# List of top-scoring protein chains for t2k-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.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 1i5nA 146 7.25e-01 1i5nA a.24.10.3 61805 1de4C 640 8.82e-01 1cx8B a.48.2.1,c.8.4.1,c.56.5.5 17779,30760,33848 1ewqA 765 9.91e-01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 1rcwA 231 2.18e+00 a.132.1.4 97299 1htjF 210 2.44e+00 1htjF a.91.1.1 61254 2aelA 374 3.74e+00 1f45B 197 4.47e+00 1f45B a.26.1.1 59642 1v4eA 299 4.67e+00 a.128.1.1 100296 1v7bA 185 5.26e+00 1huxA 270 5.28e+00 1huxA c.55.1.5 61278 2grrB 170 5.57e+00 1w33A 181 6.13e+00 1keyA 235 6.63e+00 a.118.16.1 72389 1a6r 471 6.77e+00 3gcb d.3.1.1 37033 3gcb 470 6.77e+00 3gcb d.3.1.1 37032 144l 164 7.27e+00 1l92 d.2.1.3 36893 170l 164 7.40e+00 1l92 d.2.1.3 36968 2a6lA 292 7.60e+00 2a6nA 292 7.96e+00 1yxcA 292 8.58e+00 1ll2A 333 8.84e+00 c.68.1.14 74005 1ecmA 109 8.98e+00 1ecmA a.130.1.1 19492 1dhpA 292 9.21e+00 1dhpA c.1.10.1 29097 173l 164 9.92e+00 1l92 d.2.1.3 36728 1jfaA 374 1.01e+01 a.128.1.5 66622 1gcb 454 1.12e+01 3gcb d.3.1.1 37034 2db0A 253 1.12e+01 1tw9A 206 1.13e+01 a.45.1.1,c.47.1.5 107381,107382 149l 164 1.13e+01 1l92 d.2.1.3 36959 145l 164 1.14e+01 1l92 d.2.1.3 36860 152l 164 1.18e+01 1l92 d.2.1.3 36904 123l 164 1.18e+01 1l92 d.2.1.3 36697 160l 164 1.19e+01 1l92 d.2.1.3 36748 176lA 164 1.23e+01 1l92 d.2.1.3 36942 2aehA 369 1.26e+01 166l 164 1.28e+01 1l92 d.2.1.3 36681 1cx8B 639 1.28e+01 1cx8B a.48.2.1,c.8.4.1,c.56.5.5 17783,30764,33852 172l 164 1.31e+01 1l92 d.2.1.3 36905 190l 164 1.33e+01 1l92 d.2.1.3 36892 1zejA 293 1.33e+01 155l 164 1.34e+01 1l92 d.2.1.3 36762 156l 164 1.35e+01 1l92 d.2.1.3 36709 129l 164 1.36e+01 1l92 d.2.1.3 36660 1ciy 590 1.37e+01 1ciy b.18.1.3,b.77.2.1,f.1.3.1 23720,27977,43392 138l 164 1.38e+01 1l92 d.2.1.3 36679 1kn1B 161 1.49e+01 a.1.1.3 77456 118l 164 1.49e+01 1l92 d.2.1.3 36642 167lA 164 1.50e+01 1l92 d.2.1.3 36937 1vkeA 133 1.51e+01 a.152.1.2 108650 1l58 164 1.51e+01 1l92 d.2.1.3 36635 142l 164 1.53e+01 1l92 d.2.1.3 36874 1jpzA 473 1.54e+01 a.104.1.1 67069 1lw9A 164 1.58e+01 d.2.1.3 84727 119l 164 1.62e+01 1l92 d.2.1.3 36622 103l 167 1.63e+01 1l92 d.2.1.3 36870 111l 164 1.64e+01 1l92 d.2.1.3 36661 120l 164 1.65e+01 1l92 