NMR paper NMR studies on the structure/function correlations of T-cell-epitope analogs from per

		BioNMR > Educational resources > Journal club
[NMR paper] NMR studies on the structure/function correlations of T-cell-epitope analogs from per

Webservers

NMR processing:

MDD

NMR assignment:

Backbone:

Side-chains:

NOEs:

Structure from NMR restraints:

Ab initio:

Fragment-based:

Rosetta-NMR (Robetta)

Template-based:

GeNMR

I-TASSER

Refinement:

Amber

Structure from chemical shifts:

Fragment-based:

Homology-based:

Torsion angles from chemical shifts:

Preditor

TALOS

Promega- Proline

Secondary structure from chemical shifts:

CSI (via RCI server)

TALOS

MICS caps, β-turns

d2D

PECAN

Flexibility from chemical shifts:

RCI

Interactions from chemical shifts:

HADDOCK

Chemical shifts re-referencing:

NMR model quality:

NOEs, other restraints:

Chemical shifts:

RDCs:

Pseudocontact shifts:

Protein geomtery:

SAVES2 or SAVES4

Quality Control Check

NMR spectrum prediction:

FANDAS

MestReS

V-NMR

Flexibility from structure:

Backbone S2

Methyl S2

B-factor

Molecular dynamics:

Gromacs

Amber

Antechamber

Chemical shifts prediction:

From structure:

Shiftx2

Sparta+

Camshift

CH3shift- Methyl

ArShift- Aromatic

ShiftS

Proshift

PPM

CheShift-2- Cα

From sequence:

Shifty

Camcoil

Poulsen_rc_CS

Disordered proteins:

MAXOCC

Format conversion & validation:

CCPN

From NMR-STAR 3.1

Validate NMR-STAR 3.1

NMR sample preparation:

Protein disorder:

DisMeta

Protein solubility:

Isotope labeling:

Solid-state NMR:

Thread Tools

Search this Thread

Rate Thread

Display Modes

11-17-2010, 11:06 PM

nmrlearner

Senior Member

Join Date: Jan 2005

Posts: 23,779

Points: 193,617, Level: 100

Level up: 0%, 0 Points needed

Activity: 50.7%

Last Achievements

Award-Showcase

NMR Credits: 0

NMR Points: 193,617

Downloads: 0

Uploads: 0

NMR studies on the structure/function correlations of T-cell-epitope analogs from per

NMR studies on the structure/function correlations of T-cell-epitope analogs from pertussis toxin.

Related Articles NMR studies on the structure/function correlations of T-cell-epitope analogs from pertussis toxin.

Eur J Biochem. 1998 Jun 1;254(2):313-7

Authors: Scarselli M, Esposito G, De Magistris MT, Domenighini M, Rappuoli R, Burroni G, Bernini A, Niccolai N

A synthetic tridecapeptide, corresponding to the 30-42 fragment of the S1 subunit of pertussis toxin, has been structurally characterised by using NMR spectroscopy. The molecule corresponds to a T-cell epitope of the bacterial toxin which has been extensively analysed with the alanine scanning approach to check the relevance of each residue for the biological activity of the peptide. Five of these Ala-substituted analogs have also been spectroscopically studied. In the experimental conditions used, different extents of helicity were found for the six peptides in a way which cannot be related to their capabilities of of binding to major histocompatibility complex (MHC) class II and inducing T-cell proliferation. Backbone flexibility around helical transient conformations seems to constitute the structural intermediate step between the structure of the corresponding sequence within the parental protein and in the MHC class II complex. A model of the latter complex, which accounts for the different biological activities of the analogs, is proposed.

PMID: 9660185 [PubMed - indexed for MEDLINE]

Source: PubMed

Did you find this post helpful?

