# List of top-scoring protein chains for t04-100-30-stride-ebghtl-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.soe.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 2zumA 458 4.35e-01 1rh9A 373 1.65e+00 c.1.8.3 118773 1o60A 292 1.91e+00 c.1.10.4 92532 1pl8A 356 2.05e+00 b.35.1.2,c.2.1.1 94878,94879 2elcA 329 2.64e+00 a.46.2.1,c.27.1.1 146897,146898 2nwrA 267 2.67e+00 1zhaA 267 2.69e+00 1fmtA 314 2.81e+00 1fmtA b.46.1.1,c.65.1.1 25758,34174 1pe1A 267 3.02e+00 c.1.10.4 94591 1lroA 267 3.03e+00 c.1.10.4 78161 3e9aA 286 3.24e+00 2nvaA 372 3.55e+00 2gzaA 361 3.61e+00 3lerA 301 4.62e+00 2akzA 439 4.77e+00 c.1.11.1,d.54.1.1 126944,126945 3l04A 359 4.82e+00 2pa6A 427 5.37e+00 3i16A 427 5.60e+00 3crvA 551 5.78e+00 1vr5A 547 5.89e+00 c.94.1.1 120437 1phkA 298 6.44e+00 d.144.1.7 41635 1dq3A 454 6.61e+00 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1pcxA 810 6.64e+00 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 94497,94498,94499,94500,94501 2r3bA 310 6.81e+00 2evaA 307 6.82e+00 1j5yA 187 6.94e+00 a.4.5.1,d.94.2.1 71592,71593 1w7bA 339 7.18e+00 a.65.1.1 114317 2hyvA 308 8.03e+00 3d5kA 474 8.20e+00 3e0iA 267 8.70e+00 3eweB 564 8.94e+00 2pt7A 330 9.15e+00 c.37.1.11 149834 3bm3A 272 9.20e+00 1jztA 246 9.48e+00 c.104.1.1 63319 1zcoA 262 1.00e+01 2a11A 242 1.03e+01 3fxgA 455 1.07e+01 1g6oA 330 1.08e+01 1g6oA c.37.1.11 32430 1othA 321 1.09e+01 1othA c.78.1.1,c.78.1.1 35260,35261 2ixnA 310 1.10e+01 a.268.1.1 137777 3l05A 359 1.11e+01 3l06A 359 1.12e+01 3l02A 359 1.20e+01 1zq6A 359 1.24e+01 3kznA 359 1.24e+01 2zvfA 171 1.25e+01 3gjwA 350 1.28e+01 3ckjA 329 1.31e+01 1y1xA 191 1.37e+01 a.39.1.8 116374 2f8mA 244 1.43e+01 1iyxA 432 1.45e+01 c.1.11.1,d.54.1.1 83815,83816 2wdxA 523 1.57e+01 1efyA 350 1.58e+01 1a26 a.41.1.1,d.166.1.2 17413,42275 1or3A 165 1.66e+01 1nfn a.24.1.1 16522 2c6qA 351 1.67e+01 2ivyA 101 1.68e+01 d.58.58.1 147817 2vd3A 289 1.69e+01 2wadA 680 1.74e+01 1gs9A 165 1.74e+01 a.24.1.1 83313 2weyA 343 1.79e+01 2b0jA 358 1.80e+01 a.100.1.11,c.2.1.6 127639,127640 2bzbA 62 1.83e+01 a.30.7.1 129556 1o5kA 306 1.86e+01 c.1.10.1 92504 2r91A 286 1.88e+01 3dagA 358 1.93e+01 2felA 359 1.93e+01 2ip2A 334 1.94e+01 3a2kA 464 1.95e+01 2ovyA 362 2.09e+01 3kczA 368 2.12e+01 2ca6A 386 2.19e+01 c.10.1.2 130151 1rj9A 304 2.20e+01 a.24.13.1,c.37.1.10 97553,97554 1g8xA 1010 2.20e+01 1lvk k.1.1.1 46378 3i3wA 443 2.28e+01 3igoA 486 2.32e+01 1wp1A 474 2.36e+01 f.5.1.1 114778 2zxeA 1028 2.48e+01 3io1A 445 2.49e+01 2dsjA 423 2.49e+01 1frpA 335 2.58e+01 1frpA e.7.1.1 42875 1go3F 107 2.58e+01 a.60.8.2 65407 1rrmA 386 2.63e+01 e.22.1.2 105081 3f47A 358 2.68e+01 3kl4A 433 2.71e+01 2vh4A 381 2.71e+01 2r8wA 332 2.72e+01 2o7sA 