2I5Z | pdb_00002i5z

The crystal structure of OspA mutant

PDB DOI: https://doi.org/10.2210/pdb2I5Z/pdb

Classification: DE NOVO PROTEIN
Organism(s): Borreliella burgdorferi
Expression System: Escherichia coli BL21(DE3)
Mutation(s): Yes

Deposited: 2006-08-26 Released: 2007-07-10
Deposition Author(s): Makabe, K., Terechko, V., Koide, S.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.20 Å
R-Value Free:
0.176 (Depositor), 0.187 (DCC)
R-Value Work:
0.148 (Depositor), 0.156 (DCC)
R-Value Observed:
0.149 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

This is version 1.4 of the entry. See complete history.

Literature

Hydrophobic surface burial is the major stability determinant of a flat, single-layer beta-sheet.

Yan, S., Gawlak, G., Makabe, K., Tereshko, V., Koide, A., Koide, S.

(2007) J Mol Biology 368: 230-243

PubMed: 17335845 Search on PubMed Search on PubMed Central
DOI: https://doi.org/10.1016/j.jmb.2007.02.003
Primary Citation Related Structures:
2I5Z

PubMed Abstract:
Formation of a flat beta-sheet is a fundamental event in beta-sheet-mediated protein self-assembly. To investigate the contributions of various factors to the stability of flat beta-sheets, we performed extensive alanine-scanning mutagenesis experiments on the single-layer beta-sheet segment of Borrelia outer surface protein A (OspA). This beta-sheet segment consists of beta-strands with highly regular geometries that can serve as a building block for self-assembly. Our Ala-scanning approach is distinct from the conventional host-guest method, in that it introduces only conservative, truncation mutations that should minimize structural perturbation. Our results showed very weak correlation with experimental beta-sheet propensity scales, statistical beta-sheet propensity scales, or cross-strand pairwise correlations. In contrast, our data showed strong positive correlation with the change in buried non-polar surface area. Polar interactions including prominent Glu-Lys cross-strand pairs contribute marginally to the beta-sheet stability. These results were corroborated by results from additional non-Ala mutations. Taken together, these results demonstrate the dominant contribution of non-polar surface burial to flat beta-sheet stability even at solvent-exposed positions. The OspA single-layer beta-sheet achieves efficient hydrophobic surface burial without forming a hydrophobic core by a strategic placement of a variety of side-chains. These findings further suggest the importance of hydrophobic interactions within a beta-sheet layer in peptide self-assembly.

Organizational Affiliation

Department of Biochemistry and Molecular Biology, The University of Chicago, Chicago, IL 60637, USA.

Macromolecule Content

Total Structure Weight: 26.57 kDa
Atom Count: 2,475
Modeled Residue Count: 246
Deposited Residue Count: 251
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Outer surface protein A	A [auth O]	251	Borreliella burgdorferi	Mutation(s): 13 Gene Names: ospA
UniProt
Find proteins for P0CL66 (Borreliella burgdorferi (strain ATCC 35210 / DSM 4680 / CIP 102532 / B31)) Explore P0CL66 Go to UniProtKB: P0CL66
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P0CL66
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PG4 Query on PG4 Download:Ideal Coordinates CCD File SDF format, chain B [auth O] MOL2 format, chain B [auth O] mmCIF format, chain B [auth O]	B [auth O]	TETRAETHYLENE GLYCOL C₈ H₁₈ O₅ UWHCKJMYHZGTIT-UHFFFAOYSA-N		Interactions Focus chain B [auth O] Interactions & Density Focus chain B [auth O]