SREFLEX specifications

Information


Unique identifier OMICS_29097
Name SREFLEX
Software type Application/Script
Interface Graphical user interface
Restrictions to use Academic or non-commercial use
Input data Some SAS experimental data files in ascii format containing 3 columns: (1) experimental scattering vector, (2) experimental intensity and (3) experimental errors.
Input format DAT
Computer skills Medium
Stability Stable
Requirements
ATSAS
Registration required Yes
Maintained Yes

Versioning


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Maintainers


  • person_outline Dmitri I. Svergun <>
  • person_outline Daniel Franke <>

Information


Unique identifier OMICS_29097
Name SREFLEX
Interface Web user interface
Restrictions to use None
Computer skills Basic
Registration required Yes
Maintained Yes

Maintainers


  • person_outline Dmitri I. Svergun <>
  • person_outline Daniel Franke <>

Publications for SREFLEX

SREFLEX in publications

 (9)
PMCID: 5951799
PMID: 29760474
DOI: 10.1038/s41467-018-04300-x

[…] profile calculated from the crystal structure (6en3). analyses of potential conformational transitions were conducted using an elastic network procedure implemented in the program sreflex. the better fit obtained using sreflex and the normalized kratky plot suggest the protein show some flexibility in solution. the maximum dimensions (dmax), the interatomic distance […]

PMCID: 5764959
PMID: 29323112
DOI: 10.1038/s41467-017-02637-3

[…] model building was carried out using dammin or gasbor. analyses of potential conformational transitions in the hk domain were conducted using an elastic network procedure implemented in the program sreflex and homology models for the hk transducing domain as starting points. modeling of full-length ks-amt5 was done by several approaches. in the first, the program memprot was used to build […]

PMCID: 5814804
PMID: 29309633
DOI: 10.1093/nar/gkx1300

[…] from the saxs data using datporod, and the molecular mass was determined using datmow () and saxs-mow (http://www.if.sc.usp.br/∼saxs/). normal mode analysis (nma) was performed using the program sreflex () and conformational sampling and multistate modeling were executed in multifoxs (). ab initio envelop reconstruction was performed using the programs dammin () and damaver () in the atsas […]

PMCID: 5947694
PMID: 29372909
DOI: 10.1107/S2053230X17017848

[…] was determined by comparison of the forward scattering intensity, i(0), with a fresh monomeric bovine serum albumin standard. models of mmgadl1 were built with gasbor (svergun et al., 2001) and sreflex (panjkovich & svergun, 2016), using data extrapolated to zero concentration. theoretical scattering curves from crystal structure coordinates were calculated with crysol (svergun et al., […]

PMCID: 5727386
PMID: 29235475
DOI: 10.1038/s41467-017-02313-6

[…] with the ph crystal structure with the deleted β5–β6-insertion was unsatisfactory (fig. ). we therefore made a homology model for the full-length ph domain and fitted it with the saxs data using sreflex. the resulting model indicated that residues 770–829 of the bcr-abl ph domain protrude away from the core of the globular ph domain and add a significant volume to the overall shape […]


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SREFLEX institution(s)
European Molecular Biology Laboratory, Hamburg Outstation, Hamburg, Germany; Federal Scientific Research Centre ‘Crystallography and Photonics’ of Russian Academy of Sciences, Moscow, Russia; A. N. Frumkin Institute of Physical Chemistry and Electrochemistry RAS, Moscow, Russia; N.N. Semenov Institute of Chemical Physics of Russian Academy of Sciences, Moscow, Russia; National Research Centre ‘Kurchatov Institute’, Moscow, Russia; Department of Chemical Engineering, Stanford University, Stanford, CA, USA
SREFLEX funding source(s)
Supported by FP7 Research Infrastructures (award Nos. Biostruct-X [283570], IDPbyNMR [264257], iNEXT [653706]); BMBF (award Nos. BIOSCAT [05K12YE1], TT-SAS [05K16YEA]); HFSP (award No. RGP0017/2012); DFG/GACR (award No. 9/5-1).

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