# 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 1zcbA 362 1.85e-02 1z6nA 167 2.12e-01 1bjz 207 2.33e-01 2tct a.4.1.9,a.121.1.1 16065,19242 2d1eA 248 2.67e-01 2tct 207 2.67e-01 2tct a.4.1.9,a.121.1.1 16063,19240 1qjtA 99 5.87e-01 1eh2 a.39.1.6 17335 1rbp 182 6.49e-01 1aqb b.60.1.1 27085 1r45A 204 6.74e-01 1zbmA 280 7.44e-01 1p5zB 263 7.63e-01 c.37.1.1 87815 2f6hX 419 7.84e-01 1a6i 217 7.92e-01 2tct a.4.1.9,a.121.1.1 16066,19243 1g97A 459 9.99e-01 1fwyA b.81.1.4,c.68.1.5 60394,60395 1jl3A 139 1.02e+00 c.44.1.1 66826 1hm9A 468 1.03e+00 b.81.1.4,c.68.1.5 65866,65867 1whtA 256 1.18e+00 1ivyA c.69.1.5 34646 1jvr 137 1.30e+00 1jvr a.61.1.2 18132 1tag 324 1.33e+00 1cipA a.66.1.1,c.37.1.8 18197,32080 1tadA 324 1.33e+00 1cipA a.66.1.1,c.37.1.8 18194,32077 1jfvA 131 1.39e+00 c.44.1.1 66654 1utg 70 1.69e+00 1utg a.101.1.1 18813 1a19A 90 1.69e+00 1ay7B c.9.1.1 30831 1jf8A 131 1.73e+00 c.44.1.1 66621 2utgA 70 1.75e+00 1utg a.101.1.1 18814 1xvjA 109 1.82e+00 1yovA 537 2.01e+00 1q5nA 454 2.06e+00 a.127.1.1 95901 1brsD 89 2.07e+00 1ay7B c.9.1.1 30825 1rwyA 109 2.11e+00 a.39.1.4 98002 1g33A 73 2.37e+00 a.39.1.4 65121 1ap4 89 2.42e+00 1ncx a.39.1.5 17253 1ay7B 89 2.51e+00 1ay7B c.9.1.1 30836 1alvA 173 2.97e+00 1alvA a.39.1.8 17370 1rvgA 305 3.03e+00 c.1.10.2 97920 1xklA 273 3.08e+00 1b2sD 90 3.44e+00 1ay7B c.9.1.1 30837 1uu1A 335 3.64e+00 c.67.1.1 99993 1w24A 182 3.66e+00 1b27D 90 3.99e+00 1ay7B c.9.1.1 30840 1aj4 161 4.16e+00 1ncx a.39.1.5 17244 1np8A 159 4.16e+00 a.39.1.8 92022 2cyeA 133 4.33e+00 1pmzA 86 4.48e+00 a.39.1.10 104195 2f9fA 177 4.82e+00 1mxiA 160 4.86e+00 c.116.1.1 79646 5pal 109 4.93e+00 1a75A a.39.1.4 17215 1pzqA 60 4.95e+00 a.34.3.1 95466 1ab7 89 5.14e+00 1ay7B c.9.1.1 30835 1kfuS 184 5.26e+00 a.39.1.8 68574 1e6cA 173 5.54e+00 1shkA c.37.1.2 59296 1bcsA 263 5.73e+00 1ivyA c.69.1.5 34647 1y1xA 191 5.74e+00 1jfiA 98 5.75e+00 1jfiA a.22.1.3 62936 1w41A 101 5.85e+00 1c4rA 182 6.04e+00 1c4rA b.29.1.4 24229 1b3sD 90 6.52e+00 1ay7B c.9.1.1 30846 1ebbA 202 6.54e+00 c.60.1.1 64900 1nz6A 101 7.22e+00 a.2.3.1 86441 1h2eA 207 7.39e+00 c.60.1.1 70857 1tq4A 413 7.92e+00 c.37.1.8 107201 1svr 114 8.48e+00 1svy d.109.1.1 40833 1dppA 507 8.64e+00 1dpe c.94.1.1 35800 1svy 114 8.79e+00 1svy d.109.1.1 40831 1uekA 275 9.06e+00 d.14.1.5,d.58.26.5 88483,88484 1svq 114 9.06e+00 1svy d.109.1.1 40832 1wveC 80 9.40e+00 2fvtA 135 9.47e+00 1z2wA 192 9.53e+00 1ah7 245 9.53e+00 1ah7 a.124.1.1 19339 1v37A 177 1.00e+01 1wz8A 264 