Bax Group SAXS AXES Server

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From the Bax Group at the National Institutes of Health ...

SAXS AXES Server, Version 7f
Fitting Small-Angle X-Ray Scattering Curves to
the Atomic Coordinates for Proteins/RNA/DNA.

AXES: Analysis of X-ray Scattering in Explicit Solvent

Contacts:

Alex Grishaev	AlexanderG@intra.niddk.nih.gov
Ad Bax	bax@nih.gov

[ About Axes ]

PDB File for SAXS Prediction

PDB File: The file containing the macromolecular coordinates in PDB format, 20000 atoms max. Both ATOM and HETATM entries will be processed. In the absence of experimental data, AXES will simply return the predicted scattering curve only. Example: saxs.pdb

Optional Experimental Sample and Buffer Scattering Data for Fitting

SAXS Buffer: The optional input file containing the SAXS buffer scattering curve. The file should contain three columns: q, Intensity (Arbitrary units), and the Uncertainty in Intensity. The units for q can be inverse-Angstroms or inverse-nm, as selected below. This file is optional, but recommended for best results with the fitting options. Example: saxs_buf.txt

SAXS Sample: The optional input file containing the SAXS sample scattering curve. The file format and q values within it should be the same as for the buffer scattering curve above. This file is optional, but required for the fitting options. Example: saxs_sam.txt

q Units: Units for the q values in the experimental sample and buffer files.

Inverse-Angstroms

Inverse-nm

q Definition: Convention for defining the q values used in the sample and buffer files.

q Convention: 4psin(theta)/lambda

s Convention: 2sin(theta)/lambda

[ Show Advanced Options ]

Note: AXES calculations will generally be completed within several minutes. However, when the server is under heavy use, calculations may take several hours or more to complete.

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last update: Apr 2 2012