BioNMR
NMR aggregator & online community since 2003
BioNMR    
Learn or help to learn NMR - get free NMR books!
 

Go Back   BioNMR > Educational resources > Journal club
Advanced Search
Home Forums Wiki NMR feeds Downloads Register Today's Posts



Jobs Groups Conferences Literature Pulse sequences Software forums Programs Sample preps Web resources BioNMR issues


Webservers
NMR processing:
MDD
NMR assignment:
Backbone:
Autoassign
MARS
UNIO Match
PINE
Side-chains:
UNIO ATNOS-Ascan
NOEs:
UNIO ATNOS-Candid
UNIO Candid
ASDP
Structure from NMR restraints:
Ab initio:
GeNMR
Cyana
XPLOR-NIH
ASDP
UNIO ATNOS-Candid
UNIO Candid
Fragment-based:
BMRB CS-Rosetta
Rosetta-NMR (Robetta)
Template-based:
GeNMR
I-TASSER
Refinement:
Amber
Structure from chemical shifts:
Fragment-based:
WeNMR CS-Rosetta
BMRB CS-Rosetta
Homology-based:
CS23D
Simshift
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:
Shiftcor
UNIO Shiftinspector
LACS
CheckShift
RefDB
NMR model quality:
NOEs, other restraints:
PROSESS
PSVS
RPF scores
iCing
Chemical shifts:
PROSESS
CheShift2
Vasco
iCing
RDCs:
DC
Anisofit
Pseudocontact shifts:
Anisofit
Protein geomtery:
Resolution-by-Proxy
PROSESS
What-If
iCing
PSVS
MolProbity
SAVES2 or SAVES4
Vadar
Prosa
ProQ
MetaMQAPII
PSQS
Eval123D
STAN
Ramachandran Plot
Rampage
ERRAT
Verify_3D
Harmony
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:
camLILA
ccSOL
Camfold
camGroEL
Zyggregator
Isotope labeling:
UPLABEL
Solid-state NMR:
sedNMR


Reply
Thread Tools Search this Thread Rate Thread Display Modes
  #1  
Unread 01-15-2021, 04:25 PM
nmrlearner's Avatar
Senior Member
 
Join Date: Jan 2005
Posts: 23,191
Points: 193,617, Level: 100
Points: 193,617, Level: 100 Points: 193,617, Level: 100 Points: 193,617, Level: 100
Level up: 0%, 0 Points needed
Level up: 0% Level up: 0% Level up: 0%
Activity: 50.7%
Activity: 50.7% Activity: 50.7% Activity: 50.7%
Last Achievements
Award-Showcase
NMR Credits: 0
NMR Points: 193,617
Downloads: 0
Uploads: 0
Default Processing Influence on Molecular Assembling and Structural Conformations in Silk Fibroin: Elucidation by Solid-State NMR.

Processing Influence on Molecular Assembling and Structural Conformations in Silk Fibroin: Elucidation by Solid-State NMR.

Related Articles Processing Influence on Molecular Assembling and Structural Conformations in Silk Fibroin: Elucidation by Solid-State NMR.

ACS Biomater Sci Eng. 2016 May 09;2(5):758-767

Authors: Callone E, Dirč S, Hu X, Motta A

Abstract
This study is devoted to the deep evaluation of processing-induced protein conformation changes by using silk fibroin fibers and their cast films stabilized by different methods as a model. The control of the hierarchical assembling of silk fibroin is the key for finely tuning the biological functions and physical-chemical properties of the final materials for applications in biomedical fields. However, previous methods usually only focused on the change of beta-sheet crystallinity in silk materials, which can not explain a lot of their specific prosperities generated from different processing methods. By using complementary solid-state NMR, together with FTIR and DSC techniques, we for the first time established the correlations between processing conditions and silk fibroin molecular configurations, and experimentally assess the presence and quantify the percentage of the asymmetric 3-fold helical conformation (Silk III) in silk materials, together with their well-known Silk I-like helix/coil dominated and Silk II beta-sheet dominated configurations. This work provides a roadmap for researchers to quantify the percentage of different silk structures by solid NMR, and further understand how silk molecular conformations (Silk I-like, II, III) can impact the properties and functions of different silk materials, that are broadly used today for different biomedical applications.


PMID: 33440573 [PubMed]



