2dcp

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Line 1: Line 1:
-
[[Image:2dcp.gif|left|200px]]
+
{{Seed}}
 +
[[Image:2dcp.png|left|200px]]
<!--
<!--
Line 9: Line 10:
{{STRUCTURE_2dcp| PDB=2dcp | SCENE= }}
{{STRUCTURE_2dcp| PDB=2dcp | SCENE= }}
-
'''Fully automated NMR structure determination of the ENTH-VHS domain AT3G16270 from Arabidopsis thaliana'''
+
===Fully automated NMR structure determination of the ENTH-VHS domain AT3G16270 from Arabidopsis thaliana===
-
==Overview==
+
<!--
-
Fully automated structure determination of proteins in solution (FLYA) yields, without human intervention, three-dimensional protein structures starting from a set of multidimensional NMR spectra. Integrating existing and new software, automated peak picking over all spectra is followed by peak list filtering, the generation of an ensemble of initial chemical shift assignments, the determination of consensus chemical shift assignments for all (1)H, (13)C, and (15)N nuclei, the assignment of NOESY cross-peaks, the generation of distance restraints, and the calculation of the three-dimensional structure by torsion angle dynamics. The resulting, preliminary structure serves as additional input to the second stage of the procedure, in which a new ensemble of chemical shift assignments and a refined structure are calculated. The three-dimensional structures of three 12-16 kDa proteins computed with the FLYA algorithm coincided closely with the conventionally determined structures. Deviations were below 0.95 A for the backbone atom positions, excluding the flexible chain termini. 96-97% of all backbone and side-chain chemical shifts in the structured regions were assigned to the correct residues. The purely computational FLYA method is suitable for substituting all manual spectra analysis and thus overcomes a main efficiency limitation of the NMR method for protein structure determination.
+
The line below this paragraph, {{ABSTRACT_PUBMED_17017791}}, adds the Publication Abstract to the page
 +
(as it appears on PubMed at http://www.pubmed.gov), where 17017791 is the PubMed ID number.
 +
-->
 +
{{ABSTRACT_PUBMED_17017791}}
==About this Structure==
==About this Structure==
-
2DCP is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DCP OCA].
+
2DCP is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DCP OCA].
==Reference==
==Reference==
Automated protein structure determination from NMR spectra., Lopez-Mendez B, Guntert P, J Am Chem Soc. 2006 Oct 11;128(40):13112-22. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/17017791 17017791]
Automated protein structure determination from NMR spectra., Lopez-Mendez B, Guntert P, J Am Chem Soc. 2006 Oct 11;128(40):13112-22. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/17017791 17017791]
 +
 +
NMR assignment of the hypothetical ENTH-VHS domain At3g16270 from Arabidopsis thaliana., Lopez-Mendez B, Pantoja-Uceda D, Tomizawa T, Koshiba S, Kigawa T, Shirouzu M, Terada T, Inoue M, Yabuki T, Aoki M, Seki E, Matsuda T, Hirota H, Yoshida M, Tanaka A, Osanai T, Seki M, Shinozaki K, Yokoyama S, Guntert P, J Biomol NMR. 2004 Jun;29(2):205-6. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15014234 15014234]
[[Category: Arabidopsis thaliana]]
[[Category: Arabidopsis thaliana]]
[[Category: Single protein]]
[[Category: Single protein]]
Line 26: Line 32:
[[Category: Flya algorithm]]
[[Category: Flya algorithm]]
[[Category: Fully automated structure determination]]
[[Category: Fully automated structure determination]]
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May 4 00:10:58 2008''
+
 
 +
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jul 28 07:23:29 2008''

Revision as of 04:23, 28 July 2008

Image:2dcp.png

Template:STRUCTURE 2dcp

Fully automated NMR structure determination of the ENTH-VHS domain AT3G16270 from Arabidopsis thaliana

Template:ABSTRACT PUBMED 17017791

About this Structure

2DCP is a Single protein structure of sequence from Arabidopsis thaliana. Full experimental information is available from OCA.

Reference

Automated protein structure determination from NMR spectra., Lopez-Mendez B, Guntert P, J Am Chem Soc. 2006 Oct 11;128(40):13112-22. PMID:17017791

NMR assignment of the hypothetical ENTH-VHS domain At3g16270 from Arabidopsis thaliana., Lopez-Mendez B, Pantoja-Uceda D, Tomizawa T, Koshiba S, Kigawa T, Shirouzu M, Terada T, Inoue M, Yabuki T, Aoki M, Seki E, Matsuda T, Hirota H, Yoshida M, Tanaka A, Osanai T, Seki M, Shinozaki K, Yokoyama S, Guntert P, J Biomol NMR. 2004 Jun;29(2):205-6. PMID:15014234

Page seeded by OCA on Mon Jul 28 07:23:29 2008

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/2dcp"
Personal tools