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Search Articles for "Protein structure prediction"

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Estimating affinities of calcium ions to proteins

Author(s): Stefan Franke | Julia Herfurth | Daniel Hoffmann
An automated stochastic approach to the identification of the protein specificity determinants and functional subfamilies

Author(s): Mazin Pavel | Gelfand Mikhail | Mironov Andrey | Rakhmaninova Aleksandra | Rubinov Anatoly | Russell Robert | Kalinina Olga
Machine Learning Techniques: Approach for Mapping of MHC Class Binding Nonamers

Author(s): Gomase V.S. | Yash Parekh | Subin Koshy | Siddhesh Lakhan
Secondary Structure Prediction of RNA using Machine Learning Method

Author(s): Romasa Qasim | Nishat Kauser | Dr. Tahseen Jilani
The Identification of Functional Non-Synonymous SNP in Human ATP-Binding Cassette (ABC), Subfamily Member 7 Gene: Application of Bioinformatics Tools in Biomedicine

Author(s): Pornlada Nuchnoi | Duangdao Nantakomol | Vasunun Chumchua | Chotiros Plabplueng | Chartchalerm Isarankura-Na-Ayudhya | Virapong Prachayasittikul
Theoretical Investigations on Structure and Function of Human Homologue hABH4 of E.coli ALKB4

Author(s): Shankaracharya | Saibal Das | Dinesh Prasad | Ambarish Sharan Vidyarthi
Scoring function to predict solubility mutagenesis

Author(s): Tian Ye | Deutsch Christopher | Krishnamoorthy Bala
An Insight into Structural and Functional Characteristics of Plasmodium falciparum Farnesyltransferase (PfFT) 3d7: Comparative Modeling and Docking Studies

Author(s): Pradeep Kumar M | Kranthi Raj.K | D. Ramachandran | Pavan Kumar MNS | Radha Vaddavalli | P. Jhansi lakshmi
Prediction of Protein Secondary Structure using Artificial Neural Network

Author(s): MN Vamsi Thalatam | P Venkata Rao | KVSRP Varma | NVR Murty, | Allam Apparao
1,000 structures and more from the MCSG

Author(s): Lee David | de Beer Tjaart | Laskowski Roman | Thornton Janet | Orengo Christine
Improving predicted protein loop structure ranking using a Pareto-optimality consensus method

Author(s): Li Yaohang | Rata Ionel | Chiu See-wing | Jakobsson Eric
Protein structure modelling and evaluation based on a 4-distance description of side-chain interactions

Author(s): Potapov Vladimir | Cohen Mati | Inbar Yuval | Schreiber Gideon
A Consensus Approach for Intrinsic Disorder Analysis for Heat Shock Protein Family

Author(s): B.K. Bhowmick | W. Dawson | P. Majumder | K. Shimzu
A Hybrid Classifier for Protein Secondary Structure Prediction

Author(s): Saad Osman Abdalla Subair | Safaai Deris | Mohd Saberi Mohamad
Improving performance of mammalian microRNA target prediction

Author(s): Liu Hui | Yue Dong | Chen Yidong | Gao Shou-Jiang | Huang Yufei
Modelling biochemical networks with intrinsic time delays: a hybrid semi-parametric approach

Author(s): von Stosch Moritz | Peres Joana | de Azevedo Sebastião | Oliveira Rui
A widespread peroxiredoxin-like domain present in tumor suppression- and progression-implicated proteins

Author(s): Pawłowski Krzysztof | Muszewska Anna | Lenart Anna | Szczepińska Teresa | Godzik Adam | Grynberg Marcin
Spatio-temporal expression of a novel neuron-derived neurotrophic factor (NDNF) in mouse brains during development

Author(s): Kuang Xiu-Li | Zhao Xiao-Mei | Xu Hai-Fang | Shi Yuan-Yuan | Deng Jin-Bo | Sun Guo-Tao
Structure and function predictions of hypothetical proteins in Vibrio Phages

Author(s): Swapnil G. Sanmukh | Waman N. Paunika | Tarun K. Ghosh | Tapan Chakrabarti
CART Assignment of Folding Mechanisms to Homodimers with Known Structures

Author(s): Abishek Suresh | Pattabhiraman Lalitha | Pandjassarame Kangueane
Computer applications for prediction of protein–protein interactions and rational drug design