1.00e+01 1z2aA 168 1.01e+01 1jvwA 167 1.01e+01 d.26.1.1 71907 1xgkA 352 1.02e+01 1wlmA 151 1.05e+01 1irqA 71 1.06e+01 a.43.1.4 66297 1yzhA 214 1.06e+01 1k6iA 352 1.09e+01 c.2.1.2 68223 1vgwA 231 1.10e+01 c.68.1.13 100612 1k6xA 352 1.10e+01 c.2.1.2 68238 1aj5A 173 1.10e+01 1alvA a.39.1.8 17367 1q3eA 207 1.11e+01 b.82.3.2 95669 1e5pA 151 1.12e+01 1bj7 b.60.1.1 59272 1brlA 355 1.19e+01 1lucA c.1.16.1 29553 1aq0A 306 1.21e+01 1aq0A c.1.8.3 28842 1h7mA 102 1.21e+01 d.79.3.1 83485 1br1B 150 1.23e+01 1wdcC a.39.1.5 17309 1c3pA 375 1.24e+01 1c3pA c.42.1.2 32606 1cipA 353 1.25e+01 1cipA a.66.1.1,c.37.1.8 18210,32093 1id3B 102 1.28e+01 a.22.1.1 66113 1aj8A 371 1.28e+01 1aj8A a.103.1.1 18900 1diiC 80 1.30e+01 1diiC a.3.1.1 15925 1gz0A 253 1.37e+01 c.116.1.1,d.79.3.3 76391,76392 1n6aA 259 1.39e+01 b.76.2.1,b.85.7.1 80121,80122 1xahA 354 1.39e+01 2bwkA 121 1.40e+01 1kwnA 207 1.40e+01 b.25.1.1 77568 1thw 207 1.40e+01 1thv b.25.1.1 23903 1pylA 97 1.41e+01 d.1.1.2 104391 2fi9A 128 1.45e+01 1lucA 355 1.47e+01 1lucA c.1.16.1 29547 1fxrA 64 1.49e+01 1fxd d.58.1.4 38993 1pwaA 162 1.49e+01 b.42.1.1 95211 1w9gA 104 1.51e+01 1ywnA 316 1.52e+01 1wz7A 111 1.52e+01 1svsA 353 1.55e+01 c.37.1.8 106051 1zr5A 214 1.58e+01 1gmpA 96 1.59e+01 1rgeA d.1.1.2 36036 1v9jA 113 1.63e+01 d.52.6.1 100542 2ew2A 316 1.67e+01 1pvaA 110 1.68e+01 1a75A a.39.1.4 17207 1reqD 637 1.69e+01 1reqB c.1.19.1,c.23.6.1 29623,31250 1reqB 637 1.70e+01 1reqB c.1.19.1,c.23.6.1 29621,31248 1lniA 96 1.71e+01 d.1.1.2 74046 4cpv 109 1.73e+01 1a75A a.39.1.4 17198 1cdp 109 1.74e+01 1a75A a.39.1.4 17197 1rgeA 96 1.74e+01 1rgeA d.1.1.2 36028 1i8vA 96 1.74e+01 d.1.1.2 61985 1ka8A 100 1.76e+01 a.4.5.20 72241 1mroA 548 1.90e+01 1mroA a.89.1.1,d.58.31.2 18525,39443 1hbnA 549 1.90e+01 1mroA a.89.1.1,d.58.31.2 60898,60899 1oaiA 59 1.91e+01 a.5.2.3 81255 1bjx 110 1.91e+01 1bjx c.47.1.2 32774 2bjxA 110 1.91e+01 1bjx c.47.1.2 32776 1ad3A 452 1.97e+01 1ad3A c.82.1.1 35335 1as0 353 1.99e+01 1cipA a.66.1.1,c.37.1.8 18212,32095 1b2uD 90 2.00e+01 1ay7B c.9.1.1 30843 1azsC 388 2.02e+01 1cipA a.66.1.1,c.37.1.8 18203,32086 1dpuA 99 2.04e+01 1dpuA a.4.5.16 16150 1hq3D 103 2.06e+01 1aoiB a.22.1.1 16464 1tzyD 103 2.06e+01 a.22.1.1 107533 1bhjA 292 2.13e+01 1xvaA c.66.1.5 34189 1s69A 124 2.18e+01 a.1.1.1 105305 1zz1A 369 2.20e+01 1aoiF 87 2.27e+01 1aoiB a.22.1.1 16471 1z1dA 103 2.28e+01 1e8yA 966 2.28e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 1yd9A 193 2.32e+01 1whsA 255 2.33e+01 1ivyA