# List of top-scoring protein chains for t2k-100-30-alpha hidden Markov model. # HMM and HMM E-value scores computed by SAM (c) 1992-2001 Regents of the University of California, Santa Cruz # Sequence Alignment and Modeling Software System # http://www.cse.ucsc.edu/research/compbio/sam.html # ----------------- Citations (SAM, SAM-T99, HMMs) -------------------- # R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: # Extension and analysis of the basic method, CABIOS 12:95-107, 1996. # K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 1cwoA 165 5.79e-32 2cpl b.62.1.1 27445 1awqA 164 8.89e-32 2cpl b.62.1.1 27461 2cpl 165 9.22e-32 2cpl b.62.1.1 27420 1awsA 164 1.21e-31 2cpl b.62.1.1 27431 1dywA 173 1.21e-30 2cpl b.62.1.1 27505 1ihgA 370 2.10e-29 2cpl a.118.8.1 62380 b.62.1.1 62381 1qoiA 177 7.77e-29 2cpl b.62.1.1 27490 2rmcA 182 2.51e-28 2cpl b.62.1.1 27491 1a58 177 5.49e-28 2cpl b.62.1.1 27495 1lopA 164 1.51e-20 2cpl b.62.1.1 27510 1agx 331 6.37e-01 4pgaA c.88.1.1 35564 1ck7A 631 1.54e+00 1ck7A a.20.1.2 58969 b.66.1.1 27538 d.92.1.11 58970 g.14.1.2 44674 g.14.1.2 44675 g.14.1.2 44676 2sil 381 1.75e+00 3sil b.68.1.1 27543 1hxmD 242 1.85e+00 b.1.1.1 61373 b.1.1.2 61374 1rypK 198 2.19e+00 d.153.1.4 41879 3sil 379 2.27e+00 3sil b.68.1.1 27542 1rtfB 252 2.73e+00 5ptp 1a0sP 413 3.03e+00 1a0tP f.4.3.2 43797 1k2fA 190 3.64e+00 b.8.1.2 68054 1qcsA 211 3.65e+00 1qcsA b.52.2.3 26927 d.31.1.1 38461 1gt8A 1025 4.31e+00 1tns 76 4.64e+00 1qpmA a.4.5.26 16228 1a0tP 413 4.75e+00 1a0tP f.4.3.2 43794 1gggB 226 4.82e+00 1lst c.94.1.1 35818 1h7xD 1025 4.93e+00 a.1.2.2 15690 c.1.4.1 28635 c.3.1.1 30331 c.4.1.1 30616 d.58.1.5 39014 1g7fA 298 5.05e+00 1pty c.45.1.2 60330 1dbhA 354 5.05e+00 1awe a.87.1.1 18514 b.55.1.1 26967 1h7xC 1025 5.16e+00 a.1.2.2 15689 c.1.4.1 28634 c.3.1.1 30330 c.4.1.1 30615 d.58.1.5 39013 2snv 151 5.20e+00 1svpA b.47.1.3 26394 1gthA 1025 5.22e+00 1h7wB 1025 5.22e+00 a.1.2.2 15684 c.1.4.1 28629 c.3.1.1 30325 c.4.1.1 30610 d.58.1.5 39008 1gc1H 229 5.27e+00 1gc1H b.1.1.1 20265 b.1.1.2 21265 1h8dH 260 5.28e+00 5ptp 2hnp 321 5.73e+00 1pty c.45.1.2 32678 1dz3A 130 5.79e+00 1dz3A c.23.1.1 31105 1j71A 334 5.83e+00 1eagA b.50.1.2 62669 1h7wD 1025 5.92e+00 a.1.2.2 15686 c.1.4.1 28631 c.3.1.1 30327 c.4.1.1 30612 d.58.1.5 39010 1b04A 318 6.12e+00 1b04A d.142.2.2 41579 1h7wA 1025 6.49e+00 1h7wA a.1.2.2 15683 c.1.4.1 28628 c.3.1.1 30324 c.4.1.1 30609 d.58.1.5 39007 1eeoA 321 6.52e+00 1pty c.45.1.2 32655 1gthD 1025 6.67e+00 1h7xB 1025 6.73e+00 a.1.2.2 15688 c.1.4.1 28633 c.3.1.1 30329 c.4.1.1 30614 d.58.1.5 39012 1ahtH 259 6.77e+00 5ptp 1tvdA 116 6.96e+00 1tvdA b.1.1.1 20650 8kme2 259 7.01e+00 1ucyE 1gt8C 1025 7.23e+00 1gthB 1025 7.58e+00 1svpA 161 7.63e+00 1svpA b.47.1.3 26384 1gthC 1025 7.71e+00 1pty 321 7.83e+00 1pty c.45.1.2 