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Please do NOT make changes to this Sandbox. Sandboxes 30-60 are reserved for use by Biochemistry 410 & 412 at Messiah College taught by Dr. Hannah Tims during Fall 2012 and Spring 2013.

Contents 1 Papain 1.1 Introduction 1.2 Catalytic Mechanism 1.3 References

Papain

Introduction

finds its origin from the latex of the papaya fruit and is classified as a sulfhydryl protease.

spinqualitylabelsall models Structure of Papain (PDB entry 9PAP) Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image Structure Its polypeptide chain consists of 212 amino acid residues folded to form a groove between its two domains containing the active site. [1] [2] Distribution of Residues Ligands interactions Primarily hydrogen bonds with non-water and hydrophobic interactions

Catalytic Mechanism

References

1. ↑ [1]9PAP PDB
2. ↑ Wang J, Xiang YF, Lim C. The double catalytic triad, Cys25-His159-Asp158 and Cys25-His159-Asn175, in papain catalysis: role of Asp158 and Asn175. Protein Eng. 1994 Jan;7(1):75-82. PMID:8140097
3. ↑ [2] University of Maine

http://www.pdb.org/pdb/explore/explore.do?structureId=2PAD • Show the secondary structures. • Compare the distribution of polar residues to that of nonpolar residues. • Highlight the active site. • If you can find a PDB file of the enzyme that contains a pseudo-substrate (may be inhibitor), highlight it. • Show the contacts or attractions that are present between the pseudo-substrate and the protein, and if the enzyme has multiple subunits, show the contacts between the subunits. • Identify any other ligands that are present in the structure and the types of contacts that are present between them and the protein

http://proteopedia.org/wiki/index.php/Sandbox_55#cite_note-18 Table of contents Pictures References (cross links)