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Protein Structure Prediction

Overview of attention for book
Cover of 'Protein Structure Prediction'

Table of Contents

  1. Altmetric Badge
    Book Overview
  2. Altmetric Badge
    Chapter 1 Protein Structure Modeling with MODELLER
  3. Altmetric Badge
    Chapter 2 Protein Structure Prediction
  4. Altmetric Badge
    Chapter 3 The MULTICOM Protein Tertiary Structure Prediction System
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    Chapter 4 Modeling of Protein Side-Chain Conformations with RASP
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    Chapter 5 Direct Coupling Analysis for Protein Contact Prediction
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    Chapter 6 ITScorePro: An Efficient Scoring Program for Evaluating the Energy Scores of Protein Structures for Structure Prediction
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    Chapter 7 Assessing the Quality of Modelled 3D Protein Structures Using the ModFOLD Server
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    Chapter 8 3D-SURFER 2.0: Web Platform for Real-Time Search and Characterization of Protein Surfaces.
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    Chapter 9 SPOT-Seq-RNA: Predicting Protein–RNA Complex Structure and RNA-Binding Function by Fold Recognition and Binding Affinity Prediction
  11. Altmetric Badge
    Chapter 10 Protein Structure Prediction
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    Chapter 11 Prediction of Intrinsic Disorder in Proteins Using MFDp2
  13. Altmetric Badge
    Chapter 12 Modeling Protein–Protein Complexes Using the HADDOCK Webserver “Modeling Protein Complexes with HADDOCK”
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    Chapter 13 Predicting the Structure of Protein–Protein Complexes Using the SwarmDock Web Server
  15. Altmetric Badge
    Chapter 14 DOCK/PIERR: Web Server for Structure Prediction of Protein–Protein Complexes
  16. Altmetric Badge
    Chapter 15 Pairwise and Multimeric Protein-Protein Docking Using the LZerD Program Suite.
  17. Altmetric Badge
    Chapter 16 Protocols for Efficient Simulations of Long-Time Protein Dynamics Using Coarse-Grained CABS Model
Attention for Chapter 15: Pairwise and Multimeric Protein-Protein Docking Using the LZerD Program Suite.
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  • Above-average Attention Score compared to outputs of the same age (55th percentile)
  • High Attention Score compared to outputs of the same age and source (85th percentile)

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Chapter title
Pairwise and Multimeric Protein-Protein Docking Using the LZerD Program Suite.
Chapter number 15
Book title
Protein Structure Prediction
Published in
Methods in molecular biology, March 2014
DOI 10.1007/978-1-4939-0366-5_15
Pubmed ID
Book ISBNs
978-1-4939-0365-8, 978-1-4939-0366-5
Authors

Esquivel-Rodriguez J, Filos-Gonzalez V, Li B, Kihara D, Juan Esquivel-Rodriguez, Vianney Filos-Gonzalez, Bin Li, Daisuke Kihara

Abstract

Physical interactions between proteins are involved in many important cell functions and are key for understanding the mechanisms of biological processes. Protein-protein docking programs provide a means to computationally construct three-dimensional (3D) models of a protein complex structure from its component protein units. A protein docking program takes two or more individual 3D protein structures, which are either experimentally solved or computationally modeled, and outputs a series of probable complex structures.In this chapter we present the LZerD protein docking suite, which includes programs for pairwise docking, LZerD and PI-LZerD, and multiple protein docking, Multi-LZerD, developed by our group. PI-LZerD takes protein docking interface residues as additional input information. The methods use a combination of shape-based protein surface features as well as physics-based scoring terms to generate protein complex models. The programs are provided as stand-alone programs and can be downloaded from http://kiharalab.org/proteindocking.

Twitter Demographics

The data shown below were collected from the profiles of 2 tweeters who shared this research output. Click here to find out more about how the information was compiled.

Mendeley readers

The data shown below were compiled from readership statistics for 13 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
United States 1 8%
Unknown 12 92%

Demographic breakdown

Readers by professional status Count As %
Researcher 3 23%
Student > Ph. D. Student 3 23%
Professor 2 15%
Other 2 15%
Student > Doctoral Student 1 8%
Other 2 15%
Readers by discipline Count As %
Biochemistry, Genetics and Molecular Biology 6 46%
Agricultural and Biological Sciences 4 31%
Medicine and Dentistry 1 8%
Chemistry 1 8%
Engineering 1 8%
Other 0 0%

Attention Score in Context

This research output has an Altmetric Attention Score of 2. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 03 April 2014.
All research outputs
#2,550,097
of 6,230,503 outputs
Outputs from Methods in molecular biology
#973
of 4,615 outputs
Outputs of similar age
#55,705
of 133,290 outputs
Outputs of similar age from Methods in molecular biology
#16
of 124 outputs
Altmetric has tracked 6,230,503 research outputs across all sources so far. This one has received more attention than most of these and is in the 56th percentile.
So far Altmetric has tracked 4,615 research outputs from this source. They receive a mean Attention Score of 1.5. This one has done well, scoring higher than 76% of its peers.
Older research outputs will score higher simply because they've had more time to accumulate mentions. To account for age we can compare this Altmetric Attention Score to the 133,290 tracked outputs that were published within six weeks on either side of this one in any source. This one has gotten more attention than average, scoring higher than 55% of its contemporaries.
We're also able to compare this research output to 124 others from the same source and published within six weeks on either side of this one. This one has done well, scoring higher than 85% of its contemporaries.