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As of 22-Jun-2022 number of released structures: 12128
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Polymer Type: All + Protein Function: All + Structural Features: All + Experimental Method: All

Results: 8291  Download results as an excel file       Gallery view

NDB ID:

7XRC

PDB ID:

7XRC 

Release:

2022-06-15

Title:

Crystal Structure of the dimeric Brn2 (Pou3f2) POU domain bound to palindromic MORE DNA

Classification:

TRANSCRIPTION/DNA

Authors:

Tan, D.S.Y., Jauch, R.

Citation:

Crystal Structure of the dimeric Brn2 (Pou3f2) POU domain bound to palindromic MORE DNA
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:1.89Å R work:0.2R free:0.226

NDB ID:

7ZEM

PDB ID:

7ZEM 

Release:

2022-06-15

Title:

Structure of a parallel G-quadruplex with a snapback loop

Classification:

DNA

Authors:

Jana, J., Vianney, Y.M., Schroeder, N., Weisz, K.

Citation:

Guiding the Folding of G-Quadruplexes Through Loop Residue Interactions
Nucleic Acids Res. pp. - 2022

Experiment:

SOLUTION NMR

NDB ID:

7ZEO

PDB ID:

7ZEO 

Release:

2022-06-15

Title:

Structure of a hybrid-type G-quadruplex with a snapback loop and an all-syn G-column (hybrid-1R)

Classification:

DNA

Authors:

Jana, J., Vianney, Y.M., Schroeder, N., Weisz, K.

Citation:

Guiding the Folding of G-Quadruplexes Through Loop Residue Interactions
Nucleic Acids Res. pp. - 2022

Experiment:

SOLUTION NMR

NDB ID:

7N5U

PDB ID:

7N5U 

Release:

2022-06-08

Title:

ZBTB7A Zinc Finger Domain Bound to DNA Duplex Containing GGACCC (Oligo 21)

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Yang, Y., Ren, R., Ly, L., Horton, J.R., Dong, L.F., Quinlan, K., Crossley, M., Shi, Y., Cheng, X.

Citation:

ZBTB7A Zinc Finger Domain Bound to DNA Duplex Containing GGACCC (Oligo 21)
To be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.86Å R work:0.247R free:0.299

NDB ID:

7N5V

PDB ID:

7N5V 

Release:

2022-06-08

Title:

ZBTB7A Zinc Finger Domain Bound to DNA Duplex Containing GGACCC (Oligo 20)

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Yang, Y., Ren, R., Ly, L., Horton, J.R., Dong, L.F., Quinlan, K., Crossley, M., Shi, Y., Cheng, X.

Citation:

ZBTB7A Zinc Finger Domain Bound to DNA Duplex Containing GGACCC (Oligo 20)
To be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.08Å R work:0.259R free:0.313

NDB ID:

7N5W

PDB ID:

7N5W 

Release:

2022-06-08

Title:

ZBTB7A Zinc Finger Domain Bound to DNA Duplex Containing GGACCC (Oligo 23)

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Yang, Y., Ren, R., Ly, L., Horton, J.R., Dong, L.F., Quinlan, K., Crossley, M., Shi, Y., Cheng, X.

Citation:

ZBTB7A Zinc Finger Domain Bound to DNA Duplex Containing GGACCC (Oligo 23)
To be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.24Å R work:0.189R free:0.225

NDB ID:

7OOT

PDB ID:

7OOT 

Release:

2022-06-08

Title:

X-ray Structure of Interferon Regulatory Factor 4 DNA binding domain bound to an interferon-stimulated response element

Classification:

DNA BINDING PROTEIN

Authors:

Agnarelli, A., El Omari, K., Alt, A.O., Mancini, E.J.

Citation:

X-ray Structure of Interferon Regulatory Factor 4 DNA binding domain bound to interferon-stimulated response element
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.25Å R work:0.202R free:0.238

NDB ID:

7UBU

PDB ID:

7UBU 

Release:

2022-06-08

Title:

Crystal structure of ZMET2 in complex with hemimethylated CAG DNA and a histone H3Kc9me2 peptide

Classification:

TRANSFERASE/DNA

Authors:

Fang, J., Jiang, J., Leichter, S., Song, J.

