Fetrow Research Group

Resources, Programs and Links for the Fetrow Group and Other Researchers

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Protein Active Site Profiling Tool

DASP is a program for the creation of active site profiles from known structures, with a sequence database searching extension.

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Omega Loop Data

A non-redundant set of proteins (Select25) from the January 2003 RCSB release were searched for omega loops. The omega loop definition was taken from (Leszczynski (Fetrow) and Rose, Science 1986). The protein segments that satisfy the geometric criteria are listed by PDB file name.

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C/S/T-xx-C and C-xx-C/S/T Data

A non-redundant set of proteins (Select25) from the January 2003 RCSB release were searched for the sequence signature C/S/T-xx-C/S/T. The data are grouped by specific sequence signature.

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Other useful links for the Fetrow Group and other researchers

Loops in proteins:

www-cryst.bioc.cam.ac.uk/databases.html#Sloop
SLoop database - predicting/identifying loops in proteins.

Protein motions:

molmovdb.mbb.yale.edu/molmovdb/
Database of macromolecular movements.

Protein function:

www.sanger.ac.uk/Software/Pfam/
Protein family database.

blocks.fhcrc.org/
Protein database of conserved motifs, or blocks.

bioinf.man.ac.uk/dbbrowser/PRINTS/
Protein database of conserved motifs, or prints.

us.expasy.org/prosite/
Protein family and domain database.

Protein structure and structure classification:

www.biochem.ucl.ac.uk/bsm/cath/
Protein structure classification database.

scop.mrc-lmb.cam.ac.uk/scop/
Structure classification database.

Tools for protein analysis:

www.ncbi.nlm.nih.gov/BLAST/
Blast multiple sequence alignment tool.

Literature searching:

www.ncbi.nlm.nih.gov/entrez/
Database of genomic sequences and scientific journal articles.

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