Hello again:
Still stranded on this one, so I send you my aln file (called 01mod.ali):
>P1;1cx1
structure:1cx1 :::::::2.5:0.20
GSVVIVGRIILSGSGSITAYSQQTRGLLGCIITSLTGRDKNQVEGEVQVVSTATQSFLAT
CVNGVCWTVYHGAGSKTLAGPKGPITQMYTNVDQDLVGWQAPPGARSLTPCTCGSSDLYL
VTRHADVIPVRRRGDSRGSLLS-------PRPVSYLKGSSGGPLLCPSGHAVGIFRAAVC
TRGVAKAVDFVPVESMETTMRSPVFTDNSSPPAVPQSFQVAHLHAPTGSGKSTKVPAAYA
AQGYKVLVLNPSVAATLGFGAYMSKAHGID------PNIRTGVRTITTGAPVTYSTYGKF
LADGGCSGGAYDIIICDECHSTDSTTILGIGTVLDQAETAGARLVVLATATPPGSVTVPH
PNIEEVALSNTGEIPFYGKAIPIEAI--RGGRHLIFCHSKKKCDELAAKLSGLGINAVAY
YRGLDVSVIPT---IGDVVVVATDALMTGYTGDFDSVIDCNTCVTQTVDFSLDPTFTIET
TTVPQDAVSRSQRRGRTGRGRRGIYRFVTPGERPSGMFDSSVLCECYDAGCAWYELTPAE
TSVRLRAYLNTPGLPVCQDHLEFWESVFTGLTH-IDAHFLSQTKQAGDNFPYLVAYQATV
CARAQAPPPSWDQMWKCLIRLKPTLH---GPTPLLYRLGAVQNEVTLTHPITKYIMACMS
ADLEVVT*
>P1;1dnj
sequence:1dnj :::::::0.0:0.0
GSSPILSITISEGSGS----AGVLWDVPSPPPVGKAELEDGAYRIKQRGILGYSQIGAGV
YKEGTFHTMWHVTRGAVLMHKGKRIEPSWADVKKDLISYGG---GWKLEGEWKEGEEVQV
LALE-PGKNPRAVQ-TKPGLFKTNTGTIGAVSLDFSPGTSGSPIVDRKGKVVGLYGNGVV
TRSGAYVSAIAQTEKSIEDNPEIEDD-------IFRKKRLTIMDLHPGAGKTKRYLPAIV
REAIKRGLRTLILAPTRVVAAEMEEALRGLPIRYQTPAIRAEHTGREIVDLMCHATFTMR
LLSPV-RVPNYNLIIMDEAHFTDPASIAARGYISTRVEMGE-AAGIFMTATPPGSRDPFP
Q-SNAPIMDEEREIPERSWNSGHEWVTDFKGKTVWFVPSIKAGNDIAACLRKNGKKVIQL
SRKTFDSEYVKTRANDWDFVVTTDISEMGANFKAERVIDPRRCMKPVILT-DGEERVILA
GPMPVTHSSAAQRRGRIGRNPKNENDQYI---------YMGEPLENDEDCAHWKEAKMLL
DNINTPEGIIPSMFEPEREKVDAIDGEYRLRGEARKTFVDLMRRG---DLPVWLAYRVAA
EGINYADRRWCFDGIKNNQILEE-NVEVEIWTKEGERKKLKPRWLDARIYSDPLALKEFK
EFAAGRK*
Again, the top file goes like this:
SET ALNFILE = '01mod.ali' # alignment filename
SET KNOWNS = '1cx1' # codes of the templates
SET SEQUENCE = '1dnj' # code of the target
SET ATOM_FILES_DIRECTORY = './:../PDB:./atom_files' #
SET STARTING_MODEL= 1 # index of the first model
SET ENDING_MODEL = 2 # index of the last model
SET DEVIATION = 4.0 # have to be >0 if more than 1 model
SET RAND_SEED = -12312 #
CALL ROUTINE = 'model' # do homology modelling
*************************************************
Let me know if you found something weird on my ali file....
I tried with the MINT script from Dr Andrew, (it complied and run fine) but
I still get the same error as with my own script:
check_a_337E> Structure not read in: 1
recover____E> ERROR_STATUS >= STOP_ON_ERROR: 1 1
Thanks in advance,
Luis Rosales