Please cite the following papers:
When SAM_T08 finishes loading, you should see links to
You may also view the list of files created so far. This link gives access to the full directory of file produced, including query progress logs, and this html file (summary.html). When the process is finished, you may want to download the entire directory to your computer, using a tool such as "wget".
Description | Link to file | Date |
Inputs |
Submitted sequence(s) | T0587.a2m | 2010 Jun 11 9:21:18 |
README file | README | 2010 Jun 11 10:50:36 |
Quick blastp of non-redundant PDB | T0587.pdb_blast.txt | 2010 Jun 11 10:50:45 |
Multiple alignment |
SAM_t06 multiple alignment in a2m format | T0587.t06.a2m.gz | 2010 Jun 11 11:20:58 |
SAM_t06 multiple alignment in pretty html format | T0587.t06.pa.html | 2010 Jun 11 11:21:21 |
SAM_t06 target hidden Markov model | T0587.t06.w0.5.mod | 2010 Jun 11 11:21:26 |
SAM_t06 multiple alignment---sequence logo (eps format) (pdf format) | T0587.t06.w0.5-logo | 2010 Jun 11 11:21:41 |
SAM_t06 consensus sequence | T0587.t06.w0.5.maxp | 2010 Jun 11 11:21:42 |
Script for highlighting in rasmol | conserved_t06 | 2010 Jun 11 11:21:44 |
SAM_t04 multiple alignment in a2m format | T0587.t04.a2m.gz | 2010 Jun 11 11:49:20 |
SAM_t04 multiple alignment in pretty html format | T0587.t04.pa.html | 2010 Jun 11 11:50:22 |
SAM_t04 target hidden Markov model | T0587.t04.w0.5.mod | 2010 Jun 11 11:50:28 |
SAM_t04 multiple alignment---sequence logo (eps format) (pdf format) | T0587.t04.w0.5-logo | 2010 Jun 11 11:50:51 |
SAM_t04 consensus sequence | T0587.t04.w0.5.maxp | 2010 Jun 11 11:50:53 |
Script for highlighting in rasmol | conserved_t04 | 2010 Jun 11 11:50:55 |
SAM_t2k multiple alignment in a2m format | T0587.t2k.a2m.gz | 2010 Jun 11 12:00:51 |
SAM_t2k multiple alignment in pretty html format | T0587.t2k.pa.html | 2010 Jun 11 12:01:08 |
SAM_t2k target hidden Markov model | T0587.t2k.w0.5.mod | 2010 Jun 11 12:01:14 |
SAM_t2k multiple alignment---sequence logo (eps format) (pdf format) | T0587.t2k.w0.5-logo | 2010 Jun 11 12:01:28 |
SAM_t2k consensus sequence | T0587.t2k.w0.5.maxp | 2010 Jun 11 12:01:29 |
Script for highlighting in rasmol | conserved_t2k | 2010 Jun 11 12:01:30 |
Secondary Structure Prediction (Explanation of secondary-structure predictions) |
str4 structure prediction (rdb format) (seq format) | T0587.t06.str4 | 2010 Jun 11 12:01:44 |
Script for T0587.t06.str4 coloring in rasmol | T0587.t06.str4-color.rasmol | 2010 Jun 11 12:01:45 |
str4---sequence logo (eps format) (pdf format) | T0587.t06.str4-logo | 2010 Jun 11 12:01:58 |
str4 structure prediction (rdb format) (seq format) | T0587.t04.str4 | 2010 Jun 11 12:02:04 |
Script for T0587.t04.str4 coloring in rasmol | T0587.t04.str4-color.rasmol | 2010 Jun 11 12:02:05 |
str4---sequence logo (eps format) (pdf format) | T0587.t04.str4-logo | 2010 Jun 11 12:02:13 |
str4 structure prediction (rdb format) (seq format) | T0587.t2k.str4 | 2010 Jun 11 12:02:17 |
Script for T0587.t2k.str4 coloring in rasmol | T0587.t2k.str4-color.rasmol | 2010 Jun 11 12:02:18 |
str4---sequence logo (eps format) (pdf format) | T0587.t2k.str4-logo | 2010 Jun 11 12:02:27 |
str2 structure prediction (rdb format) (seq format) | T0587.t06.str2 | 2010 Jun 11 11:21:34 |
Script for T0587.t06.str2 coloring in rasmol | T0587.t06.str2-color.rasmol | 2010 Jun 11 12:02:34 |