c.69.1.5 34649 1vz6A 393 2.38e+01 d.154.1.2 108949 1aoiB 87 2.41e+01 1aoiB a.22.1.1 16470 2gs8A 317 2.47e+01 1fnsA 196 2.49e+01 1auq c.62.1.1 34136 1ghr 306 2.52e+01 1aq0A c.1.8.3 28844 1k9uA 78 2.52e+01 a.39.1.10 84348 1dfoA 417 2.53e+01 1bj4A c.67.1.4 34480 1oakA 196 2.57e+01 1auq c.62.1.1 34138 1nal1 297 2.63e+01 1nal3 1cydA 244 2.64e+01 1cydA c.2.1.2 29825 1kx5B 102 2.65e+01 a.22.1.1 77594 2wsyB 396 2.67e+01 2tysB c.79.1.1 35288 7reqB 637 2.68e+01 1reqB c.1.19.1,c.23.6.1 29617,31244 1o2dA 371 2.74e+01 e.22.1.2 86591 1lfo 128 2.76e+01 1hmt b.60.1.2 27223 2az4A 429 2.76e+01 1fdyA 297 2.78e+01 1nal3 c.1.10.1 29071 1z85A 234 2.80e+01 1h3oB 76 2.87e+01 a.22.1.3 76645 1qo7A 394 2.87e+01 1qo7A c.69.1.11 34697 1ltaC 49 2.92e+01 1ltaC 1b8lA 108 2.95e+01 1a75A a.39.1.4 17199 1ao3A 187 2.96e+01 1atzA c.62.1.1 34134 1u53A 196 3.02e+01 1s62A 106 3.03e+01 1m7bA 184 3.04e+01 c.37.1.8 74572 1z4eA 153 3.04e+01 1n6jG 35 3.05e+01 1t9hA 307 3.07e+01 1b7qA 130 3.09e+01 3lzt d.2.1.2 36549 1atzB 189 3.26e+01 1atzA c.62.1.1 34133 1fe8A 196 3.26e+01 1atzA c.62.1.1 59783 1q0rA 298 3.29e+01 c.69.1.28 95508 1ur1A 378 3.31e+01 c.1.8.3 99804 1mbyA 88 3.34e+01 d.223.1.1 78931 1a75A 108 3.35e+01 1a75A a.39.1.4 17216 1un3A 123 3.36e+01 d.5.1.1 99646 2as0A 396 3.40e+01 2fz0A 149 3.41e+01 1atzA 189 3.47e+01 1atzA c.62.1.1 34132 1kp9B 287 3.51e+01 c.66.1.18 68734 1eywA 331 3.56e+01 1pscA c.1.9.3 29057 1pp7U 131 3.56e+01 a.4.5.44 94973 1cpcA 162 3.60e+01 1cpcA a.1.1.3 15643 1ggwA 140 3.63e+01 1ggwA a.39.1.5 60490 1ou0A 207 3.65e+01 c.23.17.1 93536 1ijbA 202 3.68e+01 c.62.1.1 71229 2a5vA 213 3.74e+01 1a75B 109 3.77e+01 1a75A a.39.1.4 17217 1auq 208 3.77e+01 1auq c.62.1.1 34137 1oboA 169 3.79e+01 c.23.5.1 86776 1o94A 729 3.86e+01 c.1.4.1,c.3.1.1,c.4.1.1 81200,81201,81202 1evsA 187 3.87e+01 1evsA a.26.1.1 16845 1n1jB 97 3.90e+01 a.22.1.3 79814 1pscA 365 3.91e+01 1pscA c.1.9.3 29058 1m6dA 214 3.91e+01 d.3.1.1 84849 1jw2A 72 3.92e+01 a.23.5.1 67372 2tmdA 729 3.93e+01 2tmdA c.1.4.1,c.3.1.1,c.4.1.1 28616,30317,30602 1jqSB 32 3.93e+01 1jqsB 32 3.93e+01 i.1.1.1 63238 1p6pA 125 3.94e+01 b.60.1.2 87839 1fhoA 119 3.95e+01 1fhoA b.55.1.1 26982 1go5A 69 3.95e+01 a.5.2.3 65410 1t46A 313 3.97e+01 d.144.1.7 106397 2pfkA 320 4.02e+01 3pfk c.89.1.1 35577 1kfuL 699 4.02e+01 a.39.1.8,b.14.1.1,d.3.1.3 68571,68572,68573 1hl2A 297 4.03e+01 c.1.10.1 83581 1djnA 729 4.04e+01 2tmdA c.1.4.1,c.3.1.1,c.4.1.1 28612,30313,30598 1h0aA 158 4.05e+01 a.118.9.1 76434 1mntA 