32656 1h7xA 1025 8.18e+00 1h7wA a.1.2.2 15687 c.1.4.1 28632 c.3.1.1 30328 c.4.1.1 30613 d.58.1.5 39011 6acn 754 8.29e+00 1amj c.8.2.1 30721 c.83.1.1 35397 1k8tA 510 8.31e+00 e.9.1.4 68316 1an8 208 8.34e+00 1an8 b.40.2.2 25202 d.15.6.1 37791 1c5lH 259 8.46e+00 5ptp 1gteD 1025 8.46e+00 1qmpA 130 8.62e+00 1dz3A c.23.1.1 31106 1amj 754 8.65e+00 1amj c.8.2.1 30725 c.83.1.1 35401 1gteA 1025 8.77e+00 1qreA 247 8.79e+00 1qreA b.81.1.5 28066 1dl5A 317 8.82e+00 1dl5A c.66.1.7 64720 d.197.1.1 64721 1ptvA 321 8.99e+00 1pty c.45.1.2 32665 1gt8B 1025 9.17e+00 1poiA 317 9.26e+00 1poiA c.63.1.1 34153 1dr9A 201 9.47e+00 1dr9A b.1.1.1 19762 b.1.1.3 21684 1f39A 101 9.73e+00 1umuA b.87.1.1 28386 1tmy 120 9.93e+00 1dbwA c.23.1.1 31083 1wdnA 226 9.99e+00 1lst c.94.1.1 35816 1eerB 227 1.03e+01 1eerB b.1.2.1 22011 b.1.2.1 22012 1cei 94 1.05e+01 1cei a.28.2.1 16939 1e1oA 504 1.09e+01 1lylA b.40.4.1 25258 d.104.1.1 40714 1gt8D 1025 1.10e+01 1eesA 178 1.10e+01 1eesA c.37.1.8 32073 1fs0E 138 1.21e+01 1aqt a.2.10.1 59997 b.93.1.1 59998 1c96A 753 1.25e+01 1amj c.8.2.1 30727 c.83.1.1 35403 1qu5A 182 1.29e+01 1qu5A b.26.1.2 23922 1crl 534 1.30e+01 1thg c.69.1.17 34765 1a70 97 1.31e+01 1awd d.15.4.1 37678 1qovH 260 1.32e+01 6prcH b.41.1.1 25464 f.2.1.2 43457 1hy7A 173 1.41e+01 d.92.1.11 65957 2kaiA 80 1.44e+01 2pkaA b.47.1.2 26306 1ffyA 917 1.46e+01 1qu2A a.27.1.1 16926 b.51.1.1 26891 c.26.1.1 31593 1qu2A 917 1.46e+01 1qu2A a.27.1.1 16925 b.51.1.1 26890 c.26.1.1 31592 1jfbA 404 1.49e+01 a.104.1.1 66624 1unkA 87 1.53e+01 1cei a.28.2.1 16935 7acn 754 1.56e+01 1amj c.8.2.1 30717 c.83.1.1 35393 1d3hA 367 1.57e+01 1d3gA c.1.4.1 28601 1thjA 214 1.57e+01 1qreA b.81.1.5 28072 1derA 547 1.58e+01 1derA a.129.1.1 19459 c.8.5.1 30788 d.56.1.1 38907 1li1A 229 1.58e+01 1cleA 534 1.69e+01 1thg c.69.1.17 34771 1qhbA 596 1.71e+01 1qhbA a.111.1.2 19055 1smlA 269 1.71e+01 1smlA d.157.1.1 42053 1ucyE 109 1.76e+01 1ucyE 8acn 754 1.77e+01 1amj c.8.2.1 30724 c.83.1.1 35400 1ej6B 1275 1.77e+01 i.7.1.1 45968 1by5A 714 1.77e+01 1by5A f.4.3.3 43800 1dmzA 158 1.77e+01 1qu5A b.26.1.2 23921 1b0jA 754 1.78e+01 1amj c.8.2.1 30719 c.83.1.1 35395 1fjsA 234 1.82e+01 1ucyE b.47.1.2 26336 830cA 168 1.82e+01 1ck7A d.92.1.11 40400 1g6gA 127 1.88e+01 1g6gA b.26.1.2 23916 1kb5A 115 1.88e+01 1tvdA b.1.1.1 20611 1ciy 590 1.91e+01 1ciy b.18.1.3 23720 b.77.2.1 27977 f.1.3.1 43392 1rom 403 1.93e+01 1rom a.104.1.1 18963 1hfs 160 1.95e+01 1hfc d.92.1.11 40370 1f24A 402 1.96e+01 1rom a.104.1.1 18953 1qfgA 725 1.98e+01 1by5A f.4.3.3 43803 2sodB 152 2.00e+01 1mfmA b.1.8.1 22242 1bh5A 183 2.01e+01 1qipA d.32.1.1 38476 2pkaA 80 2.02e+01 2pkaA b.47.1.2 26302 1jdw 423 2.02e+01 1jdw d.126.1.2 41129 1cxvA 164 2.19e+01 1ck7A d.92.1.11 40404 1h4xA 117 2.20e+01 1auz c.13.2.1 60626 1f0lA 535 2.24e+01 1ddt