The Story of INDIA !!

Check this Interesting Link:
INDIA
http://www.pbs.org/thestoryofindia/about/episode_summaries/

Synopsis

The world's largest democracy and a rising economic giant, India is now as well known across the globe for its mastery of computer technology as it is for its many-armed gods and its famous spiritual traditions. But India is also the world's most ancient surviving civilization, with unbroken continuity back into prehistory.
Like other great civilizations—Greece or Egypt, for example—over the millennia it has enjoyed not just one but several brilliant golden ages in art and culture. Its great thinkers and religious leaders have permanently changed the face of the globe. But while the glories of Rome, Egypt, and Greece, have all been the subject of TV portraits, as yet there has been no television story of India on our screens. This series sets out for the first time to do that: to show a world audience the wonders of India; the incredible richness and diversity of its peoples, cultures and landscapes; and the intense drama of its past, including some of the most momentous, exciting and moving events in world history.

eVoices newsletter of IISc, Feb. 2009 !!

PDF

The End of the Beginning by Arun R. (CSA)

Campus witnesses protest, Grievances to be addressed

Our Centenary... A perspective by Mukta (BIOCHEM)

Centenary Blues by Maneesh (MECHENG)

Reminiscences by Kumudhini (MGMT)

'Wellings-up' on listening to the Santoor by S. N. Balasubrahmanyam (Alumnus, ORGCHEM)

IISc: Past, present and future by Smrithy (MRDG)

The Doyenne of Biotechnology by Deepti (MRDG)

The Spirit of Volunteering by Abraham Kurian Plamthottam (MGMT)

Recollections till the Day Dawns by Brijesh N Bhatt (MCBL)

Centenary is on! by Suman S. Thakur (MBU)

Mechanism Design can help in achieving desired social goals: Prof. Eric Maskin by H. S. Sudhira (CES)

bhOndOO describes an Auto by Rupesh (CSA)

IISc students featured in Bangalore Mirror by Rupesh (CSA) and Maneesh (MECHENG)

My Pearl by Indumathi A. (MGMT)

Freedom by Divya Jain (Alumnus, CSA)

source:
http://www.ncsi.iisc.ernet.in/eVoices/?q=Feb2009

An excellent site to aid Protein Structural Analysis

Our Group Resources listed:

PALI - Phylogeny and ALIgnment of homologous protein structures.
SUPFAM - Clusters of potentially related homologous protein domain families.


More Resources

Visualization

CCP4 Molecular Graphics - Create beautiful publication quality images and movies.
Chimera - Interactive visualization and analysis of molecular structures and related data.
COOT - Main website for model-building/visualization program; COOT Manual
GRASP2 - Macromolecular structure and surface visualization written for the Windows.
LigPlot - Automatically plots protein-ligand interactions.
PYMOL - A molecular visualization system on an OPEN-SOURCE foundation. Wiki  Mailing-list
Raster3D - Program suite for photo-realistic molecular graphics.
SwissPDB Viewer - Swiss-PdbViewer (aka DeepView) is an application that provides a user friendly
interface allowing to analyze several proteins at the same time.  Tutorial
TopDraw - Sketchpad for drawing topology cartoons of proteins.

Structural and Sequence Alignment

AL2CO - Takes the multiple alignment and maps the positional conservation in the B-factor column of
the structure.
Baton - Structure based sequence alignment output file in the JOY format.
CE Combinatorial Extension Method - 3-D Protein Structure Comparison and Alignment.
CEMC -  Multiple protein structure alignment server.
ClustalW2 - A general purpose multiple sequence alignment program for DNA or proteins.
DALI - A server for comparing protein structures in 3D.
DALI Lite - Pairwise comparison of protein structures.
ESPript - Utility to generate a attractive PostScript output from aligned sequences.
FPS -  A method for scoring a query sequence against a family of sequences.
Homolmapper - Map several conserved properties onto your structures, not just plain sequence.
Indonesia -  Integrated program package for biological sequence analysis.
MAMMOTH - Multiple protein structure alignment server.
Mustang - Multiple structural alignment algorithm.
PALI - Phylogeny and ALIgnment of homologous protein structures.
Rapido - Alignment of protein structures in the presence of conformational changes. REF
SSM - Secondary Structure Matching: a tool for protein structure comparison
Stralign - Structure alignment program.
STRAP - Structure based alignment program.
Structural Alignment of SCOP Sequences - search the results of structural comparisons.
SUPFAM - Clusters of potentially related homologous protein domain families.
TCoffee - Evaluating multiple alignments of DNA, RNA, protein sequences and structures.
Theseus - Maximum likelihood superpositioning and analysis of macromolecular structures.
3D SS - Three dimensional structure superposition.

