Classification table

The classification table is the main output file StructMAn produces. It is a tab-separated table file. Each row represents the computed results around one amino acid position of one queried protein. In the following all its columns are explained:

1. Uniprot-Ac

contains the Uniprot accession ID of the query protein.

2. Uniprot Id

contains the Uniprot entry name of the query protein.

3. Refseq

contains the Refseq-protein-ID of the query protein.

4. AA pos

contains the amino acid in one letter code and the number in the protein sequence of the queried position.

5. Species

contains a short species ID, to which the query protein belongs.

6. Tag

contains the tags given by the input file.

7. Weighted Surface/Core

contains the annotation whether the queried position lies on the solvent accessible surface of the protein or in the solvent unaccessible core of the protein based on all mapped structures.

8. Class

contains the structural classification of the queried position.

9.Simple Class

contains a simplified version of 8.

10. Confidence Value

contains a score representing the confidence of the annotated structural classification, based on the amount and quality of mapped structures and of the ambiguity of the structural classifications of the individual mappings.

11. Secondary Structure

contains the secondary structure assignment of the queried position performed by DSSP [REF].

12. Recommended Structure

contains the PDB-ID and the chain identifier of the recommended structure, which is the structure, chosen by StructMAn to best represent the structural neighborhood of the queried position.

13. Sequence-ID

contains the sequence identity between the sequence of the recommended structure and the query protein.

14. Coverage

contains the the fraction of the sequence of the query protein covered by the recommended structure.

15. Resolution

contains the resolution of the recommended structure.

16. Max Seq Id Structure

contains the PDB-ID and the chain identifier of the structure, which has the highest sequence identity of all mapped structures.

17. Max Sequence-ID

contains the sequence identity between the sequence of the maximal sequence identity structure and the query protein.

18. Max Seq Id Coverage

contains the the fraction of the sequence of the query protein covered by the maximal sequence identity structure.

19. Max Seq Id Resolution

contains the resolution of the maximal sequence identity structure.

20. Amount of mapped structures

contains the total number of all structures, where the queried position could be mapped to.