Modeling protein quaternary structure of homo- and hetero-oligomers beyond binary interactions by homology
Published 2017 View Full Article
- Home
- Publications
- Publication Search
- Publication Details
Title
Modeling protein quaternary structure of homo- and hetero-oligomers beyond binary interactions by homology
Authors
Keywords
-
Journal
Scientific Reports
Volume 7, Issue 1, Pages -
Publisher
Springer Nature
Online
2017-08-30
DOI
10.1038/s41598-017-09654-8
References
Ask authors/readers for more resources
Related references
Note: Only part of the references are listed.- DockStar: a novel ILP-based integrative method for structural modeling of multimolecular protein complexes
- (2015) Naama Amir et al. BIOINFORMATICS
- Evolutionary profiles improve protein–protein interaction prediction from sequence
- (2015) Tobias Hamp et al. BIOINFORMATICS
- MetaPSICOV: combining coevolution methods for accurate prediction of contacts and long range hydrogen bonding in proteins
- (2014) David T. Jones et al. BIOINFORMATICS
- Use B-factor related features for accurate classification between protein binding interfaces and crystal packing contacts
- (2014) Qian Liu et al. BMC BIOINFORMATICS
- PRISM: a web server and repository for prediction of protein–protein interactions and modeling their 3D complexes
- (2014) Alper Baspinar et al. NUCLEIC ACIDS RESEARCH
- SWISS-MODEL: modelling protein tertiary and quaternary structure using evolutionary information
- (2014) Marco Biasini et al. NUCLEIC ACIDS RESEARCH
- Robust and accurate prediction of residue–residue interactions across protein interfaces using evolutionary information
- (2014) Sergey Ovchinnikov et al. eLife
- Sequence co-evolution gives 3D contacts and structures of protein complexes
- (2014) Thomas A Hopf et al. eLife
- OpenStructure: an integrated software framework for computational structural biology
- (2013) M. Biasini et al. ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY
- Protein Complexes Are under Evolutionary Selection to Assemble via Ordered Pathways
- (2013) Joseph A. Marsh et al. CELL
- Human Enterovirus 71 Uncoating Captured at Atomic Resolution
- (2013) K. Lyu et al. JOURNAL OF VIROLOGY
- Emerging methods in protein co-evolution
- (2013) David de Juan et al. NATURE REVIEWS GENETICS
- The MIntAct project—IntAct as a common curation platform for 11 molecular interaction databases
- (2013) Sandra Orchard et al. NUCLEIC ACIDS RESEARCH
- 3did: a catalog of domain-based interactions of known three-dimensional structure
- (2013) Roberto Mosca et al. NUCLEIC ACIDS RESEARCH
- Assessing the utility of coevolution-based residue-residue contact predictions in a sequence- and structure-rich era
- (2013) H. Kamisetty et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Critical assessment of methods of protein structure prediction (CASP) - round x
- (2013) John Moult et al. PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
- The Protein Model Portal—a comprehensive resource for protein structure and model information
- (2013) Juergen Haas et al. Database-The Journal of Biological Databases and Curation
- Protein interface classification by evolutionary analysis
- (2012) Jose M Duarte et al. BMC BIOINFORMATICS
- The Hexameric Helicase DnaB Adopts a Nonplanar Conformation during Translocation
- (2012) Ornchuma Itsathitphaisarn et al. CELL
- Fructose Degradation in the Haloarchaeon Haloferax volcanii Involves a Bacterial Type Phosphoenolpyruvate-Dependent Phosphotransferase System, Fructose-1-Phosphate Kinase, and Class II Fructose-1,6-Bisphosphate Aldolase
- (2012) A. Pickl et al. JOURNAL OF BACTERIOLOGY
- OpenMM 4: A Reusable, Extensible, Hardware Independent Library for High Performance Molecular Simulation
- (2012) Peter Eastman et al. Journal of Chemical Theory and Computation
- Interactome3D: adding structural details to protein networks
- (2012) Roberto Mosca et al. NATURE METHODS
- PrePPI: a structure-informed database of protein–protein interactions
- (2012) Qiangfeng Cliff Zhang et al. NUCLEIC ACIDS RESEARCH
- STRING v9.1: protein-protein interaction networks, with increased coverage and integration
- (2012) Andrea Franceschini et al. NUCLEIC ACIDS RESEARCH
- Evolution of oligomeric state through geometric coupling of protein interfaces
- (2012) T. Perica et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Templates are available to model nearly all complexes of structurally characterized proteins
- (2012) P. J. Kundrotas et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Near-atomic resolution structural model of the yeast 26S proteasome
- (2012) F. Beck et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Multi-LZerD: Multiple protein docking for asymmetric complexes
- (2012) Juan Esquivel-Rodríguez et al. PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
- Putting the Pieces Together: Integrative Modeling Platform Software for Structure Determination of Macromolecular Assemblies
- (2012) Daniel Russel et al. PLOS BIOLOGY
- HHblits: lightning-fast iterative protein sequence searching by HMM-HMM alignment
- (2011) Michael Remmert et al. NATURE METHODS
- DOMMINO: a database of macromolecular interactions
- (2011) X. Kuang et al. NUCLEIC ACIDS RESEARCH
- MINT, the molecular interaction database: 2012 update
- (2011) Luana Licata et al. NUCLEIC ACIDS RESEARCH
- New benchmark metrics for protein-protein docking methods
- (2011) Mu Gao et al. PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
- Assessment of template based protein structure predictions in CASP9
- (2011) Valerio Mariani et al. PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
- A Simple Definition of Structural Regions in Proteins and Its Use in Analyzing Interface Evolution
- (2010) Emmanuel D. Levy JOURNAL OF MOLECULAR BIOLOGY
- Protein–protein docking tested in blind predictions: the CAPRI experiment
- (2010) Joël Janin Molecular BioSystems
- The HADDOCK web server for data-driven biomolecular docking
- (2010) Sjoerd J de Vries et al. Nature Protocols
- The protein common interface database (ProtCID)--a comprehensive database of interactions of homologous proteins in multiple crystal forms
- (2010) Q. Xu et al. NUCLEIC ACIDS RESEARCH
- Structural space of protein-protein interfaces is degenerate, close to complete, and highly connected
- (2010) M. Gao et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Protein interface conservation across structure space
- (2010) Q. C. Zhang et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Docking and scoring protein interactions: CAPRI 2009
- (2010) Marc F. Lensink et al. PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
- MM-align: a quick algorithm for aligning multiple-chain protein complex structures using iterative dynamic programming
- (2009) Srayanta Mukherjee et al. NUCLEIC ACIDS RESEARCH
- Improved prediction of protein side-chain conformations with SCWRL4
- (2009) Georgii G. Krivov et al. PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
- DiMoVo: a Voronoi tessellation-based method for discriminating crystallographic and biological protein-protein interactions
- (2008) J. Bernauer et al. BIOINFORMATICS
- Statistical Analysis of Interface Similarity in Crystals of Homologous Proteins
- (2008) Qifang Xu et al. JOURNAL OF MOLECULAR BIOLOGY
- Assembly reflects evolution of protein complexes
- (2008) Emmanuel D. Levy et al. NATURE
Discover Peeref hubs
Discuss science. Find collaborators. Network.
Join a conversationAsk a Question. Answer a Question.
Quickly pose questions to the entire community. Debate answers and get clarity on the most important issues facing researchers.
Get Started