str2---sequence logo (eps format) (pdf format) | T0587.t06.str2-logo | 2010 Jun 11 12:02:40 |
str2 structure prediction (rdb format) (seq format) | T0587.t04.str2 | 2010 Jun 11 11:50:37 |
Script for T0587.t04.str2 coloring in rasmol | T0587.t04.str2-color.rasmol | 2010 Jun 11 12:02:43 |
str2---sequence logo (eps format) (pdf format) | T0587.t04.str2-logo | 2010 Jun 11 12:02:48 |
str2 structure prediction (rdb format) (seq format) | T0587.t2k.str2 | 2010 Jun 11 12:01:20 |
Script for T0587.t2k.str2 coloring in rasmol | T0587.t2k.str2-color.rasmol | 2010 Jun 11 12:02:53 |
str2---sequence logo (eps format) (pdf format) | T0587.t2k.str2-logo | 2010 Jun 11 12:03:01 |
alpha structure prediction (rdb format) (seq format) | T0587.t06.alpha | 2010 Jun 11 12:03:09 |
Script for T0587.t06.alpha coloring in rasmol | T0587.t06.alpha-color.rasmol | 2010 Jun 11 12:03:09 |
alpha---sequence logo (eps format) (pdf format) | T0587.t06.alpha-logo | 2010 Jun 11 12:03:16 |
alpha structure prediction (rdb format) (seq format) | T0587.t04.alpha | 2010 Jun 11 12:03:23 |
Script for T0587.t04.alpha coloring in rasmol | T0587.t04.alpha-color.rasmol | 2010 Jun 11 12:03:25 |
alpha---sequence logo (eps format) (pdf format) | T0587.t04.alpha-logo | 2010 Jun 11 12:03:34 |
alpha structure prediction (rdb format) (seq format) | T0587.t2k.alpha | 2010 Jun 11 12:03:39 |
Script for T0587.t2k.alpha coloring in rasmol | T0587.t2k.alpha-color.rasmol | 2010 Jun 11 12:03:40 |
alpha---sequence logo (eps format) (pdf format) | T0587.t2k.alpha-logo | 2010 Jun 11 12:03:47 |
bys structure prediction (rdb format) (seq format) | T0587.t06.bys | 2010 Jun 11 12:03:54 |
Script for T0587.t06.bys coloring in rasmol | T0587.t06.bys-color.rasmol | 2010 Jun 11 12:03:55 |
bys---sequence logo (eps format) (pdf format) | T0587.t06.bys-logo | 2010 Jun 11 12:04:00 |
bys structure prediction (rdb format) (seq format) | T0587.t04.bys | 2010 Jun 11 12:04:06 |
Script for T0587.t04.bys coloring in rasmol | T0587.t04.bys-color.rasmol | 2010 Jun 11 12:04:07 |
bys---sequence logo (eps format) (pdf format) | T0587.t04.bys-logo | 2010 Jun 11 12:04:12 |
bys structure prediction (rdb format) (seq format) | T0587.t2k.bys | 2010 Jun 11 12:04:21 |
Script for T0587.t2k.bys coloring in rasmol | T0587.t2k.bys-color.rasmol | 2010 Jun 11 12:04:21 |
bys---sequence logo (eps format) (pdf format) | T0587.t2k.bys-logo | 2010 Jun 11 12:04:26 |
pb structure prediction (rdb format) (seq format) | T0587.t06.pb | 2010 Jun 11 12:04:34 |
Script for T0587.t06.pb coloring in rasmol | T0587.t06.pb-color.rasmol | 2010 Jun 11 12:04:35 |
pb---sequence logo (eps format) (pdf format) | T0587.t06.pb-logo | 2010 Jun 11 12:04:46 |
pb structure prediction (rdb format) (seq format) | T0587.t04.pb | 2010 Jun 11 12:04:53 |
Script for T0587.t04.pb coloring in rasmol | T0587.t04.pb-color.rasmol | 2010 Jun 11 12:04:54 |
pb---sequence logo (eps format) (pdf format) | T0587.t04.pb-logo | 2010 Jun 11 12:05:02 |
pb structure prediction (rdb format) (seq format) | T0587.t2k.pb | 2010 Jun 11 12:05:08 |
Script for T0587.t2k.pb coloring in rasmol | T0587.t2k.pb-color.rasmol | 2010 Jun 11 12:05:10 |
pb---sequence logo (eps format) (pdf format) | T0587.t2k.pb-logo | 2010 Jun 11 12:05:18 |
n_notor2 structure prediction (rdb format) (seq format) | T0587.t06.n_notor2 | 2010 Jun 11 12:05:27 |
