[PyMOL] More on A Few Good MacPyMOL OS X Beta Testers

Sorry, a bit of confusion seems to have arisen over the MacPyMOL beta test. What is MacPyMOL? See below. Subject: [PyMOL] A Few Good Mac PyMOL OS X Beta Testers Mac Users: I have something new in the works for OS X/Aqua and need some beta testers for the next couple of months.

RE: [PyMOL] Object orientation matrices

Laurence, Sort of. Right now PyMOL doesn't fully support translations of individual objects by independent matrices, but you can translate their representations by a matrix for animation purposes using translate and rotate with the object argument. However, you can cleanly

[PyMOL] cannot 'fit' a particular pdb file

Hi, I have loaded 3 pdb files of homologous forms of an enzyme. The 'fit' command works for superimposing/aligning two of them, but the third file always gives a No Atoms Selected error. Is there something in the pdb file I can fix? As a general rule now, I Hide Everything at first and then

RE: [PyMOL] cannot 'fit' a particular pdb file

Michael, Try align... Fit only works when all of the atom identifiers match. Align matches atoms through a 1D alignment and then performs some optimization: align TtHisRSca, EcHRSadeca align SaHRSca, EcHRSadeca Cheers, Warren --

[PyMOL] Clarification on A Few Good MacPyMOL OS X Beta Testers

Sorry, a bit of confusion seems to have arisen over the MacPyMOL beta test. What is MacPyMOL? See below. Subject: [PyMOL] A Few Good Mac PyMOL OS X Beta Testers Mac Users: I have something new in the works for OS X/Aqua and need some beta testers for the next couple of months.

[PyMOL] Viewing homotetramers with PyMol

Hi everyone, I am quite new to PyMol and structural biology as well, since I am still a student. I installed PyMol via Fink on my iBook running Panther 10.3.1. I want to view the homotetramer of the TTR-protein. I got it from the PDB (PDB-id: 1f41). The asymmetric unit is a dimer. But the

RE: [PyMOL] Viewing homotetramers with PyMol

Rene, The problem is that each biological unit copy in the PDB is handled as a separate molecular state (i.e. a movie), which then become distinct states in PyMOL. Hit play to see what I mean. To solve this, the most recent versions of PyMOL can split multi-state objects into multiple

RE: [PyMOL] residues deviate from protein secondary catoon representation

(becoming an FAQ) For starters, set cartoon_smooth_loops, off set cartoon_flat_sheets, off If that doesn't meet your needs, then you'll need to split your object into separate objects to get the desired effect of mixing smoothed and non-smoothed cartoons. Thankfully, the next version will