Citation:

Mechanistic basis for maintenance of CHG DNA methylation in plants
to be published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.39Å R work:0.211R free:0.256

NDB ID:

7X2Z

PDB ID:

7X2Z 

Release:

2022-06-08

Title:

NMR solution structure of the 1:1 complex of a pyridostatin derivative (PyPDS) bound to a G-quadruplex MYT1L

Classification:

DNA

Authors:

Liu, L.-Y., Mao, Z.-W.

Citation:

NMR solution structure of the 1:1 complex of a pyridostatin derivative (PyPDS) bound to a G-quadruplex MYT1L
To Be Published pp. - 0

Experiment:

SOLUTION NMR

NDB ID:

7X3A

PDB ID:

7X3A 

Release:

2022-06-08

Title:

NMR solution structure of the 1:1 complex of a pyridostatin (PDS) bound to a G-quadruplex MYT1L

Classification:

DNA

Authors:

Liu, L.-Y., Mao, Z.-W.

Citation:

NMR solution structure of the 1:1 complex of a pyridostatin (PDS) bound to a G-quadruplex MYT1L
To Be Published pp. - 0

Experiment:

SOLUTION NMR

NDB ID:

7ALU

PDB ID:

7ALU 

Release:

2022-06-01

Title:

NMR structure of a DNA G-quadruplex containing two SP1 binding sites from HIV-1 promoter

Classification:

DNA

Authors:

De Rache, A., Marquevielle, J., Vialet, B., Bouaziz, S., Andreola, M., Mergny, J., Amrane, S.

Citation:

Formation of mutually exclusive DNA G-quadruplexes within HIV-1 promoter governs SP1 binding sites accessibility: A potential role in viral transcription regulation and latency
To Be Published pp. - 0

Experiment:

SOLUTION NMR

NDB ID:

7B0C

PDB ID:

7B0C 

Release:

2022-06-01

Title:

[4Fe-4S]-NsrR complexed to 23-bp HmpA1 promoter fragment

Classification:

DNA BINDING PROTEIN

Authors:

Rohac, R., Crack, J.C., Gigarel, O., Le Brun, N.E., Fontecilla-Camps, J.C., Volbeda, A.

Citation:

Structural determinants of protein-DNA recognition in Rrf2 family [FeS]-transcription factor-promoter complexes
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:3.0Å R work:0.219R free:0.236

NDB ID:

7MZ3

PDB ID:

7MZ3 

Release:

2022-06-01

Title:

Structure of human DNA polymerase beta complexed with 3-deaza-3-methyladenine (3dMeA) as the template base in a 1-nucleotide gapped DNA

Classification:

TRANSFERASE/DNA

Authors:

Koag, M.-C., Lee, S.

Citation:

Structure of human DNA polymerase beta complexed with 3-deaza-3-methyladenine (3dMeA) as the template base in a 1-nucleotide gapped DNA
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.418Å R work:0.203R free:0.266

NDB ID:

7MZ4

PDB ID:

7MZ4 

Release:

2022-06-01

Title:

Structure of human DNA polymerase beta complexed with 3-deaza-3-methyladenine (3dMeA) in the template base paired with incoming dTTP

Classification:

TRANSFERASE/DNA

Authors:

Koag, M.-C., Lee, S.

Citation:

Structure of human DNA polymerase beta complexed with 3-deaza-3-methyladenine (3dMeA) in the template base paired with incoming dTTP
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.076Å R work:0.216R free:0.269

NDB ID:

7MZ8

PDB ID:

7MZ8 

Release:

2022-06-01

Title:

Structure of human DNA polymerase beta complexed with 3-deaza-3-methyladenine (3dMeA) at N-1 of the template base paired with incoming dTTP

Classification:

TRANSFERASE/DNA

Authors:

Koag, M.-C., Lee, S.

Citation:

Structure Of Human Dna Polymerase Beta Complexed With 8Oa As The Template Base In A 1-Nucleotide Gapped Dna
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.6Å R work:0.201R free:0.263

NDB ID:

7OGS

PDB ID:

7OGS 

Release:

2022-06-01

Title:

X-ray Structure of Interferon Regulatory Factor 4 DNA binding domain bound to an interferon-stimulated response element

Classification:

DNA BINDING PROTEIN

Authors:

Agnarelli, A., El Omari, K., Alt, A.O., Mancini, E.J.