Script for T0587.t06.n_notor2 coloring in rasmol | T0587.t06.n_notor2-color.rasmol | 2010 Jun 11 12:05:28 |
n_notor2---sequence logo (eps format) (pdf format) | T0587.t06.n_notor2-logo | 2010 Jun 11 12:05:37 |
n_notor2 structure prediction (rdb format) (seq format) | T0587.t04.n_notor2 | 2010 Jun 11 12:05:44 |
Script for T0587.t04.n_notor2 coloring in rasmol | T0587.t04.n_notor2-color.rasmol | 2010 Jun 11 12:05:45 |
n_notor2---sequence logo (eps format) (pdf format) | T0587.t04.n_notor2-logo | 2010 Jun 11 12:05:50 |
n_notor2 structure prediction (rdb format) (seq format) | T0587.t2k.n_notor2 | 2010 Jun 11 12:05:55 |
Script for T0587.t2k.n_notor2 coloring in rasmol | T0587.t2k.n_notor2-color.rasmol | 2010 Jun 11 12:05:55 |
n_notor2---sequence logo (eps format) (pdf format) | T0587.t2k.n_notor2-logo | 2010 Jun 11 12:06:01 |
n_notor structure prediction (rdb format) (seq format) | T0587.t06.n_notor | 2010 Jun 11 12:06:10 |
Script for T0587.t06.n_notor coloring in rasmol | T0587.t06.n_notor-color.rasmol | 2010 Jun 11 12:06:11 |
n_notor---sequence logo (eps format) (pdf format) | T0587.t06.n_notor-logo | 2010 Jun 11 12:06:18 |
n_notor structure prediction (rdb format) (seq format) | T0587.t04.n_notor | 2010 Jun 11 12:06:24 |
Script for T0587.t04.n_notor coloring in rasmol | T0587.t04.n_notor-color.rasmol | 2010 Jun 11 12:06:25 |
n_notor---sequence logo (eps format) (pdf format) | T0587.t04.n_notor-logo | 2010 Jun 11 12:06:34 |
n_notor structure prediction (rdb format) (seq format) | T0587.t2k.n_notor | 2010 Jun 11 12:06:38 |
Script for T0587.t2k.n_notor coloring in rasmol | T0587.t2k.n_notor-color.rasmol | 2010 Jun 11 12:06:39 |
n_notor---sequence logo (eps format) (pdf format) | T0587.t2k.n_notor-logo | 2010 Jun 11 12:06:44 |
n_sep structure prediction (rdb format) (seq format) | T0587.t06.n_sep | 2010 Jun 11 12:06:51 |
Script for T0587.t06.n_sep coloring in rasmol | T0587.t06.n_sep-color.rasmol | 2010 Jun 11 12:06:52 |
n_sep---sequence logo (eps format) (pdf format) | T0587.t06.n_sep-logo | 2010 Jun 11 12:07:01 |
n_sep structure prediction (rdb format) (seq format) | T0587.t04.n_sep | 2010 Jun 11 12:07:10 |
Script for T0587.t04.n_sep coloring in rasmol | T0587.t04.n_sep-color.rasmol | 2010 Jun 11 12:07:10 |
n_sep---sequence logo (eps format) (pdf format) | T0587.t04.n_sep-logo | 2010 Jun 11 12:07:18 |
n_sep structure prediction (rdb format) (seq format) | T0587.t2k.n_sep | 2010 Jun 11 12:07:23 |
Script for T0587.t2k.n_sep coloring in rasmol | T0587.t2k.n_sep-color.rasmol | 2010 Jun 11 12:07:24 |
n_sep---sequence logo (eps format) (pdf format) | T0587.t2k.n_sep-logo | 2010 Jun 11 12:07:29 |
o_notor2 structure prediction (rdb format) (seq format) | T0587.t06.o_notor2 | 2010 Jun 11 12:07:37 |
Script for T0587.t06.o_notor2 coloring in rasmol | T0587.t06.o_notor2-color.rasmol | 2010 Jun 11 12:07:38 |
o_notor2---sequence logo (eps format) (pdf format) | T0587.t06.o_notor2-logo | 2010 Jun 11 12:07:44 |
o_notor2 structure prediction (rdb format) (seq format) | T0587.t04.o_notor2 | 2010 Jun 11 12:07:52 |
Script for T0587.t04.o_notor2 coloring in rasmol | T0587.t04.o_notor2-color.rasmol | 2010 Jun 11 12:07:53 |
o_notor2---sequence logo (eps format) (pdf format) | T0587.t04.o_notor2-logo | 2010 Jun 11 12:07:59 |
o_notor2 structure prediction (rdb format) (seq format) | T0587.t2k.o_notor2 | 2010 Jun 11 12:08:06 |
