A topological refactoring design strategy yields highly stable granulopoietic proteins - Nature.com

		BioNMR > NMR community > Online News
A topological refactoring design strategy yields highly stable granulopoietic proteins - Nature.com

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:

View First Unread

Thread Tools

Search this Thread

Rate Thread

Display Modes

09-26-2022, 02:08 AM

nmrlearner

Senior Member

Join Date: Jan 2005

Posts: 23,185

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

A topological refactoring design strategy yields highly stable granulopoietic proteins - Nature.com

A topological refactoring design strategy yields highly stable granulopoietic proteins - Nature.com

A topological refactoring design strategy yields highly stable granulopoietic proteins Nature.com Read here

Did you find this post helpful?

Similar Threads
Thread	Thread Starter	Forum	Replies	Last Post
[NMR paper] Lasso Proteins: Modular Design, Cellular Synthesis and Topological Transformation Lasso Proteins: Modular Design, Cellular Synthesis and Topological Transformation Angewandte Chemie International Edition, Accepted Article. More...	nmrlearner	Journal club	0	07-01-2020 07:32 PM
[NMR paper] Sedimentation Yields Long-Term Stable Protein Samples as Shown by Solid-State NMR. Sedimentation Yields Long-Term Stable Protein Samples as Shown by Solid-State NMR. http://www.bionmr.com//www.ncbi.nlm.nih.gov/corehtml/query/egifs/https:--www.frontiersin.org-alerts-logo-Logo_LinkOut.jpg http://www.bionmr.com//www.ncbi.nlm.nih.gov/corehtml/query/egifs/https:--www.ncbi.nlm.nih.gov-corehtml-pmc-pmcgifs-pubmed-pmc.png Related Articles Sedimentation Yields Long-Term Stable Protein Samples as Shown by Solid-State NMR. Front Mol Biosci. 2020;7:17 Authors: Wiegand T, Lacabanne D, Torosyan A, Boudet J, Cadalbert R, Allain FH, Meier BH,...	nmrlearner	Journal club	0	03-16-2020 04:59 PM
Packing of apolar side chains enables accurate design of highly stable membrane proteins - Science Magazine Packing of apolar side chains enables accurate design of highly stable membrane proteins - Science Magazine Packing of apolar side chains enables accurate design of highly stable membrane proteins Science MagazineAlthough nonpolar amino acid side chains pack efficiently in membrane proteins, it has been difficult to determine how much this contributes to membrane ... Read here	nmrlearner	Online News	0	03-30-2019 05:11 AM
Stable isotope labeling strategy based on coding theory Stable isotope labeling strategy based on coding theory Abstract We describe a strategy for stable isotope-aided protein nuclear magnetic resonance (NMR) analysis, called stable isotope encoding. The basic idea of this strategy is that amino-acid selective labeling can be considered as â??encoding and decodingâ?? processes, in which the information of amino acid type is encoded by the stable isotope labeling ratio of the corresponding residue and it is decoded by analyzing NMR spectra. According to the idea, the strategy can diminish the...	nmrlearner	Journal club	0	08-21-2015 09:52 AM
â??CON-CONâ?? assignment strategy for highly flexible intrinsically disordered proteins â??CON-CONâ?? assignment strategy for highly flexible intrinsically disordered proteins Abstract Intrinsically disordered proteins (IDPs) are a class of highly flexible proteins whose characterization by NMR spectroscopy is complicated by severe spectral overlaps. The development of experiments designed to facilitate the sequence-specific assignment procedure is thus very important to improve the tools for the characterization of IDPs and thus to be able to focus on IDPs of increasing size and complexity. Here, we present and describe the...	nmrlearner	Journal club	0	10-21-2014 11:31 PM
[NMR paper] NMR solution structure of a highly stable de novo heterodimeric coiled-coil. NMR solution structure of a highly stable de novo heterodimeric coiled-coil. Related Articles NMR solution structure of a highly stable de novo heterodimeric coiled-coil. Biopolymers. 2004 Dec 5;75(5):367-75 Authors: Lindhout DA, Litowski JR, Mercier P, Hodges RS, Sykes BD The NMR solution structure of a highly stable coiled-coil IAAL-E3/K3 has been solved. The E3/K3 coiled-coil is a 42-residue de novo designed coiled-coil comprising three heptad repeats per subunit, stabilized by hydrophobic contacts within the core and electrostatic...	nmrlearner	Journal club	0	11-24-2010 10:03 PM
Strategy for complete NMR assignment of disordered proteins with highly repetitive se Strategy for complete NMR assignment of disordered proteins with highly repetitive sequences based on resolution-enhanced 5D experiments Abstract A strategy for complete backbone and side-chain resonance assignment of disordered proteins with highly repetitive sequence is presented. The protocol is based on three resolution-enhanced NMR experiments: 5D HN(CA)CONH provides sequential connectivity, 5D HabCabCONH is utilized to identify amino acid types, and 5D HC(CC-TOCSY)CONH is used to assign the side-chain resonances. The improved resolution was achieved by a combination of high...	nmrlearner	Journal club	0	10-06-2010 02:16 AM
Strategy for complete NMR assignment of disordered proteins with highly repetitive se Strategy for complete NMR assignment of disordered proteins with highly repetitive sequences based on resolution-enhanced 5D experiments. Strategy for complete NMR assignment of disordered proteins with highly repetitive sequences based on resolution-enhanced 5D experiments. J Biomol NMR. 2010 Oct 2; Authors: MotÃ¡Ä?kovÃ¡ V, NovÃ¡Ä?ek J, Zawadzka-Kazimierczuk A, Kazimierczuk K, ZÃ*dek L, SanderovÃ¡ H, KrÃ¡snÃ½ L, KoÅºmiÅ?ski W, SklenÃ¡Å? V A strategy for complete backbone and side-chain resonance assignment of disordered proteins with highly...	nmrlearner	Journal club	0	10-05-2010 12:11 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