In past number of web servers have been developed to extract useful information from tertiary structure. These servers allows users to perform anlysis on their structure (PDB ID). These servers are scattered on Internet, it very difficult for users to use their potentials. We collected more than 40 servers from literature and developed a meta server, where user can submit PDB ID once and can got information about PDB ID from any of these server. This page allows analysis from single plateform.
submitted, for more information on this PDB ID, click any of the following server/databases
| Name | Description | Category |
| PDB | Protein Data Bank (PDB) is a archive contains information about experimentally-determined structures of proteins, nucleic acids, and complex assemblies. Users can perform simple and advanced searches based on annotations relating to sequence, structure and function. | Structure Summary |
| ProteoPedia | Proteopedia is a wiki, 3D encyclopedia of proteins and other molecules. The site contains a page for every entry in the PDB. | 3D interactive encyclopedia of proteins |
| EBI's EB-eye | The EB-eye is a fast and efficient search engine that provides easy and uniform access to the biological data resources hosted at the European Bioinformatics Institute | protein structure/function |
| OCA | OCA integrates data from several sources, it allows the user to rapidly search through the contents of the entire PDB Archive for entries obeying certain constraints. | protein structure/function |
| TOPSAN | The Open Protein Structure Annotation Network (TOPSCAN) is a novel way to collect, share and distribute information about protein 3D structures and give knowledge about functions and roles of these proteins in their respective organisms. | protein 3D structures |
| PDBsum | PDBsum provides an at-a-glance overview of every macromolecular structure deposited in the Protein Data Bank (PDB), giving schematic diagrams of the molecules in each structure and of the interactions between them. | Structure Summary |
| EDS | The Uppsala Electron Density Server (EDS) provides the scientific community with a service for evaluating the electron density (and, indirectly, some aspects of the model quality) of crystal structures deposited in the Protein Data Bank. | evaluating the electron density of crystal structures |
| PDBe | Protein Data Bank in Europe (PDBe) is the the collection, management and distribution of data about macromolecular structures, derived from the Protein Data Bank (PDB). | Structure Summary |
| PDB REDO | PDB REDO is the method for automated re-refinement of structure models in the PDB. | macromolecular X-ray diffraction structure models |
| PDBwiki | PDBWiki is a user contributed database of protein structure annotations, listing all the protein structures currently available in the PDB. | Structure Summary |
| Procheck | PROCHECK checks the stereochemical quality of a protein structure, producing a number of PostScript plots analysing its overall and residue-by-residue geometry. | stereochemical analysis |
| PDBREPORT | The PDBREPORT is a database of observed anomalies in PDB files. PDBREPORT entries can be seen as error reports for macromolecular structures deposited in the PDB. | describing structural problems in PDB entries |
| LPC | Ligand Protein Contact (LPC) is a software which gives detailed analysis of interatomic contacts,calculate the solvent-accessible surface of every atom,determine the contacting residues and type of interaction. | Structure Features |
| CSU | Contacts of Structural Units (CSU) is a tools which describe the contacts of structural units such as helices, sheets, strands and residues. | Structure Features |
| CASTp | Computed Atlas of Surface Topography of proteins (CASTp) provides an online resource for locating, delineating and measuring concave surface regions on three-dimensional structures of proteins. | Structure Features |
| GNM | Guassian Network Model (GNM) is a web-based system that describing high-throughput analysis of the collective dynamics of proteins. | Visualizing |
| Chem-BLAST | Chemical Block Layered Alignment of Substructure Technique (Chem-BLAST) is a chemical taxonomy-based search engine which search on the fragments of an inhibitor to look for its chemical structural neighbors. | Ligand Features |
| PubChem | PubChem is a database of chemical molecules which is maintained by the NCBI. PubChem provides information on the biological activities of small molecules. | Ligand Features |
| SCOP | Structural Classification of Proteins (SCOP) is a structural classification of proteins database, provides a detailed and comprehensive description of the structural and evolutionary relationships of the proteins of known structure. | Structure Classification |
