Title:

DNA helical wire containing Hg(II)

Classification:

DNA

Authors:

Ono, A., Kanazawa, H., Ito, H., Goto, M., Nakamura, K., Saneyoshi, H., Kondo, J.

Citation:

Novel DNA Helical Wire Containing HgII-Mediated T:T and T:G Pairs.
Angew.Chem.Int.Ed.Engl. pp. - 2019

Experiment:

 X-RAY DIFFRACTION Resolution:1.901Å R work:0.293R free:0.346

NDB ID:

 6MP3

PDB ID:

6MP3 

Release:

2019-10-16

Title:

Binary structure of DNA polymerase eta in complex with templating hypoxanthine

Classification:

TRANSFERASE/DNA

Authors:

Hawkins, M.A., Hunmin, J., Lee, S.

Citation:

Structural Analysis of Translesion Synthesis Across Hypoxanthine Lesion Using Human DNA Polymerase Eta
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:1.907Å R work:0.167R free:0.209

NDB ID:

 6Q6R

PDB ID:

6Q6R 

Release:

2019-10-16

Title:

Recognition of different base tetrads by RHAU: X-ray crystal structure of G4 recognition motif bound to the 3-end tetrad of a DNA G-quadruplex

Classification:

DNA BINDING PROTEIN

Authors:

Heddi, B., Vee Cheong, V., Schmitt, E., Mechulam, Y., Tuan Phan, A.

Citation:

Recognition of different base tetrads by RHAU: X-ray crystal structure of the G4 recognition motif bound to the 3'-end tetrad of a DNA G-quadruplex.
J.Struct.Biol. pp. - 2019

Experiment:

 X-RAY DIFFRACTION Resolution:1.5Å R work:0.185R free:0.244

NDB ID:

 6TZQ

PDB ID:

6TZQ 

Release:

2019-10-16

Title:

A DNA G-quadruplex/i-motif hybrid

Classification:

DNA

Authors:

Chu, B., Zhang, D., Paukstelis, P.J.

Citation:

A DNA G-quadruplex/i-motif hybrid.
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.29Å R free:0.255

NDB ID:

 6TZR

PDB ID:

6TZR 

Release:

2019-10-16

Title:

A DNA G-quadruplex/i-motif hybrid

Classification:

DNA

Authors:

Chu, B., Zhang, D., Paukstelis, P.J.

Citation:

A DNA G-quadruplex/i-motif hybrid.
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.4Å R work:0.212R free:0.253

NDB ID:

 6TZS

PDB ID:

6TZS 

Release:

2019-10-16

Title:

A DNA i-motif/duplex hybrid

Classification:

DNA

Authors:

Chu, B., Zhang, D., Paukstelis, P.J.

Citation:

A DNA G-quadruplex/i-motif hybrid.
To Be Published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.6Å R work:0.266R free:0.316

NDB ID:

 6FY6

PDB ID:

6FY6 

Release:

2019-10-09

Title:

Concerted dynamics of metallo-base pairs in an A/B-form helical transition (major species)

Classification:

DNA

Authors:

Schmidt, O.P., Jurt, S., Johannsen, S., Karimi, A., Sigel, R.K.O., Luedtke, N.W.

Citation:

Concerted dynamics of metallo-base pairs in an A/B-form helical transition.
Nat Commun 10 pp.4818 - 4818 2019

Experiment:

 SOLUTION NMR

NDB ID:

 6FY7

PDB ID:

6FY7 

Release:

2019-10-09

Title:

Concerted dynamics of metallo-base pairs in an A/B-form helical transition (minor species)

Classification:

DNA

Authors:

Schmidt, O.P., Jurt, S., Johannsen, S., Karimi, A., Sigel, R.K.O., Luedtke, N.W.

Citation:

Concerted dynamics of metallo-base pairs in an A/B-form helical transition.
Nat Commun 10 pp.4818 - 4818 2019

Experiment:

 SOLUTION NMR

NDB ID:

 6RCN

PDB ID:

6RCN 

Release:

2019-10-09

Title:

Crystal structure of REXO2-D199A-dAdA

Classification:

HYDROLASE

Authors:

Nicholls, T.J., Spahr, H., Jiang, S., Siira, S.J., Koolmeister, C., Sharma, S., Kauppila, J.H.K., Jiang, M., Kaever, V., Rackham, O., Chabes, A., Falkenberg, M., Filipovska, A., Larsson, N.G., Gustafsson, C.M.

Citation:

Dinucleotide Degradation by REXO2 Maintains Promoter Specificity in Mammalian Mitochondria.
Mol.Cell pp. - 2019

Experiment:

 X-RAY DIFFRACTION Resolution:2.25Å R work:0.211R free:0.246

NDB ID:

 6RLS

PDB ID:

6RLS 

Release:

2019-10-09

Title:

Concerted dynamics of metallo-base pairs in an A/B-form helical transition (apo species)

Classification:

DNA

Authors:

Schmidt, O.P., Jurt, S., Johannsen, S., Karimi, A., Sigel, R.K.O., Luedtke, N.W.