General Analysis

AMIGOS -  Reads an RNA PDB file and outputs a complete table of torsion angle calculations.
APBS - Software for evaluating the electrostatic properties of nanoscale biomolecular systems.
Atlas of Protein Side-Chain Interactions - depicts how amino acid side-chains pack.
CATH - Hierarchical classification of protein domain structures.
CAVENV - Designed to help visualise cavities in a protein structure.
CAVER - Automated calculation of pathways leading from buried cavities to outside solvent in static and
dynamic protein structures.
CaPTURE - Identify energetically significant cation-pi interactions within proteins.
CASTp - Computed atlas of surface topography of proteins.
ConSurf - Identification of Functional Regions in Proteins.
DDMP -- Differences Distance Matrix Program.
Dynamite - Makes predictions about the way a protein moves given only a PDB file.
Dynapocket - Prediction of likely configurations of the atoms of binding pocket.
DynDom - Determine domains, hinge axes and hinge bending residues in proteins.
dssp2pdb - Converts dssp output to pdb.
eF-site - Electrostatic surface of functional site.
elNemo - Compute the low frequency normal modes of a protein.
Entangle - Creates a listing of interactions that occur at the interface between the nucleic-acid/protein
complex. These interactions are then classified into hydrogen bonds, electrostatic, hydrophobic, and
Van der Waals.
ESCET - Analyse and compare three-dimensional protein structures.
extpdb - If you cut up pdb files, this is the utility for you.
FISH - Domain identification server.
GETAREA - Calculation of solvent accessible surface areas, atomic solvation energies and their
gradients for macromolecules.
GROMACS - Versatile package to perform molecular dynamics.
HBexplore - Geometrical analysis of hydrogen bonds in biological macromolecules.
InterPro - Database of protein families, domains, repeats and sites.
iMolTalk - Structural Bioinformatics Toolkit; an interactive, Internet-based service for computational
analyses in Structural Biology.
MOLEOline -  Web-based tool to find/analyze molecular channels, tunnels and pores.
MolProbity - An expert-system consultation about the accuracy of a macromolecular structure.
MOTIF - Sequence motif search from GenomeNet.
MSDMotif - Provides information about ligands, sequence and structure motifs.
NACCESS - Calculates the accessible area of a molecule from a PDB format file.
NCBI BLAST - Finds regions of similarity between biological sequences.
OCA - A browser-database for protein structure/function.
OnD-CRF - Order and Disorder in proteins prediction server.
Parvati -  Analysis/validation tool for high resolution protein structures.
PDBsum - At-a-glance overview of every macromolecular structure deposited in the PDB.
PDB Report Database -  Reports describing structural problems in PDB entries.
PDB Structure Quality - Determine if your structure is on-par with others in the PDB.
PDB2PQR Server - Enables a user to convert PDB files into PQR files.
Pfam - Large collection of protein families.
PIqsI - investigation and curation of quaternary structures.
PISA -  An interactive tool for the exploration of protein Interfaces, Surfaces and Assemblies.
Pre-BI - Prediction of biological interfaces.
PredictProtein - A service for sequence analysis, structure and function prediction.
Probe - Evaluate atomic packing, either within or between molecules. It generates “contact dots” where
atoms are in close contact.
ProDom - Protein domain families.
PRODRG-2 Server - Convert small molecules in PDB format to various topology formats.
ProFunc - Prediction of protein function from 3D structure; EBI services.
ProMate - Predicts the location of potential protein-protein binding sites.
PROPKA - Empirical Prediction and Interpretation of Protein pKa Values.
Protein Calculator - Protein properties calculator.
Protein Structure Prediction - Molecular modelling site.
Proteopedia - The collaborative, 3D encyclopedia of proteins and other molecules. Article
ProtSkin - Converts a protein sequence alignment to a property file used to map the
sequence conservation onto the structure of a protein.
PROTORP  - A tool to analyse the properties of interfaces of protein-protein associations.
PSAIA - Software tool  that integrates several algorithms for protein interactions and structure geometry
analysis of protein complexes into a single application.
RAPPER - An ab initio conformational search algorithm for restraint-based protein modelling.
ROBETTA - Full-chain protein structure prediction server.
SCOP - Structural classification of proteins.
SFCheck - Assessment of X-ray data and/or agreement between atomic model and X-ray data.
SPASM Server - Server will find similar motifs based in a database derived from the PDB.
SSBOND - predicts sites where disulphide bonds can be introduced.
STAN - Structure analysis server.
StrucTools - Common structural biology calculations with PDB coordinates.
SURFNET - Generates surfaces and void regions between surfaces.
TLSMD - Inference of TLS motion from single crystal structures.
TOPS - Compare a structure (PDB Format) to a database of structures.
Web-Tools - Web-Accessible Scientific Applications (scientific supercomputing at NIH).
WHAT IF - Homology modelling, drug docking, electrostatics, validation and visualisation.
3Dee - Database of Protein Domain Definitions.
3DNA - Analysis, rebuilding, and visualization of three-dimensional nucleic acid structures.


