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 11-14-2024, 11:30 PM
nmrlearner's Avatar
Senior Member
 
Join Date: Jan 2005
Posts: 23,777
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 Changes in Secondary Structure upon Pr to Pfr Transition in Cyanobacterial Phytochrome Cph1 detected by DNP NMR

Changes in Secondary Structure upon Pr to Pfr Transition in Cyanobacterial Phytochrome Cph1 detected by DNP NMR

Phytochromes perceive subtle changes in the light environment and convert them into biological signals by photoconversion between the red-light absorbing (Pr) and the far-red-absorbing (Pfr) states. In the primitive bacteriophytochromes this includes refolding of a tongue-like hairpin loop close to the chromophore, one strand of an antiparallel b-sheet being replaced by ?-helix. However, the strand sequence in the cyanobacterial phytochrome Cph1 is different from that of previously investigated...

More...
Reply With Quote


Did you find this post helpful? Yes | No

Reply
Similar Threads
Thread Thread Starter Forum Replies Last Post
Solution NMR structure of Se0862, a highly conserved cyanobacterial protein involved in biofilm formation
Solution NMR structure of Se0862, a highly conserved cyanobacterial protein involved in biofilm formation Abstract Biofilms are accumulations of microorganisms embedded in extracellular matrices that protect against external factors and stressful environments. Cyanobacterial biofilms are ubiquitous and have potential for treatment of wastewater and sustainable production of biofuels. But the underlying mechanisms regulating cyanobacterial biofilm formation are unclear. Here, we report the solution NMR structure of a protein, Se0862, conserved across diverse cyanobacterial species and...
nmrlearner Journal club 0 10-25-2020 01:39 PM
Solution NMR structure of Se0862, a highly conserved cyanobacterial protein involved in biofilm formation
Solution NMR structure of Se0862, a highly conserved cyanobacterial protein involved in biofilm formation ABSTRACT Biofilms are accumulations of microorganisms embedded in extracellular matrices that protect against external factors and stressful environments. Cyanobacterial biofilms are ubiquitous and have potential for treatment of wastewater and sustainable production of biofuels. But the underlying mechanisms regulating cyanobacterial biofilm formation are unclear. Here, we report the solution NMR structure of a protein, Se0862, conserved across diverse cyanobacterial species and...
nmrlearner Journal club 0 09-21-2020 05:44 PM
[NMR paper] Solution NMR structure of Se0862, a highly conserved cyanobacterial protein involved in biofilm formation.
Solution NMR structure of Se0862, a highly conserved cyanobacterial protein involved in biofilm formation. http://www.bionmr.com//www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--media.wiley.com-assets-7388-69-wiley-full-text.png Related Articles Solution NMR structure of Se0862, a highly conserved cyanobacterial protein involved in biofilm formation. Protein Sci. 2020 Sep 18;: Authors: Zhang N, Chang YG, Tseng R, Ovchinnikov S, Schwarz R, LiWang A Abstract Biofilms are accumulations of microorganisms embedded in...
nmrlearner Journal club 0 09-21-2020 05:44 PM
[ASAP] Transient Deprotonation of the Chromophore Affects Protein Dynamics Proximal and Distal to the Linear Tetrapyrrole Chromophore in Phytochrome Cph1
Transient Deprotonation of the Chromophore Affects Protein Dynamics Proximal and Distal to the Linear Tetrapyrrole Chromophore in Phytochrome Cph1 https://pubs.acs.org/na101/home/literatum/publisher/achs/journals/content/bichaw/0/bichaw.ahead-of-print/acs.biochem.9b00967/20200221/images/medium/bi9b00967_0007.gif Biochemistry DOI: 10.1021/acs.biochem.9b00967 http://feeds.feedburner.com/~r/acs/bichaw/~4/aujxjARtUq0 More...
nmrlearner Journal club 0 02-29-2020 09:52 PM
[NMR paper] 3D Structures of Plant Phytochrome A as Pr and Pfr From Solid-State NMR: Implications for Molecular Function.
3D Structures of Plant Phytochrome A as Pr and Pfr From Solid-State NMR: Implications for Molecular Function. Related Articles 3D Structures of Plant Phytochrome A as Pr and Pfr From Solid-State NMR: Implications for Molecular Function. Front Plant Sci. 2018;9:498 Authors: Song C, Mroginski MA, Lang C, Kopycki J, Gärtner W, Matysik J, Hughes J Abstract We present structural information for oat phyA3 in the far-red-light-absorbing (Pfr) signaling state, to our knowledge the first three-dimensional (3D) information for a plant...
nmrlearner Journal club 0 05-10-2018 01:31 PM
[NMR paper] NMR chemical shift pattern changed by ammonium sulfate precipitation in cyanobacterial phytochrome Cph1.
NMR chemical shift pattern changed by ammonium sulfate precipitation in cyanobacterial phytochrome Cph1. Related Articles NMR chemical shift pattern changed by ammonium sulfate precipitation in cyanobacterial phytochrome Cph1. Front Mol Biosci. 2015;2:42 Authors: Song C, Lang C, Kopycki J, Hughes J, Matysik J Abstract Phytochromes are dimeric biliprotein photoreceptors exhibiting characteristic red/far-red photocycles. Full-length cyanobacterial phytochrome Cph1 from Synechocystis 6803 is soluble initially but tends to aggregate...
nmrlearner Journal club 0 08-19-2015 03:24 PM
[NMR paper] CSI 3.0: a web server for identifying secondary and super-secondary structure in proteins using NMR chemical shifts.
CSI 3.0: a web server for identifying secondary and super-secondary structure in proteins using NMR chemical shifts. Related Articles CSI 3.0: a web server for identifying secondary and super-secondary structure in proteins using NMR chemical shifts. Nucleic Acids Res. 2015 May 15; Authors: Hafsa NE, Arndt D, Wishart DS Abstract The Chemical Shift Index or CSI 3.0 (http://csi3.wishartlab.com) is a web server designed to accurately identify the location of secondary and super-secondary structures in protein chains using only...
nmrlearner Journal club 0 05-17-2015 03:52 PM
Crystal structure of a cyanobacterial protein associated with nitrogen fixation - Phys.Org
Crystal structure of a cyanobacterial protein associated with nitrogen fixation - Phys.Org <img alt="" height="1" width="1" /> Crystal structure of a cyanobacterial protein associated with nitrogen fixation Phys.Org NMR and other biophysical data collected at EMSL confirmed that the biological unit of DUF269 in solution was the same as observed in the asymmetric unit of the crystal, a dimer. Further biochemical experiments are in progress to determine the ... Read here
nmrlearner Online News 0 07-24-2012 08:28 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 03:25 AM.


Map