| CATH | Protein Structure Classification (CATH) is a semi-automatic, hierarchical classification of protein domains. The four main levels of this classification are protein class (C), architecture (A), topology (T) and homologous superfamily (H). | Structure Classification |
| VAST | Vector Alignment Search Tool (VAST) is NCBI's structure-structure similarity search service. It compares 3D coordinates of a newly determined protein structure. | Structure Classification and Comparison |
| FATCAT | Flexible structure AlignmenT by Chaining Aligned fragment pairs allowing Twists (FATCAT) is a flexible protein structure comparison algorithm, which automatically identifies hinges and internal rearrangements in two protein structures. | Structure Alignment and Comparison |
| DSSP | Dictionary of protein secondary structure (DSSP) is a program o standardize secondary structure assignment. | Secondary Structure |
| CSA | The Catalytic Site Atlas (CSA) is a database documenting enzyme active sites and catalytic residues in enzymes of 3D structure. | enzyme active sites |
| PDB chain identifiers | PDB chain identifiers is identify the chain is specified in the PDB file. | PDB chain identifier |
| fireDB | fireDB is a database of PDB structures and their associated ligands. fireDB also contains the largest set of reliably annotated functionally important residues. | Functional annotation |
| PDB File | Download PDB file. | PDB file |
| Sequence | Download fasta sequence. | fasta sequence |
| Ramachandran plot of 2pdt | The Ramachandran plot shows the phi-psi torsion angles for all residues in the structure (except those at the chain termini). | Ramachandran plot |
| SCOPOI | SCOPPI (Structural Classification of Protein-Protein Interfaces) is a database of all domain-domain interactions and their interfaces derived from PDB structure files and SCOP domain definitions. | Protein-Protein Interfaces |
| DIP | Datbase of Interacting Proteins (DIP) is a database of experimentally determined interactions between proteins. It combines information from a variety of sources to create a single, consistent set of protein-protein interactions. | protein-protein interactions |
| SRS link at EBI | SRS is a proven and scalable data integration platform that is used at over 300 commercial and academic sites delivering genomic data to thousands of users. | data integration platform |
| MMDB | Molecular Modeling Database (MMDB) is a database of experimentally resolved structures of proteins, RNA, and DNA, derived from the Protein Data Bank (PDB), with value-added features such as explicit chemical graphs, links to literature, similar sequences, related 3D structures, information about chemicals bound to the structures, and more. | Structure Summary |
| FSSP | Families of structurally similar proteins (FSSP) is a database of structural alignments of proteins in the Protein Data Bank (PDB). | structural alignments |
| PQS | Protein Quaternary Structure server (PQS) is a server allows for searching of the list of likely quaternary structures generated at the EBI. The system is a SQL front end to a database on characteristics of the quaternary structure files. | Protein Quaternary Structure |
| ProSAT | Protein Structure Annotation Tool (ProSAT) is a tool to map SwissProt features and Prosite patterns on to a 3D structure of a protein | 3D structure |
| AffinDB | AffinDB is a affinity database For Protein-Ligand Complexes. | Binding Affinity |
| PDBj | PDBj (Protein Data Bank Japan) maintains a centralized archive of macromolecular structures and provides integrated tools, in collaboration with the RCSB, the BMRB in USA and the PDBe in EU. | Structure/Function summary |
| PISA | Protein Interfaces, Surfaces and Assemblies (PISA) is an interactive tool for the exploration of macromolecular (protein, DNA/RNA and ligand) interfaces, prediction of probable quaternary structures (assemblies), database searches of structurally similar interfaces and assemblies | Protein Interfaces, Surfaces |
| JenaLib | The Jena Library of Biological Macromolecules (JenaLib) is aimed at a better dissemination of information on three-dimensional biopolymer structures with an emphasis on visualization and analysis. | Visualization and analysis |
| PDBCartoon | PDB Cartoon produces the image of the amino acid sequence along with the secondary structure elements, rendered as cartoons. | Visualization |
| XDom | A Graphical Tool for Protein Domain and Exon Position Visualization (XDom). | Domain Information |
| WebMol | Complete Structure Visualization | Visualization |
| Jena3D | Complete Structure Visualization | Visualization |
