1GE7

ZINC PEPTIDASE FROM GRIFOLA FRONDOSA

Summary for 1GE7

• Entry DOI: 10.2210/pdb1ge7/pdb
• Related: 1G12 1GE5 1GE6
• Descriptor: PEPTIDYL-LYS METALLOENDOPEPTIDASE, alpha-D-mannopyranose, ZINC ION, ... (4 entities in total)
• Functional Keywords: zinc coordinate, metalloprotease, hydrolase
• Biological source: Grifola frondosa
• Cellular location: Secreted : P81054
• Total number of polymer chains: 2
• Total formula weight: 36607.98

Authors

Hori, T.,Kumasaka, T.,Yamamoto, M.,Nonaka, T.,Tanaka, N.,Hashimoto, Y.,Ueki, T.,Takio, K. (deposition date: 2000-10-11, release date: 2001-03-14, Last modification date: 2024-10-30)

Primary citation

Hori, T.,Kumasaka, T.,Yamamoto, M.,Nonaka, N.,Tanaka, N.,Hashimoto, Y.,Ueki, U.,Takio, K.
Structure of a new 'aspzincin' metalloendopeptidase from Grifola frondosa: implications for the catalytic mechanism and substrate specificity based on several different crystal forms.
Acta Crystallogr.,Sect.D, 57:361-368, 2001

PubMed Abstract: Crystal structures of a peptidyl-Lys metalloendopeptidase (MEP) from the edible mushroom Grifola frondosa (GfMEP) were solved in four crystal forms. This represents the first structure of the new family 'aspzincins' with a novel active-site architecture. The active site is composed of two helices and a loop region and includes the HExxH and GTxDxxYG motifs conserved among aspzincins. His117, His121 and Asp130 coordinate to the catalytic zinc ligands. An electrostatically negative region composed of Asp154 and Glu157 attracts a positively charged Lys side chain of a substrate in a specific manner. A Tyr133 side chain located on the S1' pocket had different configurations in two crystal forms and was not observed in the other crystal forms. The flexible Tyr133 plays two roles in the enzymatic function of GfMEP. The first is to provide a hydrophobic environment with Phe83 in order to accommodate the alkyl part of the Lys side chain of a substrate and the second is as a 'proton donor' to the oxyanion of the tetrahedral transition state to stabilize the reaction transition state.

PubMed: 11223512
DOI: 10.1107/S0907444900019740

Experimental method

X-RAY DIFFRACTION (2 Å)