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IMAGIC specifications

Information


Unique identifier OMICS_26528
Name IMAGIC
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


No version available

Maintainers


  • person_outline Marin van Heel
  • person_outline IMAGIC Team

Publications for IMAGIC

IMAGIC citations

 (219)
library_books

Structure and mechanism of the two component α helical pore forming toxin YaxAB

2018
Nat Commun
PMCID: 5935710
PMID: 29728606
DOI: 10.1038/s41467-018-04139-2

[…] ctors (Tietz Camera Systems). Automated particle picking and 2D classification were performed using Xmipp 3.0. Based on the 2D averages, 14,600 particles were selected and imported into RELION. Using IMAGIC the initial model for the negative stain 3D reconstruction was generated from three 2D averages assuming either 10-fold, 11-fold, or 12-fold rotational symmetry. Individual 3D classification ru […]

library_books

Robo1 Forms a Compact Dimer of Dimers Assembly

2018
PMCID: 5807052
PMID: 29307485
DOI: 10.1016/j.str.2017.12.003

[…] ubframes of 80x80 pixels that were CTF-corrected with CTFFIND3 () and Bsoft (), and low-path filtered at 15 Å. This data set was subjected to multivariate statistical analysis and classification with IMAGIC-5 (), which led to a removal of ∼11% of the images. The resulting 2D class averages suggested a C2 or D2 particle symmetry (B). Three different sets of 20 to 30 best class averages were extract […]

library_books

Oligomeric states in sodium ion dependent regulation of cyanobacterial histidine kinase 2

2017
PMCID: 5904244
PMID: 29290041
DOI: 10.1007/s00709-017-1196-7

[…] rent sizes and orientations were observed. A data set of 13,341 individual protein complex images was built and subjected to reference-free alignment and multivariate statistical classification using Imagic-5 software. The spread of oligomeric states, i.e. structural heterogeneity, may be appreciated by relaxing the classification constraints so that the TEM-derived data set is represented as 600 […]

call_split

Reconstitution of the complete pathway of ITS2 processing at the pre ribosome

2017
Nat Commun
PMCID: 5702609
PMID: 29176610
DOI: 10.1038/s41467-017-01786-9
call_split See protocol

[…] -FTpA + Mtr4 + ATP sample, and 3870 particles for the TAPF-Nop53 + Rrp6-FTpA + Mtr4 K176A + ATP sample were selected using the auto-boxing feature of EMAN2. Image processing was carried out using the IMAGIC-4D package. Particles were band-pass filtered and normalised in their grey value distribution, and mass-centred. Two-dimensional alignment, classification and iterative refinement of class aver […]

call_split

At home at least: the taxonomic position of some north African Xerocrassa species (Pulmonata, )

2017
Zookeys
PMCID: 5674202
PMID: 29134034
DOI: 10.3897/zookeys.712.13066
call_split See protocol

[…] shells, genital situs, and details of the genital organs were photographed with a LEICA DFC 425 camera combined with a LEICA M205 C. The multifocal images were processed by using an imaging software (Imagic Switzerland). […]

call_split

Time course, negative stain electron microscopy–based analysis for investigating protein–protein interactions at the single molecule level

2017
PMCID: 5702678
PMID: 28972148
DOI: 10.1074/jbc.M117.808352
call_split See protocol

[…] .4 was used to cross-corroborate the 2D classification results for a subset of the data. Briefly, the particle stacks for the 15-s and 24-h time points (n = 3 for each time point) were converted from IMAGIC to RELION-formatted MRC stacks and subjected to RELION 2D classification (). […]

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IMAGIC institution(s)
Faculty of Natural Sciences, Division of Molecular Biosciences, Imperial College London, London, UK; Division of Internal Medicine, Inflammation Research, University Hospital Zürich, Switzerland; Image Science Software GmbH, Berlin, Germany
IMAGIC funding source(s)
Supported by the EU/NOE (grant No. NOE-PE0748), by the Dutch Ministry of Economic Affairs (Cyttron project No. BIBCR_PX0948) and by the BBSRC (grant No. BB/G015236/1).

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