523 2.73e+01 1m0uA 249 2.73e+01 a.45.1.1,c.47.1.5 78359,78360 2pvpA 367 2.78e+01 2pefA 373 2.82e+01 1yrgA 385 2.83e+01 1yrgA c.10.1.2 30854 1itwA 741 2.85e+01 c.77.1.2 76793 1rjdA 334 2.96e+01 c.66.1.37 97558 2hiqA 113 2.96e+01 d.58.4.12 136529 3c1mA 473 2.99e+01 3brjA 175 3.04e+01 a.285.1.1 155511 3fvdA 378 3.05e+01 2gptA 523 3.06e+01 2qwwA 154 3.06e+01 3lssA 484 3.08e+01 1b68A 191 3.12e+01 1nfn a.24.1.1 59076 2qe6A 274 3.14e+01 1mxsA 225 3.21e+01 c.1.10.1 91494 2pyyA 228 3.23e+01 1nofA 383 3.25e+01 b.71.1.2,c.1.8.3 92020,92021 2givA 295 3.29e+01 d.108.1.1 135253 1uzeA 589 3.34e+01 d.92.1.5 108174 2hzmA 212 3.34e+01 3cuqA 234 3.35e+01 1pg5A 299 3.35e+01 c.78.1.1,c.78.1.1 104146,104147 1xm9A 457 3.39e+01 a.118.1.24 122142 3k89A 314 3.47e+01 2j6lA 500 3.49e+01 2pw6A 271 3.56e+01 c.56.6.1 149895 1dfaA 454 3.57e+01 1vdeA b.86.1.2,d.95.2.2,d.95.2.2 28375,40575,40576 3chy 128 3.57e+01 3chy 1u2zA 433 3.61e+01 c.66.1.31 107626 2goyA 275 3.68e+01 1khdA 345 3.73e+01 a.46.2.1,c.27.1.1 77400,77401 2rgxA 206 3.73e+01 1vlwA 217 3.77e+01 c.1.10.1 108868 2hnkA 239 3.79e+01 3i0zA 389 3.79e+01 1t5aA 567 3.96e+01 2g50A 530 3.97e+01 b.58.1.1,c.1.12.1,c.49.1.1 134618,134619,134620 1sq5A 308 3.98e+01 c.37.1.6 105882 1w3iA 293 4.01e+01 c.1.10.1 109152 3a1jC 263 4.01e+01 1rqbA 539 4.03e+01 a.5.7.2,c.1.10.5 105057,105058 1e4yA 214 4.15e+01 1zin c.37.1.1,g.41.2.1 31901,45181 3fo3A 525 4.15e+01 1a49A 530 4.16e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27026,29255,33109 3e0dA 1220 4.20e+01 2ot4A 525 4.21e+01 2aamA 309 4.22e+01 c.1.8.15 126489 1zchA 255 4.24e+01 d.90.1.1 124908 2qddA 378 4.26e+01 1jbeA 128 4.30e+01 3chy c.23.1.1 62845 2p10A 286 4.32e+01 c.1.12.9 149144 2ehhA 294 4.38e+01 1b25A 619 4.39e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 2ousA 331 4.43e+01 1hm6A 346 4.48e+01 1avc a.65.1.1 18147 3ilmA 141 4.50e+01 1np7A 489 4.54e+01 a.99.1.1,c.28.1.1 80677,80678 1otvA 259 4.55e+01 a.132.1.4 93526 3dlaA 680 4.60e+01 2pa2A 151 4.62e+01 d.41.4.1 149337 3k31A 296 4.64e+01 2wdpA 293 4.66e+01 1ofcX 304 4.66e+01 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 1ekeA 230 4.67e+01 1ekeA c.55.3.1 33572 1tzjA 338 4.69e+01 c.79.1.1 112868 2gw6A 123 4.77e+01 c.52.2.1 147189 2d13A 227 4.80e+01 c.26.2.1 131121 2b9eA 303 4.80e+01 c.66.1.38 128124 2f6hX 419 4.82e+01 1zz1A 369 4.82e+01 2pocA 367 4.83e+01 2jepA 395 4.92e+01 1nxhA 126 4.92e+01 a.200.1.1 92300 1v58A 241 4.93e+01 c.47.1.9,d.17.3.1 108371,108372 2qi9C 249 4.94e+01 2vgiA 528 5.01e+01 1jksA 294 5.03e+01 d.144.1.7 71710 1ml4A 308 5.07e+01 c.78.1.1,c.78.1.1 79255,79256 3ebrA 159 5.07e+01 2p0iA 456 5.10e+01 1s3jA 155 5.11e+01 a.4.5.28 98437 2waeA 680 5.14e+01 2vggA 528 