Author(s): Solène Grosdidier | Max Totrov | Juan Fernández-Recio
IN SILICO MODELLING AND DRUG DESIGN – A REVIEW

Author(s): Gupta Praveen kumar | Agrawal Pushpa | Shivakumar Neeta | Hiremath Suhasini.B
A quality metric for homology modeling: the H-factor

Author(s): di Luccio Eric | Koehl Patrice
Predicting and analyzing DNA-binding domains using a systematic approach to identifying a set of informative physicochemical and biochemical properties

Author(s): Huang Hui-Lin | Lin I-Che | Liou Yi-Fan | Tsai Chia-Ta | Hsu Kai-Ti | Huang Wen-Lin | Ho Shinn-Jang | Ho Shinn-Ying
FPGA accelerator for protein secondary structure prediction based on the GOR algorithm

Author(s): Xia Fei | Dou Yong | Lei Guoqing | Tan Yusong
Incorporating Ab Initio energy into threading approaches for protein structure prediction

Author(s): Shao Mingfu | Wang Sheng | Wang Chao | Yuan Xiongying | Li Shuai | Zheng Weimou | Bu Dongbo
Predicting disease-associated substitution of a single amino acid by analyzing residue interactions

Author(s): Li Yizhou | Wen Zhining | Xiao Jiamin | Yin Hui | Yu Lezheng | Yang Li | Li Menglong
Prediction of the responsiveness to pharmacological chaperones: lysosomal human alpha-galactosidase, a case of study

Author(s): Andreotti Giuseppina | Guarracino Mario | Cammisa Marco | Correra Antonella | Cubellis Maria
Comparative genomic analysis of 1047 completely sequenced cDNAs from an Arabidopsis-related model halophyte, Thellungiella halophila

Author(s): Taji Teruaki | Komatsu Kenji | Katori Taku | Kawasaki Yoshikazu | Sakata Yoichi | Tanaka Shigeo | Kobayashi Masatomo | Toyoda Atsushi | Seki Motoaki | Shinozaki Kazuo
Development of Integrated Protein Analysis Tool

Author(s): Poorna Satyanarayana Boyidi, | Srinivas Kudipudi, | Sridhar GR, | Allam Appa Rao, | Mohan Rao CPVNJ
Protein Secondary Structure Prediction using Pattern Recognition Neural Network

Author(s): P.V. Nageswara Rao | T. Uma Devi | DSVGK Kaladhar | G.R. Sridhar | Allam Appa Rao
Clinical Bioinformatics.

Author(s): Phei Lang Chang
Molecular modeling and in silico characterization of Mycobacterium tuberculosis TlyA: Possible misannotation of this tubercle bacilli-hemolysin

Author(s): Arenas Nelson | Salazar Luz | Soto Carlos | Vizcaíno Carolina | Patarroyo Manuel | Patarroyo Manuel | Gómez Arley
Characterization of a ranavirus inhibitor of the antiviral protein kinase PKR

Author(s): Rothenburg Stefan | Chinchar V Gregory | Dever Thomas
Engineering of the E. coli Outer Membrane Protein FhuA to overcome the Hydrophobic Mismatch in Thick Polymeric Membranes

Author(s): Muhammad Noor | Dworeck Tamara | Fioroni Marco | Schwaneberg Ulrich
Structural analysis of heme proteins: implications for design and prediction

Author(s): Li Ting | Bonkovsky Herbert | Guo Jun-tao
Human Nek6 is a monomeric mostly globular kinase with an unfolded short N-terminal domain

Author(s): Meirelles Gabriela | Silva Júlio | Mendonça Yuri | Ramos Carlos | Torriani Iris | Kobarg Jörg
In-silico Molecular Analysis of Mutated Sequences of HFE1, HFE2, TFR2 and SLC40A1 causing Hemochromatosis Disease

Author(s): Bilal Hussain | Hassan Tariq | Tayyaba Sultana | Shahid Mahboob | Tariq Niaz
Cloning and Sequence Analysis of a Wheat RING Domain Ubiquitin Protein Ligase Gene

Author(s): Zaijun Yang | Zhengsong Peng | Kai Wu | Shuhong Wei | Yonghong Zhou
SAND, a New Protein Family: From Nucleic Acid to Protein Structure and Function Prediction

Author(s): Amanda Cottage | Yvonne J. K. Edwards | Greg Elgar
Ab Initio Protein Structure Prediction UsingPathway Models

