Dear Azat,
Yes, the program can read maximum 5 sequences as input at a time. Ok, now I'm
trying to do multiple structure alignment. With only 2 structures as input,
the alignment is really good, but it's failing with 3 or more. It's giving
following message:
"...............
openf5___> file does not exist: /disk2/pdb/pdb.ent/List.ent
(do not worry about this one)
Multiple dynamic programming alignment (MALIGN):
Residue-residue metric : /usr2/people/deb/exec/modeller4/modlib//as1.sim.mat
Gap introduction penalty: -600.0000
Gap extension penalty : -400.0000
Length of alignment : 556
malign3d_> Alignment: 1
# Sequence alignment of the structurally conserved regions
# [average distance and standard deviation are with respect
# to the framework (i.e., average structure)]
#
# N av ds st dv 1atu 1bbi 1hia
# ======================================
1 1.142 0.274 L 112 T 55 D 98
fit2xyz_E> number of equivalent positions < 3: 1
recover__> MODELLER_STATUS >= STOP_ON_ERROR: 1 1
...................."
Hope this time I'm not doing the same mistake as before.
Please help,
Debashis.
------------------------------------------------------------------------------
("`-''-/").___..--''"`-._
`6_ 6 ) `-. ( ).`-.__.`) Debashis Mukhopadhyay
(_Y_.)' ._ ) `._ `. ``-..-' Research Fellow,C&MB Div.,
_..`--'_..-_/ /--'_.' ,' Saha Institute Of Nuclear Physics,
(il).-'' (li).' ((!.-' 1/AF, Bidhannagar,Calcutta-700 064.
India.
------------------------------------------------------------------------------