5.16e+01 1lk5A 229 5.17e+01 c.124.1.4,d.58.40.1 73960,73961 2nnnA 140 5.19e+01 3ip4A 485 5.19e+01 2d1hA 109 5.24e+01 a.4.5.50 131125 1e8gA 560 5.28e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1wa3A 205 5.30e+01 c.1.10.1 120802 1vr6A 350 5.31e+01 c.1.10.4 120439 1mhsA 920 5.35e+01 i.18.1.1 79130 1kyqA 274 5.38e+01 c.2.1.11,e.37.1.1 73281,73282 3c4hA 357 5.43e+01 1wehA 171 5.45e+01 c.129.1.1 114551 2zmeA 258 5.60e+01 3c10A 423 5.62e+01 c.42.1.2 155847 2fiyA 309 5.62e+01 e.59.1.1 133540 2d4xA 248 5.68e+01 2nw2B 243 5.70e+01 2qltA 275 5.75e+01 3fbgA 346 5.79e+01 1wxqA 397 5.79e+01 c.37.1.8,d.15.10.2 121406,121407 1xuuA 349 5.79e+01 b.85.1.1,c.1.10.6 116067,116068 1dowA 205 5.81e+01 1dovA a.24.9.1 16626 2a61A 145 5.84e+01 a.4.5.28 126187 1v7rA 186 5.86e+01 c.51.4.1 100482 2wghA 676 5.87e+01 1wj7A 104 5.92e+01 a.5.2.1 120976 1gakA 141 5.96e+01 1gakA a.19.1.1 16415 1hrkA 359 5.98e+01 1hrkA c.92.1.1 61228 2zdrA 349 6.04e+01 b.85.1.1,c.1.10.6 154398,154399 2reb 352 6.05e+01 2reb 2rebA 352 6.05e+01 c.37.1.11,d.48.1.1 32282,38767 2sqcA 631 6.07e+01 2sqcA a.102.4.2,a.102.4.2 18854,18855 3a9zA 432 6.14e+01 3gzdA 440 6.15e+01 2nuwA 288 6.15e+01 1o58A 303 6.19e+01 c.79.1.1 92491 1sqsA 242 6.24e+01 c.23.5.5 98968 1gy8A 397 6.24e+01 c.2.1.2 83376 2kl6A 114 6.30e+01 3h12A 397 6.35e+01 3ca8A 266 6.36e+01 3lxmA 335 6.40e+01 1umpA 631 6.43e+01 a.102.4.2,a.102.4.2 99619,99620 3ew7A 221 6.44e+01 3hixA 106 6.46e+01 2z15A 130 6.47e+01 d.370.1.1 153921 2hytA 197 6.47e+01 2hrcA 359 6.49e+01 c.92.1.1 136687 1i84S 1184 6.50e+01 1lvk i.15.1.1 61940 1kkhA 317 6.54e+01 d.14.1.5,d.58.26.3 72645,72646 2ftrA 108 6.54e+01 d.58.4.15 134077 2afrA 231 6.57e+01 2i7aA 174 6.61e+01 3fcnA 164 6.62e+01 1ybtA 184 6.63e+01 2r7gA 347 6.71e+01 a.74.1.3,a.74.1.3 151637,151638 1bg4A 302 6.77e+01 c.1.8.3 28806 2o0jA 385 6.80e+01 3cc8A 230 6.83e+01 2og2A 359 6.85e+01 3kjdA 368 6.89e+01 1u14A 172 6.89e+01 c.51.4.3 107579 3gr4A 550 6.95e+01 2v1lA 148 7.01e+01 2ptsA 462 7.04e+01 2bpqA 373 7.04e+01 1v2aA 210 7.10e+01 a.45.1.1,c.47.1.5 100263,100264 1kk1A 410 7.21e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1v8dA 235 7.23e+01 c.140.1.1 108425 3iruA 277 7.25e+01 2pq8A 278 7.29e+01 1or4A 178 7.33e+01 a.1.1.2 93447 1o20A 427 7.34e+01 c.82.1.1 86556 1dcoA 104 7.35e+01 1dcpA d.74.1.1 39680 1vmaA 306 7.38e+01 a.24.13.1,c.37.1.10 108887,108888 1pl4A 198 7.39e+01 a.2.11.1,d.44.1.1 94854,94855 1oaoC 729 7.48e+01 e.26.1.3 86746 3b4uA 294 7.49e+01 1l3iA 192 7.56e+01 c.66.1.22 77676 1ghsA 306 7.64e+01 1aq0A c.1.8.3 28840 3g2gA 533 7.64e+01 3hoaA 509 7.68e+01 3evnA 329 7.68e+01 3f44A 220 7.69e+01 3k2gA 364 7.71e+01 2ihyA 279 7.79e+01 2vktA 289 7.84e+01 3f75P 106 7.91e+01