Script for T0587.t2k.o_notor2 coloring in rasmol | T0587.t2k.o_notor2-color.rasmol | 2010 Jun 11 12:08:07 |
o_notor2---sequence logo (eps format) (pdf format) | T0587.t2k.o_notor2-logo | 2010 Jun 11 12:08:13 |
o_notor structure prediction (rdb format) (seq format) | T0587.t06.o_notor | 2010 Jun 11 12:08:21 |
Script for T0587.t06.o_notor coloring in rasmol | T0587.t06.o_notor-color.rasmol | 2010 Jun 11 12:08:22 |
o_notor---sequence logo (eps format) (pdf format) | T0587.t06.o_notor-logo | 2010 Jun 11 12:08:29 |
o_notor structure prediction (rdb format) (seq format) | T0587.t04.o_notor | 2010 Jun 11 12:08:35 |
Script for T0587.t04.o_notor coloring in rasmol | T0587.t04.o_notor-color.rasmol | 2010 Jun 11 12:08:36 |
o_notor---sequence logo (eps format) (pdf format) | T0587.t04.o_notor-logo | 2010 Jun 11 12:08:44 |
o_notor structure prediction (rdb format) (seq format) | T0587.t2k.o_notor | 2010 Jun 11 12:08:50 |
Script for T0587.t2k.o_notor coloring in rasmol | T0587.t2k.o_notor-color.rasmol | 2010 Jun 11 12:08:52 |
o_notor---sequence logo (eps format) (pdf format) | T0587.t2k.o_notor-logo | 2010 Jun 11 12:09:00 |
o_sep structure prediction (rdb format) (seq format) | T0587.t06.o_sep | 2010 Jun 11 12:09:06 |
Script for T0587.t06.o_sep coloring in rasmol | T0587.t06.o_sep-color.rasmol | 2010 Jun 11 12:09:08 |
o_sep---sequence logo (eps format) (pdf format) | T0587.t06.o_sep-logo | 2010 Jun 11 12:09:15 |
o_sep structure prediction (rdb format) (seq format) | T0587.t04.o_sep | 2010 Jun 11 12:09:23 |
Script for T0587.t04.o_sep coloring in rasmol | T0587.t04.o_sep-color.rasmol | 2010 Jun 11 12:09:24 |
o_sep---sequence logo (eps format) (pdf format) | T0587.t04.o_sep-logo | 2010 Jun 11 12:09:29 |
o_sep structure prediction (rdb format) (seq format) | T0587.t2k.o_sep | 2010 Jun 11 12:09:35 |
Script for T0587.t2k.o_sep coloring in rasmol | T0587.t2k.o_sep-color.rasmol | 2010 Jun 11 12:09:36 |
o_sep---sequence logo (eps format) (pdf format) | T0587.t2k.o_sep-logo | 2010 Jun 11 12:09:42 |
dssp-ehl2 structure prediction (rdb format) (seq format) | T0587.t06.dssp-ehl2 | 2010 Jun 11 12:09:48 |
Script for T0587.t06.dssp-ehl2 coloring in rasmol | T0587.t06.dssp-ehl2-color.rasmol | 2010 Jun 11 12:09:48 |
dssp-ehl2---sequence logo (eps format) (pdf format) | T0587.t06.dssp-ehl2-logo | 2010 Jun 11 12:09:54 |
dssp-ehl2 structure prediction (rdb format) (seq format) | T0587.t04.dssp-ehl2 | 2010 Jun 11 12:09:59 |
Script for T0587.t04.dssp-ehl2 coloring in rasmol | T0587.t04.dssp-ehl2-color.rasmol | 2010 Jun 11 12:10:00 |
dssp-ehl2---sequence logo (eps format) (pdf format) | T0587.t04.dssp-ehl2-logo | 2010 Jun 11 12:10:06 |
dssp-ehl2 structure prediction (rdb format) (seq format) | T0587.t2k.dssp-ehl2 | 2010 Jun 11 12:10:10 |
Script for T0587.t2k.dssp-ehl2 coloring in rasmol | T0587.t2k.dssp-ehl2-color.rasmol | 2010 Jun 11 12:10:10 |
dssp-ehl2---sequence logo (eps format) (pdf format) | T0587.t2k.dssp-ehl2-logo | 2010 Jun 11 12:10:16 |
dssp-ehl2 structure prediction (rdb format) (seq format) | T0587.dssp-ehl2 | 2010 Jun 11 12:10:21 |
Script for T0587.dssp-ehl2 coloring in rasmol | T0587.dssp-ehl2-color.rasmol | 2010 Jun 11 12:10:22 |
dssp-ehl2---sequence logo (eps format) (pdf format) | T0587.dssp-ehl2-logo | 2010 Jun 11 12:10:30 |
CB_burial_14_7 structure prediction (rdb format) (seq format) | T0587.t06.CB_burial_14_7 | 2010 Jun 11 12:10:38 |
