Accurate prediction of protein structures and interactions using a three-track neural network - Science Magazine

		BioNMR > NMR community > Online News
Accurate prediction of protein structures and interactions using a three-track neural network - Science Magazine

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

09-03-2021, 02:54 AM

nmrlearner

Senior Member

Join Date: Jan 2005

Posts: 23,715

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

Accurate prediction of protein structures and interactions using a three-track neural network - Science Magazine

Accurate prediction of protein structures and interactions using a three-track neural network - Science Magazine

Accurate prediction of protein structures and interactions using a three-track neural network Science Magazine Read here

Did you find this post helpful?

Similar Threads
Thread	Thread Starter	Forum	Replies	Last Post
[NMR paper] FID-Net: A versatile deep neural network architecture for NMR spectral reconstruction and virtual decoupling FID-Net: A versatile deep neural network architecture for NMR spectral reconstruction and virtual decoupling In recent years, the transformative potential of deep neural networks (DNNs) for analysing and interpreting NMR data has clearly been recognised. However, most applications of DNNs in NMR to date either struggle to outperform existing methodologies or are limited in scope to a narrow range of data that closely resemble the data that the network was trained on. These limitations have prevented a widescale uptake of DNNs in NMR. Addressing this, we introduce FID-Net, a deep neural...	nmrlearner	Journal club	0	04-20-2021 12:46 PM
FID-Net: A versatile deep neural network architecture for NMR spectral reconstruction and virtual decoupling FID-Net: A versatile deep neural network architecture for NMR spectral reconstruction and virtual decoupling Abstract In recent years, the transformative potential of deep neural networks (DNNs) for analysing and interpreting NMR data has clearly been recognised. However, most applications of DNNs in NMR to date either struggle to outperform existing methodologies or are limited in scope to a narrow range of data that closely resemble the data that the network was trained on. These limitations have prevented a widescale uptake of DNNs in NMR....	nmrlearner	Journal club	0	04-19-2021 10:30 AM
[NMR paper] Haruspex: A Neural Network for the Automatic Identification of Oligonucleotides and Protein Secondary Structure in Cryo-EM Maps Haruspex: A Neural Network for the Automatic Identification of Oligonucleotides and Protein Secondary Structure in Cryo-EM Maps Angewandte Chemie International Edition, Accepted Article. More...	nmrlearner	Journal club	0	03-19-2020 06:10 PM
NMR Protein Structures vs. X-Ray ones - Science Magazine NMR Protein Structures vs. X-Ray ones - Science Magazine NMR Protein Structures vs. X-Ray ones Science Magazine Read here	nmrlearner	Online News	0	02-29-2020 09:52 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
[NMR paper] Protein Structural Information Derived from NMR Chemical Shift with the Neural Network Program TALOS-N. Protein Structural Information Derived from NMR Chemical Shift with the Neural Network Program TALOS-N. Protein Structural Information Derived from NMR Chemical Shift with the Neural Network Program TALOS-N. Methods Mol Biol. 2015;1260:17-32 Authors: Shen Y, Bax A Abstract Chemical shifts are obtained at the first stage of any protein structural study by NMR spectroscopy. Chemical shifts are known to be impacted by a wide range of structural factors, and the artificial neural network based TALOS-N program has been trained to...	nmrlearner	Journal club	0	12-17-2014 09:43 PM
[NMR paper] RESCUE: an artificial neural network tool for the NMR spectral assignment of proteins RESCUE: an artificial neural network tool for the NMR spectral assignment of proteins. Related Articles RESCUE: an artificial neural network tool for the NMR spectral assignment of proteins. J Biomol NMR. 1999 Sep;15(1):15-26 Authors: Pons JL, Delsuc MA The assignment of the 1H spectrum of a protein or a polypeptide is the prerequisite for advanced NMR studies. We present here an assignment tool based on the artificial neural network technology, which determines the type of the amino acid from the chemical shift values observed in the 1H...	nmrlearner	Journal club	0	11-18-2010 08:31 PM
[NMR paper] Using neural network predicted secondary structure information in automatic protein N Using neural network predicted secondary structure information in automatic protein NMR assignment. Related Articles Using neural network predicted secondary structure information in automatic protein NMR assignment. J Chem Inf Comput Sci. 1997 Nov-Dec;37(6):1086-94 Authors: Choy WY, Sanctuary BC, Zhu G In CAPRI, an automated NMR assignment software package that was developed in our laboratory, both chemical shift values and coupling topologies of spin patterns are used in a procedure for amino acids recognition. By using a knowledge base of...	nmrlearner	Journal club	0	08-22-2010 05:08 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