source: http://www.pxuniverse.com/Websites.html

Aero India 2009, Bangalore from 11 to 15 Feb !!

The Venue of Aero India Show 2009, Yelahanka, a suburb of Bangalore in Karnataka.

Aero India Show was popular since the first exhibition in 1996. Now, all waiting for the next Aero India Show 2009. This air show is held twice at Yelahanka Air Force Base in Bangalore. Aero India Show is considered to be one of the largest air show in South Asia, where thousands of visitors come.

Aero India 2009

The Aero India show in India is very popular especially among people associated with the aviation industry and aviation industry. The service providers and manufacturers can learn about technology and products from this show. 592 Exhibitors from 25 Countries will participate in the show.

Participating countries including the United States, Australia, Britain, Brazil, Czech Republic, India, Belguim, France, Italy, Germany, Ireland, Malaysia, Israel, Norway, Romania, Poland, Singapore, Russia, South Africa, Sweden, Spain, Ukraine, Holland and Switzerland. The Aero India show in India is very popular especially among people associated with the aviation industry and aviation industry. Some expected to break previous records are aimed at the upcoming Aero India Show 2009.



The Aero India 2009 Exhibition is organized by the Defense Ministry of India in association with the Federation of India Chambers of Commerce and Industry (FICCI). The fourth largest air show in the world the Aero India is one of the major exhibitions in India as it includes both air displays and exhibitions of various aircrafts of the Indian Air Force. The Aero India has been conducted 6 times in India and the last three editions showcased some of the most advanced technologies and aviation equipments.

Seminar in NCBS by Dr. Subhojyoti De from Cambridge

Subhajyoti De

MRC Laboratory of Molecular Biology
Hills Road, Cambridge CB2 2QH, United Kingdom
Ph: 0044-(0)1223-402479

• 2008 Elected Fellow of King's College, Cambridge

2005 – (2008) PhD in Biology (Biostatistics and Computational Genomics)
MRC Laboratory of Molecular Biology, Cambridge, UK
Investigated trends of population-level diversity and evolutionary
divergence in the human lineage and identified specific patterns of
evolutionary constraints on the human genome and transcriptome.

2003 Indian Institute of Science, Bangalore, India
• Worked as an intern with Dr. N.Srinivasan investigating the difference in interface properties between transient and permanent complexes.
• Received JNCASR Summer Research Fellowship.


Research Page
CV

New Recommended paper @ F1000: Evaluated by NS with Ramachandra M Bhaskara !!

Entropic contributions and the influence of the hydrophobic environment in promiscuous protein-protein association.
Chang CE, McLaughlin WA, Baron R, Wang W, McCammon JA
Proc Natl Acad Sci U S A 2008 May 27 105(21):7456-61
Evaluated on: 4 Dec 2008

Full text

Comment:
Chang et al. drive home the idea of alternative bound states of hydrophobic side-chains that are responsible for the binding and stabilization of promiscuous protein-protein association. Single proteins having multiple binding partners has been implicated as a causative factor in many diseases. This study can aid in the search for and design of drugs for promiscuous targets.
more

Faculty Member:
Narayanaswamy Srinivasan with Ramachandra M Bhaskara

View NS page @ F1000
Faculty Member: Structural Biology > Structural Genomics [ since 26 January 2007 ]

National Symposium on Cellular and Molecular Biophysics @ CCMB

Under the aegis of The Indian Biophysical Society
January 22-24, 2009
CCMB, Hyderabad, India - 500 007

Participants from NS Group:

Paper presented:
Analysis of Low Resolution Structures of Protein Assemblies: A Case Study with Clathrin
Rupali A. Gadkari

Poster presented:
Towards stabilizing domain folds in multi-domain proteins
Ramachandra M Bhaskara


Website