Citation:

Concerted dynamics of metallo-base pairs in an A/B-form helical transition.
Nat Commun 10 pp.4818 - 4818 2019

Experiment:

 SOLUTION NMR

NDB ID:

 6FZS

PDB ID:

6FZS 

Release:

2019-10-02

Title:

Crystal structure of Smad5-MH1 bound to the GGCGC site.

Classification:

TRANSCRIPTION

Authors:

Ruiz, L., Kaczmarska, Z., Aragon, E., Cordero, J., Martin Malpartida, P., Freier, R., Marquez, J.A., Macias, M.J.

Citation:

Recognition of the 5GC DNA motif is conserved in BMP and TGF-beta activated Smad proteins
to be published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.31Å R work:0.193R free:0.24

NDB ID:

 6FZT

PDB ID:

6FZT 

Release:

2019-10-02

Title:

Crystal structure of Smad8_9-MH1 bound to the GGCGC site.

Classification:

TRANSCRIPTION

Authors:

Ruiz, L., Kaczmarska, Z., Aragon, E., Cordero, J., Martin Malpartida, P., Freier, R., Marquez, J.A., Macias, M.J.

Citation:

Recognition of the 5GC DNA motif is conserved in BMP and TGF-beta activated Smad proteins
to be published pp. - 0

Experiment:

 X-RAY DIFFRACTION Resolution:2.46Å R work:0.193R free:0.237

NDB ID:

 6JR0

PDB ID:

6JR0 

Release:

2019-10-02

Title:

Crystal structure of the human nucleosome phased with 12 selenium atoms

Classification:

GENE REGULATION/DNA

Authors:

Saotome, M., Horikoshi, N., Urano, K., Kujirai, T., Yuzurihara, H., Kurumizaka, H., Kagawa, W.

Citation:

Structure determination of the nucleosome core particle by selenium SAD phasing.
Acta Crystallogr D Struct Biol 75 pp.930 - 936 2019

Experiment:

 X-RAY DIFFRACTION Resolution:2.5Å R work:0.221R free:0.253

NDB ID:

 6JR1

PDB ID:

6JR1 

Release:

2019-10-02

Title:

Crystal structure of the human nucleosome phased with 16 selenium atoms

Classification:

GENE REGULATION/DNA

Authors:

Saotome, M., Horikoshi, N., Urano, K., Kujirai, T., Yuzurihara, H., Kurumizaka, H., Kagawa, W.

Citation:

Structure determination of the nucleosome core particle by selenium SAD phasing.
Acta Crystallogr D Struct Biol 75 pp.930 - 936 2019

Experiment:

 X-RAY DIFFRACTION Resolution:2.4Å R work:0.208R free:0.242

NDB ID:

 6U7T

PDB ID:

6U7T 

Release:

2019-10-02

Title:

MutY adenine glycosylase bound to DNA containing a transition state analog (1N) paired with d(8-oxo-G)

Classification:

hydrolase/DNA

Authors:

Woods, R.D., O'Shea, V.L., Chu, A., Cao, S., Richards, J.L., Horvath, M.P., David, S.S.

Citation:

Structure and stereochemistry of the base excision repair glycosylase MutY reveal a mechanism similar to retaining glycosidases.
Nucleic Acids Res. 44 pp.801 - 810 2016

Experiment:

 X-RAY DIFFRACTION Resolution:2.0Å R work:0.261R free:0.27

NDB ID:

 6JGW

PDB ID:

6JGW 

Release:

2019-09-25

Title:

Crystal structure of the transcriptional regulator CadR from P. putida in complex with DNA

Classification:

TRANSCRIPTION/DNA

Authors:

Liu, X., Hu, Q., Yang, J., Huang, S., Wei, T., Chen, W., He, Y., Wang, D., Liu, Z., Wang, K., Gan, J., Chen, H.

Citation:

Selective cadmium regulation mediated by a cooperative binding mechanism in CadR.
Proc.Natl.Acad.Sci.USA 116 pp.20398 - 20403 2019

Experiment:

 X-RAY DIFFRACTION Resolution:2.8Å R work:0.204R free:0.253

NDB ID:

 6JGX

PDB ID:

6JGX 

Release:

2019-09-25

Title:

Crystal structure of the transcriptional regulator CadR from P. putida in complex with Cadmium(II) and DNA

Classification:

TRANSCRIPTION/DNA

Authors:

Liu, X., Hu, Q., Yang, J., Huang, S., Wei, T., Chen, W., He, Y., Wang, D., Liu, Z., Wang, K., Gan, J., Chen, H.

