Sowdhamini, R: search on Z-Library

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1

GenDiS database update with improved approach and features to recognize homologous sequences of protein domain superfamilies

Iyer, Meenakshi S, Bhargava, Kartik, Pavalam, Murugavel, Sowdhamini, Ramanathan

Journal:

Year:

2019

Language:

english

File:

PDF, 15.39 MB

english, 2019

2

Computational search for potential COVID-19 drugs from FDA-approved drugs and small molecules of natural origin identifies several anti-virals and plant products

Sharma, Abhishek, Tiwari, Vikas, Sowdhamini, Ramanathan

Journal:

Journal of Biosciences

Year:

2020

File:

PDF, 1.88 MB

2020

3

Improvement of comparative modeling by the application of conserved motifs amongst distantly related proteins as additional restraints

Saikat Chakrabarti, Jaisurya John, Ramanathan Sowdhamini

Journal:

Journal of Molecular Modeling

Year:

2004

Language:

english

File:

PDF, 427 KB

english, 2004

4

Molecular modeling and docking studies of human 5-hydroxytryptamine 2A (5-HT2A) receptor for the identification of hotspots for ligand binding

Kanagarajadurai, Karuppiah, Malini, Manoharan, Bhattacharya, Aditi, Panicker, Mitradas M., Sowdhamini, Ramanathan

Journal:

Molecular BioSystems

Year:

2009

Language:

english

File:

PDF, 2.51 MB

english, 2009

5

Proteome profile of a pandemic Vibrio parahaemolyticus SC192 strain in the planktonic and biofilm condition

Dharmaprakash, Akhilandeswarre, Mutt, Eshita, Jaleel, Abdul, Ramanathan, Sowdhamini, Thomas, Sabu

Journal:

Year:

2014

Language:

english

File:

PDF, 1.03 MB

english, 2014

6

Genome-wide survey of DNA-binding proteins in Arabidopsis thaliana: analysis of distribution and functions

Malhotra, S., Sowdhamini, R.

Journal:

Nucleic Acids Research

Year:

2013

Language:

english

File:

PDF, 2.60 MB

english, 2013

7

An in-silico approach towards the identification of novel inhibitors of the TLR-4 signaling pathway

Mahita, Jarjapu, Harini, K., Pichika, Mallikarjuna Rao, Sowdhamini, Ramanathan

Journal:

Journal of Biomolecular Structure and Dynamics

Year:

2015

Language:

english

File:

PDF, 3.15 MB

english, 2015

8

A Functional Agonist of Insect Olfactory Receptors: Behavior, Physiology and Structure

Batra, Srishti, Corcoran, Jacob, Zhang, Dan-Dan, Pal, Pramit, K.P., Umesh, Kulkarni, Renuka, Löfstedt, Christer, Sowdhamini, Ramanathan, Olsson, Shannon B.

Journal:

Frontiers in Cellular Neuroscience

Year:

2019

Language:

english

File:

PDF, 6.87 MB

english, 2019

9

The N-terminus and alpha-5, alpha-6 helices of the pro-apoptotic protein Bax, modulate functional interactions with the anti-apoptotic protein Bcl-xL

Neha Parikh, Caroline Koshy, Vaigundan Dhayabaran, Lakshmi R Perumalsamy, R Sowdhamini, Apurva Sarin

Journal:

BMC Cell Biology

Year:

2007

Language:

english

File:

PDF, 2.37 MB

english, 2007

10

CUSP: an algorithm to distinguish structurally conserved and unconserved regions in protein domain alignments and its application in the study of large length variations

Sankaran Sandhya, Barah Pankaj, Kande Madabosse Govind, Bernard Offmann, Narayanaswamy Srinivasan, Ramanathan Sowdhamini

Journal:

BMC Structural Biology

Year:

2008

Language:

english

File:

PDF, 1.91 MB

english, 2008

11

Analysis on conservation of disulphide bonds and their structural features in homologous protein domain families

Ratna R Thangudu, Malini Manoharan, N Srinivasan, Frédéric Cadet, R Sowdhamini, Bernard Offmann

Journal:

BMC Structural Biology

Year:

2008

Language:

english

File:

