PubMed

BLAST

Structure

Taxonomy

OMIM

Help?

Cn3D

VAST related structures for: MMDB 11638, 1D5R sequence A domain 1.      Description: Crystal Structure Of The Pten Tumor Suppressor Overview: There are two main sections to this page. The first section consists of the alignment view controls, the list controls, and the advanced related structure search controls. The second section is the VAST related structure list itself.   The List controls enable you to control the redundancy level of the related structure list, and also allow you to sort the list according to various structural similarity measures. The related structure list consists of a number of rows, each row starting with a check box, and a PDB code/chain/domain designation for the related structure. You may select certain related structures via the check boxes, and the structural alignments for these selected related structures may then be displayed by using the alignment view controls. The "View 3D Alignment" can be used to display a structural superposition of the selected related structures in the graphics visualization tool Cn3D. The "View Sequence Alignment" will display a text diagram of the alignment of the sequences based on the structural superposition of the selected related structures.     of   All Atoms Backbone  with  Cn3D Cn3D/Cache Display See File Save File Download Cn3D!   using  Hypertext Plain text mFASTA  for  Selected All on page  VAST related structures    Low redundancy Medium redundancy High redundancy Non-identical seq. All sequences Selected neighbor(s) Newer than 2 months Newer than 6 months  subset, sorted by  Aligned Length Loop Similarity Vast E-value Rmsd Seq. Identity Gapped Score Vast Score MMDB Date  of   in  Graphics Table Download Asn1 Download Xml Entrez Advanced related structure search        related structures with MMDB or PDB ids:  , with 3D-Domain ids:      or from Entrez History ():    Clear Selections Move the mouse over the red alignment footprints in the graphics below and click, you will obtain a structure-based sequence alignment. Total related structures: 1539; 1 - 60 of 233 representatives from the Medium redundancy subset displayed.  Page:   1 2 3 4 Click to:   Check All     Uncheck All Total related structures: 1539; 1 - 60 of 233 representatives from the Medium redundancy subset displayed.  Page:   1 2 3 4

---

Citing VAST:  Gibrat JF, Madej T, Bryant SH, "Surprising similarities in structure comparison", Curr Opin Struct Biol. 1996 Jun; 6(3):377-85. Citing similarity scores:   Panchenko AR, Madej T, "Analysis of protein homology by assessing the (dis)similarity in protein loop regions.", Proteins. 2004 Nov 15; 57(3):539-47. Citing homologous cores and loops:   Madej T, Panchenko AR, Chen J, Bryant SH, "Protein homologous cores and loops: important clues to evolutionary relationships between structurally similar proteins.", BMC Struct Biol. 2007 Apr 10; 7(1):23.