7JND

The structure of CBM32-1 and CBM32-2 domains from Clostridium perfringens ZmpB

Summary for 7JND

• Entry DOI: 10.2210/pdb7jnd/pdb
• Descriptor: F5/8 type C domain protein, CALCIUM ION, GLYCEROL, ... (4 entities in total)
• Functional Keywords: carbohydrate binding module, sugar binding protein
• Biological source: Clostridium perfringens (strain ATCC 13124 / DSM 756 / JCM 1290 / NCIMB 6125 / NCTC 8237 / Type A)
• Total number of polymer chains: 1
• Total formula weight: 51685.82

Authors

Pluvinage, B.,Boraston, A.B. (deposition date: 2020-08-04, release date: 2021-02-03, Last modification date: 2023-10-18)

Primary citation

Pluvinage, B.,Ficko-Blean, E.,Noach, I.,Stuart, C.,Thompson, N.,McClure, H.,Buenbrazo, N.,Wakarchuk, W.,Boraston, A.B.
Architecturally complex O -glycopeptidases are customized for mucin recognition and hydrolysis.
Proc.Natl.Acad.Sci.USA, 118:-, 2021

PubMed Abstract: A challenge faced by peptidases is the recognition of highly diverse substrates. A feature of some peptidase families is the capacity to specifically use post-translationally added glycans present on their protein substrates as a recognition determinant. This is ultimately critical to enabling peptide bond hydrolysis. This class of enzyme is also frequently large and architecturally sophisticated. However, the molecular details underpinning glycan recognition by these -glycopeptidases, the importance of these interactions, and the functional roles of their ancillary domains remain unclear. Here, using the ZmpA, ZmpB, and ZmpC M60 peptidases as model proteins, we provide structural and functional insight into how these intricate proteins recognize glycans as part of catalytic and noncatalytic substrate recognition. Structural, kinetic, and mutagenic analyses support the key role of glycan recognition within the M60 domain catalytic site, though they point to ZmpA as an apparently inactive enzyme. Wider examination of the Zmp domain content reveals noncatalytic carbohydrate binding as a feature of these proteins. The complete three-dimensional structure of ZmpB provides rare insight into the overall molecular organization of a highly multimodular enzyme and reveals how the interplay of individual domain function may influence biological activity. -glycopeptidases frequently occur in host-adapted microbes that inhabit or attack mucus layers. Therefore, we anticipate that these results will be fundamental to informing more detailed models of how the glycoproteins that are abundant in mucus are destroyed as part of pathogenic processes or liberated as energy sources during normal commensal lifestyles.

PubMed: 33658366
DOI: 10.1073/pnas.2019220118

Experimental method

X-RAY DIFFRACTION (2 Å)