Script for T0587.t06.CB_burial_14_7 coloring in rasmol | T0587.t06.CB_burial_14_7-color.rasmol | 2010 Jun 11 12:10:38 |
CB_burial_14_7---sequence logo (eps format) (pdf format) | T0587.t06.CB_burial_14_7-logo | 2010 Jun 11 12:10:43 |
CB_burial_14_7 structure prediction (rdb format) (seq format) | T0587.t04.CB_burial_14_7 | 2010 Jun 11 12:10:50 |
Script for T0587.t04.CB_burial_14_7 coloring in rasmol | T0587.t04.CB_burial_14_7-color.rasmol | 2010 Jun 11 12:10:50 |
CB_burial_14_7---sequence logo (eps format) (pdf format) | T0587.t04.CB_burial_14_7-logo | 2010 Jun 11 12:10:57 |
CB_burial_14_7 structure prediction (rdb format) (seq format) | T0587.t2k.CB_burial_14_7 | 2010 Jun 11 12:11:04 |
Script for T0587.t2k.CB_burial_14_7 coloring in rasmol | T0587.t2k.CB_burial_14_7-color.rasmol | 2010 Jun 11 12:11:06 |
CB_burial_14_7---sequence logo (eps format) (pdf format) | T0587.t2k.CB_burial_14_7-logo | 2010 Jun 11 12:11:15 |
near-backbone-11 structure prediction (rdb format) (seq format) | T0587.t06.near-backbone-11 | 2010 Jun 11 12:11:23 |
Script for T0587.t06.near-backbone-11 coloring in rasmol | T0587.t06.near-backbone-11-color.rasmol | 2010 Jun 11 12:11:25 |
near-backbone-11---sequence logo (eps format) (pdf format) | T0587.t06.near-backbone-11-logo | 2010 Jun 11 12:11:32 |
near-backbone-11 structure prediction (rdb format) (seq format) | T0587.t04.near-backbone-11 | 2010 Jun 11 12:11:36 |
Script for T0587.t04.near-backbone-11 coloring in rasmol | T0587.t04.near-backbone-11-color.rasmol | 2010 Jun 11 12:11:37 |
near-backbone-11---sequence logo (eps format) (pdf format) | T0587.t04.near-backbone-11-logo | 2010 Jun 11 12:11:41 |
near-backbone-11 structure prediction (rdb format) (seq format) | T0587.t2k.near-backbone-11 | 2010 Jun 11 12:11:45 |
Script for T0587.t2k.near-backbone-11 coloring in rasmol | T0587.t2k.near-backbone-11-color.rasmol | 2010 Jun 11 12:11:46 |
near-backbone-11---sequence logo (eps format) (pdf format) | T0587.t2k.near-backbone-11-logo | 2010 Jun 11 12:11:51 |
CB8-sep9 structure prediction (rdb format) (seq format) | T0587.t06.CB8-sep9 | 2010 Jun 11 12:11:59 |
Script for T0587.t06.CB8-sep9 coloring in rasmol | T0587.t06.CB8-sep9-color.rasmol | 2010 Jun 11 12:11:59 |
CB8-sep9---sequence logo (eps format) (pdf format) | T0587.t06.CB8-sep9-logo | 2010 Jun 11 12:12:05 |
CB8-sep9 structure prediction (rdb format) (seq format) | T0587.t04.CB8-sep9 | 2010 Jun 11 12:12:10 |
Script for T0587.t04.CB8-sep9 coloring in rasmol | T0587.t04.CB8-sep9-color.rasmol | 2010 Jun 11 12:12:11 |
CB8-sep9---sequence logo (eps format) (pdf format) | T0587.t04.CB8-sep9-logo | 2010 Jun 11 12:12:17 |
CB8-sep9 structure prediction (rdb format) (seq format) | T0587.t2k.CB8-sep9 | 2010 Jun 11 12:12:22 |
Script for T0587.t2k.CB8-sep9 coloring in rasmol | T0587.t2k.CB8-sep9-color.rasmol | 2010 Jun 11 12:12:25 |
CB8-sep9---sequence logo (eps format) (pdf format) | T0587.t2k.CB8-sep9-logo | 2010 Jun 11 12:12:30 |
Target model scores |
amino acid single-track target model scores of PDB | T0587.t06-w0.5-scores.html | 2010 Jun 11 12:23:28 |
amino acid single-track target model scores of PDB | T0587.t04-w0.5-scores.html | 2010 Jun 11 12:33:24 |
amino acid single-track target model scores of PDB | T0587.t2k-w0.5-scores.html | 2010 Jun 11 12:43:09 |
