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 08-22-2010, 02:20 PM
nmrlearner's Avatar
Senior Member
 
Join Date: Jan 2005
Posts: 17,570
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 An automated approach for clustering an ensemble of NMR-derived protein structures in

An automated approach for clustering an ensemble of NMR-derived protein structures into conformationally related subfamilies.

Related Articles An automated approach for clustering an ensemble of NMR-derived protein structures into conformationally related subfamilies.

Protein Eng. 1996 Nov;9(11):1063-5

Authors: Kelley LA, Gardner SP, Sutcliffe MJ



PMID: 8961360 [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
An ensemble dynamics approach to decipher solid-sate NMR observables of membrane proteins.
An ensemble dynamics approach to decipher solid-sate NMR observables of membrane proteins. An ensemble dynamics approach to decipher solid-sate NMR observables of membrane proteins. Biochim Biophys Acta. 2011 Aug 8; Authors: Im W, Jo S, Kim T Abstract Solid-state NMR (SSNMR) is an invaluable tool for determining orientations of membrane proteins and peptides in lipid bilayers. Such orientational descriptions provide essential information about membrane protein functions. However, when a semi-static single conformer model is used to...
nmrlearner Journal club 1 08-25-2011 07:04 AM
[NMR paper] Smartnotebook: a semi-automated approach to protein sequential NMR resonance assignme
Smartnotebook: a semi-automated approach to protein sequential NMR resonance assignments. Related Articles Smartnotebook: a semi-automated approach to protein sequential NMR resonance assignments. J Biomol NMR. 2003 Dec;27(4):313-21 Authors: Slupsky CM, Boyko RF, Booth VK, Sykes BD Complete and accurate NMR spectral assignment is a prerequisite for high-throughput automated structure determination of biological macromolecules. However, completely automated assignment procedures generally encounter difficulties for all but the most ideal data...
nmrlearner Journal club 0 11-24-2010 09:16 PM
CoNSEnsX: an ensemble view of protein structures and NMR-derived experimental data.
CoNSEnsX: an ensemble view of protein structures and NMR-derived experimental data. Related Articles CoNSEnsX: an ensemble view of protein structures and NMR-derived experimental data. BMC Struct Biol. 2010 Oct 29;10(1):39 Authors: Angyan AF, Szappanos B, Perczel A, Gaspari Z ABSTRACT: BACKGROUND: In conjunction with the recognition of the functional role of internal dynamics of proteins at various timescales, there is an emerging use of dynamic structural ensembles instead of individual conformers. These ensembles are usually substantially...
nmrlearner Journal club 0 11-03-2010 10:44 AM
CoNSEnsX: an ensemble view of protein structures and NMR-derived experimental data -
CoNSEnsX: an ensemble view of protein structures and NMR-derived experimental data - 7thSpace Interactive (press release) <img alt="" height="1" width="1" /> CoNSEnsX: an ensemble view of protein structures and NMR-derived experimental data 7thSpace Interactive (press release) These ensembles are usually substantially more diverse than conventional NMR ensembles and eliminate the expectation that a single conformer should fulfill ... Read here
nmrlearner Online News 0 10-29-2010 09:32 PM
[NMR paper] An automated approach for defining core atoms and domains in an ensemble of NMR-deriv
An automated approach for defining core atoms and domains in an ensemble of NMR-derived protein structures. Related Articles An automated approach for defining core atoms and domains in an ensemble of NMR-derived protein structures. Protein Eng. 1997 Jun;10(6):737-41 Authors: Kelley LA, Gardner SP, Sutcliffe MJ A single NMR-derived protein structure is usually deposited as an ensemble containing many structures, each consistent with the restraint set used. The number of NMR-derived structures deposited in the Protein Data Bank (PDB) is...
nmrlearner Journal club 0 08-22-2010 03:31 PM
[NMR paper] An automated approach for defining core atoms and domains in an ensemble of NMR-deriv
An automated approach for defining core atoms and domains in an ensemble of NMR-derived protein structures. Related Articles An automated approach for defining core atoms and domains in an ensemble of NMR-derived protein structures. Protein Eng. 1997 Jun;10(6):737-41 Authors: Kelley LA, Gardner SP, Sutcliffe MJ A single NMR-derived protein structure is usually deposited as an ensemble containing many structures, each consistent with the restraint set used. The number of NMR-derived structures deposited in the Protein Data Bank (PDB) is...
nmrlearner Journal club 0 08-22-2010 03:03 PM
[NMR paper] An approach to protein homology modelling based on an ensemble of NMR structures: app
An approach to protein homology modelling based on an ensemble of NMR structures: application to the Sox-5 HMG-box protein. Related Articles An approach to protein homology modelling based on an ensemble of NMR structures: application to the Sox-5 HMG-box protein. Protein Eng. 1995 Jul;8(7):615-25 Authors: Adzhubei AA, Laughton CA, Neidle S A new approach has been developed to reduce multiple protein structures obtained from NMR structure analysis to a smaller number of representative structures which still reflect the structural diversity of...
nmrlearner Journal club 0 08-22-2010 03:41 AM
[NMR paper] Representing an ensemble of NMR-derived protein structures by a single structure.
Representing an ensemble of NMR-derived protein structures by a single structure. http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--www3.interscience.wiley.com-aboutus-images-wiley_interscience_pubmed_logo_FREE_120x27.gif http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--www.pubmedcentral.nih.gov-corehtml-pmc-pmcgifs-pubmed-pmc.gif Related Articles Representing an ensemble of NMR-derived protein structures by a single structure. Protein Sci. 1993 Jun;2(6):936-44 Authors: Sutcliffe MJ The usefulness of representing an ensemble of...
nmrlearner Journal club 0 08-21-2010 11:53 PM


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 - 2017, 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 11:59 AM.


Map