Directory of Structure Resources

Home > Science > Biology > Biochemistry and Molecular Biology > Biomolecules > Proteins and Enzymes > Structure

This category includes sites that relate to the details and methods for determining the structure of proteins.

Subcategories

• Crystallography Laboratories
• Folding Projects
• Research Groups
• Sequence Analysis

Resources in This Category

• Atlas of Protein Side-Chain Interactions

  http://www.biochem.ucl.ac.uk/bsm/sidechains/
  Modeling the packing of all 20 amino acid side-chains with one-another and with DNA - from Birkbeck and University Colleges, London.

• Biozon

  http://www.biozon.org/
  An attempt to classify all proteins to create a unified biological knowledge resource with emphasis on protein and DNA characterization and classification.

• BlueTB Molecules

  http://bluetb.drpi.ch/
  Mycobacterium tuberculosis database with information on DNA sequence, map position, structure, and function of proteins. Includes references to a scientific articles.

• Chicken Egg White Lysozyme

  http://lysozyme.co.uk/
  Enzymatic activity, sequence, crystallization, 3D structure and links to publications on this enzyme.

• Chromatin Structure and Function

  http://www.chromatin.us/chrom.html
  Information regarding histones, histone modifications and their biological roles, and related links.

• Databases

  http://www-cryst.bioc.cam.ac.uk/databases
  Several protein databases including TIMBAL, HOMSTRAD, CREDO, ESST and BIPA including references, maintained by the Department of Biochemistry, University of Cambridge, UK.

• Histone Sequence Database

  http://genome.nhgri.nih.gov/histones/
  Compendium of histone protein sequence alignments, including postranslational modifications and proteins containing the histone fold, at the National Human Genome Research Institute, Bethesda, MD.

• Hydrogen Exchange Mass Spectrometry

  http://www.hxms.com/hxms.htm
  Analysis of proteins and protein dynamics with hydrogen exchange and mass spectrometry from Corrales, NM.

• Kinase.com

  http://www.kinase.com/
  A resource on protein kinases, a key class of regulatory proteins. Includes genomic and evolutionary analyses, classification, disease associations and an extensive database of protein kinase genes.

• NetNglyc

  http://www.cbs.dtu.dk/services/NetNGlyc/
  N-glycosylation site prediction in human proteins using artificial neural networks that examine the sequence context of Asn-Xaa-Ser/Thr sequons, from Center for Biological Sequence Analysis, Technical University of Denmark.

• NetOGlyc 3.1 Server

  http://www.cbs.dtu.dk/services/NetOGlyc/
  Produces neural network predictions of mucin type GalNAc O-glycosylation sites in mammalian glycoproteins. Maintained at the Center for Biological Sequence Analysis, Technical University of Denmark.

• NIGMS: The Structures of Life

  http://publications.nigms.nih.gov/structlife/
  Introduction to structural biology, its relationship to health, disease and developing new medications. Maintained by the National Institute of General Medical Sciences, Bethesda, Maryland.

• Peptide Peptidomimetic Informatics

  http://www.pitt.edu/~soriano/peptide.htm
  Devoted to the modeling of polypeptide structures, aiming to bridge the gap from organic to biochemistry for undergraduates at the University of Pittsburgh, Bradford, PA.

• Principles of Protein Structure

  http://www.cryst.bbk.ac.uk/PPS2/
  Archive of online course, with discussion lists, and summary of lecture notes from 1996 at Birkbeck, University of London, UK.

• Protein Data Bank

  http://www.rcsb.org/pdb/
  PDB provides a text based format for archiving experimentally-determined, three dimensional structures, at the Brookhaven National Laboratory, with list of mirror sites worldwide.

• Protein Kinase Resource

  http://www0.nih.go.jp/mirror/Kinases/
  Functional and structural information, based on protein sequence, with link to nomenclature for the signaling cascade genes, maintained at the San Diego Supercomputer Center, CA, USA.

• Protein Structure Initiative

  http://www.structuralgenomics.org/
  Large scale attempt to determine topology, through collaborative internet based effort, maintained by Millennium Information, Inc., Cambridge, MA.

• Protein Structure Prediction Center

  http://www.predictioncenter.org/
  Advances and archive of meetings on critical assessment of 3D determination from sequence using alignment tools. Maintained at Lawrence Livermore National Laboratory, California.

• Structural Classification of Proteins

  http://scop.mrc-lmb.cam.ac.uk/scop/
  A key for different proteins based on structural features, with keyword search and PDB data, and an entry viewer for download.

• Tyrosine Residues in Different Proteins

  http://privatewww.essex.ac.uk/~svist/lev1/tyrdb/home.shtml
  EPR spectrum of a tyrosyl radical provides information about rotational angle of phenoxyl ring. Database compiled to identify the responsible locus, maintained at the University of Essex, Colchester, England.

 

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