DLKcat

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Reason for two kcat values in each PredcitedKcat343species file

1

Hi, I am currently trying to use the PredcitedKcat343species results from https://zenodo.org/record/6438262#.Y3NLqi8w0dU , and I would like to know what the two different kcat values for each reaction refer to....

HettieC

Dear researcher, I would like to know how to use or learn the new sequence of some kind of enzyme and the mutation. I tried with code in the example...

subhansb8

The dimension of the adjacency matrix is not consistent

1

May I ask how to solve the problem of inconsistent dimensions in the adjacency matrix when constructing a dataset? Will you use padding?

morestart

Can DLKcat parse the smiles including '.' ?

2

I test the DLKcat with the substrate 'CC(=O)[O-].C(C(C(C(C(C=O)O)O)O)O)O.[Na+]', however, I see the code of line 234 ('if smiles != None and "." not in smiles ') in 'prediction_for_input.py' indicates that...

psp3dcg

How to calculate the enzyme kinetic parameter kcat of HemA by the NumPy？

3

Hello, author: I have installed all the necessary software according to the instructions, and then I want to use the protein sequence in the literature (https://pubmed.ncbi.nlm.nih.gov/39112275/) to verify whether the...

lizhongcai0808

hi I download the turnoverNumber and sequence respectively but how to pair them ? I am puzzling

rainstar100

Dear author，I have a question about the amino acid sequence. How is the amino acid sequence extracted through brenda_Sequence_organism.Py processed. It seems that you have saved multiple amino acid sequences...

vvvvkeke

After running with python prediction_for_input.py input.tsv It show this error Traceback (most recent call last): File "prediction_for_input.py", line 18, in fingerprint_dict = model.load_pickle('../../Data/input/fingerprint_dict.pickle') File "/home/pc/DLKcat/DeeplearningApproach/Code/example/model.py", line 161, in load_pickle with...

paay456789

scikit-learn package name changed in pip and is no longer supported, breaking change from pip. Fixing name- - Encountered error in pip23.0.1 and pip25.0.1. Error message is that error is...

jordansafer