Citation:

X-ray Structure of Interferon Regulatory Factor 4 DNA binding domain bound to interferon-stimulated response element
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.37Å R work:0.216R free:0.249

NDB ID:

7Q0N

PDB ID:

7Q0N 

Release:

2022-06-01

Title:

Arbitrium receptor from Katmira phage

Classification:

DNA BINDING PROTEIN

Authors:

Gallego del Sol, F., Marina, A.

Citation:

Insights into the mechanism of action of the arbitrium communication system in SPbeta phages
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.5Å R work:0.201R free:0.249

NDB ID:

7TXC

PDB ID:

7TXC 

Release:

2022-06-01

Title:

HIC2 zinc finger domain in complex with the DNA binding motif-2 of the BCL11A enhancer

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Huang, P., Peslak, S.A., Ren, R., Khandros, E., Qin, K., Keller, C.A., Giardine, B., Bell, H.W., Lan, X., Sharma, M., Horton, J.R., Abdulmalik, O., Chou, S.T., Shi, J., Crossley, M., Hardison, R.C., Cheng, X., Blobel, G.A.

Citation:

HIC2 Controls Developmental Hemoglobin Switching By Repressing BCL11A Transcription
Nat.Genet. pp. - 2022

Experiment:

X-RAY DIFFRACTION Resolution:3.04Å R work:0.192R free:0.209

NDB ID:

7TZV

PDB ID:

7TZV 

Release:

2022-06-01

Title:

Structure of DriD C-domain bound to 9mer ssDNA

Classification:

TRANSCRIPTION

Authors:

Gozzi, K., Salinas, R., Nguyen, V.D., Laub, M.T., Schumacher, M.A.

Citation:

ssDNA is an allosteric regulator of the C. crescentus SOS-independent DNA damage response transcription activator, DriD.
Genes Dev. pp. - 2022

Experiment:

X-RAY DIFFRACTION Resolution:1.65Å R work:0.191R free:0.223

NDB ID:

7U02

PDB ID:

7U02 

Release:

2022-06-01

Title:

Structure of the C. crescentus DriD C-domain bound to ssDNA

Classification:

TRANSCRIPTION

Authors:

Gozzi, K., Salinas, R., Nguyen, V.D., Laub, M.T., Schumacher, M.A.

Citation:

ssDNA is an allosteric regulator of the C. crescentus SOS-independent DNA damage response transcription activator, DriD.
Genes Dev. pp. - 2022

Experiment:

X-RAY DIFFRACTION Resolution:2.48Å R work:0.23R free:0.279

NDB ID:

7MZ0

PDB ID:

7MZ0 

Release:

2022-05-25

Title:

Structure of human DNA polymerase beta complexed with dzA as the template base in a 1-nucleotide gapped DNA

Classification:

TRANSFERASE/DNA

Authors:

Koag, M.-C., Lee, S.

Citation:

Structure Of Human Dna Polymerase Beta Complexed With dzA As The Template Base In A 1-Nucleotide Gapped Dna
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.021Å R work:0.221R free:0.275

NDB ID:

7MZ1

PDB ID:

7MZ1 

Release:

2022-05-25

Title:

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

Classification:

TRANSFERASE/DNA

Authors:

Koag, M.-C., Lee, S.

Citation:

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

Experiment:

X-RAY DIFFRACTION Resolution:2.175Å R work:0.2R free:0.258

NDB ID:

7MZ2

PDB ID:

7MZ2 

Release:

2022-05-25

Title:

Structure of human DNA polymerase beta complexed with dzA at N-1 of the template base paired with incoming dTTP

Classification:

TRANSFERASE/DNA

Authors:

Koag, M.-C., Lee, S.

Citation:

Structure of human DNA polymerase beta complexed with dzA at N-1 of the template base paired with incoming dTTP
To Be Published pp. - 0

Experiment:

X-RAY DIFFRACTION Resolution:2.088Å R work:0.196R free:0.242

NDB ID:

7RH2

PDB ID:

7RH2 

Release:

2022-05-25

Title:

IRF4 Transcription factor mutant -K59R

Classification:

TRANSCRIPTION

Authors:

Sundararaj, S., Seneviratne, S., Williams, S.J., Enders, A., Casarotto, M.G.

