Structural Analysis

The following are links to the various structural analysis tools we have available at the EBI.

Tool	Description
Advanced PDB search	PDB advanced search tool.
DaliLite	This is a program for pairwise structure comparison. Compare your structure(first structure) to a reference structure(second structure).
EMsearch	A search tool for EMDB.
MaxSprout	Reconstruction of 3D coordinates from C(alpha) trace.
NMR@PDBe	Tools for analysis of NMR structures in the PDB.
PDBe Services	A complete list of the tools and services the Protein Databank in Europe (PDBe) group have to offer.
PDBefold	Secondary Structure Matching (SSM) service for comparing and aligning 3D protein structures; search for structures that are similar to that of a reference protein, and visualise sumperimposed structures. This service replaces DALI service at the EBI.
PDBeMotif	Query and analysis of ligands, sequence and structure motifs, their relative position and the neighbouring environment.
PDBePISA	Search and analysis of protein interfaces, surfaces and assemblies. Can be used to predict probable quarternary structures (assemblies).
PDBeXplore	Browse, list and analyse the structural knowledge embodied in the PDB based on classification systems that are familiar and intuitive to molecular biologists, biochemists and other life scientists.
PROCOGNATE	PROCOGNATE is a database of cognate ligands for the domains of enzyme structures in CATH, SCOP and Pfam.
Tempura New	Tempura is a function prediction tool and local structural comparison service. It uses the "reverse template" approach published as part of the ProFunc server but has been modified to allow the user to specify the amino acids to be used in the template generation process.

Please Note

The EBI ReLiBase mirror (http://relibase.ebi.ac.uk/) was phased out in January, 2008. However, the up-to-date version of this service is still available from the Cambridge Crystallographic Data Centre (CCDC) at http://relibase.ccdc.cam.ac.uk/.