Comparative Sequence Analysis
S S C P Secondary Structural Content Prediction
The output format
Sequence-Input
#
# Prediction of Secondary Structural Content from Amino Acid Composition
# with Analytic Vector Decomposition
# ----------------------------------------------------------------------
#
Input-Type: Sequence
RTDCYGNVNRIDTTGASCKTAKPEGLSYCGVSASKKIAERDLQAMDRYKTIIKKVGEKLC
VEPAVIAGIISRESHAGKVLKNGWGDRGNGFGLMQVDKRSHKPQGTWNGEVHITQGTTIL
INFIKTIQKKFPSWTKDQQLKGGISAYNAGAGNVRSYARMDIGTTHDDYANDVVARAQYY
KQHGY
#
# Thank you for using the WWW-server for SSCP !
#
#
#
# 1st METHOD
# The first method relies only on the average amino acid composition
# of secondary structural segments (helix, sheet, coil) in a learning
# set of proteins.
#
method : 1
alpha-contents : 8.6 %
beta-contents : 24.3 %
coil-contents : 67.2 %
class : beta
#
#
#
# 2nd METHOD
# The second method relies also on composition fluctuations in the
# secondary structural segments (helix, sheet, coil) of a learning
# set of proteins.
#
method : 2
alpha-contents : 9.4 %
beta-contents : 23.4 %
coil-contents : 67.3 %
class : beta
#
#
#
# This output is computer-readable. Simply ignore all lines starting with #
# and all white lines as commentary.
#
# program SSCP, version 2.0 (September 1996)
# Authors : Frank Eisenhaber, Federica Imperiale
#
#
# References:
# 1. Eisenhaber F., Imperiale F., Argos P., Froemmel C.
# "Prediction of Secondary Structural Content of Proteins from Their Amino Acid
# Composition Alone. I. New Analytic Vector Decomposition Methods"
# Proteins: Struct.,Funct.,Design, 25 (1996) N2, 157-168
#
# 2. Eisenhaber F., Froemmel C., Argos P.
# "Prediction of Secondary Structural Content of Proteins from Their Amino Acid
# Composition Alone. II. The Paradox with Secondary Structural Class"
# Proteins: Struct.,Funct.,Design, 25 (1996) N2, 169-179
#
# Time of program execution : Mon Feb 9 10:47:36 1998
# File with data from learning set of protein
# structures : /booby1/adm_bork/www/htdocs/SSCP2/h35_nonmr_noca_80.30.learn
#
# 1) Secondary structural content is given in percent.
# 2) The secondary structural
# class is assigned in accordance with the definitions of Nakashima et al.
# J.Biochem. v. 99, 153-162 (1986).
# protein type alpha-content beta-content
# alpha >= 15% <= 10%
# beta <= 15% >= 10%
# mixed >= 15% >= 10%
# irregular <= 15% <= 10%
#
#
#
# You can access SSCP via WWW
# URL http://www.bork.embl-heidelberg.de/SSCP/
#
# If you have remarks or problem, please contact Frank Eisenhaber.
# Postal address: EMBL, PF 10.2209, D-69012 Heidelberg, F.R. Germany
# Telephone : +49-6221-387534
# FAX : +49-6221-387517
# E-mail : Eisenhaber@EMBL-Heidelberg.de on internet
# WWW :
# http://www.embl-heidelberg.de/~eisenhab/
#
Composition-Input (percent)
