How do you design and structure enterprise Node.js projects?

In Simple Words: I adhere to Layered Architecture (Controller-Service-Repository) with Clean Architecture boundaries:

• Presentation Layer (Controllers/Routes): Handles HTTP request parsing, DTO validation using Zod, and returns HTTP responses.
• Domain & Service Layer: Contains business rules, orchestration, domain entities, and domain exceptions; completely decoupled from HTTP frameworks.
• Data Access Layer (Repositories): Encapsulates database queries (Prisma, TypeORM, Drizzle, or raw SQL clients).
• Cross-Cutting Concerns: Centralized middleware for authentication, correlation ID propagation (AsyncLocalStorage), error handling, and structured logging.

// Service Layer decoupling business logic from HTTP controller:
export class UserService {
  constructor(private userRepo: UserRepository) {}

  async registerUser(dto: CreateUserDTO): Promise<User> {
    const existing = await this.userRepo.findByEmail(dto.email);
    if (existing) throw new ConflictError('Email already registered');
    return this.userRepo.create(dto);
  }
}