SAM_T02 Results for T0129


When SAM_T02 finishes, you will see links to the following files below:
Description Link to file Date

Inputs

Submitted sequence(s) T0129.a2m
08/11/02
SAM_T02 multiple alignment in a2m format T0129.t2k.a2m.gz
08/11/02
SAM_T02 multiple alignment in pretty html format T0129.t2k.pa.html
08/11/02
SAM_T02 target hidden Markov model T0129.t2k-w0.5.mod
08/11/02

Secondary Structure Prediction

DSSP EBGHSTL structure prediction CASP format T0129.t2k.dssp-ebghstl
08/11/02
DSSP EBGHSTL structure prediction RDB format T0129.t2k.dssp-ebghstl.rdb
08/11/02
DSSP EBGHSTL structure prediction sequence format T0129.t2k.dssp-ebghstl.seq
08/11/02
Stride EBGHTL structure prediction CASP format T0129.t2k.stride-ebghtl
08/11/02
Stride EBGHTL structure prediction RDB format T0129.t2k.stride-ebghtl.rdb
08/11/02
Stride EBGHTL structure prediction sequence format T0129.t2k.stride-ebghtl.seq
08/11/02
Str structure prediction CASP format T0129.t2k.str
08/11/02
Str structure prediction RDB format T0129.t2k.str.rdb
08/11/02
Str structure prediction sequence format T0129.t2k.str.seq
08/11/02
Alpha angle prediction RDB format T0129.t2k.alpha.rdb
08/11/02
Alpha angle prediction sequence format T0129.t2k.alpha.seq
08/11/02
DSSP 3-value prediction RDB format T0129.t2k.dssp_ehl2.rdb
08/11/02

Sequence Logos

SAM_T02 multiple alignment in sequence logo format T0129.t2k.w0.5-logo.eps
08/11/02
DSSP EBGHSTL structure prediction in sequence logo format T0129.t2k.dssp-ebghstl-logo.eps
08/11/02
Stride EBGHTL structure prediction in sequence logo format T0129.t2k.stride-ebghtl-logo.eps
08/11/02
Str structure prediction in sequence logo format T0129.t2k.str-logo.eps
08/11/02
Alpha angle prediction in sequence logo format T0129.t2k.alpha-logo.eps
08/11/02
DSSP 3-value prediction in sequence logo format T0129.t2k.dssp_ehl2-logo.eps
08/11/02

Target model scores

Annotated amino acid/100-30-dssp-ebghstl two-track target model scores T0129.t2k-100-30-dssp-ebghstl-scores.html
08/11/02
Annotated amino acid/100-30-stride-ebghtl two-track target model scores T0129.t2k-100-30-stride-ebghtl-scores.html
08/11/02
Annotated amino acid/100-30-str two-track target model scores T0129.t2k-100-30-str-scores.html
08/11/02
Annotated amino acid/100-30-alpha two-track target model scores T0129.t2k-100-30-alpha-scores.html
08/11/02
Annotated amino acid/100-30-dssp_ehl2 two-track target model scores T0129.t2k-100-30-dssp_ehl2-scores.html
08/11/02
Annotated amino acid single-track target model scores of PDB T0129.t2k-w0.5-scores.html
08/11/02

Template model scores

Annotated template model scores T0129.template-lib-scores.html
08/11/02

Top Hits

Best scoring hits from all models T0129.t2k.best-scores.html
08/11/02

Alignments for Top Hits

T02 Many Alignments Summary T0129.t2k.many_alignments.html
08/11/02
T02 Top Models Summary T0129.t2k.top_reported_alignments.html
08/11/02

Undertaker (3d) files

Script for dssp coloring in rasmol T0129.t2k.dssp-color.rasmol
08/11/02
Script for stride coloring in rasmol T0129.t2k.stride-color.rasmol
08/11/02
Script for str coloring in rasmol T0129.t2k.str-color.rasmol
08/11/02
Script for alpha coloring in rasmol T0129.t2k.alpha-color.rasmol
08/11/02
Multiple alignment for undertaker templates T0129.t2k-2track-undertaker.a2m
08/11/02
many alignments for undertaker templates T0129.t2k.undertaker-align.script
08/11/02
PDB file with models for many alignments T0129.t2k.undertaker-align.pdb.gz
08/11/02
Fragment list for undertaker (from fragfinder) T0129.t2k.frag
08/11/02

Please cite: Karplus, K. and Karchin, R. and Barrett, C. and Tu, S. and Cline, M. and Diekhans, M. and Grate, L. and Casper, J. and Hughey, R. ``What is the value added by human intervention in protein structure prediction?'' Proteins: Structure Function and Genetics 45(S5):86-91,2001

SAM_T02 web system designed by Rachel Karchin and Kevin Karplus

rachelk@soe.ucsc.edu
karplus@soe.ucsc.edu