Citation:

The molecular basis for the development of adult T-cell leukemia/lymphoma in patients with an IRF4 K59R mutation.
Protein Sci. 31 pp.787 - 796 2022

Experiment:

X-RAY DIFFRACTION Resolution:2.47Å R work:0.203R free:0.24

NDB ID:

7T18

PDB ID:

7T18 

Release:

2022-05-25

Title:

Rev1 Ternary Complex with dTTP and Ca2+

Classification:

TRANSFERASE/DNA

Authors:

Weaver, T.M., Click, T.H., Khoang, T.H., Todd Washington, M., Agarwal, P.K., Freudenthal, B.D.

Citation:

Mechanism of nucleotide discrimination by the translesion synthesis polymerase Rev1.
Nat Commun 13 pp.2876 - 2876 2022

Experiment:

X-RAY DIFFRACTION Resolution:1.7Å R work:0.182R free:0.225

NDB ID:

7T19

PDB ID:

7T19 

Release:

2022-05-25

Title:

Rev1 Ternary Complex with dGTP and Ca2+

Classification:

TRANSFERASE/DNA

Authors:

Weaver, T.M., Click, T.H., Khoang, T.H., Todd Washington, M., Agarwal, P.K., Freudenthal, B.D.

Citation:

Mechanism of nucleotide discrimination by the translesion synthesis polymerase Rev1.
Nat Commun 13 pp.2876 - 2876 2022

Experiment:

X-RAY DIFFRACTION Resolution:2.01Å R work:0.181R free:0.242

NDB ID:

7T1A

PDB ID:

7T1A 

Release:

2022-05-25

Title:

Rev1 Ternary Complex with dATP and Ca2+

Classification:

TRANSFERASE/DNA

Authors:

Weaver, T.M., Click, T.H., Khoang, T.H., Todd Washington, M., Agarwal, P.K., Freudenthal, B.D.

Citation:

Mechanism of nucleotide discrimination by the translesion synthesis polymerase Rev1.
Nat Commun 13 pp.2876 - 2876 2022

Experiment:

X-RAY DIFFRACTION Resolution:1.81Å R work:0.193R free:0.229

NDB ID:

7T1B

PDB ID:

7T1B 

Release:

2022-05-25

Title:

Rev1 Ternary Complex with rCTP and Ca2+

Classification:

TRANSFERASE/DNA

Authors:

Weaver, T.M., Click, T.H., Khoang, T.H., Todd Washington, M., Agarwal, P.K., Freudenthal, B.D.

Citation:

Mechanism of nucleotide discrimination by the translesion synthesis polymerase Rev1.
Nat Commun 13 pp.2876 - 2876 2022

Experiment:

X-RAY DIFFRACTION Resolution:1.75Å R work:0.182R free:0.228

NDB ID:

7X1N

PDB ID:

7X1N 

Release:

2022-05-25

Title:

Crystal structure of MEF2D-MRE complex

Classification:

TRANSCRIPTION/DNA

Authors:

Zhang, M., Zhang, H., Li, Z., Bai, L., Wang, Q., Li, J., Jiang, M., Xue, Q., Cheng, N., Zhang, W., Mao, D., Chen, Z., Huang, J., Meng, G., Chen, Z., Chen, S.J.

Citation:

Functional, structural and molecular characterizations of leukemogenic driver MEF2D-HNRNPUL1 fusion.
Blood pp. - 2022

Experiment:

X-RAY DIFFRACTION Resolution:3.315Å R work:0.242R free:0.274

NDB ID:

7T8K

PDB ID:

7T8K 

Release:

2022-05-18

Title:

BrxR from Acinetobacter BREX type I phage restriction system bound to DNA

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Luyten, Y.A., Hausman, D.E., Young, J.C., Doyle, L.A., Higashi, K.M., Ubilla-Rodriguez, N.C., Lambert, A.R., Arroyo, C.S., Forsberg, K.J., Morgan, R.D., Stoddard, B.L., Kaiser, B.K.

Citation:

Identification and characterization of the WYL BrxR protein and its gene as separable regulatory elements of a BREX phage restriction system.
Nucleic Acids Res. 50 pp.5171 - 5190 2022

Experiment:

X-RAY DIFFRACTION Resolution:2.3Å R work:0.195R free:0.237

NDB ID:

7VE5

PDB ID:

7VE5 

Release:

2022-05-18

Title:

C-terminal domain of VraR

Classification:

DNA BINDING PROTEIN/DNA

Authors:

Kumar, J.V., Tseng, T.S., Lou, Y.C., Wei, S.Y., Wu, T.H., Tang, H.C., Chiu, Y.C., Hsu, C.H., Chen, C.

