Structures PDB Mapper

KNIME node to map a set of 4-letter PDB-codes to structure IDs from KLIFS. This node maps a set of user-supplied 4-letter structure PDB-codes to the KLIFS structure IDs and additionally provides all related structural information from KLIFS (see the description of the Structures Overview Retriever node for a detailed listing). The mapping functionality of this node can, for example, be used to selectively retrieve KLIFS information for a set of PDBs, or to link external data to KLIFS information using PDB-codes.

Options

Advanced Options

Base path

Url to use as base path for KLIFS webservice

Timeout

Timeout in seconds to wait for KLIFS webservice response

Input Ports

List of 4-letter PDB-codes that will be mapped to KLIFS structure IDs.

Output Ports

All structural information obtained from KLIFS for the given PDBs

Best Friends (Incoming)

• Table Creator (17 %) 
• File Reader (16 %) Streamable
• PDB Loader (12 %) Streamable
• Structures Overview Retriever (12 %) 
• Ligands Overview Retriever (7 %) 
• Show all 19 recommendations

Best Friends (Outgoing)

• Row Filter (24 %) Streamable
• Interaction Fingerprint Retriever (8 %) 
• Case Converter (8 %) Streamable
• Structures Retriever (5 %) 
• Structures Overview Retriever (5 %) 
• Show all 21 recommendations

Installation

To use this node in KNIME, install KLIFS KNIME nodes from the following update site:

You don't know what to do with this link? Read our NodePit Product and Node Installation Guide that explains you in detail how to install nodes to your KNIME Analytics Platform.

Developers

You want to see the source code for this node? Click the following button and we’ll use our super-powers to find it for you.