PDF, 4.19 MB

english, 2008

12

3PFDB - A database of Best Representative PSSM Profiles (BRPs) of Protein Families generated using a novel data mining approach

Khader Shameer, Paramasivam Nagarajan, Kumar Gaurav, Ramanathan Sowdhamini

Journal:

Year:

2009

Language:

english

File:

PDF, 2.29 MB

english, 2009

13

Molecular evolution and domain structure of plasminogen-related growth factors (HGF/SF and HGF1/MSP)

Luis Enrique Donate, N. Srinivasan, R. Sowdhamini, Ermanno Gherardi, Tom L. Blundell, Samuel Aparicio

Journal:

Protein Science

Year:

1994

Language:

english

File:

PDF, 11.35 MB

english, 1994

14

An automatic method involving cluster analysis of secondary structures for the identification of domains in proteins

R. Sowdhamini, Tom L. Blundell

Journal:

Protein Science

Year:

1995

Language:

english

File:

PDF, 8.74 MB

english, 1995

15

Structural determinants of binding and specificity in transforming growth factor–receptor interactions

Parantu K. Shah, Cristina Marino Buslje, R. Sowdhamini

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2001

Language:

english

File:

PDF, 508 KB

english, 2001

16

Conserved spatially interacting motifs of protein superfamilies: Application to fold recognition and function annotation of genome data

Anirban Bhaduri, R. Ravishankar, R. Sowdhamini

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2004

Language:

english

File:

PDF, 660 KB

english, 2004

17

Native and modeled disulfide bonds in proteins: Knowledge-based approaches toward structure prediction of disulfide-rich polypeptides

Ratna Rajesh Thangudu, A. Vinayagam, G. Pugalenthi, A. Manonmani, B. Offmann, R. Sowdhamini

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2005

Language:

english

File:

PDF, 498 KB

english, 2005

18

Identification of functionally diverse lipocalin proteins from sequence information using support vector machine

Ganesan Pugalenthi, Krishna Kumar Kandaswamy, P. N. Suganthan, G. Archunan, R. Sowdhamini

Journal:

Year:

2010

Language:

english

File:

PDF, 245 KB

english, 2010

19

Fold prediction and comparative modeling of Bdm1: a probable α/β hydrolase associated with hot water epilepsy

Anirban Bhaduri, Lakshminarasimhan Krishnaswamy, Gautam R. Ullal, Mitradas M. Panicker, Ramanathan Sowdhamini

Journal:

Journal of Molecular Modeling

Year:

2003

Language:

english

File:

PDF, 393 KB

english, 2003

20

Evolutionary trace analysis of ionotropic glutamate receptor sequences and modeling the interactions of agonists with different NMDA receptor subunits

Mathias-Costa Blaise, Ramanathan Sowdhamini, Metpally Raghu Prasad Rao, Nithyananda Pradhan

Journal:

Journal of Molecular Modeling

Year:

2004

Language:

english

File:

PDF, 866 KB

english, 2004

21

Comparative analysis of different competitive antagonists interaction with NR2A and NR2B subunits ofN-methyl-D-aspartate (NMDA) ionotropic glutamate receptor

Mathias-Costa Blaise, Ramanathan Sowdhamini, Nithyananda Pradhan

Journal:

Journal of Molecular Modeling

Year:

2005

Language:

english

File:

PDF, 866 KB

english, 2005

22

In silico point mutation and evolutionary trace analysis applied to nicotinic acetylcholine receptors in deciphering ligand-binding surfaces

Marimuthu Parthiban, Piramanayagam Shanmughavel, Ramanathan Sowdhamini

Journal:

Journal of Molecular Modeling

Year:

2010

Language:

english

File:

PDF, 1.31 MB

english, 2010

23

Foreword

N Srinivasan, R Sowdhamini, Alok Bhattacharya

Journal:

Journal of Biosciences

Year:

2007

Language:

english

File:

PDF, 170 KB

english, 2007

24

Genome inventory and analysis of nuclear hormone receptors inTetraodon nigroviridis

Raghu Prasad Rao Metpally, Ramakrishnan Vigneshwar, Ramanathan Sowdhamini

Journal:

Journal of Biosciences

Year:

2007

Language:

english

File:

PDF, 324 KB

english, 2007

25

The Recognition of Protein Structure and Function from Sequence: Adding Value to Genome Data [and Discussion]

May, A. C. W., Johnson, M. S., Rufino, S. D., Wako, H., Zhu, Z.-Y., Sowdhamini, R., Srinivasan, N., Rodionov, M. A., Blundell, T. L., Dover, G. A.