Citation:

Structural insights into DNA binding domain of vancomycin-resistance-associated response regulator in complex with its promoter DNA from Staphylococcus aureus.
Protein Sci. 31 pp.e4286 - e4286 2022

Experiment:

X-RAY DIFFRACTION Resolution:2.0Å R work:0.194R free:0.254

NDB ID:

7WGW

PDB ID:

7WGW 

Release:

2022-05-18

Title:

NMR Solution Structure of a cGMP Fill-in Vacancy G-quadruplex Formed in the Oxidized BLM Gene Promoter

Classification:

DNA

Authors:

Wang, K.B., Liu, Y., Li, Y., Dickerhoff, J., Li, J., Yang, M.H., Yang, D., Kong, L.Y.

Citation:

Oxidative Damage Induces a Vacancy G-Quadruplex That Binds Guanine Metabolites: Solution Structure of a cGMP Fill-in Vacancy G-Quadruplex in the Oxidized BLM Gene Promoter.
J.Am.Chem.Soc. 144 pp.6361 - 6372 2022

Experiment:

SOLUTION NMR

NDB ID:

7F9H

PDB ID:

7F9H 

Release:

2022-05-11

Title:

complex structure of EnrR-DNA

Classification:

DNA BINDING PROTEIN

Authors:

Ma, R., Liu, Y., Gan, J., Qiao, H., Ma, J., Zhang, Y., Bu, Y., Shao, S., Zhang, Y., Wang, Q.

Citation:

Xenogeneic nucleoid-associated EnrR thwarts H-NS silencing of bacterial virulence with unique DNA binding.
Nucleic Acids Res. 50 pp.3777 - 3798 2022

Experiment:

X-RAY DIFFRACTION Resolution:1.78Å R work:0.2R free:0.222

NDB ID:

7KSS

PDB ID:

7KSS 

Release:

2022-05-11

Title:

DNA Polymerase Mu, dGTP:Ct Pre-Catalytic Ground State Ternary Complex, 10 mM Ca2+ (20min)

Classification:

REPLICATION

Authors:

Jamsen, J.A., Sassa, A., Shock, D.D., Beard, W.A., Wilson, S.H.

Citation:

Watching a double strand break repair polymerase insert a pro-mutagenic oxidized nucleotide.
Nat Commun 12 pp.2059 - 2059 2021

Experiment:

X-RAY DIFFRACTION Resolution:1.503Å R work:0.159R free:0.176

NDB ID:

7KTB

PDB ID:

7KTB 

Release:

2022-05-11

Title:

DNA Polymerase Mu, 8-oxodGTP:Ct Reaction State Ternary Complex, 10 mM Mn2+ (40min)

Classification:

REPLICATION

Authors:

Jamsen, J.A., Sassa, A., Shock, D.D., Beard, W.A., Wilson, S.H.

Citation:

Watching a double strand break repair polymerase insert a pro-mutagenic oxidized nucleotide.
Nat Commun 12 pp.2059 - 2059 2021

Experiment:

X-RAY DIFFRACTION Resolution:1.576Å R work:0.158R free:0.177

NDB ID:

7KTC

PDB ID:

7KTC 

Release:

2022-05-11

Title:

DNA Polymerase Mu, 8-oxodGTP:Ct Product State Ternary Complex, 10 mM Mn2+ (120min)

Classification:

REPLICATION

Authors:

Jamsen, J.A., Sassa, A., Shock, D.D., Beard, W.A., Wilson, S.H.

Citation:

Watching a double strand break repair polymerase insert a pro-mutagenic oxidized nucleotide.
Nat Commun 12 pp.2059 - 2059 2021

Experiment:

X-RAY DIFFRACTION Resolution:1.653Å R work:0.155R free:0.176

NDB ID:

7KTD

PDB ID:

7KTD 

Release:

2022-05-11

Title:

DNA Polymerase Mu, 8-oxodGTP:Ct Product State Ternary Complex, 10 mM Mn2+ (960min)

Classification:

REPLICATION

Authors:

Jamsen, J.A., Sassa, A., Shock, D.D., Beard, W.A., Wilson, S.H.

