Image:Nter.jpg
From Proteopedia
(uploaded a new version of "Image:Nter.jpg") |
Current revision
PDX-1 homeodomain/DNA interations [1]
A) Structure of the Pdx1 homeodomain/DNA complex. Pdx1 (blue ribbon) binds the TAAT core DNA sequence (grey). The N-terminal tail binds in the minor groove, and the recognition helix, helix 3, binds in the major groove. Key residues contacting the DNA are shown as stick figures (red): Arg 5 in the minor groove, and Asn 51 in the major groove. Gln 50 contacts the phosphate backbone or the DNA bases through a water-mediated contact. Arg 3 and Arg 43 (black line representation, circled) help stabilize the N-terminal arm, and Lys 2, in the minor groove when helix 3 is properly positioned in the major groove.
B) Hydrogen bond contacts with the DNA differ between Conformation A and B in the Pdx1 homeodomain/DNA crystal structure (PDB 2H1K) (www.rcsb.org) [56]. In both conformations (left) Arg 5 contacts Thy 1 and Gua 21* through the minor grove, and Asn 51 contacts Ade 3 through the major grove. The difference in the DNA contacts between Conformations A (orange) and B (blue) is shown on the right. Conformation B makes additional base contacts by Asn 51, by Lys 2 from the ordered N-terminal arm, and a water-mediated contact by Gln 50. Conformation A forms additional phosphate contacts. Arrows represent hydrogen bonds.
doi:10.1371/journal.pcbi.1003160.g001
References
- ↑ Babin V, Wang D, Rose RB, Sagui C. Binding polymorphism in the DNA bound state of the Pdx1 homeodomain. PLoS Comput Biol. 2013;9(8):e1003160. doi: 10.1371/journal.pcbi.1003160. Epub, 2013 Aug 8. PMID:23950697 doi:http://dx.doi.org/10.1371/journal.pcbi.1003160
File history
Click on a date/time to view the file as it appeared at that time.
| Date/Time | User | Dimensions | File size | Comment | |
|---|---|---|---|---|---|
| (current) | 09:04, 31 December 2013 | Megane Denu (Talk | contribs) | 394×531 | 73 KB | |
| 08:48, 31 December 2013 | Megane Denu (Talk | contribs) | 394×531 | 73 KB |
- Edit this file using an external application
See the setup instructions for more information.
Links
The following pages link to this file:
Metadata
This file contains additional information, probably added from the digital camera or scanner used to create or digitize it. If the file has been modified from its original state, some details may not fully reflect the modified image.
| Orientation | Normal |
|---|---|
| Horizontal resolution | 72 dpi |
| Vertical resolution | 72 dpi |
