ACH7_SHORT (P36544) Neuronal acetylcholine receptor protein, alpha-7 chain precursor
| Description | Link to file | Date |
| Inputs |
| Submitted sequence(s) | ACH7_SHORT.a2m | 2004 May 19 16:48:14 |
| README file | README | 2005 Jan 17 10:14:23 |
| Multiple alignment |
| SAM_t04 multiple alignment in a2m format | ACH7_SHORT.t04.a2m.gz | 2005 Jan 14 20:11:50 |
| SAM_t04 multiple alignment in pretty html format | ACH7_SHORT.t04.pa.html | 2005 Jan 14 20:12:15 |
| SAM_t04 target hidden Markov model | ACH7_SHORT.t04.w0.5.mod | 2005 Jan 14 20:12:16 |
| SAM_t04 multiple alignment---sequence logo (eps format) (pdf format) | ACH7_SHORT.t04.w0.5-logo | 2005 Jan 14 20:12:27 |
| Script for highlighting in rasmol | conserved_t04 | 2005 Jan 14 20:12:27 |
| SAM_t2k multiple alignment in a2m format | ACH7_SHORT.t2k.a2m.gz | 2005 Jan 14 20:23:50 |
| SAM_t2k multiple alignment in pretty html format | ACH7_SHORT.t2k.pa.html | 2005 Jan 14 20:24:12 |
| SAM_t2k target hidden Markov model | ACH7_SHORT.t2k.w0.5.mod | 2005 Jan 14 20:24:12 |
| SAM_t2k multiple alignment---sequence logo (eps format) (pdf format) | ACH7_SHORT.t2k.w0.5-logo | 2005 Jan 14 20:24:21 |
| Script for highlighting in rasmol | conserved_t2k | 2005 Jan 14 20:24:21 |
| Secondary Structure Prediction (Explanation of secondary-structure predictions) |
| str2 structure prediction (rdb format) (seq format) | ACH7_SHORT.t2k.str2 | 2005 Jan 14 20:24:22 |
| Script for ACH7_SHORT.t2k.str2 coloring in rasmol | ACH7_SHORT.t2k.str2-color.rasmol | 2005 Jan 14 20:24:22 |
| str2---sequence logo (eps format) (pdf format) | ACH7_SHORT.t2k.str2-logo | 2005 Jan 17 10:36:36 |
| stride-ebghtl structure prediction (rdb format) (seq format) | ACH7_SHORT.t2k.stride-ebghtl | 2005 Jan 14 20:24:14 |
| Script for ACH7_SHORT.t2k.stride-ebghtl coloring in rasmol | ACH7_SHORT.t2k.stride-ebghtl-color.rasmol | 2005 Jan 14 20:24:30 |
| stride-ebghtl---sequence logo (eps format) (pdf format) | ACH7_SHORT.t2k.stride-ebghtl-logo | 2005 Jan 14 20:24:36 |
| dssp-ebghstl structure prediction (rdb format) (seq format) | ACH7_SHORT.t2k.dssp-ebghstl | 2005 Jan 14 20:24:36 |
| Script for ACH7_SHORT.t2k.dssp-ebghstl coloring in rasmol | ACH7_SHORT.t2k.dssp-ebghstl-color.rasmol | 2005 Jan 14 20:24:37 |
| dssp-ebghstl---sequence logo (eps format) (pdf format) | ACH7_SHORT.t2k.dssp-ebghstl-logo | 2005 Jan 14 20:24:43 |
| alpha structure prediction (rdb format) (seq format) | ACH7_SHORT.t2k.alpha | 2005 Jan 14 20:24:44 |
| Script for ACH7_SHORT.t2k.alpha coloring in rasmol | ACH7_SHORT.t2k.alpha-color.rasmol | 2005 Jan 14 20:24:44 |
| alpha---sequence logo (eps format) (pdf format) | ACH7_SHORT.t2k.alpha-logo | 2005 Jan 14 20:24:51 |
| bys structure prediction (rdb format) (seq format) | ACH7_SHORT.t2k.bys | 2005 Jan 14 20:24:52 |
| Script for ACH7_SHORT.t2k.bys coloring in rasmol | ACH7_SHORT.t2k.bys-color.rasmol | 2005 Jan 14 20:24:52 |
| bys---sequence logo (eps format) (pdf format) | ACH7_SHORT.t2k.bys-logo | 2005 Jan 14 20:25:00 |