Citation:

Selective cadmium regulation mediated by a cooperative binding mechanism in CadR.
Proc.Natl.Acad.Sci.USA 116 pp.20398 - 20403 2019

Experiment:

 X-RAY DIFFRACTION Resolution:2.71Å R work:0.209R free:0.233

NDB ID:

 6JNI

PDB ID:

6JNI 

Release:

2019-09-25

Title:

Crystal structure of the transcriptional regulator CadR from P. putida in complex with Zinc(II) and DNA

Classification:

TRANSCRIPTION/DNA

Authors:

Liu, X., Hu, Q., Yang, J., Huang, S., Wei, T., Chen, W., He, Y., Wang, D., Liu, Z., Wang, K., Gan, J., Chen, H.

Citation:

Selective cadmium regulation mediated by a cooperative binding mechanism in CadR.
Proc.Natl.Acad.Sci.USA 116 pp.20398 - 20403 2019

Experiment:

 X-RAY DIFFRACTION Resolution:2.9Å R work:0.211R free:0.254

NDB ID:

 6K3Z

PDB ID:

6K3Z 

Release:

2019-09-25

Title:

Crystal structure of dCas9 in complex with sgRNA and DNA (TGA PAM)

Classification:

HYDROLASE/DNA/RNA

Authors:

Chen, W., Zhang, H., Zhang, Y., Wang, Y., Gan, J., Ji, Q.

Citation:

Molecular basis for the PAM expansion and fidelity enhancement of an evolved Cas9 nuclease.
Plos Biol. 17 pp.e3000496 - e3000496 2019

Experiment:

 X-RAY DIFFRACTION Resolution:3.2Å R work:0.196R free:0.275

NDB ID:

 6K4P

PDB ID:

6K4P 

Release:

2019-09-25

Title:

Crystal structure of xCas9 in complex with sgRNA and DNA (TGG PAM)

Classification:

HYDROLASE/DNA/RNA

Authors:

Chen, W., Zhang, H., Zhang, Y., Wang, Y., Gan, J., Ji, Q.

Citation:

Molecular basis for the PAM expansion and fidelity enhancement of an evolved Cas9 nuclease.
Plos Biol. 17 pp.e3000496 - e3000496 2019

Experiment:

 X-RAY DIFFRACTION Resolution:2.9Å R work:0.202R free:0.269

NDB ID:

 6K4Q

PDB ID:

6K4Q 

Release:

2019-09-25

Title:

Crystal structure of xCas9 in complex with sgRNA and DNA (CGG PAM)

Classification:

HYDROLASE/DNA/RNA

Authors:

Chen, W., Zhang, H., Zhang, Y., Wang, Y., Gan, J., Ji, Q.

Citation:

Molecular basis for the PAM expansion and fidelity enhancement of an evolved Cas9 nuclease.
Plos Biol. 17 pp.e3000496 - e3000496 2019

Experiment:

 X-RAY DIFFRACTION Resolution:2.7Å R work:0.203R free:0.275

NDB ID:

 6K4S

PDB ID:

6K4S 

Release:

2019-09-25

Title:

Crystal structure of xCas9 in complex with sgRNA and DNA (TGC PAM)

Classification:

HYDROLASE/DNA/RNA

Authors:

Chen, W., Zhang, H., Zhang, Y., Wang, Y., Gan, J., Ji, Q.

Citation:

Molecular basis for the PAM expansion and fidelity enhancement of an evolved Cas9 nuclease.
Plos Biol. 17 pp.e3000496 - e3000496 2019

Experiment:

 X-RAY DIFFRACTION Resolution:3.01Å R work:0.236R free:0.285

NDB ID:

 6K4U

PDB ID:

6K4U 

Release:

2019-09-25

Title:

Crystal structure of xCas9 in complex with sgRNA and DNA (TGA PAM)

Classification:

HYDROLASE/DNA

Authors:

Chen, W., Zhang, H., Zhang, Y., Wang, Y., Gan, J., Ji, Q.

Citation:

Molecular basis for the PAM expansion and fidelity enhancement of an evolved Cas9 nuclease.
Plos Biol. 17 pp.e3000496 - e3000496 2019

Experiment:

 X-RAY DIFFRACTION Resolution:3.2Å R work:0.219R free:0.282

NDB ID:

 6K57

PDB ID:

6K57 

Release:

2019-09-25

Title:

Crystal structure of dCas9 in complex with sgRNA and DNA (CGA PAM)

Classification:

HYDROLASE/RNA/DNA

Authors:

Chen, W., Zhang, H., Zhang, Y., Wang, Y., Gan, J., Ji, Q.

Citation:

Molecular basis for the PAM expansion and fidelity enhancement of an evolved Cas9 nuclease.
Plos Biol. 17 pp.e3000496 - e3000496 2019

Experiment:

 X-RAY DIFFRACTION Resolution:2.98Å R work:0.197R free:0.274

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