b.2.1.1 22377 d.166.1.1 42239 f.1.2.1 43382 4sli 679 2.24e+01 2sli b.29.1.9 24275 b.68.1.1 27612 2fcpA 723 2.26e+01 1by5A f.4.3.3 43802 1hv9A 456 2.27e+01 1fwyA b.81.1.4 28060 c.68.1.5 34518 1g2lA 235 2.27e+01 b.47.1.2 65112 1umuB 116 2.27e+01 1umuA b.87.1.1 28383 2sli 679 2.29e+01 2sli b.29.1.9 24274 b.68.1.1 27611 1e6oH 219 2.35e+01 1igtB b.1.1.1 20495 b.1.1.2 21453 1by3A 714 2.37e+01 1by5A f.4.3.3 43801 1nddA 76 2.43e+01 1ubi d.15.1.1 37599 1gh7A 419 2.44e+01 b.1.2.1 65194 b.1.2.1 65195 b.1.2.1 65196 b.1.2.1 65197 1a05A 358 2.46e+01 1cnzA c.77.1.1 35059 1thx 115 2.47e+01 1thx c.47.1.1 32732 1ystH 260 2.50e+01 6prcH b.41.1.1 25482 f.2.1.2 43511 1ddt 535 2.52e+01 1ddt b.2.1.1 22379 d.166.1.1 42241 f.1.2.1 43384 1ewnA 219 2.57e+01 1bnkA b.46.1.2 25762 1cr5A 189 2.58e+01 1cr5A b.52.2.3 26931 d.31.1.1 38465 1agjA 242 2.59e+01 1agjA b.47.1.1 25827 1cjbA 231 2.62e+01 1qk3A c.61.1.1 34079 1yaiA 151 2.63e+01 1yaiA b.1.8.1 22289 1wjbA 55 2.67e+01 1wjcA a.4.10.1 16265 1hq8A 123 2.68e+01 1b6e d.169.1.1 61127 1lylA 504 2.72e+01 1lylA b.40.4.1 25261 d.104.1.1 40717 1jj2H 167 2.75e+01 1ffkF d.41.4.1 63093 1fxiA 96 2.77e+01 1awd d.15.4.1 37664 1ki1B 352 2.77e+01 1gpmA 525 2.79e+01 1gpmA c.23.16.1 31405 c.26.2.1 31608 d.52.2.1 38826 4fgf 146 2.87e+01 1bfg b.42.1.1 25486 1amm 174 2.89e+01 1amm b.11.1.1 23587 b.11.1.1 23588 1kq4A 232 2.89e+01 d.207.1.1 68791 1j7nA 776 2.99e+01 d.92.1.14 66409 d.92.1.14 66410 d.166.1.1 66411 1dqiA 124 3.04e+01 1do6A b.1.13.1 22357 1atg 231 3.07e+01 1atg c.94.1.1 35834 1thfD 253 3.12e+01 1thfD c.1.2.1 28535 4gcr 174 3.14e+01 1amm b.11.1.1 23589 b.11.1.1 23590 1bftA 101 3.19e+01 1a3qA b.1.1.5 21934 1cdi 179 3.24e+01 1cdy b.1.1.1 19727 b.1.1.3 21666 1do6A 124 3.25e+01 1do6A b.1.13.1 22361 1ezvB 352 3.26e+01 1ezvB d.185.1.1 59543 d.185.1.1 59544 1aps 98 3.29e+01 2acy d.58.10.1 39299 1d3gA 367 3.31e+01 1d3gA c.1.4.1 28600 1igwA 434 3.34e+01 c.1.12.6 62370 1hy3A 294 3.35e+01 1cmnA 402 3.36e+01 1rom a.104.1.1 18958 1fj2A 232 3.36e+01 1auoA c.69.1.14 34720 1bfg 146 3.37e+01 1bfg b.42.1.1 25485 1umuA 116 3.40e+01 1umuA b.87.1.1 28382 1dgnA 89 3.42e+01 1dgnA a.77.1.1 18436 4pgaA 337 3.49e+01 4pgaA c.88.1.1 35565 3pga1 337 3.49e+01 4pgaA 1phm 310 3.50e+01 1phm b.13.1.2 59015 b.13.1.2 59016 1fnuA 221 3.50e+01 3seb b.40.2.2 25212 d.15.6.1 37801 1b9wA 89 3.55e+01 1b9wA g.3.11.4 44334 g.3.11.4 44335 1bd2D 204 3.56e+01 1tcrA b.1.1.1 20622 b.1.1.2 21557 1j7nB 776 3.58e+01 d.92.1.14 66412 d.92.1.14 66413 d.166.1.1 66414 1esiA 262 3.59e+01 1skf e.3.1.1 42682 1f75A 249 3.65e+01 1f75A c.101.1.1 59662 2fgf 146 3.72e+01 1bfg b.42.1.1 25487 1he2A 206 3.83e+01 1he2A c.2.1.2 60966 1bqg 451 3.86e+01 1bqg c.1.11.2 29217 d.54.1.1 38861 1kgsA 225 3.91e+01 a.4.6.1 68596 c.23.1.1 68597 1mlcB 218 3.92e+01 1igtB b.1.1.1 20053 b.1.1.2 21095