| dssp-ehl2 structure prediction (rdb format) (seq format) | ACH7_SHORT.t2k.dssp-ehl2 | 2005 Jan 14 20:25:01 |
| Script for ACH7_SHORT.t2k.dssp-ehl2 coloring in rasmol | ACH7_SHORT.t2k.dssp-ehl2-color.rasmol | 2005 Jan 14 20:25:01 |
| dssp-ehl2---sequence logo (eps format) (pdf format) | ACH7_SHORT.t2k.dssp-ehl2-logo | 2005 Jan 14 20:25:08 |
| CB_burial_14_7 structure prediction (rdb format) (seq format) | ACH7_SHORT.t2k.CB_burial_14_7 | 2005 Jan 14 20:25:08 |
| Script for ACH7_SHORT.t2k.CB_burial_14_7 coloring in rasmol | ACH7_SHORT.t2k.CB_burial_14_7-color.rasmol | 2005 Jan 14 20:25:09 |
| CB_burial_14_7---sequence logo (eps format) (pdf format) | ACH7_SHORT.t2k.CB_burial_14_7-logo | 2005 Jan 17 10:36:48 |
| near-backbone-11 structure prediction (rdb format) (seq format) | ACH7_SHORT.t2k.near-backbone-11 | 2005 Jan 14 20:25:18 |
| Script for ACH7_SHORT.t2k.near-backbone-11 coloring in rasmol | ACH7_SHORT.t2k.near-backbone-11-color.rasmol | 2005 Jan 14 20:25:18 |
| near-backbone-11---sequence logo (eps format) (pdf format) | ACH7_SHORT.t2k.near-backbone-11-logo | 2005 Jan 17 10:36:55 |
| str2 structure prediction (rdb format) (seq format) | ACH7_SHORT.t04.str2 | 2005 Jan 14 20:25:26 |
| Script for ACH7_SHORT.t04.str2 coloring in rasmol | ACH7_SHORT.t04.str2-color.rasmol | 2005 Jan 14 20:25:27 |
| str2---sequence logo (eps format) (pdf format) | ACH7_SHORT.t04.str2-logo | 2005 Jan 14 20:25:33 |
| stride-ebghtl structure prediction (rdb format) (seq format) | ACH7_SHORT.t04.stride-ebghtl | 2005 Jan 14 20:12:19 |
| Script for ACH7_SHORT.t04.stride-ebghtl coloring in rasmol | ACH7_SHORT.t04.stride-ebghtl-color.rasmol | 2005 Jan 14 20:25:34 |
| stride-ebghtl---sequence logo (eps format) (pdf format) | ACH7_SHORT.t04.stride-ebghtl-logo | 2005 Jan 14 20:25:41 |
| dssp-ebghstl structure prediction (rdb format) (seq format) | ACH7_SHORT.t04.dssp-ebghstl | 2005 Jan 14 20:25:42 |
| Script for ACH7_SHORT.t04.dssp-ebghstl coloring in rasmol | ACH7_SHORT.t04.dssp-ebghstl-color.rasmol | 2005 Jan 14 20:25:42 |
| dssp-ebghstl---sequence logo (eps format) (pdf format) | ACH7_SHORT.t04.dssp-ebghstl-logo | 2005 Jan 17 10:37:03 |
| alpha structure prediction (rdb format) (seq format) | ACH7_SHORT.t04.alpha | 2005 Jan 14 20:25:50 |
| Script for ACH7_SHORT.t04.alpha coloring in rasmol | ACH7_SHORT.t04.alpha-color.rasmol | 2005 Jan 14 20:25:50 |
| alpha---sequence logo (eps format) (pdf format) | ACH7_SHORT.t04.alpha-logo | 2005 Jan 17 10:37:10 |
| bys structure prediction (rdb format) (seq format) | ACH7_SHORT.t04.bys | 2005 Jan 14 20:26:00 |
| Script for ACH7_SHORT.t04.bys coloring in rasmol | ACH7_SHORT.t04.bys-color.rasmol | 2005 Jan 14 20:26:00 |
| bys---sequence logo (eps format) (pdf format) | ACH7_SHORT.t04.bys-logo | 2005 Jan 17 10:37:18 |
| dssp-ehl2 structure prediction (rdb format) (seq format) | ACH7_SHORT.t04.dssp-ehl2 | 2005 Jan 14 20:26:08 |
| Script for ACH7_SHORT.t04.dssp-ehl2 coloring in rasmol | ACH7_SHORT.t04.dssp-ehl2-color.rasmol | 2005 Jan 14 20:26:08 |
| dssp-ehl2---sequence logo (eps format) (pdf format) | ACH7_SHORT.t04.dssp-ehl2-logo | 2005 Jan 17 10:37:25 |
