PDBe tools for life scientists

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PDBeFold

Identify structural homologues in the PDB. PDBe's Secondary Structure Matching service (SSM) allows you to interactively compare, align and superimpose protein structures in 3D.

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PDBePISA

Explore macromolecular (protein, DNA/RNA and ligand) interfaces and predict the quarternary structure of your protein.

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PDBeMotif

Search and analyse protein-ligand interactions, binding environments and structural motifs.

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wwPDB validation server 

Generate x-ray structure validation reports to assess the quality of early, intermediate and near-final models. Identify any potential problems that need addressing prior to structure analysis, publication and deposition.

 

PDBe services for life scientists 

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Sequence search 

Perform protein sequence searches and identify similar sequences.

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EM resources

Search, visualise and analyse structures from the Electron Microscopy Data Bank (EMDB)

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NMR resources

Search, visualise and analyse NMR structures in the PDB archive
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BioBar

With over 150,000 downloads Biobar is a popular toolbar for Firefox that provides rapid access to more than 45 major biological data resources directly from within your browser. 

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PDBeChem

Search for chemical components (ligands, small molecules and monomers) that appear in PDB entries.

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Vivaldi 

Visualisation, analysis and validation of NMR entries.

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PDBeXpress 

Rapid access to protein-ligand interaction statistics.

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UniPDB 

Check the availability and extent of 3D structural coverage of your protein of interest using our UniProt-PDB sequence-coverage widget. You can also include the UniPDB widget in your own webpages.

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FTP access 

FTP access to PDB and EMDB entries, and other PDBe resources.

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Quips 

Interactively explore interesting structures from the PDB archive. Our Quips articles serve as the ideal starting point for students, teachers and other non-specialist users of structural information to explore and understand biomacromolecular structures.

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Tutorials 

Access worked examples that show how PDBe tools and services can be used to answer specific questions in structural biology.

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Teaching materials 

Hands-on activities and teaching resources for A-level and early years undergraduate students and teachers 

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SIFTS

SIFTS is the authoritative source of up-to-date residue-level annotation of protein structures in the PDB with data available in UniProt, NCBI taxonomy, IntEnz, CATH, SCOP, GO, InterPro, Pfam and Pubmed.

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PDBportfolio   

View a slideshow of images that convey information about a PDB entry. You can also include the PDBportfolio widget in your own webpages. 

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PDBprints    

PDBprints feature stylised icons that provide at-a-glance summary information for PDB entries. You can also include the PDBprints widget in your own webpages.