FUGUE
v2.s.07 (01 Apr 2003)
#
#
#
# Search sequence(s) against fold library using
environment-specific #
# substitution tables
and structure-dependent gap penalties.
#
#
#
# Fold library and substitution tables are based on the HOMSTRAD
database. #
# http://www-cryst.bioc.cam.ac.uk/~homstrad/ #
#
#
# FUGUE server is available at:
#
# http://www-cryst.bioc.cam.ac.uk/~fugue/ #
# http://www-cryst.bioc.cam.ac.uk/~fugue/prfsearch.html #
#
#
# Citation:
#
# J. Shi, T. L. Blundell and K. Mizuguchi (2001), J Mol Biol,
310(1), 243-57 #
#
#
# N.B. Please note that Fugue has been updated (since 2nd of May
2002) and #
# consequently the recommended
z-score cut-offs used are different from #
# previous versions. The new
recommended cut-offs are shown below. #
#
#
# Size of fold library: 8094
#
# Probe sequence ID : T0134
#
# Probe sequence len : 251
#
# Probe divergence : 0.320
#
# Recommended cutoff : ZSCORE >= 6.0
(CERTAIN 99% confidence)
#
# Other cutoff : ZSCORE
>= 4.0 (LIKELY 95%
confidence) #
# Other cutoff : ZSCORE
>= 3.5 (MARGINAL 90% confidence)
#
# Other cutoff : ZSCORE
>= 2.0 (GUESS 50%
confidence) #
# Other cutoff : ZSCORE
< 2.0 (UNCERTAIN)
#
#
#
# PLEN : Profile length
#
# RAWS : Raw alignment score
#
# RVN : (Raw score)-(Raw score for NULL model)
#
# ZSCORE : Z-score normalized by sequence divergence
#
# PVZ : P-value based on Z-score jumbling
(Currently Disabled)
#
# ZORI : Original Z-score (before normalization)
#
# EVP : E-value based on profile calibration
(Currently Disabled) #
# EVF : E-value based on library search
(Currently
Disabled) #
# AL : Alignment algorithm used for
Zscore/Alignment calculation
#
# 0 --
Global, 2 -- GloLocSeq (No sequence termini gap penalty)
#
# 3 --
GloLocPrf (No profile termini gap penalty)
#
###############################################################################
#-----------------------------------------------------------------------------#
# Profile
PLEN
RAWS RVN ZSCORE PVZ
ZORI EVP
EVF AL#
#
******
#
#-----------------------------------------------------------------------------#
Alpha_adaptinC12 262 -98 124
7.93 1.0E+03 9.86 1.0E+03 1.0E+03 00
1qtsa
247
-72 123 6.86 1.0E+03
8.51 1.0E+03 1.0E+03 00
hs1pzda
271
-99 101 5.28 1.0E+03
6.99 1.0E+03 1.0E+03 00
hs1e42a
233
-41 145 4.99 1.0E+03
6.49 1.0E+03 1.0E+03 00
hs1nbwa
606
-717 58 3.80 1.0E+03
4.96 1.0E+03 1.0E+03 03
hsd1knya
253
-104 63 2.74 1.0E+03
3.23 1.0E+03 1.0E+03 00
hsd1b35c
282
-198 36 2.63 1.0E+03
4.56 1.0E+03 1.0E+03 00
hs1iu1a
120
-129 34 2.49 1.0E+03
4.42 1.0E+03 1.0E+03 02
1osma
342
-328 43 2.47 1.0E+03
4.23 1.0E+03 1.0E+03 00
hs1dkia
303
-207 79 2.44 1.0E+03
3.85 1.0E+03 1.0E+03 00