76 4.05e+01 1bazA a.43.1.1 17453 1djqA 729 4.08e+01 2tmdA c.1.4.1,c.3.1.1,c.4.1.1 28614,30315,30600 1a80 277 4.12e+01 1frb c.1.7.1 28700 2gar 212 4.17e+01 2gar c.65.1.1 34161 1e7uA 961 4.23e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 2eboA 74 4.24e+01 2eboA h.3.2.1 45754 1eyhA 144 4.46e+01 1eduA a.118.9.1 19214 2ftbA 125 4.47e+01 1b5uA 130 4.48e+01 3lzt d.2.1.2 36453 1b1iA 123 4.53e+01 7rsa d.5.1.1 37295 1f5vA 240 4.55e+01 1bkjA d.90.1.1 40255 1akeA 214 4.57e+01 1zin c.37.1.1,g.41.2.1 31905,45185 2cxxA 190 4.58e+01 1im4A 221 4.67e+01 e.8.1.7 62581 1b1jA 123 4.70e+01 7rsa d.5.1.1 37298 1a88A 275 4.73e+01 1brt c.69.1.12 34707 1a8q 274 4.74e+01 1brt c.69.1.12 34702 1b8rA 108 4.74e+01 1a75A a.39.1.4 17201 1k59A 123 4.82e+01 d.5.1.1 72073 1wdeA 294 4.88e+01 1zwxA 301 4.92e+01 1nal3 297 5.00e+01 1nal3 2blrA 206 5.02e+01 1rqwA 207 5.04e+01 b.25.1.1 97781 1jkxA 212 5.06e+01 c.65.1.1 66813 1garA 212 5.11e+01 2gar c.65.1.1 34162 1a2xA 159 5.15e+01 1ncx a.39.1.5 17251 1pb7A 292 5.15e+01 c.94.1.1 88025 1xvaA 292 5.25e+01 1xvaA c.66.1.5 34183 1ponA 36 5.25e+01 1ponA a.39.1.5 17239 8pchA 220 5.31e+01 1cs8A 1ym3A 215 5.42e+01 1sl8A 191 5.42e+01 1e0aB 46 5.47e+01 1e0aB j.65.1.1 46357 1b7lA 130 5.48e+01 3lzt d.2.1.2 36515 2bleA 367 5.49e+01 1kpgA 287 5.51e+01 c.66.1.18 68735 1chmA 401 5.51e+01 1chmA c.55.2.1,d.127.1.1 33545,41142 1inzA 148 5.54e+01 1eduA a.118.9.1 62610 1ji6A 589 5.54e+01 b.18.1.3,b.77.2.1,f.1.3.1 63066,63067,63068 1ont 22 5.56e+01 j.31.1.2 46232 1ycdA 243 5.57e+01 1ja9A 274 5.64e+01 c.2.1.2 62817 2mgb 154 5.66e+01 1a6m a.1.1.2 15102 1z54A 132 5.69e+01 1mgn 154 5.69e+01 1a6m a.1.1.2 15097 1i52A 236 5.75e+01 1i52A c.68.1.13 61767 1ghsA 306 5.80e+01 1aq0A c.1.8.3 28840 1hrhA 136 5.86e+01 1rthA c.55.3.1 33577 1r1mA 164 5.98e+01 d.79.7.1 96820 1b1eA 123 6.06e+01 7rsa d.5.1.1 37300 1eduA 149 6.16e+01 1eduA a.118.9.1 19215 1tns 76 6.17e+01 1qpmA a.6.1.7 16228 1ig5A 75 6.18e+01 4icb a.39.1.1 62363 1jboA 162 6.23e+01 a.1.1.3 84150 1wbpA 397 6.24e+01 1rro 108 6.25e+01 1a75A a.39.1.4 17195 2spl 154 6.29e+01 1a6m a.1.1.2 15047 1ktpA 162 6.29e+01 a.1.1.3 72990 1eh2 106 6.29e+01 1eh2 a.39.1.6 17339 1vg8A 207 6.31e+01 c.37.1.8 108606 1dax 64 6.32e+01 1fxd d.58.1.4 38996 2f6kA 307 6.33e+01 1z92B 219 6.36e+01 1o82A 70 6.38e+01 a.64.2.1 92630 1pfkA 320 6.38e+01 3pfk c.89.1.1 35575 1mlg 154 6.41e+01 1a6m a.1.1.2 15104 1a6g 151 6.42e+01 1a6m a.1.1.2 15021 1hbyA 123 6.44e+01 7rsa d.5.1.1 60936 1e68A 70 6.44e+01 1e68A