More...
Reply With Quote


Did you find this post helpful? Yes | No

Reply
Similar Threads
Thread Thread Starter Forum Replies Last Post
[NMR paper] Conformations and Intermolecular Interactions in Cellulose/Silk Fibroin Blend Films: A Solid-State NMR Perspective.
Conformations and Intermolecular Interactions in Cellulose/Silk Fibroin Blend Films: A Solid-State NMR Perspective. http://www.bionmr.com//www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--pubs.acs.org-images-pubmed-acspubs.jpg Related Articles Conformations and Intermolecular Interactions in Cellulose/Silk Fibroin Blend Films: A Solid-State NMR Perspective. J Phys Chem B. 2017 06 29;121(25):6108-6116 Authors: Tian D, Li T, Zhang R, Wu Q, Chen T, Sun P, Ramamoorthy A Abstract Fabricating materials with excellent mechanical...
nmrlearner Journal club 0 05-04-2018 03:33 PM
[NMR paper] Refined Crystal Structure of Samia cynthia ricini Silk Fibroin Revealed by Solid-State NMR Investigations.
Refined Crystal Structure of Samia cynthia ricini Silk Fibroin Revealed by Solid-State NMR Investigations. http://www.bionmr.com//www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--pubs.acs.org-images-pubmed-acspubs.jpg Related Articles Refined Crystal Structure of Samia cynthia ricini Silk Fibroin Revealed by Solid-State NMR Investigations. Biomacromolecules. 2017 Jun 12;18(6):1965-1974 Authors: Asakura T, Nishimura A, Kametani S, Kawanishi S, Aoki A, Suzuki F, Kaji H, Naito A Abstract Samia cynthia ricini is one of the wild...
nmrlearner Journal club 0 03-17-2018 12:12 PM
[NMR paper] Packing arrangement of 13C selectively labeled sequence model peptides of Samia cynthia ricini silk fibroin fibers studied by solid-state NMR.
Packing arrangement of 13C selectively labeled sequence model peptides of Samia cynthia ricini silk fibroin fibers studied by solid-state NMR. http://www.bionmr.com//www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--www.rsc.org-images-entities-char_z_RSClogo.gif Related Articles Packing arrangement of 13C selectively labeled sequence model peptides of Samia cynthia ricini silk fibroin fibers studied by solid-state NMR. Phys Chem Chem Phys. 2017 May 24;19(20):13379-13386 Authors: Asakura T, Miyazawa K, Tasei Y, Kametani S, Nakazawa Y, Aoki A, Naito A...
nmrlearner Journal club 0 02-27-2018 12:30 PM
[NMR paper] Characterization of water in hydrated Bombyx mori silk fibroin fiber and films by (2)H NMR relaxation and (13)C solid state NMR.
Characterization of water in hydrated Bombyx mori silk fibroin fiber and films by (2)H NMR relaxation and (13)C solid state NMR. http://www.bionmr.com//www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--linkinghub.elsevier.com-ihub-images-PubMedLink.gif Related Articles Characterization of water in hydrated Bombyx mori silk fibroin fiber and films by (2)H NMR relaxation and (13)C solid state NMR. Acta Biomater. 2017 Mar 01;50:322-333 Authors: Asakura T, Isobe K, Kametani S, Ukpebor OT, Silverstein MC, Boutis GS Abstract The...
nmrlearner Journal club 0 11-08-2017 02:52 PM
Improved Structural Elucidation of Synthetic Polymers by Dynamic Nuclear Polarization Solid-State NMR Spectroscopy
From The DNP-NMR Blog: Improved Structural Elucidation of Synthetic Polymers by Dynamic Nuclear Polarization Solid-State NMR Spectroscopy Ouari, O., et al., Improved Structural Elucidation of Synthetic Polymers by Dynamic Nuclear Polarization Solid-State NMR Spectroscopy. ACS Macro Letters, 2013. 2(8): p. 715-719. http://dx.doi.org/10.1021/mz4003003
nmrlearner News from NMR blogs 0 09-19-2013 02:19 PM
[NMR paper] Effect of pH and copper(II) on the conformation transitions of silk fibroin based on
Effect of pH and copper(II) on the conformation transitions of silk fibroin based on EPR, NMR, and Raman spectroscopy. Related Articles Effect of pH and copper(II) on the conformation transitions of silk fibroin based on EPR, NMR, and Raman spectroscopy. Biochemistry. 2004 Sep 28;43(38):11932-41 Authors: Zong XH, Zhou P, Shao ZZ, Chen SM, Chen X, Hu BW, Deng F, Yao WH Much attention has been paid to the natural mechanism of silkworm spinning due to the impressive mechanical properties of the natural fibers. Our results in the present work show...
nmrlearner Journal club 0 11-24-2010 10:01 PM
[NMR paper] Structural analysis of Bombyx mori silk fibroin peptides with formic acid treatment u
Structural analysis of Bombyx mori silk fibroin peptides with formic acid treatment using high-resolution solid-state 13C NMR spectroscopy. Related Articles Structural analysis of Bombyx mori silk fibroin peptides with formic acid treatment using high-resolution solid-state 13C NMR spectroscopy. Biomacromolecules. 2004 Sep-Oct;5(5):1763-9 Authors: Yao J, Ohgo K, Sugino R, Kishore R, Asakura T Bombyx mori silk fibroin fiber is a fibrous protein produced by the silkworm at room temperature and from an aqueous solution whose primary structure is...
nmrlearner Journal club 0 11-24-2010 10:01 PM
[NMR paper] Structural role of tyrosine in Bombyx mori silk fibroin, studied by solid-state NMR a
Structural role of tyrosine in Bombyx mori silk fibroin, studied by solid-state NMR and molecular mechanics on a model peptide prepared as silk I and II. Related Articles Structural role of tyrosine in Bombyx mori silk fibroin, studied by solid-state NMR and molecular mechanics on a model peptide prepared as silk I and II. Magn Reson Chem. 2004 Feb;42(2):258-66 Authors: Asakura T, Suita K, Kameda T, Afonin S, Ulrich AS The influence of the bulky and H-bonding Tyr side-chain on its Ala- and Gly-rich environment in Bombyx mori silk fibroin was...
nmrlearner Journal club 0 11-24-2010 09:25 PM



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



BioNMR advertisements to pay for website hosting and domain registration. Nobody does it for us.



Powered by vBulletin® Version 3.7.3
Copyright ©2000 - 2024, Jelsoft Enterprises Ltd.
Copyright, BioNMR.com, 2003-2013
Search Engine Friendly URLs by vBSEO 3.6.0

All times are GMT. The time now is 10:08 PM.


Map