1XG2

Crystal structure of the complex between pectin methylesterase and its inhibitor protein

PDB DOI: 10.2210/pdb1XG2/pdb

Classification: HYDROLASE/HYDROLASE INHIBITOR
Organism(s): Solanum lycopersicum, Actinidia chinensis
Expression System: Komagataella pastoris
Mutation(s): No

Deposited: 2004-09-16 Released: 2005-03-22
Deposition Author(s): Di Matteo, A., Raiola, A., Camardella, L., Giovane, A., Bonivento, D., De Lorenzo, G., Cervone, F., Bellincampi, D., Tsernoglou, D.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.90 Å
R-Value Free: 0.232
R-Value Work: 0.198
R-Value Observed: 0.199

wwPDB Validation 3D Report Full Report

This is version 1.2 of the entry. See complete history.

Literature

Structural Basis for the Interaction between Pectin Methylesterase and a Specific Inhibitor Protein

Di Matteo, A., Giovane, A., Raiola, A., Camardella, L., Bonivento, D., De Lorenzo, G., Cervone, F., Bellincampi, D., Tsernoglou, D.

(2005) Plant Cell 17: 849-858

PubMed: 15722470 Search on PubMedSearch on PubMed Central
DOI: 10.1105/tpc.104.028886
Primary Citation of Related Structures:
1XG2

PubMed Abstract:

Pectin, one of the main components of the plant cell wall, is secreted in a highly methyl-esterified form and subsequently deesterified in muro by pectin methylesterases (PMEs). In many developmental processes, PMEs are regulated by either differential expression or posttranslational control by protein inhibitors (PMEIs). PMEIs are typically active against plant PMEs and ineffective against microbial enzymes. Here, we describe the three-dimensional structure of the complex between the most abundant PME isoform from tomato fruit (Lycopersicon esculentum) and PMEI from kiwi (Actinidia deliciosa) at 1.9-A resolution. The enzyme folds into a right-handed parallel beta-helical structure typical of pectic enzymes. The inhibitor is almost all helical, with four long alpha-helices aligned in an antiparallel manner in a classical up-and-down four-helical bundle. The two proteins form a stoichiometric 1:1 complex in which the inhibitor covers the shallow cleft of the enzyme where the putative active site is located. The four-helix bundle of the inhibitor packs roughly perpendicular to the main axis of the parallel beta-helix of PME, and three helices of the bundle interact with the enzyme. The interaction interface displays a polar character, typical of nonobligate complexes formed by soluble proteins. The structure of the complex gives an insight into the specificity of the inhibitor toward plant PMEs and the mechanism of regulation of these enzymes.

Related Citations:

Pectin methylesterase inhibitor
Giovane, A., Servillo, L., Balestrieri, C., Raiola, A., D'Avino, R., Tamburrini, M., Ciardiello, M.A., Camardella, L.
(2004) Biochim Biophys Acta 1696: 245

Tomato pectin methylesterase: modeling, fluorescence, and inhibitor interaction studies-comparison with the bacterial (Erwinia chrysanthemi) enzyme
D'Avino, R., Camardella, L., Christensen, T.M., Giovane, A., Servillo, L.
(2003) Proteins 53: 830

Pectin methylesterases: cell wall enzymes with important roles in plant physiology
Micheli, F.
(2001) Trends Plant Sci 6: 414

Organizational Affiliation:

Department of Biochemical Sciences, University of Rome, 00185 Rome, Italy.

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Pectinesterase 1	A	317	Solanum lycopersicum	Mutation(s): 0 Gene Names: PME1.9 EC: 3.1.1.11
UniProt
Find proteins for P14280 (Solanum lycopersicum) Explore P14280 Go to UniProtKB: P14280
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P14280
Protein Feature View Expand
Reference Sequence

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Pectinesterase inhibitor	B	153	Actinidia chinensis	Mutation(s): 0
UniProt
Find proteins for P83326 (Actinidia deliciosa) Explore P83326 Go to UniProtKB: P83326
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P83326
Protein Feature View Expand
Reference Sequence