amino acid/w0.5-1-str4-0.1 multi-track target model scores | T0587.t06-w0.5-1-str4-0.1-scores.html | 2010 Jun 11 12:48:56 |
amino acid/w0.5-1-str2-0.1 multi-track target model scores | T0587.t06-w0.5-1-str2-0.1-scores.html | 2010 Jun 11 12:54:39 |
amino acid/w0.5-1-alpha-0.1 multi-track target model scores | T0587.t06-w0.5-1-alpha-0.1-scores.html | 2010 Jun 11 13:00:26 |
amino acid/w0.5-1-bys-0.1 multi-track target model scores | T0587.t06-w0.5-1-bys-0.1-scores.html | 2010 Jun 11 13:06:11 |
amino acid/w0.5-1-pb-0.1 multi-track target model scores | T0587.t06-w0.5-1-pb-0.1-scores.html | 2010 Jun 11 13:11:55 |
amino acid/w0.5-1-n_notor2-0.1 multi-track target model scores | T0587.t06-w0.5-1-n_notor2-0.1-scores.html | 2010 Jun 11 13:17:33 |
amino acid/w0.5-1-n_notor-0.1 multi-track target model scores | T0587.t06-w0.5-1-n_notor-0.1-scores.html | 2010 Jun 11 13:23:15 |
amino acid/w0.5-1-n_sep-0.1 multi-track target model scores | T0587.t06-w0.5-1-n_sep-0.1-scores.html | 2010 Jun 11 13:28:57 |
amino acid/w0.5-1-o_notor2-0.1 multi-track target model scores | T0587.t06-w0.5-1-o_notor2-0.1-scores.html | 2010 Jun 11 13:34:39 |
amino acid/w0.5-1-o_notor-0.1 multi-track target model scores | T0587.t06-w0.5-1-o_notor-0.1-scores.html | 2010 Jun 11 13:40:22 |
amino acid/w0.5-1-o_sep-0.1 multi-track target model scores | T0587.t06-w0.5-1-o_sep-0.1-scores.html | 2010 Jun 11 13:46:00 |
amino acid/w0.5-1-dssp-ehl2-0.1 multi-track target model scores | T0587.t06-w0.5-1-dssp-ehl2-0.1-scores.html | 2010 Jun 11 13:51:45 |
amino acid/w0.5-1-CB_burial_14_7-0.3 multi-track target model scores | T0587.t06-w0.5-1-CB_burial_14_7-0.3-scores.html | 2010 Jun 11 13:57:33 |
amino acid/w0.5-1-near-backbone-11-0.3 multi-track target model scores | T0587.t06-w0.5-1-near-backbone-11-0.3-scores.html | 2010 Jun 11 14:03:16 |
amino acid/w0.5-1-CB8-sep9-0.3 multi-track target model scores | T0587.t06-w0.5-1-CB8-sep9-0.3-scores.html | 2010 Jun 11 14:08:59 |
amino acid/80-60-80-str2+near-backbone-11 multi-track target model scores | T0587.t06-80-60-80-str2+near-backbone-11-scores.html | 2010 Jun 11 14:15:12 |
amino acid/w0.5-1-str4-0.1 multi-track target model scores | T0587.t04-w0.5-1-str4-0.1-scores.html | 2010 Jun 11 14:21:20 |
amino acid/w0.5-1-str2-0.1 multi-track target model scores | T0587.t04-w0.5-1-str2-0.1-scores.html | 2010 Jun 11 14:27:26 |
amino acid/w0.5-1-alpha-0.1 multi-track target model scores | T0587.t04-w0.5-1-alpha-0.1-scores.html | 2010 Jun 11 14:33:36 |
amino acid/w0.5-1-bys-0.1 multi-track target model scores | T0587.t04-w0.5-1-bys-0.1-scores.html | 2010 Jun 11 14:39:42 |
amino acid/w0.5-1-pb-0.1 multi-track target model scores | T0587.t04-w0.5-1-pb-0.1-scores.html | 2010 Jun 11 14:45:51 |
amino acid/w0.5-1-n_notor2-0.1 multi-track target model scores | T0587.t04-w0.5-1-n_notor2-0.1-scores.html | 2010 Jun 11 14:51:57 |
amino acid/w0.5-1-n_notor-0.1 multi-track target model scores | T0587.t04-w0.5-1-n_notor-0.1-scores.html | 2010 Jun 11 14:58:08 |
amino acid/w0.5-1-n_sep-0.1 multi-track target model scores | T0587.t04-w0.5-1-n_sep-0.1-scores.html | 2010 Jun 11 15:04:19 |
amino acid/w0.5-1-o_notor2-0.1 multi-track target model scores | T0587.t04-w0.5-1-o_notor2-0.1-scores.html | 2010 Jun 11 15:10:25 |
amino acid/w0.5-1-o_notor-0.1 multi-track target model scores | T0587.t04-w0.5-1-o_notor-0.1-scores.html | 2010 Jun 11 15:16:35 |
