• SWISS PROT-Databank
• PRODOM
• Protein DatabankThree-dimensional structures of biological macromolecules
• Chemical and Biochemical Databases (University of Surrey) Offers a bibliographic database, a structure database and a sequence database
• ExPASy Protein Sequence Database (University of Geneva) Contains a database of enzyme nomenclature, 3D pictures of proteins and other biological macromolecules, a protein database and additional information on the subject
• Amino Acid Database Contains a great number of amino acids. The lewis structure, some chemical data and a 3D model are shown of each amino acid.

Predictions of protein structure from sequence

• EMBL : run the PHD PredictProtein server Secondary Structure, solvent Accesibility and transmembrane segments
  
• PhdThreader Fold recognition by prediction-based threading
  
• Protein Structural Analysis, BMERC. Protein Structural Analysis (under construction)
  
• Submission form for protein domain and foldclass prediction
  
• NNSSP Program Description Prediction of protein secondary sturcture by nearest-neighbor algorithms
  
• Swiss-Model An Automated Knowledge-based Protein Homology Modelling Server: first attempt to a sequence to structure server
  
• PHD secondary structure prediction by Neural Network.
  
• SSPRED secondary structure prediction with multiple alignment
  
• SSCP secondary structure prediction content with amino acid composition
  
• SOPM Self Optimized Prediction Method at IBCP, France.
  
• NNPREDICT A two-layer, feed-forward neural network for residue by residue prediction
  
• MultPredict Predict Secondary structure based on multiple sequence alignment.
  
• TMAP A service predicting transmembrane segments in proteins
  
• TMpred Prediction of Transmembrane Regions and Orientation
  
• MultPredict Prediction Secondary Structure of Multiply Aligned Sequences
  
• NIH molecular Modelling Homepage A modelling homepage with links
  
• BCM Search LauncherProtein Secondary Structure Prediction
  
• COILS Prediction of Coiled Coil Regions in Proteins
  
• Paircoil program predicts the location of coiled-coil regions in amino acid sequences.
  
• PREDATOR Protein secondary structure prediction from single sequence
  
• Dense Alignment Surface "DAS" prediction of transmembrane regions in proteins
  

Sequence Similarity Searches

Sequence similarity searches Multi search page at EBI,


NCBI : BLAST Notebook

BLITZ ULTRA Fast Search at EMBL

EMBL WWW Services

BioSCAN Online at U. North Carolina

Pattern Scan of Proteins or Nucleotides


The PRINTS/PROSITE Scanner Search motif databases with query sequence


BLOCKS/PRINTS scanner Search BLOCKS or PRINTS motifs databases(in blocks format)


Blast search against SBASE at ICGEB

PimaII This finds sequence similarity using Dynamic Programming

DashPat This finds sequence similarity using a hashcode comparision with a pattern library

PROPSEARCH Search based on amino acid composition, EMBL

A sequence search protocol A sequence search protocol, integrated pattern search

GenQuest Fasta, Blast, Smith Waterman Search in any database

SSearch Searches against a specified database

BCM Search Launcher Makes multiple searches from one input.


Peer Bork Search list Motif/Pattern/Profile searches


NCBI : BLAST Notebook Home Page


NCBI : BLAST Search using sequence data


EBI: Sequence Data Analysis


PROSITE Database Searches, Search for functional sites in your sequnce


PROWL - Protein information On-line Retrieval WWW Lab Search with MW and peptides digest


FASTA-SWAP or FASTA-PAT Search of a Pattern Database Profile and pattern searches


CEPH Genotype database


Advanced BLAST2 Search at EMBL