Citation:

Watching a double strand break repair polymerase insert a pro-mutagenic oxidized nucleotide.
Nat Commun 12 pp.2059 - 2059 2021

Experiment:

X-RAY DIFFRACTION Resolution:1.551Å R work:0.159R free:0.178

NDB ID:

7KTH

PDB ID:

7KTH 

Release:

2022-05-11

Title:

DNA Polymerase Mu, 8-oxodGTP:Ct Product State Ternary Complex, 10 mM Mg2+ (2160min)

Classification:

REPLICATION

Authors:

Jamsen, J.A., Sassa, A., Shock, D.D., Beard, W.A., Wilson, S.H.

Citation:

Watching a double strand break repair polymerase insert a pro-mutagenic oxidized nucleotide.
Nat Commun 12 pp.2059 - 2059 2021

Experiment:

X-RAY DIFFRACTION Resolution:1.476Å R work:0.166R free:0.19

NDB ID:

7KTI

PDB ID:

7KTI 

Release:

2022-05-11

Title:

DNA Polymerase Mu, 8-oxodGTP:Ct Product State Ternary Complex, 20 uM Mn2+ (120min)

Classification:

REPLICATION

Authors:

Jamsen, J.A., Sassa, A., Shock, D.D., Beard, W.A., Wilson, S.H.

Citation:

Watching a double strand break repair polymerase insert a pro-mutagenic oxidized nucleotide.
Nat Commun 12 pp.2059 - 2059 2021

Experiment:

X-RAY DIFFRACTION Resolution:1.57Å R work:0.161R free:0.179

NDB ID:

7KTJ

PDB ID:

7KTJ 

Release:

2022-05-11

Title:

DNA Polymerase Mu (K438D), 8-oxodGTP:Ct Pre-Catalytic Ground State Ternary Complex, 20 mM Ca2+ (120min)

Classification:

REPLICATION

Authors:

Jamsen, J.A., Sassa, A., Shock, D.D., Beard, W.A., Wilson, S.H.

Citation:

Watching a double strand break repair polymerase insert a pro-mutagenic oxidized nucleotide.
Nat Commun 12 pp.2059 - 2059 2021

Experiment:

X-RAY DIFFRACTION Resolution:1.452Å R work:0.16R free:0.184

NDB ID:

7KTK

PDB ID:

7KTK 

Release:

2022-05-11

Title:

DNA Polymerase Mu (K438D), 8-oxodGTP:Ct Ground State Ternary Complex, 50 mM Mg2+ (90min)

Classification:

REPLICATION

Authors:

Jamsen, J.A., Sassa, A., Shock, D.D., Beard, W.A., Wilson, S.H.

Citation:

Watching a double strand break repair polymerase insert a pro-mutagenic oxidized nucleotide.
Nat Commun 12 pp.2059 - 2059 2021

Experiment:

X-RAY DIFFRACTION Resolution:1.419Å R work:0.142R free:0.168

NDB ID:

7KTL

PDB ID:

7KTL 

Release:

2022-05-11

Title:

DNA Polymerase Mu (K438D), 8-oxodGTP:Ct Product State Ternary Complex, 50 mM Mn2+ (90min)

Classification:

REPLICATION

Authors:

Jamsen, J.A., Sassa, A., Shock, D.D., Beard, W.A., Wilson, S.H.

Citation:

Watching a double strand break repair polymerase insert a pro-mutagenic oxidized nucleotide.
Nat Commun 12 pp.2059 - 2059 2021

Experiment:

X-RAY DIFFRACTION Resolution:1.421Å R work:0.158R free:0.173

NDB ID:

7KTM

PDB ID:

7KTM 

Release:

2022-05-11

Title:

DNA Polymerase Mu (K438D), 8-oxodGTP:Ct Reaction State Ternary Complex, 50 mM Mn2+ (30min)

Classification:

REPLICATION

Authors:

Jamsen, J.A., Sassa, A., Shock, D.D., Beard, W.A., Wilson, S.H.

Citation:

Watching a double strand break repair polymerase insert a pro-mutagenic oxidized nucleotide.
Nat Commun 12 pp.2059 - 2059 2021

Experiment:

X-RAY DIFFRACTION Resolution:1.528Å R work:0.16R free:0.18

NDB ID:

7NQF

PDB ID:

7NQF 

Release:

2022-05-04

Title:

Prim-Pol Domain of CRISPR-associated Prim-Pol (CAPP) from Marinitoga sp. 1137 with dsDNA

Classification:

TRANSFERASE

Authors:

Li, A.W.H., Zabrady, K., Bainbridge, L.J., Zabrady, M., Naseem-Khan, S., Berger, M.B., Kolesar, P., Cisneros, G.A., Doherty, A.J.

