NMR paper Protein secondary structure determination by NMR. Application with recombinant human

		BioNMR > Educational resources > Journal club
[NMR paper] Protein secondary structure determination by NMR. Application with recombinant human

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

08-21-2010, 11:12 PM

nmrlearner

Senior Member

Join Date: Jan 2005

Posts: 23,732

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

Protein secondary structure determination by NMR. Application with recombinant human

Protein secondary structure determination by NMR. Application with recombinant human cyclophilin.

Related Articles Protein secondary structure determination by NMR. Application with recombinant human cyclophilin.

FEBS Lett. 1991 Jul 22;285(2):237-47

Authors: Wüthrich K, Spitzfaden C, Memmert K, Widmer H, Wider G

It is a unique trait of the NMR method for protein structure determination that a description of the polypeptide secondary structure can be obtained at an early stage and quite independently of the complete structure calculation. In this paper the procedures used for secondary structure determination are reviewed and placed in perspective relative to the other steps in a complete three-dimensional structure determination. As an illustration the identification of the regular secondary structure elements in human cyclophilin is described.

PMID: 1855591 [PubMed - indexed for MEDLINE]

Source: PubMed

Did you find this post helpful?

Similar Threads
Thread	Thread Starter	Forum	Replies	Last Post
Application of SAIL phenylalanine and tyrosine with alternative isotope-labeling patterns for protein structure determination Application of SAIL phenylalanine and tyrosine with alternative isotope-labeling patterns for protein structure determination Abstract The extensive collection of NOE constraint data involving the aromatic ring signals is essential for accurate protein structure determination, although it is often hampered in practice by the pervasive signal overlapping and tight spin couplings for aromatic rings. We have prepared various types of stereo-array isotope labeled phenylalanines (ε- and ζ-SAIL Phe) and tyrosine (ε-SAIL Tyr) to overcome these problems (Torizawa et al. 2005), and proven...	nmrlearner	Journal club	0	01-09-2011 12:46 PM
[NMR paper] Rapid and accurate structure determination of coiled-coil domains using NMR dipolar couplings: application to cGMP-dependent protein kinase Ialpha. Rapid and accurate structure determination of coiled-coil domains using NMR dipolar couplings: application to cGMP-dependent protein kinase Ialpha. Related Articles Rapid and accurate structure determination of coiled-coil domains using NMR dipolar couplings: application to cGMP-dependent protein kinase Ialpha. Protein Sci. 2005 Sep;14(9):2421-8 Authors: Schnell JR, Zhou GP, Zweckstetter M, Rigby AC, Chou JJ Coiled-coil motifs play essential roles in protein assembly and molecular recognition, and are therefore the targets of many ongoing...	nmrlearner	Journal club	0	12-01-2010 06:56 PM
[NMR paper] Structure of recombinant human parathyroid hormone in solution using multidimensional Structure of recombinant human parathyroid hormone in solution using multidimensional NMR spectroscopy. Related Articles Structure of recombinant human parathyroid hormone in solution using multidimensional NMR spectroscopy. Biol Chem Hoppe Seyler. 1996 Mar;377(3):175-86 Authors: Gronwald W, Schomburg D, Harder MP, Mayer H, Paulsen J, Wingender E, Wray V The solution structure of human parathyroid hormone, in the form of recombinant prolyl-hPTH(1-84), has been investigated by multidimensional NMR spectroscopy under conditions (aqueous...	nmrlearner	Journal club	0	08-22-2010 02:27 PM
[NMR paper] Secondary structure and zinc ligation of human recombinant short-form stromelysin by Secondary structure and zinc ligation of human recombinant short-form stromelysin by multidimensional heteronuclear NMR. Related Articles Secondary structure and zinc ligation of human recombinant short-form stromelysin by multidimensional heteronuclear NMR. Biochemistry. 1993 Dec 7;32(48):13098-108 Authors: Gooley PR, Johnson BA, Marcy AI, Cuca GC, Salowe SP, Hagmann WK, Esser CK, Springer JP Stromelysin-1, a member of the matrix metalloendoprotease family, is a zinc protease involved in the degradation of connective tissue in the...	nmrlearner	Journal club	0	08-22-2010 03:01 AM
[NMR paper] Secondary structure and protein folding of recombinant chloroplastic thioredoxin Ch2 Secondary structure and protein folding of recombinant chloroplastic thioredoxin Ch2 from the green alga Chlamydomonas reinhardtii as determined by 1H NMR. Related Articles Secondary structure and protein folding of recombinant chloroplastic thioredoxin Ch2 from the green alga Chlamydomonas reinhardtii as determined by 1H NMR. J Biochem. 1993 Sep;114(3):421-31 Authors: Lancelin JM, Stein M, Jacquot JP The recombinant form of the chloroplastic thioredoxin Ch2 from the green alga Chlamydomonas reinhardtii that preferentially activates the NADP...	nmrlearner	Journal club	0	08-22-2010 03:01 AM
[NMR paper] Determination of the structure of the nucleocapsid protein NCp7 from the human immuno Determination of the structure of the nucleocapsid protein NCp7 from the human immunodeficiency virus type 1 by 1H NMR. http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--www.pubmedcentral.nih.gov-corehtml-pmc-pmcgifs-pubmed-pmc.gif Related Articles Determination of the structure of the nucleocapsid protein NCp7 from the human immunodeficiency virus type 1 by 1H NMR. EMBO J. 1992 Aug;11(8):3059-65 Authors: Morellet N, Jullian N, De Rocquigny H, Maigret B, Darlix JL, Roques BP The retroviral gag nucleocapsid protein NCp7 (72 amino acids)...	nmrlearner	Journal club	0	08-21-2010 11:45 PM
[NMR paper] Sequential 1H and 15N NMR assignments and secondary structure of a recombinant anti-d Sequential 1H and 15N NMR assignments and secondary structure of a recombinant anti-digoxin antibody VL domain. Related Articles Sequential 1H and 15N NMR assignments and secondary structure of a recombinant anti-digoxin antibody VL domain. Biochemistry. 1992 Jun 2;31(21):5033-43 Authors: Constantine KL, Goldfarb V, Wittekind M, Anthony J, Ng SC, Mueller L A uniformly 15N-labeled recombinant light-chain variable (VL) domain from the anti-digoxin antibody 26-10 has been investigated by heteronuclear two-dimensional (2D) and three-dimensional...	nmrlearner	Journal club	0	08-21-2010 11:41 PM
[NMR paper] Protein secondary structure determination by NMR. Application with recombinant human Protein secondary structure determination by NMR. Application with recombinant human cyclophilin. http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--linkinghub.elsevier.com-ihub-images-PubMedLink.gif Related Articles Protein secondary structure determination by NMR. Application with recombinant human cyclophilin. FEBS Lett. 1991 Jul 22;285(2):237-47 Authors: Wüthrich K, Spitzfaden C, Memmert K, Widmer H, Wider G It is a unique trait of the NMR method for protein structure determination that a description of the polypeptide secondary...	nmrlearner	Journal club	0	08-21-2010 11:12 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