ABangle statistics

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ABangle specifications

Information


Unique identifier OMICS_04188
Name ABangle
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Charlotte Deane <>

Information


Unique identifier OMICS_04188
Name ABangle
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Charlotte Deane <>

Publication for ABangle

ABangle in publications

 (5)
PMCID: 5727015
PMID: 29276518
DOI: 10.3389/fimmu.2017.01753

[…] the second step is determining the vh/vl orientation, which can be achieved by copying the orientation angle from structures with high fv sequence identity using vh/vl orientation methods such as abangle (), analytical estimation of the angle using energy functions (), tailored protein–protein docking () or structure-trained machine learning (). once the vh/vl orientation is set, […]

PMCID: 5269676
PMID: 28128368
DOI: 10.1038/srep41306

[…] between cdrh3, l2 loops and blade 4 of keap1 from the neighbouring crystal unit (). this unexpected vh/vl orientation change was also characterised using the structural descriptors computed by abangle, and the most notable difference is observed in the vh/vl torsional angle with a 10° deviation between the crystal and modelled structures, and detectable difference in terms of bend angles […]

PMCID: 4968113
PMID: 27210805
DOI: 10.1080/19420862.2016.1190060

[…] calculates the 6 vh:vl orientation parameters that describe the vh:vl relationship according to dunbar and co-workers using a script downloaded from the website (http://opig.stats.ox.ac.uk/webapps/abangle). the six parameters include 5 angles, hl, h1, h2, l1 and l2, and a distance, dc. these parameters are derived by first defining 2 planes, one for each domain, based on core residues […]

PMCID: 4505886
PMID: 26185983
DOI: 10.1371/journal.pcbi.1004244

[…] differences of similar systems [–], and since recently, the automated modeling approach tcrep 3d is available to predict arbitrary tcr:pmhci complex structures []. recently knapp et al. applied the abangle methodology to a broad range of md simulations of the lc13 tcr bound to 172 different ligands [,]. however, none of the previous modeling approaches explicitly includes any features […]

PMCID: 4168974
PMID: 25233457
DOI: 10.1371/journal.pcbi.1003852

[…] are fully available without restriction. relevant data are within the paper and its supporting information files. variable domain orientation angles may be found at opig.stats.ox.ac.uk/webapps/abangle., the immunoglobulin fold provides the scaffold for many different proteins with diverse a set of functions . the immunoglobulin domain consists of two β sheets arranged in a sandwich motif. […]


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ABangle institution(s)
Department of Statistics, University of Oxford, Oxford, UK
ABangle funding source(s)
This work was supported by the Engineering and Physical Sciences Research Council, Roche Diagnostics GmbH and UCB Pharma.

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