Gaucher Disease: Task 04 - Structural Alignment

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Revision as of 20:41, 3 June 2013 by Gerkej (talk | contribs) (CATH used)

Exploring Structural Alignments

Sequences of Data Set

Sequence Set
PDB ID Protein name Classification Category
1OGS Glucocerebrosidase Glycosidases (3.20.20.80) unfilled binding sites (reference structure)
2xwd Glucocerebrosidase Glycosidases (3.20.20.80) filled binding sites
2nsx Glucocerebrosidase Glycosidases (3.20.20.80) filled binding sites
2nt1 Glucocerebrosidase at neutral pH Glycosidases (3.20.20.80) Sequence identity >60%
2f7k/3zr6 unrelated <30%
1gep Sulfite reductase Adolase class I (3.20.20.70) identical in CAT
2isb Fumarase of FUM-1 from Archaeoglobus Fulgidus Fumarase (3.20.130.10) identical in CA
2djf Human dipeptidyl peptidase I (in complex) Cysteine proteinases (3.90.70.10) identical in C
2qgu Phospholipid-binding protein from Ralstonia solanacearum (in complex) Phospholipid-binding protein (1.10.10.640) different in C

CATH:
3.20.20 TIM Barrel
3.20 Alpha-Beta Barrel
3 Alpha Beta
1 mostly Alpha

Pymol

LGA

SSAP (CATH used)

Topmatch

SAP/CE

Evaluation of structural alignments and sequence alignments