Author(s): Xin Yuan | Yu Shao | Christopher Bystroff
The Prediction of Membrane Protein Structure and Genome StructuralAnnotation

Author(s): Pier Luigi Martelli | Piero Fariselli | Gianluca Tasco | Rita Casadio
Protein Structure Prediction Using Support Vector Machine

Author(s): Anil Kumar Mandle | Pranita Jain | Shailendra Kumar Shrivastava
Prediction of hydrophobic regions effectively in transmembrane proteins using digital filter

Author(s): Jayakishan Meher | Mukesh Kumar Raval | Gananath Dash | Pramod Kumar Meher
Rigorous assessment and integration of the sequence and structure based features to predict hot spots

Author(s): Chen Ruoying | Chen Wenjing | Yang Sixiao | Wu Di | Wang Yong | Tian Yingjie | Shi Yong
Quantification of protein group coherence and pathway assignment using functional association

Author(s): Chitale Meghana | Palakodety Shriphani | Kihara Daisuke
ATPsite: sequence-based prediction of ATP-binding residues

Author(s): Chen Ke | Mizianty Marcin | Kurgan Lukasz
Bayesian non-negative factor analysis for reconstructing transcription factor mediated regulatory networks

Author(s): Meng Jia | Zhang Jianqiu (Michelle) | Chen Yidong | Huang Yufei
MASSP3: A System for Predicting Protein Secondary Structure

Author(s): Armano Giuliano | Orro Alessandro | Vargiu Eloisa
Profiles and Majority Voting-Based Ensemble Method for Protein Secondary Structure Prediction

Author(s): Hafida Bouziane | Belhadri Messabih | Abdallah Chouarfia
An Improved Particle Swarm Optimization for Protein Folding Prediction

Author(s): Xin Chen | Mingwei Lv | Lihui Zhao | Xudong Zhang
Prediction of the interaction of HIV-I Integrase and Raltegravir through molecular modeling approach

Author(s): Marudamuthu Balakrishnan1*, Thangaraj Sindhu2, Sundarraj Rajamanikandan2
Cross-species protein sequence and gene structure prediction with fine-tuned Webscipio 2.0 and Scipio

Author(s): Hatje Klas | Keller Oliver | Hammesfahr Björn | Pillmann Holger | Waack Stephan | Kollmar Martin
Homology modeling and structure prediction of thioredoxin (TRX) protein in wheat (Triticum aestivum L.)

Author(s): M. Prabhavathi 1 , K. Ashokkumar 2* , N. Geetha 1 , K.M. Saradha Devi 3
MODELLING OF INFECTIOUS IMMUNOLOGICAL PATHWAY PROTEIN RELATED TO SYSTEMIC LUPUS ERYTHEMATOUS (SLE) ACTING AS DRUG TARGETS

Author(s): G.Shashikanth, James Abraham, Sachidanand Singh*, Atul Kumar, J.Jannet Vennila
Positional effect of phosphorylation sites 266 and 267 in the cytoplasmic domain of the E2 protein of hepatitis C virus 3a genotype: Interferon Resistance analysis via Sequence Alignment

Author(s): Rafique Shazia | Idrees Muhammad | Ilyas Muhammad | Hussain Abrar | Ali Muhammad | Ali Liaqat | Butt Sadia | Afzal Samia | Ur Rehman Irshad | Saleem Sana
PoPMuSiC 2.1: a web server for the estimation of protein stability changes upon mutation and sequence optimality

Author(s): Dehouck Yves | Kwasigroch Jean | Gilis Dimitri | Rooman Marianne
Learning sparse models for a dynamic Bayesian network classifier of protein secondary structure

Author(s): Aydin Zafer | Singh Ajit | Bilmes Jeff | Noble William
StralSV: assessment of sequence variability within similar 3D structures and application to polio RNA-dependent RNA polymerase

Author(s): Zemla Adam | Lang Dorothy | Kostova Tanya | Andino Raul | Ecale Zhou Carol
NCACO-score: An effective main-chain dependent scoring function for structure modeling

Author(s): Tian Liqing | Wu Aiping | Cao Yang | Dong Xiaoxi | Hu Yun | Jiang Taijiao
MimoPro: a more efficient Web-based tool for epitope prediction using phage display libraries

Author(s): Chen Wen | Sun Ping | Lu Yang | Guo William | Huang Yan | Ma Zhi
Determinants of antigenicity and specificity in immune response for protein sequences