Journal:

Philosophical Transactions Biological Sciences

Year:

1994

Language:

english

File:

PDF, 2.00 MB

english, 1994

26

CAMPASS: a database of structurally aligned protein superfamilies

R Sowdhamini, David F Burke, Jing-fei Huang, Kenji Mizuguchi, Hampapathalu A Nagarajaram, N Srinivasan, Robert E Steward, Tom L Blundell

Journal:

Year:

1998

Language:

english

File:

PDF, 561 KB

english, 1998

27

A database of globular protein structural domains: clustering of representative family members into similar folds

R Sowdhamini, Stephen D Rufino, Tom L Blundell

Journal:

Folding and Design

Year:

1996

Language:

english

File:

PDF, 1.17 MB

english, 1996

28

PeptideMine - A webserver for the design of peptides for protein-peptide binding studies derived from protein-protein interactomes

Khader Shameer, Lalima L Madan, Shivamurthy Veeranna, Balasubramanian Gopal, Ramanathan Sowdhamini

Journal:

BMC Bioinformatics

Year:

2010

Language:

english

File:

PDF, 884 KB

english, 2010

29

HORI: a web server to compute Higher Order Residue Interactions in protein structures

Pandurangan Sundaramurthy, Khader Shameer, Raashi Sreenivasan, Sunita Gakkhar, Ramanathan Sowdhamini

Journal:

BMC Bioinformatics

Year:

2010

Language:

english

File:

PDF, 567 KB

english, 2010

30

Relationship between amino acid properties and functional parameters in olfactory receptors and discrimination of mutants with enhanced specificity

Gromiha, M Michael, Harini, K, Sowdhamini, R, Fukui, Kazuhiko

Journal:

BMC Bioinformatics

Year:

2012

Language:

english

File:

PDF, 1.36 MB

english, 2012

31

PASS2: an automated database of protein alignments organised as structural superfamilies

Anirban Bhaduri, Ganesan Pugalenthi, Ramanathan Sowdhamini

Journal:

BMC Bioinformatics

Year:

2004

Language:

english

File:

PDF, 923 KB

english, 2004

32

Improvement of alignment accuracy utilizing sequentially conserved motifs

Saikat Chakrabarti, Nitin Bhardwaj, Prem A Anand, Ramanathan Sowdhamini

Journal:

BMC Bioinformatics

Year:

2004

Language:

english

File:

PDF, 1.34 MB

english, 2004

33

A machine learning approach for the identification of odorant binding proteins from sequence-derived properties

Ganesan Pugalenthi, Ke Tang, PN Suganthan, G Archunan, R Sowdhamini

Journal:

BMC Bioinformatics

Year:

2007

Language:

english

File:

PDF, 350 KB

english, 2007

34

PURE: A webserver for the prediction of domains in unassigned regions in proteins

Chilamakuri CS Reddy, Khader Shameer, Bernard O Offmann, Ramanathan Sowdhamini

Journal:

BMC Bioinformatics

Year:

2008

Language:

english

File:

PDF, 1.28 MB

english, 2008

35

Genome wide survey of G protein-coupled receptors inTetraodon nigroviridis

Raghu Prasad Rao Metpally, Ramanathan Sowdhamini

Journal:

BMC Evolutionary Biology

Year:

2005

Language:

english

File:

PDF, 395 KB

english, 2005

36

Cross genome phylogenetic analysis of human andDrosophilaG protein-coupled receptors: application to functional annotation of orphan receptors

Raghu Prasad Rao Metpally, Ramanathan Sowdhamini

Journal:

Year:

2005

Language:

english

File:

PDF, 609 KB

english, 2005

37

Cross genome comparisons of serine proteases in Arabidopsis and rice

Lokesh P Tripathi, R Sowdhamini

Journal:

Year:

2006

Language:

english

File:

PDF, 714 KB

english, 2006

38

Genome-wide survey of prokaryotic serine proteases: Analysis of distribution and domain architectures of five serine protease families in prokaryotes

Lokesh P Tripathi, R Sowdhamini

Journal:

Year:

2008

Language:

english

File:

PDF, 3.30 MB

english, 2008

39

Evolutionary traces decode molecular mechanism behind fast pace of myosin XI

Divya P Syamaladevi, R Sowdhamini

Journal:

BMC Structural Biology

Year:

2011

Language:

english

File:

PDF, 1.11 MB

english, 2011

40

Systematic search for putative new domain families inMycoplasma gallisepticumgenome

Chilamakuri CS Reddy, Sane Sudha Rani, Bernard Offmann, R Sowdhamini

Journal:

BMC Research Notes

Year:

2010

Language:

english

File:

PDF, 4.50 MB

english, 2010

41

Conformations of disulfide bridges in proteins

N. SRINIVASAN, R. SOWDHAMINI, C. RAMAKRISHNAN, P. BALARAM

Journal:

Chemical Biology & Drug Design

Year:

1990

Language:

english

File:

PDF, 585 KB

english, 1990

42

Conformational characteristics of asparaginyl residues in proteins

N. SRINIVASAN, V.S. ANURADHA, C. RAMAKRISHNAN, R. SOWDHAMINI, P. BALARAM

Journal:

Chemical Biology & Drug Design

Year:

1994

Language:

english

File:

PDF, 801 KB

english, 1994

43

Termination of right handed helices in proteins by residues in left handed helical conformations

H.A. Nagarajaram, R. Sowdhamini, C. Ramakrishnan, P. Balaram

Journal:

Year:

1993

Language:

english

File:

PDF, 366 KB

english, 1993

44

Orthogonal ββ motifs in proteins

R. Sowdhamini, N. Srinivasan, C. Ramakrishnan, P. Balaram

Journal:

Journal of Molecular Biology

Year:

1992

Language:

english

File:

PDF, 563 KB

english, 1992

45

A novel meta-cleavage product hydrolase from Flavobacterium sp. ATCC27551

Syed Khajamohiddin, Pakala Suresh Babu, Deviprasanna Chakka, Mike Merrick, Anirban Bhaduri, Ramanathan Sowdhamini, Dayananda Siddavattam

Journal:

Biochemical and Biophysical Research Communications

Year:

2006

Language:

english

File:

PDF, 1.16 MB

english, 2006

46

Nanoscale Organization of Hedgehog Is Essential for Long-Range Signaling

Neha Vyas, Debanjan Goswami, A. Manonmani, Pranav Sharma, H.A. Ranganath, K. VijayRaghavan, L.S. Shashidhara, R. Sowdhamini, Satyajit Mayor

Journal:

Year:

2008

Language:

english

File:

PDF, 2.64 MB

english, 2008

47

Domain architectural census of eukaryotic gene products containing O-protein phosphatases

Anirban Bhaduri, R. Sowdhamini

Journal:

Year:

2006

Language:

english

File:

PDF, 689 KB

english, 2006

48

Enhanced function annotations for Drosophila serine proteases: A case study for systematic annotation of multi-member gene families

Parantu K. Shah, Lokesh P. Tripathi, Lars Juhl Jensen, Murad Gahnim, Christopher Mason, Eileen E. Furlong, Veronica Rodrigues, Kevin P. White, Peer Bork, R. Sowdhamini

Journal:

Year:

2008

Language:

english

File:

PDF, 2.40 MB

english, 2008

49

Prediction of Functional Sites in Proteins Using Conserved Functional Group Analysis

C.Axel Innis, A.Prem Anand, R. Sowdhamini

Journal:

Journal of Molecular Biology

Year:

2004

Language:

english

File:

PDF, 1.33 MB

english, 2004

50

Genome-wide Survey of Prokaryotic O-protein Phosphatases

Anirban Bhaduri, R. Sowdhamini

Journal:

Journal of Molecular Biology

Year:

2005

Language:

english

File:

PDF, 1.17 MB

english, 2005