d.2.1.3 36720 130l 164 1.65e+01 1l92 d.2.1.3 36638 158l 164 1.66e+01 1l92 d.2.1.3 36747 165l 164 1.66e+01 1l92 d.2.1.3 36680 131l 164 1.67e+01 1l92 d.2.1.3 36685 107l 164 1.69e+01 1l92 d.2.1.3 36690 102l 165 1.69e+01 1l92 d.2.1.3 36724 109l 164 1.69e+01 1l92 d.2.1.3 36781 114l 164 1.69e+01 1l92 d.2.1.3 36663 112l 164 1.69e+01 1l92 d.2.1.3 36677 113l 164 1.70e+01 1l92 d.2.1.3 36678 164l 164 1.71e+01 1l92 d.2.1.3 36714 1b6iA 164 1.73e+01 1l92 d.2.1.3 36945 108l 164 1.74e+01 1l92 d.2.1.3 36669 115l 164 1.75e+01 1l92 d.2.1.3 36700 110l 164 1.75e+01 1l92 d.2.1.3 36684 146l 164 1.76e+01 1l92 d.2.1.3 36763 143l 164 1.77e+01 1l92 d.2.1.3 36857 2gyqA 175 1.77e+01 1yrbA 262 1.77e+01 1l92 164 1.79e+01 1l92 d.2.1.3 36629 175lA 164 1.79e+01 1l92 d.2.1.3 36924 195l 164 1.82e+01 1l92 d.2.1.3 36841 125l 164 1.84e+01 1l92 d.2.1.3 36672 1yyqA 374 1.85e+01 1p36A 164 1.90e+01 d.2.1.3 93978 137lA 164 1.92e+01 1l92 d.2.1.3 36791 189l 164 1.94e+01 1l92 d.2.1.3 36960 1gulA 222 1.95e+01 1pgtA a.45.1.1,c.47.1.5 17675,32969 191l 164 1.97e+01 1l92 d.2.1.3 36826 147l 164 2.01e+01 1l92 d.2.1.3 36864 1kiyA 374 2.01e+01 a.128.1.5 72555 159l 164 2.01e+01 1l92 d.2.1.3 36682 1x79B 112 2.02e+01 1r4wA 226 2.02e+01 c.47.1.13 97050 1qgrA 876 2.06e+01 1qgrA a.118.1.1 19119 192l 164 2.06e+01 1l92 d.2.1.3 36815 1wy1A 172 2.07e+01 2al6A 375 2.07e+01 1i4lA 224 2.10e+01 1i49A h.4.7.1 61718 163l 164 2.12e+01 1l92 d.2.1.3 36658 126l 164 2.13e+01 1l92 d.2.1.3 36699 1zs3A 182 2.14e+01 1rtwA 220 2.20e+01 a.132.1.3 97823 177l 164 2.22e+01 1l92 d.2.1.3 36958 1rqjA 299 2.24e+01 a.128.1.1 97744 139l 164 2.24e+01 1l92 d.2.1.3 36643 162l 164 2.30e+01 1l92 d.2.1.3 36749 2thiA 379 2.34e+01 2thiA c.94.1.1 35794 1dmtA 696 2.36e+01 1dmtA d.92.1.4 40296 198l 164 2.37e+01 1l92 d.2.1.3 36785 1o5kA 306 2.48e+01 c.1.10.1 92504 180lA 164 2.48e+01 1l92 d.2.1.3 36867 1gw5B 591 2.50e+01 a.118.1.10 70630 1cktA 71 2.53e+01 1cktA a.21.1.1 16417 1b5pA 385 2.53e+01 c.67.1.1 90403 2fx0A 201 2.55e+01 197l 164 2.55e+01 1l92 d.2.1.3 36911 1bu7A 455 2.55e+01 1bu7A a.104.1.1 18937 174lA 164 2.57e+01 1l92 d.2.1.3 36956 1kpsB 171 2.59e+01 a.118.12.1 68787 104lA 166 2.61e+01 1l92 d.2.1.3 36969 1x92A 199 2.61e+01 122l 164 2.63e+01 1l92 d.2.1.3 36667 1jfkA 