Author(s): Wang Yulong | Wu Wenjun | Negre Nicolas | White Kevin | Li Cheng | Shah Parantu
In-silico prediction of disorder content using hybrid sequence representation

Author(s): Mizianty Marcin | Zhang Tuo | Xue Bin | Zhou Yaoqi | Dunker A | Uversky Vladimir | Kurgan Lukasz
Predicting mutually exclusive spliced exons based on exon length, splice site and reading frame conservation, and exon sequence homology

Author(s): Pillmann Holger | Hatje Klas | Odronitz Florian | Hammesfahr Björn | Kollmar Martin
Peptide binding prediction for the human class II MHC allele HLA-DP2: a molecular docking approach

Author(s): Patronov Atanas | Dimitrov Ivan | Flower Darren | Doytchinova Irini
Immunoinformatics prediction of linear epitopes from Taenia solium TSOL18

Author(s): Mirko Zimic | Andres Hazaet Gutierrez | Robert Hugh Gilman | Cesar Lopez | Miguel Quiliano | Wilfredo Evangelista | Armando Gonzales | Hector Hugo Garcia | Patricia Sheen
Structure prediction and functional characterization of secondary metabolite proteins of Ocimum

Author(s): Sudeep Roy | Nidhi Maheshwari | Rashi Chauhan | Naresh Kumar Sen | Ashok Sharma
Annotation of hypothetical proteins orthologous in Pongo abelii and Sus scrofa

Author(s): Singh Jitendra | Ranjana Narula | Shefali Agnihotri | Maneet Singh
Prediction of N-myristoylation modification of proteins by SVM

Author(s): Wei Cao | Kazuya Sumikoshi | Shugo Nakamura | Tohru Terada | Kentaro Shimizu
Comparative modeling and genomics for galactokinase (Gal1p) enzyme

Author(s): Ashwani Sharma | Pushkar Malakar
Structure modeling and inhibitor prediction of NADP oxidoreductase enzyme from Methanobrevibacter smithii

Author(s): Ashwani Sharma | Prem Prashant Chaudhary | Sunil Kumar Sirohi | Jyoti Saxena
Prediction of miRNA targets, affected proteins and their homologs in Glycine max

Author(s): Pramod Katara | Budhayash Gautam | Himani Kuntal | Vinay Sharma
Structure prediction and molecular simulation of gases diffusion pathways in hydrogenase

Author(s): Shanthy Sundaram | Ashutosh Tripathi | Vipul Gupta
A novel strategy of epitope design in Neisseria gonorrhoeae

Author(s): Debmalya Barh | Amarendra Narayan Misra | Anil Kumar | Vasco Azevedo
Isolation, characterization and structural studies of amorpha – 4, 11-diene synthase (ADS3963) from Arte a L. misia annu

Author(s): Pravej Alam | Usha Kiran2 | M. Mobeen Ahmad | Kamaluddin3 | Mather Ali Khan4 | Shalu Jhanwar M. Z. Abdin
Structural prediction and analysis of VIH-related peptides from selected crustacean species

Author(s): G. P. C. Nagaraju | N. Siva Kumari | G. L. V. Prasad | B. Rajitha | M. Meenu | M. Sreenivasa Rao | B. Reddya Naik
sRNATarget: a web server for prediction of bacterial sRNA targets

Author(s): Yuan Cao | Yalin Zhao | Lei Cha | Xiaomin Ying | Ligui Wang | Ningsheng Shao | Wuju Li
New Generation Novel Drugs Designed For Type 2 Diabetes By Insilico Computational Methods which block IRS4

Author(s): Thanigaivelan 1 | Sampoornam Balakrishnan 2 | Karpagam Veerappan 3 | Rasappan Periannan 4 | Shila Samuel*5
HORIBALFRE program: Higher Order Residue Interactions Based ALgorithm for Fold REcognition

Author(s): Pandurangan Sundaramurthy | Raashi Sreenivasan | Khader Shameer | Sunita Gakkhar | Ramanathan Sowdhamini
Identification of potential apicoplast associated therapeutic targets in human and animal pathogen Toxoplasma gondii ME49

Author(s): Sadegh Saremy | Biplab Bhattacharjee* | Mahdi Eskandarian Boroujeni | Jhinuk Chatterjee | Viditi Mittal

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