NMR paper Expression and secondary structure determination by NMR methods of the major house du

		BioNMR > Educational resources > Journal club
[NMR paper] Expression and secondary structure determination by NMR methods of the major house du

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

08-22-2010, 05:08 PM

nmrlearner

Senior Member

Join Date: Jan 2005

Posts: 23,777

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

Expression and secondary structure determination by NMR methods of the major house du

Expression and secondary structure determination by NMR methods of the major house dust mite allergen Der p 2.

Related Articles Expression and secondary structure determination by NMR methods of the major house dust mite allergen Der p 2.

J Biol Chem. 1997 Oct 24;272(43):26893-8

Authors: Mueller GA, Smith AM, Williams DC, Hakkaart GA, Aalberse RC, Chapman MD, Rule GS, Benjamin DC

There exists a strong correlation between asthma and sensitization to indoor allergens. This study reports on the secondary structure of the major house dust mite allergen Der p 2, determined using heteronuclear NMR methods. The DNA was subcloned from the yeast expression vector pSAY1 into the high yield bacterial expression vector pET21a, resulting in yields of 50 mg/liter. The recombinant protein was shown to have immunoreactivity comparable with that of the natural mite protein using competitive inhibition enzyme-linked immunosorbent assay (ELISA) and a modified monoclonal radioallergosorbent test (RAST). The secondary structure was determined by examining chemical shifts, short and long range NOESYs, JHN-HA coupling constants, and amide exchange rates. From these data, it is clear that Der p 2 is composed of beta-sheets and random coil. Based on long range distance constraints, a number of beta-strands were aligned into two three-stranded, anti-parallel beta-sheets.

PMID: 9341122 [PubMed - indexed for MEDLINE]

Source: PubMed

Did you find this post helpful?

Similar Threads
Thread	Thread Starter	Forum	Replies	Last Post
[Optimization of the methods for small peptide solution structure determination by NMR spectroscopy]. . . Mol Biol (Mosk). 2010 Nov-Dec;44(6):1075-85 Authors: NMR spectroscopy was recognized as a method of protein structure determination in solution. However, determination of the conformation of small peptides, which undergo fast molecular motions, remains a challenge. This is mainly caused by impossibility to collect required quantity of the distance and dihedral angle restraints from NMR spectra. At the same time, short charged peptides play an important role in a number of biological processes, in particular in pathogenesis of neurodegenerative...	nmrlearner	Journal club	0	02-05-2011 05:28 PM
[NMR paper] Multidimensional NMR methods for protein structure determination. Multidimensional NMR methods for protein structure determination. Related Articles Multidimensional NMR methods for protein structure determination. IUBMB Life. 2001 Dec;52(6):291-302 Authors: Kanelis V, Forman-Kay JD, Kay LE Structural studies of proteins are critical for understanding biological processes at the molecular level. Nuclear magnetic resonance (NMR) spectroscopy is a powerful technique for obtaining structural and dynamic information on proteins and protein-ligand complexes. In the present review, methodologies for NMR structure...	nmrlearner	Journal club	0	11-19-2010 08:44 PM
[NMR paper] Secondary structure determination by NMR spectroscopy of an immunoglobulin-like domai Secondary structure determination by NMR spectroscopy of an immunoglobulin-like domain from the giant muscle protein titin. Related Articles Secondary structure determination by NMR spectroscopy of an immunoglobulin-like domain from the giant muscle protein titin. J Biomol NMR. 1995 Jul;6(1):48-58 Authors: Pfuhl M, Gautel M, Politou AS, Joseph C, Pastore A We present the complete 15N and 1H NMR assignment and the secondary structure of an immunoglobulin-like domain from the giant muscle protein titin. The assignment was obtained using...	nmrlearner	Journal club	0	08-22-2010 03:41 AM
[NMR paper] An RBD that does not bind RNA: NMR secondary structure determination and biochemical An RBD that does not bind RNA: NMR secondary structure determination and biochemical properties of the C-terminal RNA binding domain from the human U1A protein. http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--linkinghub.elsevier.com-ihub-images-PubMedLink.gif Related Articles An RBD that does not bind RNA: NMR secondary structure determination and biochemical properties of the C-terminal RNA binding domain from the human U1A protein. J Mol Biol. 1995 Apr 7;247(4):739-52 Authors: Lu J, Hall KB We have obtained backbone 1H, 15N, and 13C...	nmrlearner	Journal club	0	08-22-2010 03:41 AM
[NMR paper] NMR determination of the secondary structure and the three-dimensional polypeptide ba NMR determination of the secondary structure and the three-dimensional polypeptide backbone fold of the human sterol carrier protein 2. http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--linkinghub.elsevier.com-ihub-images-PubMedLink.gif Related Articles NMR determination of the secondary structure and the three-dimensional polypeptide backbone fold of the human sterol carrier protein 2. FEBS Lett. 1993 Nov 29;335(1):18-26 Authors: Szyperski T, Scheek S, Johansson J, Assmann G, Seedorf U, Wüthrich K Nuclear magnetic resonance (NMR)...	nmrlearner	Journal club	0	08-22-2010 03:01 AM
[NMR paper] A systematic comparison of three structure determination methods from NMR data: depen A systematic comparison of three structure determination methods from NMR data: dependence upon quality and quantity of data. Related Articles A systematic comparison of three structure determination methods from NMR data: dependence upon quality and quantity of data. J Biomol NMR. 1992 Jul;2(4):373-88 Authors: Liu Y, Zhao D, Altman R, Jardetzky O We have systematically examined how the quality of NMR protein structures depends on (1) the number of NOE distance constraints, (2) their assumed precision, (3) the method of structure calculation...	nmrlearner	Journal club	0	08-21-2010 11:41 PM
Combining NMR and EPR Methods for Homodimer Protein Structure Determination. Combining NMR and EPR Methods for Homodimer Protein Structure Determination. Related Articles Combining NMR and EPR Methods for Homodimer Protein Structure Determination. J Am Chem Soc. 2010 Aug 10; Authors: Yang Y, Ramelot TA, McCarrick RM, Ni S, Feldmann EA, Cort JR, Wang H, Ciccosanti C, Jiang M, Janjua H, Acton TB, Xiao R, Everett JK, Montelione GT, Kennedy MA There is a general need to develop more powerful and more robust methods for structural characterization of homodimers, homo-oligomers, and multiprotein complexes using...	nmrlearner	Journal club	0	08-17-2010 03:36 AM
Combining NMR and EPR Methods for Homodimer Protein Structure Determination http://pubs.acs.org//appl/literatum/publisher/achs/journals/content/jacsat/0/jacsat.ahead-of-print/ja105080h/aop/images/medium/ja-2010-05080h_0003.gif Combining NMR and EPR Methods for Homodimer Protein Structure Determination There is a general need to develop more powerful and more robust methods for structural characterization of homodimers, homo-oligomers, and multiprotein complexes using solution-state NMR methods. In recent years, there has been increasing emphasis on integrating distinct and complementary methodologies for structure determination of multiprotein ...	nmrlearner	Journal club	0	08-14-2010 05:56 AM

« 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