134 2.65e+01 a.39.1.5 66639 2eiaB 206 2.66e+01 1eia a.28.3.1,a.73.1.1 16950,18330 1e1dA 553 2.70e+01 1e1dA e.26.1.1 43363 1fiy 883 2.71e+01 1fiy c.1.12.3 29307 1bjwA 382 2.74e+01 1bjwA c.67.1.1 34349 196l 164 2.75e+01 1l92 d.2.1.3 36927 1ow4A 129 2.82e+01 a.39.2.1 93628 1e2uA 553 2.85e+01 1e1dA e.26.1.1 43362 1gntA 553 2.85e+01 e.26.1.1 70290 1unlD 208 2.85e+01 2b67A 204 2.94e+01 1csh 435 2.94e+01 1csh a.103.1.1 18880 1rxqA 178 3.00e+01 a.213.1.1 105118 1amz 435 3.01e+01 1csh a.103.1.1 18884 1al6 437 3.01e+01 1csh a.103.1.1 18885 1vljA 407 3.01e+01 e.22.1.2 108832 128l 164 3.06e+01 1l92 d.2.1.3 36634 1fs1B 141 3.09e+01 1vcbB a.157.1.1,d.42.1.1 19252,38664 1jqnA 883 3.09e+01 c.1.12.3 77159 1zcdA 388 3.11e+01 1b9uA 34 3.11e+01 1b9uA j.35.1.1 46260 1h6zA 913 3.12e+01 c.1.12.2,c.8.1.1,d.142.1.5 70906,70907,70908 1wkbA 810 3.12e+01 1eg3A 261 3.12e+01 1eg3A a.39.1.7,a.39.1.7,b.72.1.1 17376,17377,27805 2fbnA 198 3.27e+01 1ofcX 304 3.28e+01 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 1gumA 222 3.31e+01 1pgtA a.45.1.1,c.47.1.5 17683,32977 1jfgA 374 3.31e+01 a.128.1.5 66636 1j0aA 325 3.35e+01 c.79.1.1 83871 1jlwA 219 3.39e+01 a.45.1.1,c.47.1.5 71741,71742 2akaB 299 3.49e+01 199l 164 3.50e+01 1l92 d.2.1.3 36855 1w7bA 339 3.51e+01 140l 164 3.55e+01 1l92 d.2.1.3 36891 161l 164 3.57e+01 1l92 d.2.1.3 36636 1cx8A 639 3.59e+01 1cx8B a.48.2.1,c.8.4.1,c.56.5.5 17782,30763,33851 1n40A 396 3.64e+01 a.104.1.1 79977 3pbgA 468 3.82e+01 1e70M c.1.8.4 28951 1cipA 353 3.84e+01 1cipA a.66.1.1,c.37.1.8 18210,32093 1wdgA 94 3.90e+01 h.3.3.1 109248 1w7jA 795 3.94e+01 1jalA 363 3.95e+01 c.37.1.8,d.15.10.2 84138,84139 1qb4A 883 4.09e+01 c.1.12.3 74640 1svsA 353 4.15e+01 c.37.1.8 106051 1oe9A 795 4.18e+01 b.34.3.1,c.37.1.9 92792,92793 157l 164 4.18e+01 1l92 d.2.1.3 36717 1au1A 166 4.19e+01 1ifa a.26.1.3 16889 1r1hA 696 4.24e+01 d.92.1.4 104756 1omwA 689 4.25e+01 a.91.1.1,b.55.1.1,d.144.1.7 87086,87087,87088 1j8mF 297 4.26e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1j8yF 297 4.28e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1uc2A 481 4.30e+01 d.261.1.1 99161 2beqA 38 4.31e+01 1wn0A 145 4.31e+01 1jeqA 609 4.32e+01 1jeqA a.140.2.1,b.131.1.1,c.62.1.3 64748,90366,90367 141l 164 