amino acid/w0.5-1-o_sep-0.1 multi-track target model scores | T0587.t04-w0.5-1-o_sep-0.1-scores.html | 2010 Jun 11 15:22:44 |
amino acid/w0.5-1-dssp-ehl2-0.1 multi-track target model scores | T0587.t04-w0.5-1-dssp-ehl2-0.1-scores.html | 2010 Jun 11 15:28:49 |
amino acid/w0.5-1-CB_burial_14_7-0.3 multi-track target model scores | T0587.t04-w0.5-1-CB_burial_14_7-0.3-scores.html | 2010 Jun 11 15:34:58 |
amino acid/w0.5-1-near-backbone-11-0.3 multi-track target model scores | T0587.t04-w0.5-1-near-backbone-11-0.3-scores.html | 2010 Jun 11 15:41:10 |
amino acid/w0.5-1-CB8-sep9-0.3 multi-track target model scores | T0587.t04-w0.5-1-CB8-sep9-0.3-scores.html | 2010 Jun 11 15:47:21 |
amino acid/80-60-80-str2+near-backbone-11 multi-track target model scores | T0587.t04-80-60-80-str2+near-backbone-11-scores.html | 2010 Jun 11 15:54:00 |
amino acid/w0.5-1-str4-0.1 multi-track target model scores | T0587.t2k-w0.5-1-str4-0.1-scores.html | 2010 Jun 11 16:00:36 |
amino acid/w0.5-1-str2-0.1 multi-track target model scores | T0587.t2k-w0.5-1-str2-0.1-scores.html | 2010 Jun 11 16:07:11 |
amino acid/w0.5-1-alpha-0.1 multi-track target model scores | T0587.t2k-w0.5-1-alpha-0.1-scores.html | 2010 Jun 11 16:13:47 |
amino acid/w0.5-1-bys-0.1 multi-track target model scores | T0587.t2k-w0.5-1-bys-0.1-scores.html | 2010 Jun 11 16:20:24 |
amino acid/w0.5-1-pb-0.1 multi-track target model scores | T0587.t2k-w0.5-1-pb-0.1-scores.html | 2010 Jun 11 16:26:58 |
amino acid/w0.5-1-n_notor2-0.1 multi-track target model scores | T0587.t2k-w0.5-1-n_notor2-0.1-scores.html | 2010 Jun 11 16:33:34 |
amino acid/w0.5-1-n_notor-0.1 multi-track target model scores | T0587.t2k-w0.5-1-n_notor-0.1-scores.html | 2010 Jun 11 16:40:11 |
amino acid/w0.5-1-n_sep-0.1 multi-track target model scores | T0587.t2k-w0.5-1-n_sep-0.1-scores.html | 2010 Jun 11 16:46:49 |
amino acid/w0.5-1-o_notor2-0.1 multi-track target model scores | T0587.t2k-w0.5-1-o_notor2-0.1-scores.html | 2010 Jun 11 16:53:24 |
amino acid/w0.5-1-o_notor-0.1 multi-track target model scores | T0587.t2k-w0.5-1-o_notor-0.1-scores.html | 2010 Jun 11 17:00:05 |
amino acid/w0.5-1-o_sep-0.1 multi-track target model scores | T0587.t2k-w0.5-1-o_sep-0.1-scores.html | 2010 Jun 11 17:06:40 |
amino acid/w0.5-1-dssp-ehl2-0.1 multi-track target model scores | T0587.t2k-w0.5-1-dssp-ehl2-0.1-scores.html | 2010 Jun 11 17:13:13 |
amino acid/w0.5-1-CB_burial_14_7-0.3 multi-track target model scores | T0587.t2k-w0.5-1-CB_burial_14_7-0.3-scores.html | 2010 Jun 11 17:19:55 |
amino acid/w0.5-1-near-backbone-11-0.3 multi-track target model scores | T0587.t2k-w0.5-1-near-backbone-11-0.3-scores.html | 2010 Jun 11 17:26:30 |
amino acid/w0.5-1-CB8-sep9-0.3 multi-track target model scores | T0587.t2k-w0.5-1-CB8-sep9-0.3-scores.html | 2010 Jun 11 17:33:09 |
amino acid/80-60-80-str2+near-backbone-11 multi-track target model scores | T0587.t2k-80-60-80-str2+near-backbone-11-scores.html | 2010 Jun 11 17:40:22 |
Template model scores |
Annotated t06 template model scores | T0587.t06-template-lib-scores.html | 2010 Jun 11 19:37:19 |
Annotated t04 template model scores | T0587.t04-template-lib-scores.html | 2010 Jun 11 21:15:42 |
Annotated t2k template model scores | T0587.t2k-template-lib-scores.html | 2010 Jun 11 22:32:29 |
Top Hits |
Best scoring hits from t06 HMMs | T0587.t06.best-scores.html | 2010 Jun 11 22:44:36 |
