# List of top-scoring protein chains for t04-100-30-bys-scores 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 1a58 177 2.45e-33 2cpl b.62.1.1 27495 1ihgA 370 2.94e-33 2cpl a.118.8.1,b.62.1.1 62380,62381 1dywA 173 5.46e-33 2cpl b.62.1.1 27505 2cpl 165 1.32e-32 2cpl b.62.1.1 27420 1awsA 164 1.67e-32 2cpl b.62.1.1 27431 1awqA 164 2.24e-32 2cpl b.62.1.1 27461 2bitX 165 2.46e-32 1yndA 165 2.80e-32 1qoiA 177 3.27e-32 2cpl b.62.1.1 27490 1xo7A 166 3.48e-32 1zcxA 178 4.04e-32 2cfeA 162 6.62e-32 2rmcA 182 1.28e-31 2cpl b.62.1.1 27491 1h0pA 182 2.35e-31 b.62.1.1 76450 1vdnA 162 2.64e-31 2a2nA 176 1.48e-29 1zkcA 197 3.04e-29 2fu0A 160 2.10e-28 2b71A 196 2.65e-28 1xwnA 174 8.42e-28 1v9tA 166 9.42e-26 b.62.1.1 108451 1j2aA 166 1.67e-25 b.62.1.1 90779 1lopA 164 1.80e-25 2cpl b.62.1.1 27510 1zx8A 136 9.04e-02 2b8mA 117 2.39e-01 1qwgA 251 5.75e-01 c.1.27.1 96473 1uwsA 489 2.03e+00 c.1.8.4 108073 1mxiA 160 2.88e+00 c.116.1.1 79646 2bf6A 449 4.13e+00 3sil 379 4.53e+00 3sil b.68.1.1 27542 1z5bA 469 4.75e+00 1qmpA 130 4.94e+00 1dz3A c.23.1.1 31106 1mu5A 471 5.02e+00 a.156.1.3,d.14.1.3,d.122.1.2 79472,79473,79474 1dz3A 130 5.04e+00 1dz3A c.23.1.1 31105 2cy7A 396 5.21e+00 1q2wA 308 7.01e+00 b.47.1.4 88355 1o26A 232 7.52e+00 d.207.1.1 86566 1vr0A 247 7.77e+00 2a5kA 307 8.02e+00 2amdA 311 8.96e+00 1dqiA 124 9.13e+00 1do6A b.1.13.1 22357 1q1oA 98 9.31e+00 d.15.2.2 95596 1xhnA 184 1.06e+01 1g7fA 298 1.07e+01 1pty c.45.1.2 60330 1pa1A 310 1.08e+01 c.45.1.2 94404 1gowA 489 1.10e+01 1qvbA c.1.8.4 28981 1ptvA 321 1.16e+01 1pty c.45.1.2 32665 1o04A 500 1.20e+01 c.82.1.1 86508 1ezwA 349 1.23e+01 1ezwA c.1.16.3 29558 1mdbA 539 1.31e+01 e.23.1.1 79008 1ydxA 406 1.33e+01 1sbzA 197 1.38e+01 1i6aA 219 1.43e+01 c.94.1.1 61827 1k2fA 190 1.44e+01 b.8.1.2 68054 1gggA 226 1.47e+01 1lst c.94.1.1 35817 1u5uA 374 1.49e+01 2f71A 298 1.55e+01 1wriA 93 1.81e+01 1vyrA 364 1.81e+01 c.1.4.1 108906 1gvoA 364 1.82e+01 c.1.4.1 76357 2masA 314 1.88e+01 2masA c.70.1.1 34810 2azpA 318 1.89e+01 1lqtA 456 1.91e+01 c.3.1.1,c.4.1.1 74198,74199 1llnA 262 1.91e+01 d.165.1.1 84625 1pfo 500 1.94e+01 1pfo f.9.1.1 43826 1do6A 124 2.10e+01 1do6A b.1.13.1 22361 1u11A 182 2.13e+01 c.23.8.1 107576 2ex4A 241 2.14e+01 1xvxA 312 2.15e+01 2b4wA 315 2.15e+01 1dboA 506 2.15e+01 1dbgA b.80.1.4 28034 2b0aA 186 2.20e+01 1gteA 1025 2.31e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 2fdiA 211 2.32e+01 1h7sA 365 2.37e+01 d.14.1.3,d.122.1.2 65705,65706 1oflA 481 2.41e+01 b.80.1.4 103934 2bsaA 303 2.43e+01 1wraA 308 2.44e+01 1vypX 364 2.49e+01 