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



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 04-19-2011, 11:01 PM
nmrlearner's Avatar
Senior Member
 
Join Date: Jan 2005
Posts: 23,617
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 Portrayal of complex dynamic properties of sugarcane defensin 5 by NMR: multiple motions associated with membrane interaction.

Portrayal of complex dynamic properties of sugarcane defensin 5 by NMR: multiple motions associated with membrane interaction.

Portrayal of complex dynamic properties of sugarcane defensin 5 by NMR: multiple motions associated with membrane interaction.

Structure. 2011 Jan 12;19(1):26-36

Authors: de Paula VS, Razzera G, Barreto-Bergter E, Almeida FC, Valente AP

Defensins are essentially ancient natural antibiotics with potent activity extending from lower organisms to humans. Sd5 is a recently described antifungal defensin that appears to be the result of a recent gain of function. We reported here the solution NMR*structure of Sd5 and characterized the backbone dynamics in the free state and in the presence of*membrane models. (15)N relaxation dispersion measurements indicate intrinsic conformational exchange processes, showing two clear distinct k(ex), 490 and 1800 s(-1). These multiple motions may be related to transient twisting or breathing of the ? helix and ? sheet. The stages of membrane recognition and disruption by Sd5 over a large timescale range were mapped and demonstrated that Sd5 in solution sampled an ensemble of different conformations, of which a subset is selected upon membrane binding. Defensins share similar structures, but we demonstrated here that their dynamics can be extremely diverse.

PMID: 21220113 [PubMed - indexed for MEDLINE]



Source: PubMed
Reply With Quote


Did you find this post helpful? Yes | No

Reply
Similar Threads
Thread Thread Starter Forum Replies Last Post
[NMR paper] Investigating the dynamic properties of the transmembrane segment of phospholamban in
Investigating the dynamic properties of the transmembrane segment of phospholamban incorporated into phospholipid bilayers utilizing 2H and 15N solid-state NMR spectroscopy. Related Articles Investigating the dynamic properties of the transmembrane segment of phospholamban incorporated into phospholipid bilayers utilizing 2H and 15N solid-state NMR spectroscopy. Biochemistry. 2004 Nov 9;43(44):13899-909 Authors: Tiburu EK, Karp ES, Dave PC, Damodaran K, Lorigan GA (2)H and (15)N solid-state NMR spectroscopic techniques were used to investigate...
nmrlearner Journal club 0 11-24-2010 10:03 PM
[NMR paper] Multiple quantum filtered NMR studies of the interaction between collagen and water i
Multiple quantum filtered NMR studies of the interaction between collagen and water in the tendon. Related Articles Multiple quantum filtered NMR studies of the interaction between collagen and water in the tendon. J Am Chem Soc. 2002 Mar 27;124(12):3125-32 Authors: Eliav U, Navon G We studied the physical processes and the chemical reactions involved in magnetization transfer between water and large proteins, such as collagen, in bovine Achilles tendon. Since the NMR spectrum for such proteins is broadened by very large dipolar interactions,...
nmrlearner Journal club 0 11-24-2010 08:49 PM
[NMR paper] Solution structure of Pisum sativum defensin 1 by high resolution NMR: plant defensin
Solution structure of Pisum sativum defensin 1 by high resolution NMR: plant defensins, identical backbone with different mechanisms of action. Related Articles Solution structure of Pisum sativum defensin 1 by high resolution NMR: plant defensins, identical backbone with different mechanisms of action. J Mol Biol. 2002 Jan 25;315(4):749-57 Authors: Almeida MS, Cabral KM, Kurtenbach E, Almeida FC, Valente AP Pisum sativum defensin 1 (Psd1) is a 46 amino acid residue plant defensin isolated from seeds of pea. The three-dimensional structure in...
nmrlearner Journal club 0 11-24-2010 08:49 PM
[NMR paper] Essential dynamics from NMR clusters: dynamic properties of the Myb DNA-binding domai
Essential dynamics from NMR clusters: dynamic properties of the Myb DNA-binding domain and a hinge-bending enhancing variant. Related Articles Essential dynamics from NMR clusters: dynamic properties of the Myb DNA-binding domain and a hinge-bending enhancing variant. Methods. 1998 Mar;14(3):318-28 Authors: van Aalten DM, Grotewold E, Joshua-Tor L Application of the "essential dynamics" method to the NMR cluster of structures for the R2R3 DNA-binding domain of the mouse c-Myb transcriptional activator is described. Using this method, large...
nmrlearner Journal club 0 11-17-2010 11:06 PM
[NMR paper] The dynamic properties of the M121H azurin metal site as studied by NMR of the parama
The dynamic properties of the M121H azurin metal site as studied by NMR of the paramagnetic Cu(II) and Co(II) metalloderivatives. Related Articles The dynamic properties of the M121H azurin metal site as studied by NMR of the paramagnetic Cu(II) and Co(II) metalloderivatives. J Biol Chem. 1998 Jan 2;273(1):177-85 Authors: Salgado J, Kroes SJ, Berg A, Moratal JM, Canters GW The M121H azurin mutant in solution presents various species in equilibrium that can be detected and studied by 1H NMR of the Cu(II) and Co(II) paramagnetic...
nmrlearner Journal club 0 11-17-2010 11:06 PM
[NMR paper] Dynamic properties of nucleic acids in biosupramolecular systems, as studied by 31P N
Dynamic properties of nucleic acids in biosupramolecular systems, as studied by 31P NMR. Related Articles Dynamic properties of nucleic acids in biosupramolecular systems, as studied by 31P NMR. J Biochem. 1994 Feb;115(2):270-8 Authors: Odahara T, Nishimoto S, Katsutani N, Kyogoku Y, Morimoto Y, Matsushiro A, Akutsu H The dynamic properties of nucleic acids in five different types of intact supramolecular systems, namely, chicken erythrocyte chromatin, the wild type and a deletion mutant of the lambda phage, lipid-containing phage PM2, and...
nmrlearner Journal club 0 08-22-2010 03:33 AM
[NMR paper] Dynamic properties of nucleic acids in biosupramolecular systems, as studied by 31P N
Dynamic properties of nucleic acids in biosupramolecular systems, as studied by 31P NMR. Related Articles Dynamic properties of nucleic acids in biosupramolecular systems, as studied by 31P NMR. J Biochem. 1994 Feb;115(2):270-8 Authors: Odahara T, Nishimoto S, Katsutani N, Kyogoku Y, Morimoto Y, Matsushiro A, Akutsu H The dynamic properties of nucleic acids in five different types of intact supramolecular systems, namely, chicken erythrocyte chromatin, the wild type and a deletion mutant of the lambda phage, lipid-containing phage PM2, and...
nmrlearner Journal club 0 08-22-2010 03:33 AM
[NMR paper] Dynamic properties of proteins from NMR spectroscopy.
Dynamic properties of proteins from NMR spectroscopy. http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--linkinghub.elsevier.com-ihub-images-PubMedLink.gif Related Articles Dynamic properties of proteins from NMR spectroscopy. Curr Opin Biotechnol. 1993 Aug;4(4):385-91 Authors: Palmer AG Two-dimensional proton-detected heteronuclear nuclear magnetic resonance spectroscopy has been used to measure 13C and 15N spin-relaxation rate constants for several proteins. Generalized order parameters and effective internal correlation times have been...
nmrlearner Journal club 0 08-22-2010 03:01 AM


Thread Tools Search this Thread
Search this Thread:

Advanced Search
Display Modes Rate This Thread
Rate This 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



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 09:18 AM.


Map