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Uniprot Protein Visualization

Workflow Entry: Uniprot Protein Visualization

Created at: 01/05/10 @ 20:29:37 Last updated: 01/05/10 @ 20:40:10

Version 1 (of 1)

Version created on: 01/05/10 @ 20:29:37 by: David Withers | Revision comments Expand

Last edited on: 01/05/10 @ 20:40:11 by: David Withers

Title: Uniprot Protein Visualization

Type: Taverna 2

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Description

Jmol 3D visualization of a protein structure.

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http://www.myexperiment.org/workflows/1239/download?version=1
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Workflow Components

Authors (1)

Titles (2)

Descriptions (1)

Inputs (0)

Processors (6)

Name	Type	Description
UniProt_Record_value	stringconstant
fetch_jmol_file	workflow
limit	beanshell
limit_value	stringconstant
UniProt-to-PDB	sadi
renderProteinStructure	sadi

Beanshells (2)

Name	Description	Inputs	Outputs
limit		limit input	output
selectLastUrl		in	out

Outputs (1)

Name	Description
hasJmol3DStructureVisualization

Datalinks (6)

Source	Sink
limit:output	fetch_jmol_file:jmol_file_location
limit_value:value	limit:limit
renderProteinStructure:hasJmol3DStructureVisualization (Thing)	limit:input
UniProt_Record_value:value	UniProt-to-PDB:UniProt_Record
UniProt-to-PDB:has3DStructure (PDB_Record)	renderProteinStructure:PDB_Record
fetch_jmol_file:jmol_file	hasJmol3DStructureVisualization

Coordinations (0)

Information Workflow Type

Taverna 2

Information Original Uploader

David Withers

Information License

All versions of this Workflow are licensed under:

Information Credits (0)

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None

Information Attributions (0)

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None

Information Tags (3)

Original Uploader tags

pdb
|
sadi
|
uniprot

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Information Shared with Groups (1)

SADI

Information Featured In Packs (0)

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Information Ratings (1)

Current:

5.0 / 5

(1 rating)

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Information Attributed By (0)

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None

Information Favourited By (1)

Mark Wilkinson

Information Statistics

338 viewings

417 downloads

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Citations (0)

None

Version History

Earliest Version:
[1] - Uniprot Protein Visualization

Created on: Saturday 01 May 2010 @ 20:29:37 (GMT)

Created by: David Withers

Last edited on: Saturday 01 May 2010 @ 20:40:11 (GMT)

Last edited by: David Withers

Revision comments:

None

This Workflow only has one version.

Reviews (1)

Write your own Review

Mark Wilkinson

Title: Ideas for extension of the workflow

Rating: 5 out of 5

Created: 17/02/11 @ 19:49:14 | Updated: 17/02/11 @ 19:50:28

works exactly as indicated. Input is the UniProt ID of any protein of interest. To extend this workflow futher, you can add the SADI KEGG Pathway -> KEGG Genes service, then KEGG Genes -> UniProt IDs service. This will then give you the jMol visualization of all of the proteins in a given pathway. Very very cool :-)

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