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 : T0157
#
# Probe sequence len : 138
#
# Probe divergence : 0.722
#
# 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#
#
******
#
#-----------------------------------------------------------------------------#
hs1iv0a
98
83 190 20.72 1.0E+03 23.35
1.0E+03 1.0E+03 00
hsd1hjra
158
-60 111 5.06 1.0E+03
7.57 1.0E+03 1.0E+03 00
hs1gsoa
419
-627 58 4.06 1.0E+03
6.75 1.0E+03 1.0E+03 03
hs1o9ga
247
-252 39 3.70 1.0E+03
4.99 1.0E+03 1.0E+03 03
1dz3a
123
-81 48 3.12 1.0E+03
5.53 1.0E+03 1.0E+03 00
MutS_D2
170
-151 70 2.99 1.0E+03
5.76 1.0E+03 1.0E+03 00
1c6va
148
-88 56 2.96 1.0E+03
4.43 1.0E+03 1.0E+03 00
hsd4crxa1
110
-61 53 2.48 1.0E+03
3.77 1.0E+03 1.0E+03 00
1tmy
118
-91 46 2.29 1.0E+03
4.72 1.0E+03 1.0E+03 00
1dvja
239
-319 30 2.21 1.0E+03
4.97 1.0E+03 1.0E+03 03