Document Detail


Structure and proposed amino-acid sequence of a pepsin from atlantic cod (Gadus morhua).
MedLine Citation:
PMID:  9761815     Owner:  NLM     Status:  MEDLINE    
Abstract/OtherAbstract:
The crystal structure of a pepsin from the gastric mucosa of Atlantic cod has been determined to 2.16 A resolution. Data were collected on orthorhombic crystals with cell dimensions a = 35.98, b = 75.40 and c = 108.10 A, on a FAST area-detector system. The phase problem was solved by the molecular-replacement method using porcine pepsin (PDB entry 5PEP) as a search model. The structure has been refined to a crystallographic R factor of 20.8% using all reflections between 8.0 and 2.16 A, without prior knowledge of the primary sequence. The resulting crystal structure is very similar to the porcine enzyme, consisting of two domains with predominantly beta-sheet structure in the same sequential positions as the enzyme from pig. In the course of the model building, 122 residues were substituted and two residues deleted from the starting model to give a polypeptide chain of 324 amino acids and a sequence identity of 57.7% with the pig pepsin. No carbohydrate residues were located. Sequence alignment with available aspartic proteinases, indicates that the fish enzyme seems to be more related to mammalian gastric pepsins than to the mammalian gastricsins and chymosins, lysosomal cathepsin D's and a pepsin from tuna fish. The amino-acid composition of the cod enzyme, however, is more in accordance with the cathepsin D's.
Authors:
S Karlsen; E Hough; R L Olsen
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Publication Detail:
Type:  Journal Article; Research Support, Non-U.S. Gov't    
Journal Detail:
Title:  Acta crystallographica. Section D, Biological crystallography     Volume:  54     ISSN:  0907-4449     ISO Abbreviation:  Acta Crystallogr. D Biol. Crystallogr.     Publication Date:  1998 Jan 
Date Detail:
Created Date:  1998-11-30     Completed Date:  1998-11-30     Revised Date:  2007-07-24    
Medline Journal Info:
Nlm Unique ID:  9305878     Medline TA:  Acta Crystallogr D Biol Crystallogr     Country:  DENMARK    
Other Details:
Languages:  eng     Pagination:  32-46     Citation Subset:  IM    
Affiliation:
Protein Crystallography Group, Department of Chemistry, Faculty of Science, University of Tromso, N-9037 Tromso, Norway.
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MeSH Terms
Descriptor/Qualifier:
Amino Acid Sequence
Animals
Catalytic Domain
Electrons
Fishes / metabolism*
Gastric Mucosa / enzymology*
Models, Molecular
Molecular Sequence Data
Molecular Structure
Pepsin A / chemistry*
Sequence Homology, Amino Acid
Species Specificity
Swine
Temperature
Chemical
Reg. No./Substance:
EC 3.4.23.1/Pepsin A

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine


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