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SG KB 2009 NIGMS Workshop: Enabling Technologies for Structural Biology Section on Structural Analysis Margaret J. Gabanyi March 4, 2009 How to Use the.

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Presentation on theme: "SG KB 2009 NIGMS Workshop: Enabling Technologies for Structural Biology Section on Structural Analysis Margaret J. Gabanyi March 4, 2009 How to Use the."— Presentation transcript:

1 SG KB 2009 NIGMS Workshop: Enabling Technologies for Structural Biology Section on Structural Analysis Margaret J. Gabanyi March 4, 2009 How to Use the PSI Structural Genomics Knowledgebase for Research Part II: Demonstration

2 The PSI SGKB homepage makes many features available from one central place.

3 The Structural Genomics Update provides a collection of PSI and broader research highlights, news, and events in collaboration with the Nature Publishing Group

4 About this site About this site contains instructions, FAQs, and also academic exercises on how to use the SGKB. URL:

5 About PSI PSI Policies, Reports, administrative, and funding opportunities are located on the About PSI site.

6 PSI Centers The PSI centers menu shows information about the PSI-2 Network centers, their objectives, and a link to their homepages.

7 PSI Resources In addition to the search function, you can visit each of the PSI resources individually. Links point to more information about the resource and its homepage.

8 PSI Resource: Technology Portal

9 NPG Resources Links to Nature resources, such as the Nature Gateways, NPG Journals, and bookmarking and blog tools are also made available here.

10 Subscribe to RSS feeds Users can subscribe to E-alerts and RSS (Really Simply Syndication) feeds to automatically receive notice of PSI SGKB content and latest structure updates

11 Functional Sleuth In Functional Sleuth, we present protein structures determined by the PSI structural genomics efforts whose further functional analysis is required.

12 Functional Sleuth

13 Community-Nominated Targets The greater scientific community is invited to submit protein target nominations for structure determination using the Community-Nominated Targets proposal system.

14 You can see latest structures solved by the PSI Centers; this list can also be delivered to your browser weekly using a (Really Simple Syndication) RSS feed. Latest PSI Structures and Statistics

15 Latest PSI Statistics

16 Structural Genomics Update  Research Advances Editorials about recent structure and technological results  Featured Molecule Detailed explanation about a PSI structure  Research Library Catalog of PSI and other papers about the protein production and structural determination pipeline  News  Events Calendar

17 Research Advances Editorials about recent Research Advances such as new structures and technical highlights are provided by the Nature Publishing Group

18 Research Advances Research Advances editorials contain links that directly query the PSI SGKB, and the main search box is available to query other topics.

19 Featured PSI Molecule Each month, the Featured PSI Molecule gives a detailed portrait of a biological molecule solved by the PSI structural genomics efforts.

20 Featured PSI Molecule The Featured PSI Molecule is an article about a PSI structure written by David Goodsell in his easily accessible style.

21 Research Library The Research Library is a catalog of all PSI and other publications to date related to the protein production and structure determination pipeline. Structural and functional reports are found here as well.

22 Research Library

23 News and Events Calendar To present a broader update on recent scientific advances, we provide the latest News from the Protein Structure Initiative, Nature News and other NPG publications. An Events Calendar keeps the community in touch with upcoming conferences, events, and workshops that promote a structural view of biology.

24  Available structures of proteins with similar/identical amino acid sequences  Any structural and functional properties (annotation) determined from these protein structures  Homology models created for/with your query sequence  Information about similar protein sequences (targets) studied by the PSI structural genomics efforts  The protocols used during those PSI research efforts  Ordering information to obtain DNA clone materials, if available Sequence/PDB ID search and results

25 Structures Tab

26 Annotations Tab

27 Models Tab

28 Targets Tab

29 Protocols Tab

30 Materials Tab

31 Text Search With a plain text search, gain access to information from:  PSI Center web pages  Publications resource  Technology resource  Annotation database

32 Text search results

33 For Further Information PSI SGKB PSI SGKB Tutorial PSI SGKB Tutorial with classroom exercises


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