c.1.4.1 108905 2abbA 364 2.49e+01 1qwyA 291 2.51e+01 b.84.3.2 96509 1q0eA 152 2.53e+01 b.1.8.1 95504 1h7wA 1025 2.59e+01 1h7wA a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15683,28628,30324,30609,39007 1vqvA 306 2.66e+01 1uumA 372 2.71e+01 c.1.4.1 100010 1kgsA 225 2.73e+01 a.4.6.1,c.23.1.1 68596,68597 2f9nA 245 2.75e+01 1thfD 253 2.77e+01 1thfD c.1.2.1 28535 1d7yA 408 2.82e+01 1d7yA c.3.1.5,c.3.1.5,d.87.1.1 30565,30566,40204 1h61A 364 2.84e+01 1oyc c.1.4.1 60657 1s31A 273 2.87e+01 1jmmA 377 2.91e+01 b.30.6.1 71749 1pjcA 361 2.96e+01 1sayA c.2.1.4,c.23.12.2 30101,31361 1wvqA 167 2.97e+01 2bibA 547 3.09e+01 1jtdB 273 3.12e+01 b.69.5.2 67265 1icpA 376 3.22e+01 1oyc c.1.4.1 62270 1n40A 396 3.39e+01 a.104.1.1 79977 1kzlA 208 3.40e+01 b.43.4.3,b.43.4.3 77635,77636 1op0A 234 3.42e+01 b.47.1.2 104019 1qpxA 218 3.43e+01 1qpxA b.1.11.1,b.7.2.1 22318,23200 1svpA 161 3.43e+01 1svpA b.47.1.3 26384 1a70 97 3.44e+01 1awd d.15.4.1 37678 2bi0A 337 3.51e+01 1pswA 348 3.54e+01 c.87.1.7 88287 1t5rA 284 3.56e+01 f.6.1.1 106465 1v9sA 208 3.61e+01 1y7pA 223 3.65e+01 1xmpA 170 3.66e+01 1wisA 124 3.66e+01 1u0sY 118 3.69e+01 c.23.1.1 107566 1ufbA 127 3.81e+01 a.24.16.3 99331 1tmy 120 3.85e+01 1dbwA c.23.1.1 31083 1kv9A 668 3.86e+01 a.3.1.6,b.70.1.1 73056,73057 1e9pA 151 3.95e+01 1mfmA b.1.8.1 22215 1ksiA 642 4.00e+01 1ksiB b.30.2.1,d.17.2.1,d.17.2.1 24408,38043,38044 1wn0A 145 4.00e+01 1ve4A 206 4.05e+01 1dbgA 506 4.07e+01 1dbgA b.80.1.4 28033 1ubi 76 4.12e+01 1ubi d.15.1.1 37584 1l4iA 206 4.14e+01 b.1.11.1,b.7.2.1 73564,73565 1o7iA 119 4.18e+01 b.40.4.3 86642 1ltoA 245 4.34e+01 b.47.1.2 84707 1xxqA 161 4.48e+01 1vh7A 265 4.49e+01 c.1.2.1 100646 1yoeA 322 4.52e+01 2bkrB 77 4.54e+01 2dd8S 202 4.60e+01 1b04A 318 4.61e+01 1b04A d.142.2.2 41579 1o4vA 183 4.61e+01 c.23.8.1 86628 1pz7A 204 4.61e+01 b.29.1.4 95405 1yymG 313 4.65e+01 1u1wA 298 4.73e+01 1dl5A 317 4.75e+01 1dl5A c.66.1.7,d.197.1.1 64720,64721 1p7tA 731 4.77e+01 c.1.13.1 94319 2a8jA 420 4.81e+01 1que 303 4.82e+01 1fnc b.43.4.2,c.25.1.1 25647,31537 1xzwA 426 4.95e+01 1lam 484 5.00e+01 1lam c.50.1.1,c.56.5.3 33166,33829 1vi2A 300 5.04e+01 c.2.1.7,c.58.1.5 100726,100727 1uroA 367 5.15e+01 1uroA c.1.22.1 29675 2as9A 210 5.20e+01 1gotG 73 5.22e+01 1tbgE a.137.3.1 19629 2fq9A 225 5.24e+01 1nqcA 217 5.25e+01 d.3.1.1 86024 2tpsA 227 5.30e+01 2tpsA c.1.3.1 28591 1gj7B 253 5.31e+01 1xubA 298 5.35e+01 1r3sA 367 5.38e+01 c.1.22.1 96963 1o86A 589 5.39e+01 d.92.1.5 81177 1r0wA 286 5.42e+01 c.37.1.12 96754 1uzeA 589 5.45e+01 d.92.1.5 108174 1jh3A 