| CB_burial_14_7 structure prediction (rdb format) (seq format) | ACH7_SHORT.t04.CB_burial_14_7 | 2005 Jan 14 20:26:16 |
| Script for ACH7_SHORT.t04.CB_burial_14_7 coloring in rasmol | ACH7_SHORT.t04.CB_burial_14_7-color.rasmol | 2005 Jan 14 20:26:16 |
| CB_burial_14_7---sequence logo (eps format) (pdf format) | ACH7_SHORT.t04.CB_burial_14_7-logo | 2005 Jan 17 10:37:34 |
| near-backbone-11 structure prediction (rdb format) (seq format) | ACH7_SHORT.t04.near-backbone-11 | 2005 Jan 14 20:26:24 |
| Script for ACH7_SHORT.t04.near-backbone-11 coloring in rasmol | ACH7_SHORT.t04.near-backbone-11-color.rasmol | 2005 Jan 14 20:26:25 |
| near-backbone-11---sequence logo (eps format) (pdf format) | ACH7_SHORT.t04.near-backbone-11-logo | 2005 Jan 14 20:26:31 |
| Target model scores |
| amino acid single-track target model scores of PDB | ACH7_SHORT.t2k-w0.5-scores.html | 2005 Jan 14 20:28:52 |
| amino acid single-track target model scores of PDB | ACH7_SHORT.t04-w0.5-scores.html | 2005 Jan 14 20:30:58 |
| amino acid/100-30-str2 two-track target model scores | ACH7_SHORT.t2k-100-30-str2-scores.html | 2005 Jan 17 10:39:51 |
| amino acid/100-30-stride-ebghtl two-track target model scores | ACH7_SHORT.t2k-100-30-stride-ebghtl-scores.html | 2005 Jan 14 20:35:24 |
| amino acid/100-30-dssp-ebghstl two-track target model scores | ACH7_SHORT.t2k-100-30-dssp-ebghstl-scores.html | 2005 Jan 14 20:37:42 |
| amino acid/100-30-alpha two-track target model scores | ACH7_SHORT.t2k-100-30-alpha-scores.html | 2005 Jan 17 10:39:52 |
| amino acid/100-30-bys two-track target model scores | ACH7_SHORT.t2k-100-30-bys-scores.html | 2005 Jan 14 20:39:57 |
| amino acid/100-30-dssp-ehl2 two-track target model scores | ACH7_SHORT.t2k-100-30-dssp-ehl2-scores.html | 2005 Jan 14 20:42:09 |
| amino acid/100-30-CB_burial_14_7 two-track target model scores | ACH7_SHORT.t2k-100-30-CB_burial_14_7-scores.html | 2005 Jan 17 10:42:03 |
| amino acid/100-30-near-backbone-11 two-track target model scores | ACH7_SHORT.t2k-100-30-near-backbone-11-scores.html | 2005 Jan 17 10:44:19 |
| amino acid/100-40-40-str2+CB_burial_14_7 two-track target model scores | ACH7_SHORT.t2k-100-40-40-str2+CB_burial_14_7-scores.html | 2005 Jan 17 10:46:44 |
| amino acid/100-30-str2 two-track target model scores | ACH7_SHORT.t04-100-30-str2-scores.html | 2005 Jan 14 20:50:30 |
| amino acid/100-30-stride-ebghtl two-track target model scores | ACH7_SHORT.t04-100-30-stride-ebghtl-scores.html | 2005 Jan 14 20:52:03 |
| amino acid/100-30-dssp-ebghstl two-track target model scores | ACH7_SHORT.t04-100-30-dssp-ebghstl-scores.html | 2005 Jan 17 10:48:22 |
| amino acid/100-30-alpha two-track target model scores | ACH7_SHORT.t04-100-30-alpha-scores.html | 2005 Jan 17 10:49:56 |
| amino acid/100-30-bys two-track target model scores | ACH7_SHORT.t04-100-30-bys-scores.html | 2005 Jan 17 10:51:30 |
| amino acid/100-30-dssp-ehl2 two-track target model scores | ACH7_SHORT.t04-100-30-dssp-ehl2-scores.html | 2005 Jan 17 10:53:03 |