a.64.2.1 18144 1dkvA 699 6.45e+01 1dkvA 1d2gA 292 6.45e+01 1xvaA c.66.1.5 34187 2fbaA 492 6.45e+01 2spo 154 6.45e+01 1a6m a.1.1.2 15053 102m 154 6.46e+01 1a6m a.1.1.2 15073 1rfzA 168 6.47e+01 a.195.1.1 97411 1ayx 492 6.47e+01 1ayx a.102.1.1 18825 1mll 154 6.47e+01 1a6m a.1.1.2 15057 1mod 154 6.50e+01 1a6m a.1.1.2 15107 1lm5A 214 6.56e+01 d.211.2.1 74029 1ctaA 36 6.58e+01 1ctdA a.39.1.5 17232 1a6m 151 6.59e+01 1a6m a.1.1.2 15018 1bzpA 153 6.60e+01 1a6m a.1.1.2 15020 1ipaA 274 6.68e+01 c.116.1.1,d.79.3.3 71254,71255 1lyxA 248 6.69e+01 c.1.1.1 78304 2mgg 154 6.69e+01 1a6m a.1.1.2 15069 1txoA 237 6.71e+01 1mbd 153 6.74e+01 1a6m a.1.1.2 15033 1mlo 154 6.75e+01 1a6m a.1.1.2 15085 2agdA 287 6.79e+01 1sjdA 368 6.84e+01 c.1.11.2,d.54.1.1 105632,105633 2fsp 124 6.85e+01 1dz3A c.23.1.1 31119 1tw4A 125 6.90e+01 1jv4A 162 6.94e+01 b.60.1.1 67343 1yqdA 366 6.94e+01 1whzA 70 6.95e+01 1xhlA 297 7.00e+01 c.2.1.2 109591 1oe0A 230 7.04e+01 c.37.1.1 92788 1ntyA 311 7.14e+01 a.87.1.1,b.55.1.1 103873,103874 1vlqA 337 7.17e+01 c.69.1.25 108848 1wdcB 156 7.25e+01 1wdcB a.39.1.5 17302 1thv 207 7.28e+01 1thv b.25.1.1 23904 1b9aA 108 7.32e+01 1a75A a.39.1.4 17204 1qy1A 174 7.43e+01 b.60.1.1 96568 1mup 166 7.49e+01 1mup b.60.1.1 27133 1mjnA 179 7.50e+01 c.62.1.1 79210 1vizA 240 7.53e+01 c.1.4.1 100784 1t5jA 313 7.62e+01 a.209.1.1 99125 1q32A 544 7.67e+01 d.136.1.3,d.136.1.3 104507,104508 1bxyA 60 7.70e+01 1bxyA d.59.1.1 39525 1tz9A 367 7.78e+01 c.1.15.6 107466 1mym 154 7.79e+01 1a6m a.1.1.2 15054 1x3mA 415 7.81e+01 1fmk 452 7.92e+01 1fmk b.34.2.1,d.93.1.1,d.144.1.7 24511,40436,41690 2cygA 312 7.95e+01 3icb 75 8.02e+01 4icb a.39.1.1 17147 1dfd 64 8.05e+01 1fxd d.58.1.4 38995 134l 130 8.06e+01 3lzt d.2.1.2 36505 1wraA 308 8.10e+01 1jtdB 273 8.11e+01 b.69.5.2 67265 1zejA 293 8.15e+01 1zhpA 238 8.24e+01 1zhrA 238 8.27e+01 1w36C 1122 8.34e+01 1zhmA 238 8.35e+01 2cq2A 114 8.37e+01 1wy3A 35 8.41e+01 1sbzA 197 8.45e+01 1zndA 174 8.48e+01 1v2xA 194 8.48e+01 c.116.1.1 100274 1xx9A 238 8.53e+01 1gx3A 284 8.53e+01 d.3.1.5 70678 1azwA 313 8.56e+01 1qtrA c.69.1.7 34658 2pvbA 107 8.57e+01 1a75A a.39.1.4 17205 1fgkA 310 8.60e+01 1fgkA d.144.1.7 41693 2bibA 547 8.70e+01 1xx6A 191 8.74e+01 1a4yB 123 8.81e+01 7rsa d.5.1.1 37296 1hqz1 141 8.82e+01 2b3yA 888 8.82e+01 2cy5A 140 8.86e+01 1ckiA 317 8.90e+01 1csn d.144.1.7 41660 1f0iA 504 8.91e+01 1f0iA d.136.1.2,d.136.1.2 59566,59567 1i05A 180 8.96e+01 1mup b.60.1.1 27130 2dvh 79 8.98e+01 1c53 a.3.1.1 15803