107 5.53e+01 d.66.1.4 71661 1bt0A 76 5.53e+01 1ubi d.15.1.1 37607 2bm5A 186 5.56e+01 1hrkA 359 5.65e+01 1hrkA c.92.1.1 61228 1wu7A 434 5.67e+01 1nxiA 132 5.70e+01 d.58.47.1 86381 1lq9A 112 5.77e+01 d.58.4.3 78129 1n0lA 224 5.82e+01 b.1.11.1,b.7.2.1 79744,79745 1ojrA 274 5.87e+01 c.74.1.1 93147 1wi1A 126 5.89e+01 1elvA 333 5.98e+01 5ptp b.47.1.2,g.18.1.1 59454,59455 2gaiA 633 6.01e+01 1vclA 432 6.04e+01 b.42.2.1,b.42.2.1,d.281.1.1 108498,108499,108500 1go2A 304 6.06e+01 b.43.4.2,c.25.1.1 76243,76244 1pgl2 370 6.16e+01 1nddA 76 6.16e+01 1ubi d.15.1.1 37599 1m3iA 471 6.22e+01 f.9.1.1 91178 1vfjA 116 6.25e+01 2b7yA 182 6.36e+01 1b1cA 181 6.37e+01 1amoA c.23.5.2 31212 1s8nA 205 6.45e+01 c.23.1.1 105374 1vqoD 177 6.50e+01 2gk3A 256 6.50e+01 1t6kA 278 6.51e+01 1zjcA 418 6.52e+01 2aqjA 538 6.54e+01 2aexA 346 6.54e+01 1w34A 304 6.60e+01 1x9uA 116 6.61e+01 1fjgE 162 6.63e+01 1pkp d.14.1.1,d.50.1.2 37553,38789 1dysA 348 6.66e+01 1bvwA c.6.1.1 30669 1a8s 273 6.77e+01 1brt c.69.1.12 34710 1ni5A 433 6.79e+01 c.26.2.5,d.229.1.1 80533,80534 1lf7A 182 6.89e+01 b.60.1.1 73878 2a8mA 420 6.91e+01 1mo9A 523 6.94e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1v6sA 390 6.98e+01 c.86.1.1 100424 1k87A 669 7.01e+01 a.176.1.1,c.1.23.2 77286,77287 1evxA 162 7.11e+01 1a73A d.4.1.3 37149 1xe1A 116 7.14e+01 b.43.3.1 109571 1op4A 159 7.19e+01 b.1.6.1 93397 1zs9A 261 7.24e+01 8prn 289 7.29e+01 3prn f.4.3.1 43767 1khbA 625 7.30e+01 c.91.1.1,c.109.1.1 68606,68607 2fomB 185 7.39e+01 1q5qA 259 7.46e+01 d.153.1.4 95904 1hq8A 123 7.47e+01 1b6e d.169.1.1 61127 1v3rA 116 7.51e+01 1zd9A 188 7.61e+01 1k68A 140 7.63e+01 c.23.1.1 90943 1w96A 554 7.63e+01 8acn 754 7.77e+01 1amj c.8.2.1,c.83.1.1 30724,35400 1g8sA 230 7.82e+01 c.66.1.3 90507 1rtfB 252 7.91e+01 5ptp 1e1oA 504 8.01e+01 1lylA b.40.4.1,d.104.1.1 25258,40714 1z4xA 532 8.07e+01 1afwA 393 8.13e+01 1afwA c.95.1.1,c.95.1.1 35900,35901 1q8fA 313 8.14e+01 c.70.1.1 96203 1a8p 258 8.16e+01 1fdr b.43.4.2,c.25.1.1 25654,31544 1cjbA 231 8.25e+01 1qk3A c.61.1.1 34079 1j4aA 333 8.32e+01 c.2.1.4,c.23.12.1 71502,71503 1ogwA 76 8.50e+01 d.15.1.1 87001 1c0eA 157 8.51e+01 1dg9A c.44.1.1 32638 1a04A 215 8.51e+01 1a04A a.4.6.2,c.23.1.1 16234,31089 2bdeA 470 8.53e+01 1v93A 296 8.57e+01 c.1.23.1 100532 1prn 289 8.63e+01 3prn f.4.3.1 43762 1cbjA 151 8.64e+01 1mfmA b.1.8.1 22213 2atpB 115 8.70e+01 2bm3A 166 8.76e+01 1zoyA 622 8.83e+01 1u5kA 244 8.89e+01 1r64A 481 8.89e+01 b.18.1.20,c.41.1.1 97140,97141 1xttA 216 8.91e+01 1t64A 377 8.96e+01 c.42.1.2 106543 2b49A 287 9.00e+01