Similar Threads
Thread	Thread Starter	Forum	Replies	Last Post
Preparation of protein samples for NMR structure, function, and small-molecule screening studies. Preparation of protein samples for NMR structure, function, and small-molecule screening studies. Preparation of protein samples for NMR structure, function, and small-molecule screening studies. Methods Enzymol. 2011;493:21-60 Authors: Acton TB, Xiao R, Anderson S, Aramini J, Buchwald WA, Ciccosanti C, Conover K, Everett J, Hamilton K, Huang YJ, Janjua H, Kornhaber G, Lau J, Lee DY, Liu G, Maglaqui M, Ma L, Mao L, Patel D, Rossi P, Sahdev S, Shastry R, Swapna GV, Tang Y, Tong S, Wang D, Wang H, Zhao L, Montelione GT In this chapter, we...	nmrlearner	Journal club	0	03-05-2011 01:02 PM
[NMR paper] Fatty acid synthesis in Xylella fastidiosa: correlations between genome studies, 13C Fatty acid synthesis in Xylella fastidiosa: correlations between genome studies, 13C NMR data, and molecular models. Related Articles Fatty acid synthesis in Xylella fastidiosa: correlations between genome studies, 13C NMR data, and molecular models. Biochem Biophys Res Commun. 2004 Oct 22;323(3):987-95 Authors: Osiro D, Muniz JR, Coleta Filho HD, de Sousa AA, Machado MA, Garratt RC, Colnago LA Xylella fastidiosa was the first plant pathogen to have its complete genome sequence elucidated. Routine database analyses suggested that two enzymes...	nmrlearner	Journal club	0	11-24-2010 10:01 PM
[NMR paper] NMR studies on the flexibility of the poliovirus C3 linear epitope inserted into diff NMR studies on the flexibility of the poliovirus C3 linear epitope inserted into different sites of the maltose-binding protein. http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--highwire.stanford.edu-icons-externalservices-pubmed-standard-jbc_full_free.gif Related Articles NMR studies on the flexibility of the poliovirus C3 linear epitope inserted into different sites of the maltose-binding protein. J Biol Chem. 1997 Jan 3;272(1):362-8 Authors: Lecroisey A, Martineau P, Hofnung M, Delepierre M A set of permissive positions that tolerate...	nmrlearner	Journal club	0	08-22-2010 03:03 PM
[NMR paper] NMR studies of fluororetinol analogs complexed to two homologous rat cellular retinol NMR studies of fluororetinol analogs complexed to two homologous rat cellular retinol-binding proteins. Related Articles NMR studies of fluororetinol analogs complexed to two homologous rat cellular retinol-binding proteins. Biochim Biophys Acta. 1994 Sep 21;1208(1):136-44 Authors: Rong D, Lovey AJ, Rosenberger M, d'Avignon DA, Li E Comparative 19F-NMR studies of fluororetinol analogs with rat cellular retinol binding protein II (CRBP II) and rat cellular retinol-binding protein (CRBP) were performed to probe differences in the binding...	nmrlearner	Journal club	0	08-22-2010 03:29 AM
[NMR paper] NMR studies of fluorinated visual pigment analogs. NMR studies of fluorinated visual pigment analogs. http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--linkinghub.elsevier.com-ihub-images-PubMedLink.gif Related Articles NMR studies of fluorinated visual pigment analogs. Biochem Biophys Res Commun. 1991 Sep 30;179(3):1337-43 Authors: Colmenares LU, Asato AE, Denny M, Mead D, Zingoni JP, Liu RS The 19F-nmr chemical shift data of isomeric pigments (11-cis and 9-cis) of four vinyl fluororhodopsins and two trifluororhodopsins have been recorded. When compared with model protonated Schiff...	nmrlearner	Journal club	0	08-21-2010 11:12 PM
[NMR paper] NMR studies of fluorinated visual pigment analogs. NMR studies of fluorinated visual pigment analogs. http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--linkinghub.elsevier.com-ihub-images-PubMedLink.gif Related Articles NMR studies of fluorinated visual pigment analogs. Biochem Biophys Res Commun. 1991 Sep 30;179(3):1337-43 Authors: Colmenares LU, Asato AE, Denny M, Mead D, Zingoni JP, Liu RS The 19F-nmr chemical shift data of isomeric pigments (11-cis and 9-cis) of four vinyl fluororhodopsins and two trifluororhodopsins have been recorded. When compared with model protonated Schiff...	nmrlearner	Journal club	0	08-21-2010 11:12 PM
NMR STUDIES OF STRUCTURE AND FUNCTION OF BIOLOGICAL MACROMOLECULES - Kurt Wüthrich NMR STUDIES OF STRUCTURE AND FUNCTION OF BIOLOGICAL MACROMOLECULES - A Lecture by Kurt Wüthrich for The Nobel Foundation, 2002 http://nobelprize.org/nobel_prizes/chemistry/laureates/2002/wutrich-lecture.pdf A video of the lecture can be found here: http://nobelprize.org/nobel_prizes/chemistry/laureates/2002/wuthrich-lecture.html	timbo	Educational web pages	0	08-29-2008 02:28 AM
Simultaneous detection of amide and methyl correlations using a time shared NMR experiment: application to binding epitope mapping Simultaneous detection of amide and methyl correlations using a time shared NMR experiment: application to binding epitope mapping Peter Würtz, Olli Aitio, Maarit Hellman and Perttu Permi Journal of Biomolecular NMR; 2007; 39(2) pp 97 - 105 Abstract: Simultaneous recording of different NMR parameters is an efficient way to reduce the overall experimental time and speed up structural studies of biological macromolecules. This can especially be beneficial in the case of fast NMR-based drug screening applications or for collecting NOE restraints, where prohibitively long data collection...	stewart	Journal club	0	08-05-2008 01:41 PM

« Previous Thread | Next Thread »

Posting Rules
You may not post new threads You may not post replies You may not post attachments You may not edit your posts BB code is On Smilies are On [IMG] code is On HTML code is On Trackbacks are Off Pingbacks are Off Refbacks are Off