4.33e+01 1l92 d.2.1.3 36863 169lA 164 4.33e+01 1l92 d.2.1.3 36963 2gdqA 382 4.34e+01 6cts 433 4.34e+01 1csh a.103.1.1 18891 1orsC 132 4.35e+01 f.14.1.1 87353 1ll0A 339 4.35e+01 c.68.1.14 73995 2cdqA 510 4.37e+01 1zb1A 392 4.41e+01 127l 164 4.44e+01 d.2.1.3 36745 1liiA 363 4.50e+01 c.72.1.1 73921 1dgmA 363 4.52e+01 1bx4A c.72.1.1 34936 1apxA 249 4.56e+01 1ryc a.93.1.1 18669 2choA 716 4.63e+01 1ej5A 107 4.63e+01 1ej5A a.68.1.1 18268 1b33B 161 4.68e+01 1qgwC a.1.1.3 15650 2chnA 716 4.68e+01 1q8fA 313 4.68e+01 c.70.1.1 96203 1etpA 190 4.82e+01 1etpA a.3.1.4,a.3.1.4 15962,15963 1pbgA 468 4.85e+01 1e70M c.1.8.4 28946 1w9cA 321 4.89e+01 4gr1 478 4.93e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30461,30462,40162 1i6zA 135 5.00e+01 a.7.7.1 61861 1t3wA 148 5.02e+01 1g3uA 214 5.12e+01 c.37.1.1 65132 1uurA 473 5.15e+01 a.47.1.1,b.2.5.5,d.93.1.1 100016,100017,100018 1rom 403 5.17e+01 1rom a.104.1.1 18963 1csc 433 5.19e+01 1csh a.103.1.1 18886 1en7A 157 5.19e+01 1en7A a.140.4.1,d.4.1.5 64733,64734 1swyA 164 5.21e+01 1sx7A 164 5.21e+01 1yovA 537 5.32e+01 5gcnA 166 5.36e+01 1yghA d.108.1.1 40807 1e7lA 157 5.37e+01 1en7A a.140.4.1,d.4.1.5 64728,64729 1h3nA 878 5.37e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1jeyA 609 5.38e+01 1jeqA b.131.1.1,c.62.1.3 90370,90371 2c12A 439 5.44e+01 1uwsA 489 5.45e+01 c.1.8.4 108073 2ghcX 261 5.48e+01 1i49A 224 5.58e+01 1i49A h.4.7.1 61679 1lmzA 187 5.60e+01 a.96.1.4 74037 1j1jA 240 5.61e+01 a.118.16.1 90762 1uw4B 248 5.64e+01 a.118.1.14 100072 1s7zA 117 5.64e+01 a.159.3.1 98715 1x1nA 524 5.67e+01 1vf6C 72 5.68e+01 a.194.1.1 100602 168lA 164 5.71e+01 1l92 d.2.1.3 36975 1yzxA 226 5.75e+01 1ec7A 446 5.75e+01 1bqg c.1.11.2,d.54.1.1 29218,38862 3thiA 371 5.77e+01 2thiA c.94.1.1 35792 1vg5A 73 5.84e+01 1m13A 316 5.86e+01 a.123.1.1 84746 1jmeA 455 5.87e+01 a.104.1.1 66885 1wh8A 111 5.89e+01 1eia 207 5.91e+01 1eia a.28.3.1,a.73.1.1 16951,18331 1ass 159 6.03e+01 1a6dA c.8.5.2 30818 2a1dD 329 6.04e+01 1gdoB 240 6.14e+01 1gdoA 1gdoA 240 6.14e+01 1gdoA 1ta9A 450 6.14e+01 1y1xA 191 6.23e+01 1xffA 240 6.27e+01 d.153.1.1 109580 1r4gA 53 6.37e+01 a.8.5.1 96996 1jbgA 109 6.48e+01 a.6.1.3 66480 1m32A 366 6.48e+01 c.67.1.3 78508 1xl3C 92 6.51e+01 1jysA 242 6.52e+01 