Best scoring hits from t04 HMMs | T0587.t04.best-scores.html | 2010 Jun 11 22:54:31 |
Best scoring hits from t2k HMMs | T0587.t2k.best-scores.html | 2010 Jun 11 23:04:14 |
Best scoring hits from combining t06 t04 t2k | T0587.best-scores-all.html | 2010 Jun 11 23:04:20 |
Alignments for Top Hits |
Top alignments from t06 hits | T0587.t06.top_reported_alignments.html | 2010 Jun 12 1:49:49 |
Top alignments from t04 hits | T0587.t04.top_reported_alignments.html | 2010 Jun 12 1:50:01 |
Top alignments from t2k hits | T0587.t2k.top_reported_alignments.html | 2010 Jun 12 1:50:23 |
Top alignments from combined hits | T0587.top_reported_alignments.html | 2010 Jun 12 1:50:59 |
multiple alignment of templates (a2m.gz format) (pa format) | all-align | 2010 Jun 12 1:57:23 |
Undertaker (3d) files |
Undertaker input for top t06 alignments | T0587.t06.undertaker-align.under | 2010 Jun 12 2:21:12 |
Undertaker input for top t04 alignments | T0587.t04.undertaker-align.under | 2010 Jun 12 2:21:40 |
Undertaker input for top t2k alignments | T0587.t2k.undertaker-align.under | 2010 Jun 12 2:22:07 |
Undertaker input for top combined alignments | T0587.undertaker-align.under | 2010 Jun 12 2:23:40 |
PDB file with model(s) for top alignments | T0587.undertaker-align.pdb.gz | 2010 Jun 12 2:30:06 |
Images of an (incomplete) model created by sidechain replacement on the backbone of the highest scoring template.
Coloring is defined by ehl2, to show predicted secondary structure (red for helix, yellow for strand, blue for turn, grey for other).
Front | Top | Side |
500x500 | 500x500 | 500x500 |
Fragment list for undertaker (from fragfinder) | T0587.t06.many.frag.gz | 2010 Jun 12 2:32:22 |
Fragment list for undertaker (from fragfinder) | T0587.t04.many.frag.gz | 2010 Jun 12 2:34:01 |
Fragment list for undertaker (from fragfinder) | T0587.t2k.many.frag.gz | 2010 Jun 12 2:35:40 |
Contact predictions, based on predicted burial (near-backbone-11), predicted secondary structure(str2), predicted H-bonds (n_sep), amino acid profile, log(protein length), log(separation) |
contact predictions (rr format) (rr.nn1000.constraints format) (rr.rasmol format) | T0587.647_47 | 2010 Jun 12 2:58:28 |
contact predictions (rr format) (rr.nn1000.constraints format) (rr.rasmol format) | T0587.730_47 | 2010 Jun 12 2:58:44 |
contact predictions (rr format) (rr.nn1000.constraints format) (rr.rasmol format) | T0587.648_17.730_47 | 2010 Jun 12 2:59:34 |
Distance constraints extracted from alignments |
Constraints from alignment | align.constraints | 2010 Jun 12 3:27:49 |
Rejected constraints | rejected_bonus.constraints | 2010 Jun 12 3:27:50 |
Noncontact constraints | noncontact.constraints | 2010 Jun 12 3:27:50 |
First attempted model using undertaker | decoys/T0587.try1-opt3.pdb.gz | 2010 Jun 12 8:13:36 |
Images of complete model in decoys/T0587.try1-opt3.pdb.gz
Coloring is defined by the dssp rasmol script, to show predicted secondary structure (red for helix, yellow for strand, blue for turn, grey for other).
Front | Top | Side |
500x500 | 500x500 | 500x500 |
Gzipped tarball of all the files | T0587.tgz | 2010 Jun 12 8:36:36 |
Please cite the following papers:
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based on prior designs by Kevin Karplus, Alex Williams, and Rachel Karchin.
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