Software for viewing the protein 3D structure

[Chen, Jin Lian]

Anybody know how to view a protein 3D structure with amino acid substitution?

NCBI provide the Cn3D software  to view the wt protein 3d structure,
but I need to view the 3D structure with different amino acid mutation.

Thanks
Jin-Lian Chen

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[anmar alrawas]

hello...  you can use YASARA software .... it is nice and easy one --- On Tue, 10/11/11, Chen, Jin Lian <che...@ccf.org> wrote:

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[Wimal Ubhayasekera]

you can use pymol, swisspdb viewer, coot, etc

-----------------------------

Wimal Ubhayasekera

Department of Medical Biochemistry and Microbiology (IMBIM), Uppsala University,

Box 582, Biomedical Center

SE-751 23

Uppsala, Sweden

Mobile: +46-70 0171167

wi...@xray.bmc.uu.se

[Juan Pedro Luna-Arias]

Why don't you try NOC program ?

 

Dr. Juan Pedro Luna-Arias
Departamento de Biología Celular
Cinvestav-IPN
Av. IPN 2508 Col. Zacatenco
07360 México D.F.
Tel 52-55-57473800 ext 5512 y 5567

---

From: "Chen, Jin Lian" <che...@ccf.org>

To: predictprot...@googlegroups.com
Sent: Tuesday, October 11, 2011 8:32 AM

Subject: [predictprotein-science:616] Software for viewing the protein 3D structure

[Jim Procter]

Hi there...

Swisspdb viewer allows point mutation modelling, so you might try that.

J.

--

[Thiru]

Dsviwerepro from Accelrys, the best part is free and more sophisticated 

Best,

Thiru

[David Ormeño]

PyMol. VMD and VegaZZ.
Although VMD is is more an analytical than a visual tool

--
David Ormeño R.
---------------------------------------------------------------

[avijit patra]

protein 3d structure are view by discovery studio. 

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PredictProtein is an Internet service for sequence analysis and the prediction of protein structure and function from sequence.
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--

Avijit Patra.
Research Scholar (Biotechnology) 
Central Inland Fisheries Research Institute

Indian Council of Agricultural Research

Barrackpore, Kolkata-700 120

West Bengal, INDIA

FAX:   033-25920388

Phone: 033-25921190

[Betül Bitir]

Hi,

you can use swiss pdb viewer.

Best,

Betul

2011/10/12 Wimal Ubhayasekera <wi...@xray.bmc.uu.se>

--
Betül Bitir

İstanbul University

Molecular Biology and Genetics

[abbasali amini]

Hi

DS Visualizer is good too.

Best Regards,
Abbas Ali Amini

[Chen, Jin Lian]

Hi,
 Thank you for the info.
I have downloaded the free version of discovery studio.
It is beautiful in the protein 3D structure presenting.
I checked the webnar for using this software to do the single point mutation,
But the free version seems lost quite a  lot of function.
I still could not do as the webnar demonstrated.
Could you help me to get some tutorial material to start with?

Thanks
Jin-Lian