| amino acid/100-30-CB_burial_14_7 two-track target model scores | ACH7_SHORT.t04-100-30-CB_burial_14_7-scores.html | 2005 Jan 17 10:54:39 |
| amino acid/100-30-near-backbone-11 two-track target model scores | ACH7_SHORT.t04-100-30-near-backbone-11-scores.html | 2005 Jan 14 20:59:49 |
| amino acid/100-40-40-str2+CB_burial_14_7 two-track target model scores | ACH7_SHORT.t04-100-40-40-str2+CB_burial_14_7-scores.html | 2005 Jan 17 10:56:26 |
| Template model scores |
| Annotated template model scores | ACH7_SHORT.template-lib-scores.html | 2005 Jan 14 21:08:41 |
| Top Hits |
| Best scoring hits from all models | ACH7_SHORT.t2k.best-scores.html | 2005 Jan 17 10:56:26 |
| Alignments for Top Hits |
| T02 Many Alignments Summary | ACH7_SHORT.t2k.many_alignments.html | 2005 Jan 17 10:57:05 |
| T02 Top Models Summary | ACH7_SHORT.t2k.top_reported_alignments.html | 2005 Jan 17 10:57:07 |
| T02 Many Alignments Summary | ACH7_SHORT.t04.many_alignments.html | 2005 Jan 17 10:57:08 |
| T02 Top Models Summary | ACH7_SHORT.t04.top_reported_alignments.html | 2005 Jan 17 10:57:09 |
| multiple alignment of templates (a2m.gz format) (pa format) | all-align | 2005 Jan 17 10:57:10 |
| Undertaker (3d) files |
| Multiple alignment for undertaker templates | ACH7_SHORT.t2k-2track-undertaker.a2m | 2005 Jan 17 10:58:16 |
| Undertaker input for top alignments | ACH7_SHORT.t2k.undertaker-align.under | 2005 Jan 17 10:58:15 |
| PDB file with model(s) for top alignments | ACH7_SHORT.t2k.undertaker-align.pdb.gz | 2005 Jan 17 10:58:58 |
| Fragment list for undertaker (from fragfinder) | ACH7_SHORT.t04.many.frag.gz | 2005 Jan 17 10:59:29 |
| Fragment list for undertaker (from fragfinder) | ACH7_SHORT.t2k.many.frag.gz | 2005 Jan 17 10:59:59 |
| First attempted model using undertaker | decoys/ACH7_SHORT.try1-opt2.pdb.gz | 2005 Jan 14 22:47:09 |
| Significant mutual information between column pairs |
| Mutual information table (align thinned to 30% ID) | ACH7_SHORT.t2k-thin30.mi.rdb | 2005 Jan 14 22:48:45 |
| Mutual information table (align thinned to 35% ID) | ACH7_SHORT.t2k-thin35.mi.rdb | 2005 Jan 14 22:49:32 |
| Mutual information table (align thinned to 40% ID) | ACH7_SHORT.t2k-thin40.mi.rdb | 2005 Jan 14 22:50:51 |
| Mutual information table (align thinned to 50% ID) | ACH7_SHORT.t2k-thin50.mi.rdb | 2005 Jan 14 22:54:46 |
| Mutual information table (align thinned to 62% ID) | ACH7_SHORT.t2k-thin62.mi.rdb | 2005 Jan 14 23:06:18 |
| Mutual information table (align thinned to 30% ID) | ACH7_SHORT.t04-thin30.mi.rdb | 2005 Jan 14 23:07:13 |
| Mutual information table (align thinned to 35% ID) | ACH7_SHORT.t04-thin35.mi.rdb | 2005 Jan 14 23:08:22 |
| Mutual information table (align thinned to 40% ID) | ACH7_SHORT.t04-thin40.mi.rdb | 2005 Jan 14 23:10:02 |
| Mutual information table (align thinned to 50% ID) | ACH7_SHORT.t04-thin50.mi.rdb | 2005 Jan 14 23:15:01 |
| Mutual information table (align thinned to 62% ID) | ACH7_SHORT.t04-thin62.mi.rdb | 2005 Jan 14 23:28:49 |
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