PDB Data Extractor

The PDB Data Extractor component receives PDB IDs as input and fetches additional data about the provided structures like sequences or references to other databases like UniProt or PubMed.

The component is using the PDB web service.
More information about the PDB database and the editable web service fields in the request can be found here:
https://academic.oup.com/nar/article/28/1/235/2384399
https://www.rcsb.org/pdb/results/reportField.do

Options

Include Ligand Information?: Select if ligand information should be included or not.
Select the column containing PDB IDs: The column should contain valid PDB IDs.

Input Ports

: Input table containing an PDB ID column

Output Ports

: Output table containing the PDB web service output

Nodes

String Manipulation3 ×
Column Filter2 ×
GET Request2 ×
~~Table Row to Variable~~2 ×
Ungroup2 ×
Show all 20 nodes

Extensions

FeatureKNIME Base nodes
FeatureKNIME Javasnippet
FeatureKNIME Quick Forms
FeatureKNIME REST Client Extension
FeatureKNIME XML-Processing