c.56.2.1 77216 1hx1B 114 6.59e+01 1hx1B a.7.7.1 61350 2c6cA 707 6.61e+01 151l 164 6.64e+01 1l92 d.2.1.3 36944 1dovA 181 6.66e+01 1dovA a.24.9.1 16627 1rw6A 210 6.69e+01 a.47.4.1 105113 3grs 478 6.71e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30441,30442,40152 1r8eA 278 6.71e+01 a.6.1.3,d.60.1.1 104843,104844 1asx 159 6.72e+01 1a6dA c.8.5.2 30821 2fbaA 492 6.77e+01 1cmnA 402 6.82e+01 1rom a.104.1.1 18958 1gk4D 84 6.92e+01 h.1.20.1 70206 2b69A 343 6.93e+01 1a4fB 146 6.98e+01 1abwA a.1.1.2 15573 1m70A 190 7.03e+01 a.3.1.4,a.3.1.4 91200,91201 1vkmA 297 7.12e+01 c.138.1.1 108670 1rz2A 254 7.13e+01 b.100.1.1 105130 2fs3A 282 7.14e+01 1t9kA 347 7.16e+01 c.124.1.5 106721 2a35A 215 7.18e+01 1dn1B 267 7.19e+01 1dn1B a.47.2.1 17771 1tph1 247 7.21e+01 1amk 1f24A 402 7.24e+01 1rom a.104.1.1 18953 2ahqA 76 7.26e+01 1l8qA 324 7.27e+01 a.4.12.2,c.37.1.20 77809,77810 1as0 353 7.28e+01 1cipA a.66.1.1,c.37.1.8 18212,32095 1gtvA 214 7.29e+01 c.37.1.1 70537 1m4mA 140 7.33e+01 g.52.1.1 78605 1f4tA 368 7.43e+01 1f4tA a.104.1.1 18973 1jfbA 404 7.46e+01 a.104.1.1 66624 1sur 215 7.46e+01 1sur c.26.2.2 31620 2bmhA 455 7.62e+01 1bu7A a.104.1.1 18941 1pv9A 348 7.66e+01 c.55.2.1,d.127.1.1 95157,95158 1g6hA 257 7.67e+01 1gajA c.37.1.12 60318 1av1A 201 7.70e+01 1av1A h.5.1.1 45796 1g60A 260 7.94e+01 c.66.1.11 70151 1wy2A 351 7.97e+01 1rmi 160 7.97e+01 1ifa a.26.1.3 16891 1irqA 71 7.97e+01 a.43.1.4 66297 1mnmA 100 8.06e+01 1mnmA d.88.1.1 40232 1oafA 261 8.31e+01 a.93.1.1 86734 2ftxA 90 8.33e+01 1ltm 320 8.33e+01 1ltm d.2.1.6 36992 1oxjA 173 8.35e+01 a.60.1.2,a.118.1.13 87517,87518 1ry6A 360 8.44e+01 c.37.1.9 98090 1e5rA 290 8.47e+01 1e5rA b.82.2.4 59276 1gk4A 84 8.53e+01 h.1.20.1 70203 1dik 874 8.53e+01 1dik c.1.12.2,c.8.1.1,d.142.1.5 29304,30702,41572 1nsyA 271 8.59e+01 2nsyA c.26.2.1 31614 2nsyA 271 8.59e+01 2nsyA c.26.2.1 31612 1kqpA 271 8.61e+01 c.26.2.1 72883 1dg3A 592 8.61e+01 1dg3A a.114.1.1,c.37.1.8 19078,32153 1dceB 331 8.63e+01 1dceB a.102.4.3 18872 1t9iA 163 8.74e+01 1pz1A 333 8.79e+01 c.1.7.1 95390 1g7oA 215 8.81e+01 1g7oA a.45.1.1,c.47.1.5 60332,60333 171l 164 8.88e+01 1l92 d.2.1.3 36962 1p8cA 145 8.88e+01 a.152.1.2 94354 1wdcC 156 8.99e+01 1wdcC a.39.1.5 17317 2bd0A 244 8.99e+01