Citation:

Molecular basis for the initiation of DNA primer synthesis.
Nature 605 pp.767 - 773 2022

Experiment:

X-RAY DIFFRACTION Resolution:2.02Å R work:0.212R free:0.259

NDB ID:

7P9J

PDB ID:

7P9J 

Release:

2022-05-04

Title:

Prim-Pol Domain of CRISPR-associated Prim-Pol (CAPP) from Marinitoga sp. 1137 - Primer Initiation Complex

Classification:

TRANSFERASE

Authors:

Li, A.W.H., Zabrady, K., Bainbridge, L.J., Zabrady, M., Naseem-Khan, S., Berger, M.B., Kolesar, P., Cisneros, G.A., Doherty, A.J.

Citation:

Molecular basis for the initiation of DNA primer synthesis.
Nature 605 pp.767 - 773 2022

Experiment:

X-RAY DIFFRACTION Resolution:1.9Å R work:0.227R free:0.259

NDB ID:

7QAZ

PDB ID:

7QAZ 

Release:

2022-05-04

Title:

Prim-Pol Domain of CRISPR-associated Prim-Pol (CAPP) from Marinitoga sp. 1137 - Primer Initiation Complex

Classification:

TRANSFERASE

Authors:

Li, A.W.H., Zabrady, K., Bainbridge, L.J., Zabrady, M., Naseem-Khan, S., Berger, M.B., Kolesar, P., Cisneros, G.A., Doherty, A.J.

Citation:

Molecular basis for the initiation of DNA primer synthesis.
Nature 605 pp.767 - 773 2022

Experiment:

X-RAY DIFFRACTION Resolution:2.11Å R work:0.209R free:0.26

NDB ID:

7U72

PDB ID:

7U72 

Release:

2022-05-04

Title:

Human DNA polymerase eta-DNA ternary mismatch complex:ground state at pH7.0 (K+ MES) with 1 Ca2+ ion

Classification:

TRANSFERASE/DNA

Authors:

Chang, C., Lee Luo, C., Gao, Y.

Citation:

In crystallo observation of three metal ion promoted DNA polymerase misincorporation.
Nat Commun 13 pp.2346 - 2346 2022

Experiment:

X-RAY DIFFRACTION Resolution:1.53Å R work:0.187R free:0.219

NDB ID:

7U73

PDB ID:

7U73 

Release:

2022-05-04

Title:

Human DNA polymerase eta-DNA ternary mismatch complex:reaction with 0.5 mM Mn2+ for 1800s

Classification:

TRANSFERASE/DNA

Authors:

Chang, C., Lee Luo, C., Gao, Y.

Citation:

In crystallo observation of three metal ion promoted DNA polymerase misincorporation.
Nat Commun 13 pp.2346 - 2346 2022

Experiment:

X-RAY DIFFRACTION Resolution:1.56Å R work:0.18R free:0.213

NDB ID:

7U74

PDB ID:

7U74 

Release:

2022-05-04

Title:

Human DNA polymerase eta-DNA ternary mismatch complex:reaction with 0.5 mM Mn2+ for 1800s then with 10 mM Mn2+ for 30s

Classification:

TRANSFERASE/DNA

Authors:

Chang, C., Lee Luo, C., Gao, Y.

Citation:

In crystallo observation of three metal ion promoted DNA polymerase misincorporation.
Nat Commun 13 pp.2346 - 2346 2022

Experiment:

X-RAY DIFFRACTION Resolution:1.52Å R work:0.189R free:0.224

NDB ID:

7U75

PDB ID:

7U75 

Release:

2022-05-04

Title:

Human DNA polymerase eta-DNA ternary mismatch complex:reaction with 0.5 mM Mn2+ for 1800s then with 10 mM Mn2+ for 90s

Classification:

TRANSFERASE/DNA

Authors:

Chang, C., Lee Luo, C., Gao, Y.

Citation:

In crystallo observation of three metal ion promoted DNA polymerase misincorporation.
Nat Commun 13 pp.2346 - 2346 2022

Experiment:

X-RAY DIFFRACTION Resolution:1.55Å R work:0.186R free:0.221