1 to 10 of 12 Results
May 20, 2021 - Glycoside Hydrolase 19 Engineering Database
Buchholz, Patrick C. F., 2021, "Sequence cross-references and taxonomic lineage for glycoside hydrolase family 19", https://doi.org/10.18419/darus-1163, DaRUS, V1, UNF:6:zi8TRxkq1C/pCN14pXTA0Q== [fileUNF]
The Glycoside Hydrolase 19 Engineering Database (GH19ED) contains information on protein sequences and structures of glycoside hydrolases from family 19. This dataset lists cross-references to the National Center for Biotechnology Information (NCBI), cross-references to the Prote... |
May 3, 2021 - Bioinformatics
Heberlein, Magdalena, 2021, "Protein sequences of arylsulfatases, phosphonate monoester hydrolases, and reconstructed ancestors", https://doi.org/10.18419/darus-1801, DaRUS, V1
Protein sequences were derived from a maximum-likelihood phylogenetic tree for arylsulfatases and phosphonate monoester hydrolases, including a selection of reconstructed ancestral sequences. |
Dec 1, 2021 - PAZy
Buchholz, Patrick C. F., 2021, "Profile hidden Markov model for PETase homologues", https://doi.org/10.18419/darus-2055, DaRUS, V1, UNF:6:AEjnqfOrnimO5Q2xFDkQDw== [fileUNF]
Sixteen protein sequences for enzymes with known activity against polyethylene terephthalate (PET) were clustered using CD-HIT to derive a reduced set of twelve centroid sequences. These twelve protein sequences were aligned in a structure-guided multiple sequence alignment by T-... |
Nov 26, 2021Bioinformatics
Supporting information and data for the PAZy database on plastics-active enzymes. |
Nov 25, 2021 - Amplicon based bisulfite NGS data
Jeltsch, Albert; Bashtrykov, Pavel; Bröhm, Alexander; Dukatz, Michael; Adam, Sabrina, 2021, "NGS data related to Bröhm et al.: Methylation of recombinant mononucleosomes by DNMT3A demonstrates efficient linker DNA methylation and a role of H3K36me3", https://doi.org/10.18419/darus-1252, DaRUS, V2
Methylation experiments: For the competitive nucleosome methylation experiments, 0.6 pmol of each nucleosome variant were digested with MluI (NEB) for 60 min at 37°C in 10 µL NEB Cutsmart buffer (50 mM KOAc/20 mM Tris-acetate pH 7.9, 10 mM Magnesium Acetate, 100 µg/mL BSA) to rem... |
Dec 1, 2021 - PAZy
Buchholz, Patrick C. F., 2021, "GraphML files for sequence networks of PETases and PURases", https://doi.org/10.18419/darus-2054, DaRUS, V1
The GraphML files contain the sequence networks and annotated metadata for protein sequences. |
May 3, 2021 - Bioinformatics
Buchholz, Patrick C. F., 2021, "GraphML file for homologues and reconstructed ancestors of arylsulfatases and phosphonate monoester hydrolases", https://doi.org/10.18419/darus-817, DaRUS, V1
Protein sequence network for homologues of arylsulfatases and phosphonate monoester hydrolases, including reconstructed ancestral sequences from a maximum-likelihood phylogenetic tree. |
Sep 16, 2021
The EnzymeML data repository of the Institute of Biochemistry and Technical Biochemistry. |
Dec 17, 2021 - Amplicon based bisulfite NGS data
Jeltsch, Albert; Bashtrykov, Pavel; Adam, Sabrina, 2021, "Deep enzymology data related to Adam et al.: Flanking sequences influence the activity of TET1 and TET2 methylcytosine dioxygenases and affect genomic 5hmC patterns", https://doi.org/10.18419/darus-2114, DaRUS, V2
Experimental procedures for deep enzymology reactions with randomized substrates: For analysis of flanking sequence preferences of the TET enzymes, a similar approach as described for DNMTs (Emperle et al., 2019; Gao et al., 2020; Adam et al., 2020; Dukatz et al., 2020) was used.... |
Apr 12, 2021 - Amplicon based bisulfite NGS data
Jeltsch, Albert; Bashtrykov, Pavel; Adam, Sabrina; Kunert, Stefan, 2021, "Data related to "Structural and biochemical insight into the mechanism of dual CpG site binding and methylation by DNMT3A"", https://doi.org/10.18419/darus-1781, DaRUS, V1
Methylation of substrate libraries Single-stranded DNA oligonucleotides used for generation of double stranded substrates with different distance between CpG sites were obtained from IDT. Sixteen single-stranded oligonucleotides were pooled in equimolar amounts and the second str... |