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Functional Annotation of uncharacterized proteins in PDB

Functional Annotation of uncharacterized proteins in PDB. Guided by: Dr Shuchismita Dutta. Process O verview. 3 Approaches :. RCSB Sequence/3D Similarity Literatures 10 Steps Method. One Case Study. Details : PDB ID: 1WX9 [17-89] Accession No P46379 Length: 86

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Functional Annotation of uncharacterized proteins in PDB

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  1. Functional Annotation of uncharacterized proteins in PDB Guided by: DrShuchismitaDutta

  2. Process Overview 3 Approaches: • RCSB Sequence/3D Similarity • Literatures • 10 Steps Method

  3. One Case Study Details: PDB ID: 1WX9 [17-89] Accession No P46379 Length: 86 Whole Protein Length:1132 Related Structures: 4EEW,4DWF 4EEW: Chaperon[1-87] 4DWF: Unknown[13 – 101] 3D Struc. of 1WX9- Jmolview RCSB – BLAST results

  4. Seq. Similarity: At 30%, SH3 and UBQ domain

  5. Pfam: UBQ 3D Similarity

  6. SCOP and PFAM Results SCOP: UBQ like, PFAM: UBQ family

  7. 10 Steps: BLAST BLAST hits: 4DWF, 1WX9, 4EEW( Chaperon)

  8. PIRSF Results COG Results

  9. Input: FASTA of 1WX9

  10. CDD View: Conserved residues(in red)

  11. Some Missed cases:

  12. Finding the Missing entries (which are already annotated): • To get Accession No RCSB PDB (Web Resource) User Input(PDB ID) To get corresponding PDB IDs, Chain and Domain Information To get Classification Details RCSB PDB (Web Resource) UniProt (Web Resource) Missed ??? No Match Missed Entries (Already Annotated) Unknown Functions Completed Program: Workflow Work in Progress

  13. Process Overview: Summary 32 ? ?

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