*Hi, I'm a new modeller use and* * I am trying to use the modeller8v1version on my windows machine to model my protein. but it keeps giving me this following error. Though all the script file, alignment files and pdb files are in the same directory as specified in the script file.* TypeError: 'tuple' object has only read-only attributes <assign to .starting_model>. *My script is*: # Homology modelling by the automodel class
from modeller.automodel import *
log.verbose()
env = environ()
env.io.atom_files_directory = 'C:\Documents and Settings\Zio Charlie\Desktop\PROVE MODELLER2',
a = automodel(env,
alnfile = 'ali4.aln', # alignment filename
knowns = ('1EW2_A', '1K7H_A', '1ED9_A'),
sequence = 'gi|14521248|ref|NP_126723.1|'),
a.starting_model = 1
a.ending_model = 1
a.make()
*and my alignment file is:*
>P1;gi|14521248|ref|NP_126723.1|
sequence:gi|14521248|ref|NP_126723.1|:1 :
--MMKMKLARFLLIFIIFSSMFP----------FANASPSGVRNVIILIG
DGMGFSQLQLTKLVYGHLN-----------MEDFPYTGIELTDSLSGEVT
DSAAAGTAIATGVKTYNRMISTTNVTGKLVNLTT---------LLEIAQM
LGKATGLVTTTRITHATPAVFASHVPDR-------------------DME
EEIARQLILHNVTVLMGGGREKFS-----------EEVLKLAEDYGYSIV
YTREDLEKVKDG-------------------------KVLGLFAEGHLPY
VLDR-SEEDVSLLEMTKKAIEILEKNPNGFFLMIEGGRIDHACHANDVAS
IVAETKEFDDVVGYVLDYARRRGDTLVIVLADHETGGLGIGLNYGHSVDI
DSIRRIDASIEEMSKEIKSGGDIRDVIRRHTGLELTDEEVKEIEEAKNST
NKYALGNIIGEIISKKLGVGFVSHKHTGEPVPLLAYGPGAENFVGFKHHV
DTAKVIAKLMIFGDRSISFTIKGVSKIKGDVTGDYRVDERDAYATLMLLL
GDLVDTELENIADMDNNGIIDLLDVMAILQASS*
>P1;1ED9_A
structure:pdb_file:1ED9:1 :
TPEMPVLENRAAQGDITAPGGARRLTGDQTAALRDSLSDKPAKNIILLIG
DGMGDSEITAARNYAEGAGGFFKGIDALPLTGQYTHYALNKKTGKPDYVT
DSAASATAWSTGVKTYNGALGVDIHEKDHPT------------ILEMAKA
AGLATGNVSTAELQDATPAALVAHVTSRKCYGPSATSEKCPGNALEKGGK
GSITEQLLNARADVTLGGGAKTFAET-ATAGEWQGKTLREQAQARGYQLV
SDAASLNSVTEANQQKPLLGLFADGNMPVRWLGPKATYHGNIDKPAVTCT
PNPQRNDSVPTLAQMTDKAIELLSKNEKGFFLQVEGASIDKQDHAANPCG
QIGETVDLDEAVQRALEFAKKEGNTLVIVTADHA-----------HASQI
VAPDTKAP---GLTQALNTKDGAVMVMSYGNSE-----------------
--------------------EDSQEHTGSQLRIAAYGPHAANVVGLTDQT
DLFYTMKAALGLK-------------------------------------
---------------------------------*
>P1;1EW2_A
structure:pdb_file:1EW2:1 :
--IIPVEEENPDFWNREAAEALG-------AAKKLQPAQTAAKNLIIFLG
DGMGVSTVTAARILKGQKKDKLG-PEIPLAMDRFPYVALSKTYNVDKHVP
DSGATATAYLCGVKGNFQTIGLSAAARFNQCNTTRGNEVIS--VMNRAKK
AGKSVGVVTTTRVQHASPAGTYAHTVNRNWYSDADVPASARQ-EGCQDIA
TQLISN---MDIDVILGGGRKYMFRMGTPDPEYPDDYSQGGTRLDGKNLV
QEWLAKRQ--------GARYVWNRTELMQASLDPSVTHLMGLFEPGDMKY
EIHRDSTLDPSLMEMTEAALRLLSRNPRGFFLFVEGGRIDHGHHESRAYR
ALTETIMFDDAIERAGQLTSEE-DTLSLVTADHS-----------HVFSF
GGYPLRGSSIFGLAPGKARDRKAYTVLLYGNGPGYVLK-DGARPDVTESE
SGSPE-------YRQQSAVPLDEETHAGEDVAVFARGPQAHLVHGVQEQT
FIAHVMAFAACLEP-YTACDLAPPAGTTDAAHPGRSVVP----ALLPLLA
GTLLLLETATAP---------------------*
>P1;1K7H_A
structure:pdb_file:1K7H:1 :
-------EEDKAYWNKDAQDALD-------KQLGIKLREKQAKNVIFFLG
DGMSLSTVTAARIYKGGLTGKFE-REK-ISWEEFDFAALSKTYNTDKQVT
DSAASATAYLTGVKTNQGVIGLDANTVRTNCSYQLDESLFTYSIAHWFQE
AGRSTGVVTSTRVTHATPAGTYAHVADRDWENDSDVVHDREDPEICDDIA
EQLVFREPGKNFKVIMGGGRRGFF----PEEALDIEDGIPGEREDGKHLI
TDWLDDKASQGA----TASYVWNRDDLLAVDIAN-TDYLMGLFSYTHLDT
VLTRDAEMDPTLPEMTKVAIEMLTKDENGFFLLVEGGRIDHMHHANQIRQ
SLAETLDMEEAVSMALSMTDPE-ETIILVTADHG-----------HTLTI
TGYADRNTDILDFAGISDLDDRRYTILDYGSGPGYHITEDGKRYEPTEED
LKDIN-------FRYASAAPKHSATHDGTDVGIWVNGPFAHLFTGVYEEN
YIPHALAYAACVGTGRTFCD------------------------------
---------------------------------*
Can some one suggest a solution? Thanks Guido