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Contents
 
Introduction
Help Videos
Reference Guide
Getting Started
Protein Structure
Molecular Graphics
Slides & ActiveICM
Sequences & Alignments
 Read and Save
  UniProt
  Cut and Paste
  Extract from PDB
  From File
  Save Sequence
 Secondary Structure
 Bioinfo Menu
 BLAST Search
 Sequence Editor
 Alignments
 Editor
 Color Structure by Alignment
Protein Modeling
Cheminformatics
Learn and Predict
Docking
Virtual Screening
MolScreen
3D Ligand Editor
Tables and Plots
Local Databases
ICM-Scarab
KNIME
Tutorials
FAQs
 
Index
PrevICM User's Guide
8.1 Read and Save Sequences
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[ UniProt | Cut and Paste | Extract from PDB | From File | Save Sequence ]

Available in the following product(s): ICM-Pro

There are a number of different ways to load a sequence into ICM via the Graphical User Interface.

8.1.1 Read a Sequence from UniProt


Uniprot is a curated protein sequence database which provides a high level of annotation (such as the description of the function of a protein, its domains structure, post-translational modifications, variants, etc.).

To read a sequence from UniProt:

  • File/Load/UniProt
  • Enter UniProt ID

or use the option in the Search Tab.

8.1.2 Cut and Paste a Sequence


Paste your own sequence into ICM

  • File/New/Sequence
  • Paste the Sequence into the box provided.

8.1.3 Extract a Sequence from a PDB File


Extract a Sequence from a PDB file

  • Right click on a molecule in a loaded PDB file in the ICM Workspace.
  • Select Extract Sequence(s) and the sequence will be laoded into the Sequences section of the ICM Workspace.

8.1.4 Read directly from a Sequence File


To read a sequence from a file:

If you have a sequence file saved in FASTA format it can be read into ICM by:

  • File/Open

8.1.5 Save Sequence


To save a sequence in FASTA format:

  • Right click on the sequence name in the ICM worksapce.
  • Select the option Save As.
  • Choose FASTA format from the Windows "Save as type:" drop down menu option.


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