Configuración de eclipselink + Spring MVC + MySql usando Java Configuration (Sin configuración XML)

La siguiente configuración permitirá que Spring use dos contextos de aplicación (el contexto raíz y el contexto de la aplicación web) y configurará la mayoría de las cosas que necesita.

@Configuration
@EnableTransactionManagement
@EnableMBeanExport
@EnableJpaRepositories("your.jpa.repositories.package")
@ComponentScan(basePackages = "gr.xe.payments", excludeFilters = {@ComponentScan.Filter(value = Controller.class), @ComponentScan.Filter(type = FilterType.ASSIGNABLE_TYPE ,value = MvcConfig.class)})
public class ApplicationConfig {


}

@EnableWebMvc
@ComponentScan(basePackages = "your.controller.package", includeFilters = @ComponentScan.Filter(value = Controller.class))
public class MvcConfig extends WebMvcConfigurerAdapter {

    @Bean
    public TilesConfigurer tilesViewResolver() {
        TilesConfigurer tilesViewResolver = new TilesConfigurer();
        tilesViewResolver.setDefinitions(new String[]{"/WEB-INF/tiles.xml"});
        return tilesViewResolver;
    }

    @Bean
    public UrlBasedViewResolver urlBasedViewResolver() {
        UrlBasedViewResolver urlBasedViewResolver = new UrlBasedViewResolver();
        urlBasedViewResolver.setViewClass(TilesView.class);
        return urlBasedViewResolver;
    }

    @Bean(name = "messageSource")
    public ReloadableResourceBundleMessageSource reloadableResourceBundleMessageSource() {
        ReloadableResourceBundleMessageSource reloadableResourceBundleMessageSource = new ReloadableResourceBundleMessageSource();
        reloadableResourceBundleMessageSource.setBasename("WEB-INF/i18n/messages");
        reloadableResourceBundleMessageSource.setFallbackToSystemLocale(false);
        reloadableResourceBundleMessageSource.setDefaultEncoding("UTF-8");
        return reloadableResourceBundleMessageSource;
    }

    @Override
    public void addResourceHandlers(ResourceHandlerRegistry registry) {
        registry.addResourceHandler("/resources/**").addResourceLocations("/resources/");
    }
}



@Configuration
public class DatabaseConfig {


    @Bean
    public LocalContainerEntityManagerFactoryBean entityManagerFactory() {
        EclipseLinkJpaVendorAdapter vendorAdapter = new EclipseLinkJpaVendorAdapter();
        vendorAdapter.setGenerateDdl(true);
        vendorAdapter.setShowSql(false);

        LocalContainerEntityManagerFactoryBean factory =
                new LocalContainerEntityManagerFactoryBean();
        factory.setJpaVendorAdapter(vendorAdapter);
        factory.setPackagesToScan("your.domain.package");
        factory.setDataSource(dataSource());
        factory.setJpaProperties(jpaProperties());
        return factory;
    }

    @Bean
    public JpaTransactionManager transactionManager() {
        JpaTransactionManager txManager = new JpaTransactionManager();
        txManager.setEntityManagerFactory(entityManagerFactory().getObject());
        return txManager;
    }

    @Bean
    public PersistenceExceptionTranslationPostProcessor persistenceExceptionTranslationPostProcessor() {
        return new PersistenceExceptionTranslationPostProcessor();
    }

    @Bean
    public DataSource dataSource() {
        //This uses JNDI, you could create the data source in any way you want
        try {
            Context initCtx = new InitialContext();
            Context envCtx = (Context) initCtx.lookup("java:comp/env");
            return (DataSource) envCtx.lookup("jdbc/yourDS");
        } catch (Exception e) {
            e.printStackTrace();
            throw new RuntimeException("Unable to lookup datasource", e);
        }
    }

    private Properties jpaProperties() {
        Properties properties = new Properties();
        //use whatever EclipseLink properties you like
        return properties;
    }
}

EDITAR:

Las dependencias relevantes son

<properties>
    <spring.version>3.2.8.RELEASE</spring.version>
    <spring-security.version>3.1.3.RELEASE</spring-security.version>
</properties>   

<dependency>
        <groupId>org.springframework</groupId>
        <artifactId>spring-aop</artifactId>
        <version>${spring.version}</version>
    </dependency>
    <dependency>
        <groupId>org.springframework</groupId>
        <artifactId>spring-beans</artifactId>
        <version>${spring.version}</version>
    </dependency>
    <dependency>
        <groupId>org.springframework</groupId>
        <artifactId>spring-context</artifactId>
        <version>${spring.version}</version>
        <exclusions>
            <!-- Exclude Commons Logging in favor of SLF4j -->
            <exclusion>
                <groupId>commons-logging</groupId>
                <artifactId>commons-logging</artifactId>
            </exclusion>
        </exclusions>
    </dependency>
    <dependency>
        <groupId>org.springframework</groupId>
        <artifactId>spring-core</artifactId>
        <version>${spring.version}</version>
    </dependency>
    <dependency>
        <groupId>org.springframework</groupId>
        <artifactId>spring-expression</artifactId>
        <version>${spring.version}</version>
    </dependency>
    <dependency>
        <groupId>org.springframework</groupId>
        <artifactId>spring-web</artifactId>
         <version>${spring.version}</version>
    </dependency>
    <dependency>
        <groupId>org.springframework</groupId>
        <artifactId>spring-webmvc</artifactId>
        <version>${spring.version}</version>
    </dependency>
    <dependency>
        <groupId>org.springframework</groupId>
        <artifactId>spring-context-support</artifactId>
        <version>${spring.version}</version>
    </dependency>


    <dependency>
        <groupId>org.springframework</groupId>
        <artifactId>spring-jdbc</artifactId>
        <version>${spring.version}</version>
    </dependency>
    <dependency>
        <groupId>org.springframework</groupId>
        <artifactId>spring-tx</artifactId>
        <version>${spring.version}</version>
    </dependency>
    <dependency>
        <groupId>org.springframework</groupId>
        <artifactId>spring-orm</artifactId>
        <version>${spring.version}</version>
    </dependency>
    <dependency>
        <groupId>org.springframework.data</groupId>
        <artifactId>spring-data-jpa</artifactId>
        <version>1.2.0.RELEASE</version>
        <exclusions>
            <exclusion>
                <artifactId>slf4j-api</artifactId>
                <groupId>org.slf4j</groupId>
            </exclusion>
            <exclusion>
                <artifactId>jcl-over-slf4j</artifactId>
                <groupId>org.slf4j</groupId>
            </exclusion>
        </exclusions>
    </dependency>   

    <dependency>
        <groupId>org.eclipse.persistence</groupId>
        <artifactId>eclipselink</artifactId>
        <version>2.5.1</version>
    </dependency>