Save Scene File in PDB in YASARA

Hi Everyone!

I have a minimized protein from YASARA in the .sce file does. I need to save this file in PDB format. Whenever I upload this .sce file in YASARA it doesn't show a single molecule and I couldn't save this file in PDB format. Can anyone help me with this?

Thanks!

yasara scene pdb

• 902 views • link

updated 3.4 years ago by Ram

• written 4.2 years ago by misbahnaseem95 •

0 answers

No answers yet.

More posts like this

Ligplot plus is not working properly. Help...
written 4.6 years ago by ElfoHelpo •

Hi everyone. I am new here and also newbie in docking study (my major is quite different) Anyone can help me with Ligplot troubleshooting? When …
About peptide design
written 5.5 years ago by fatema19.bge •

Hi, I want to do dock between two protein with HADDOCK2.4 server. when I upload two pdb file the second molecule shows some error with …
Molecular docking, Autodock vina
written 9.7 years ago by krishavc92 •

how to save pdb file from autodock vina docking result I am visualizing autodock vina results using PyMOL: I open out.pdbqt (containing 9 docked conformations …
How make download in PDB file (Text)
written 10.0 years ago by Macbeth •

Good night friends. Save-me! I need make download for model building in PDB files (Text), but the PDB chance interface and format of downloads. The …
Ligand minimization Using prodrg
written 11.3 years ago by pinke •

I tried to optimize ligands using prodrg. after the completion of energy minimization, I chose DRGFIN.PDB file of ligand, as its having all hydrogens added. …
Yasara Help- Saving Energy Minized Model As Pdb File
written 13.1 years ago by sureshbioinf •

Hi all, For my homology model protein, I have done energy minimization through YASARA energy minimization server (<a href='http://www.yasara.org/minimizationserver.htm'>http://www.yasara.org/minimizationserver.htm</a>). I got energy minimized model as …
Docking After Energy Minimization - Receptor File Too Large
written 13.6 years ago by srikrish.sree •

I created a single amino acid change in a protein and energy minimized in gromacs using CG algorithm. After converting the file from .gro to …
How To Make Multiple Fasta-->Pdb Conversions For Short Peptides (4 Or 5 Aminoacid Long)
written 14.4 years ago by Onat •

Hi, I would like to perform a virtual screening for tetramers on a protein of interest. For this purpose, I randomly generate thousands of different …
Residue Contact Map - Program And/Or Database
written 14.9 years ago by Lyco

Can anybody recommend a good program/server for identifying contact residues from a given PDB-formatted file (protein-protein or protein-ligand contacts). No fancy graphics required, just a …
Regarding Argus Lab Error
written 16.1 years ago by Ranjita •

In Autodock While loading ligand which is in pdb/sdf format it shows the error: cannot find atomic no. for atoms(5) (o2) couldn't construct molecule. Please …