This is a sample PDB Structure Explorer Window displaying Structural Neighbors of 1ATJ or Horseradish Peroxidase

 

Structure Explorer - 1ATJ

 
Classification    Oxidoreductase
Compound    Mol_Id: 1; Molecule: Peroxidase C1A; Chain: A, B, C, D, E, F; Synonym: Horseradish Peroxidase C1A, Hrp C; Ec: 1.11.1.7; Engineered: Yes
Exp. Method    X-ray Diffraction
  

Structural Neighbors

   

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CATH Class, Architecture, Topology and Homologous superfamily - a hierarchical classification of protein domain structures [top]
University College London (UCL)
Features: Complete PDB, fold classification by domain, links to other information 
Reference: Orengo, Michie, Jones, Jones, Swindells and Thornton (1997) Structure 5(8) 1093-1108
CE Combinatorial Extension of the optimal path [top]
Research Collaboratory for Structural Bioinformatics (RCSB)
Features: Complete PDB and representative structure comparison, structure alignments, structure superposition tool
Reference:  Shindyalov and Bourne (1998) Protein Engineering 11(9) 739-747
FSSP Fold classification based on Structure-Structure alignment of Proteins [top]
European Bioinformatics Institute (EBI)
Features: Complete PDB, fold tree, domain dictionary, sequence neighbors, structure superposition
Reference: Holm and Sander (1998)  Nucl. Acids Res. 26 316-319
SCOP Structural Classification Of Proteins [top]
MRC Laboratory of Molecular Biology and Centre for Protein Engineering
Features: Augmented manual classification, class, fold, superfamily and family classification
Reference: Murzin, Brenner, Hubbard and Chothia (1995)  J. Mol. Biol. 247 536-540
VAST Vector Alignment Search Tool [top]
National Center for Biotechnology Information (NCBI)
Features: Complete PDB and representative structure comparison, structure alignments, structure superposition tool
Reference: Gibrat, Madej and Bryant (1996) Current Opinion in Structural Biology 6 377-385

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