#
# Prediction of Secondary Structural Content from Amino Acid Composition
# with Analytic Vector Decomposition
# ----------------------------------------------------------------------
#
Input-Type: Composition
Composition-Unit: Percent
A-ALA: 9.5
D-ASP: 20.5
G-GLY: 30
L-LEU: 40
#
# Thank you for using the WWW-server for SSCP !
#
#
#
# 1st METHOD
# The first method relies only on the average amino acid composition
# of secondary structural segments (helix, sheet, coil) in a learning
# set of proteins.
#
method : 1
alpha-contents : 24.6 %
beta-contents : 0.0 %
coil-contents : 75.4 %
class : alpha
#
#
#
# 2nd METHOD
# The second method relies also on composition fluctuations in the
# secondary structural segments (helix, sheet, coil) of a learning
# set of proteins.
#
method : 2
alpha-contents : 0.0 %
beta-contents : 22.6 %
coil-contents : 77.4 %
class : beta
#
#
#
# This output is computer-readable. Simply ignore all lines starting with #
# and all white lines as commentary.
#
# program SSCP, version 2.0 (September 1996)
# Authors : Frank Eisenhaber, Federica Imperiale
#
#
# References:
# 1. Eisenhaber F., Imperiale F., Argos P., Froemmel C.
# "Prediction of Secondary Structural Content of Proteins from Their Amino Acid
# Composition Alone. I. New Analytic Vector Decomposition Methods"
# Proteins: Struct.,Funct.,Design, 25 (1996) N2, 157-168
#
# 2. Eisenhaber F., Froemmel C., Argos P.
# "Prediction of Secondary Structural Content of Proteins from Their Amino Acid
# Composition Alone. II. The Paradox with Secondary Structural Class"
# Proteins: Struct.,Funct.,Design, 25 (1996) N2, 169-179
#
# Time of program execution : Mon Feb 9 10:42:51 1998
# File with data from learning set of protein
# structures : /booby1/adm_bork/www/htdocs/SSCP2/h35_nonmr_noca_80.30.learn
#
# 1) Secondary structural content is given in percent.
# 2) The secondary structural
# class is assigned in accordance with the definitions of Nakashima et al.
# J.Biochem. v. 99, 153-162 (1986).
# protein type alpha-content beta-content
# alpha >= 15% <= 10%
# beta <= 15% >= 10%
# mixed >= 15% >= 10%
# irregular <= 15% <= 10%
#
#
#
# You can access SSCP via WWW
# URL http://www.bork.embl-heidelberg.de/SSCP/
#
# If you have remarks or problem, please contact Frank Eisenhaber.
# Postal address: EMBL, PF 10.2209, D-69012 Heidelberg, F.R. Germany
# Telephone : +49-6221-387534
# FAX : +49-6221-387517
# E-mail : Eisenhaber@EMBL-Heidelberg.de on internet
# WWW :
# http://www.embl-heidelberg.de/~eisenhab/
#
Composition-Input (number)
#
# Prediction of Secondary Structural Content from Amino Acid Composition
# with Analytic Vector Decomposition
# ----------------------------------------------------------------------
#
Input-Type: Composition
Composition-Unit: Number
A-ALA: 132
C-CYS: 20
D-ASP: 21
G-GLY: 17
H-HIS: 13
L-LEU: 40
#
# Thank you for using the WWW-server for SSCP !
#
#
#
# 1st METHOD
# The first method relies only on the average amino acid composition
# of secondary structural segments (helix, sheet, coil) in a learning
# set of proteins.
#
method : 1
alpha-contents : 100.0 %
beta-contents : 0.0 %
coil-contents : 0.0 %
class : alpha
#
#
#
# 2nd METHOD
# The second method relies also on composition fluctuations in the
# secondary structural segments (helix, sheet, coil) of a learning
# set of proteins.
#
method : 2
alpha-contents : 100.0 %
beta-contents : 0.0 %
coil-contents : 0.0 %
class : alpha
#
#
#
# This output is computer-readable. Simply ignore all lines starting with #
# and all white lines as commentary.
#
# program SSCP, version 2.0 (September 1996)
# Authors : Frank Eisenhaber, Federica Imperiale
#
#
# References:
# 1. Eisenhaber F., Imperiale F., Argos P., Froemmel C.
# "Prediction of Secondary Structural Content of Proteins from Their Amino Acid
# Composition Alone. I. New Analytic Vector Decomposition Methods"
# Proteins: Struct.,Funct.,Design, 25 (1996) N2, 157-168
#
# 2. Eisenhaber F., Froemmel C., Argos P.
# "Prediction of Secondary Structural Content of Proteins from Their Amino Acid
# Composition Alone. II. The Paradox with Secondary Structural Class"
# Proteins: Struct.,Funct.,Design, 25 (1996) N2, 169-179
#
# Time of program execution : Mon Feb 9 10:46:40 1998
# File with data from learning set of protein
# structures : /booby1/adm_bork/www/htdocs/SSCP2/h35_nonmr_noca_80.30.learn
#
# 1) Secondary structural content is given in percent.
# 2) The secondary structural
# class is assigned in accordance with the definitions of Nakashima et al.
# J.Biochem. v. 99, 153-162 (1986).
# protein type alpha-content beta-content
# alpha >= 15% <= 10%
# beta <= 15% >= 10%
# mixed >= 15% >= 10%
# irregular <= 15% <= 10%
#
#
#
# You can access SSCP via WWW
# URL http://www.bork.embl-heidelberg.de/SSCP/
#
# If you have remarks or problem, please contact Frank Eisenhaber.
# Postal address: EMBL, PF 10.2209, D-69012 Heidelberg, F.R. Germany
# Telephone : +49-6221-387534
# FAX : +49-6221-387517
# E-mail : Eisenhaber@EMBL-Heidelberg.de on internet
# WWW :
# http://www.embl-heidelberg.de/~eisenhab/
#
Back to the SSCP page or start an SSCP request from protein sequence or protein composition.
Last modified Feb. 6, 1998