Dear Laura,

maybe you can have a look at your pdb file by using a text editor to check if the pdb contains some unusual portion (like missing residues). As far I know Chimera tries to reconstruct missing residues but sometimes there could be something wrong.

Best regards

Marco

Goodmorning, 

I'm writing because I'm trying to open my pdb file but this error came out "Attempt to form loop bond". 

I tried to have a look at the _init_.py file in the line 1109 and I found this message: 

molList = pdbio.readPDBfile(file, errOut=errLog)

I can't understand this message and I don't know how to eventually modify my pdb file in order to be able to open it. 

Thanks in advance for helping me, 

Laura Rotilio

--

Laura Rotilio, Ph.D. Student

Structural Biology Lab., Prof. A. Mattevi

Dept. Biology and Biotechnology "L. Spallanzani"

University of Pavia

Via Ferrata 9, 27100 Pavia

Italy

Tel. +39-0382-985525/985534

Fax +39-0382-528496

Web www.unipv.it/biocry

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-- 
Dr.Marco Sette, Ph.D.
Department of Chemical Sciences and Technology
University of Rome, "Tor Vergata"
via della Ricerca Scientifica, 00133, Rome, Italy
e-mail: sette@uniroma2.it
e-mail: m77it@yahoo.it
Tel.: +39-0672594424
Fax: +39-0672594328
http://stc.uniroma2.it/?page_id=622&cn-entry-slug=marco-sette