FSSP DATABASE PDF

This article has been cited by other articles in PMC. The results of the exhaustive pairwise structure comparisons are reported in the form of a fold tree generated by hierarchical clustering and as a series of structurally representative sets of folds at varying levels of uniqueness. For each query structure from the representative set, there is a database entry containing structure-structure alignments with its structural neighbours in the representative set and its sequence homologs in the PDB. All alignments are based purely on the 3-D co-ordinates of the proteins and are derived by an automatic structure comparison program Dali. Selected References These references are in PubMed.

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Structures may be specified by concatenating the PDB identifier 4 characters and a chain identifier 1 character or, alternatively, you may upload a PDB file. The maximum number of input structures is If your input set consists only of structures in the PDB, you can use this alternative submission form. The job title is used as subject heading in the e-mail.

Protein Science 29, Hasegawa H, Holm L Advances and pitfalls of protein structural alignment. Holm L, Sander C Mapping the protein universe. Mehthods in Molecular Biology, Vol. Nucleic acids research 44 W1 , WW Acids Res. Bioinformatics 24, Bioinformatics 16, Holm L, Sander C Dictionary of recurrent domains in protein structures.

Proteins 33, Holm L, Sander C Alignment of three-dimensional protein structures: network server for database searching. Meth Enz. Proteins 19, Holm L, Sander C Protein structure comparison by alignment of distance matrices. Bioinformatics 35, Trends Biochem 22, Holm L, Sander C An evolutionary treasure: unification of a broad set of amidohydrolases related to urease. EMBO J. Nature Structural Biology 1, Holm L, Sander C Structural similarity between plant endochitinase and lysozymes from animals and phage: an evolutionary connection.

FEBS Lett. Nature ,

LEY AVELINO SINANI PDF

The FSSP database of structurally aligned protein fold families.

Structures may be specified by concatenating the PDB identifier 4 characters and a chain identifier 1 character or, alternatively, you may upload a PDB file. The maximum number of input structures is If your input set consists only of structures in the PDB, you can use this alternative submission form. The job title is used as subject heading in the e-mail. Protein Science 29, Hasegawa H, Holm L Advances and pitfalls of protein structural alignment. Holm L, Sander C Mapping the protein universe.

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FSSP DATABASE PDF

Nilrajas Disambiguation page providing links to topics that could be referred to by the same search term This disambiguation page lists articles associated with the title FSSP. For example, Figure 2 shows how the first Fsp domain of synaptotagmin I PDB entry 1RSYwhich presented a new calcium-binding fold 7is firmly anchored in a large structural class that contains beta-sandwich proteins with topological similarity to immunoglobulin-like domains and blue copper proteins. Families of Structurally Similar Proteins database Database of homology-derived protein structures and the structural meaning of sequence alignment. Details about the Dali method used to derive the database are given in refs 9 and fzsp Wikisource 0 entries edit. In addition to the guide structures, the alignment includes representative sequence homologs Swissprot column; first sequence corresponds to the known structure taken from the HSSP database of sequence-sequence alignments You have entered an invalid code.

DULCIE HOLLAND PDF

The FSSP database: fold classification based on structure-structure alignment of proteins.

Kazradal LiBoojala V. Disambiguation page providing links to topics that could be referred to by the same search term This disambiguation page lists articles associated with the title FSSP. These patterns are conserved in all members of the protein families as seen by extending the structure alignment with the results from a sequence database search All structured data from the main, property and lexeme namespaces is available under fsspp Creative Commons CC0 License ; text in the other namespaces is available under the Creative Commons Attribution-ShareAlike License ; additional terms datwbase apply. MontelioneMark Gerstein Current opinion in chemical biology The structure comparison program Dali 9 defines the extent of the common structural core by maximizing the agreement of intra molecular CA-CA distances.

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