NMRFAM
 		PUBLICATIONS
 PINE
MANI LACS
PEOPLE
 RESEARCH
 PECAN
 SESAME
 PISTACHIO

NMRFAM -Madison, Wisconsin

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MANI is the main page for a set of tools designed to enable high-throughput NMR Structure determination. Some tools are currently available for general community use. Use the links above or below to reach the tool page and follow the instructions.

PINE Server v. 0.1 (Beta)


 PINE offers fully automatic backbone and sidechain assignments, secondary structure determination, possible reference and outlier detection using a probabilistic approach that achieves excellent results.

 

Input file format is peak-picked resonance data in the XEasy format or PINE simple format. A sample of xeasy files and a short instruction are available at here.

PINE also offers assignment for selective labeled protein or partially assigned proteins.

Instruction for PINE output files can be found here.

  •   Assignment results, including secondary structure identification, are returned via email.
  •    Depending on the size of the protein, the quality of input data, and number of current jobs, run times vary from one hour to one day.

     Updated JULY 2006.

 

PISTACHIO Server v. 0.1 (Beta)

pistachio
 PISTACHIO is a component in a suite of tools for high-throughput structure determination using NMR.

PISTACHIO with extended laboratory management functionality will be available through the SESAME software.

PISTACHIO currently achieves better than 90% correct assignments for backbone and sidechains.
 
  A service offered by the National Magnetic Resonance Facility at Madison. 

  PISTACHIO offers fully automatic backbone and sidechain assignments using a new approach to assignment that achieves excellent results.

  NOTE:  Input file format is peak-picked resonance data in the XEasy format.
  Assignment results, including secondary structure identification, are returned via email in a single zipped file in XEASY and NMR-STAR format.  
  Depending on the size of the protein, the quality of input data, and number of current jobs, run times vary from one hour to one day.  See brief documentation for further details.
  Updated AUGUST 2004.


PECAN Server v. 0.1 (Beta)

pecan
 PECAN is a component in a suite of tools for high-throughput structure determination using NMR.

PECAN with extended laboratory management functionality will be available through the SESAME software.

PECAN currently achieves better than 90% correct secondary structure identification for well-defined regions.
 
  A service offered by the National Magnetic Resonance Facility at Madison. 

  PECAN offers a new approach to secondary structure identification that achieves excellent results.
  NOTE:  Input file format is NMR-STAR format.
  Secondary structure identification results are returned online.   See brief documentation for further details.
  Updated AUGUST 2004.

MANI-LACS Server v. 0.1 (Beta)

image of seeds
 MANI-LACS is a component in a suite of tools for high-throughput structure determination using NMR.

MANI-LACS with extended laboratory management functionality is available through the SESAME software.

MANI-LACS currently achieves correct reference adjustments at a comparable level to tools that require structure. A database of corrected references is availabe.
 
  A service offered by the National Magnetic Resonance Facility at Madison. 

  MANI-LACS offers a new approach to NMR reference correction and outlier identification that achieves excellent results using only residue specific chemical shift assignment.

  NOTE:  Input file format is NMR-STAR format.
  Reference  correction and outlier probability results are returned online.   See brief documentation for further details.
  Updated AUGUST 2004.


 

   nuts

MANI-APS Server (COMING SOON)

image of seeds
 MANI-APS is a component in a suite of tools for high-throughput structure determination using NMR.

MANI-APS with extended laboratory management functionality will be available through the SESAME software.

MANI-APS automatically enhances spectra, determines noise floor, and performs peak picking.
 
  A service offered by the National Magnetic Resonance Facility at Madison. 

  MANI-LACS offers a new approach to NMR peak picking.

  NOTE:  Input file format is a text file containing spectral information.
  Peak probability results are returned online.   See brief documentation for further details.
  Updated AUGUST 2004.
   nuts

MANI-ARAM Server (COMING SOON)

image of seeds
 MANI-ARAM is a component in a suite of tools for high-throughput structure determination using NMR.

MANI-ARAM with extended laboratory management functionality will be available through the SESAME software.

MANI-ARAM automatically aligns multiple peak lists that with non-uniform shifts and missing peaks.
 
  A service offered by the National Magnetic Resonance Facility at Madison. 

  MANI-ARAM offers a new approach to alignment of NMR peaks from multiple spectra.

  NOTE:  Input file format is NMR-STAR format.
  Corrected peak locations and probabilities are returned online.   See brief documentation for further details.
  Updated AUGUST 2004.



NEED HELP?             problems, questions, suggestions?  Send email to: MANI TEAM
This file is last modified August 2004



This file is last modified Wednesday 29th of October 2003 15:39:07 GMT