VMD-L Mailing List
From: Fotis Baltoumas (fbaltoumas_at_biol.uoa.gr)
Date: Fri Feb 27 2015 - 02:41:47 CST
- Next message: anu chandra: "Nvidia GPU driver not detected with VMD"
- Previous message: Arijit Ghosh: "Problem creating tetramer from a monomer"
- In reply to: Arijit Ghosh: "Problem creating tetramer from a monomer"
- Messages sorted by: [ date ] [ thread ] [ subject ] [ author ] [ attachment ]
Hello,
Actually, the first matrix in the REMARK 350 field (BIOMOLECULE 1) always
corresponds to the asymmetric unit itself. Notice how, in the matrix, no
rotation and translation changes are made (multiplying by 1 all x,y,z
values and adding 0).
Look for subsequent matrices (BIOMOLECULE 2, 3 etc) to use for PISA
assigned biological assemblies, or check the symmetry matrices in the
REMARK 290 lines, or the crystallographic information in CRYST1 to
generate symmetry mates.
Fotis
> Hi,
>
> My PDB file says this in REMARK 350:
>
> REMARK 350 BIOMOLECULE: 1
>
> REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TETRAMERIC
>
> REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, A, C, D
>
> REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000
>
> REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000
>
> REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000
>
> Should I apply this matrix only to all the four subunits? That doesn't
> help
> anyway.
>
> Please help.
>
> Regards,
>
> Arijit Ghosh
>
> --
> *Arijit Ghosh*
> *4th Year Integrated MSc.*
> *School of Biological Sciences*
> *National Institute of Science Education and Research*
> *Bhubaneswar, Orissa-751005, India*
> *Alternate electronic contact: arijitghosh2009_at_gmail.com
> <arijitghosh2009_at_gmail.com>*
> *Handheld: +91-986-171-9393*
>
- Next message: anu chandra: "Nvidia GPU driver not detected with VMD"
- Previous message: Arijit Ghosh: "Problem creating tetramer from a monomer"
- In reply to: Arijit Ghosh: "Problem creating tetramer from a monomer"
- Messages sorted by: [ date ] [ thread ] [ subject ] [ author ] [ attachment ]