# List of top-scoring protein chains for t06-100-30-alpha-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 1yfbA 59 2.19e+00 1xb4A 202 3.66e+00 1ne7A 289 3.81e+00 c.124.1.1 91833 1eceA 358 4.88e+00 1eceA c.1.8.3 28813 1pv5A 264 5.30e+00 d.251.1.1 95150 1oe4A 247 5.71e+00 c.18.1.3 86895 1l4dB 122 6.45e+00 d.15.5.1 77684 1zz1A 369 6.58e+00 2bivA 243 6.70e+00 2eutA 294 6.89e+00 1i0dA 332 6.92e+00 1pscA c.1.9.3 61487 1zs9A 261 7.12e+00 1gqvA 135 7.53e+00 d.5.1.1 70376 1nnhA 294 7.56e+00 d.104.1.1 92005 1xw8A 252 8.24e+00 1r1hA 696 8.71e+00 d.92.1.4 104756 2ew8A 249 8.75e+00 1e7wA 291 8.83e+00 c.2.1.2 59373 1oz2A 331 9.28e+00 b.34.9.3,b.34.9.3,b.34.9.3 93781,93782,93783 1wdpA 495 9.31e+00 2frfA 153 9.57e+00 1jsf 130 1.01e+01 3lzt d.2.1.2 36410 1a6m 151 1.01e+01 1a6m a.1.1.2 15018 1anf 370 1.04e+01 4mbp c.94.1.1 35776 1gjnA 153 1.09e+01 a.1.1.2 70191 1u7pA 164 1.15e+01 1vyrA 364 1.19e+01 c.1.4.1 108906 1yyqA 374 1.20e+01 1jdlA 121 1.25e+01 a.3.1.1 66557 1iwmA 186 1.34e+01 b.125.1.2 83758 2bbrA 195 1.34e+01 2cmwA 310 1.46e+01 1o2dA 371 1.47e+01 e.22.1.2 86591 1z0kB 69 1.54e+01 2bf6A 449 1.59e+01 1fjnA 39 1.61e+01 1fjnA g.3.7.3 44171 1utcA 363 1.63e+01 a.118.1.4,b.69.6.1 99914,99915 1qipA 183 1.65e+01 1qipA d.32.1.1 38470 1za0A 275 1.69e+01 1f02T 66 1.71e+01 1f02T j.67.1.1 46360 1mw9X 592 1.73e+01 e.10.1.1 91480 1dk8A 147 1.74e+01 1agrE a.91.1.1 18548 1icpA 376 1.76e+01 1oyc c.1.4.1 62270 1b0nA 111 1.79e+01 1b0nA a.34.1.1,a.35.1.3 17001,17064 1exqA 154 1.80e+01 1b9dA c.55.3.2 33646 1fmcA 255 1.88e+01 1cydA c.2.1.2 29856 1st9A 143 1.95e+01 c.47.1.10 98987 1wkaA 147 1.97e+01 1s9uA 207 2.10e+01 a.184.1.1 105390 1ucnA 152 2.11e+01 d.58.6.1 99183 1seiA 130 2.11e+01 1seiA d.140.1.1 41463 1x0rA 249 2.12e+01 1pn0A 665 2.14e+01 c.3.1.2,c.47.1.10,d.16.1.2 94918,94919,94920 1wzlA 585 2.16e+01 1npiA 61 2.24e+01 g.3.7.1 80685 1fr2B 134 2.25e+01 d.4.1.1 83257 1t4wA 196 2.26e+01 b.2.5.2 106427 1ob8A 135 2.26e+01 1m65A 245 2.29e+01 c.6.3.1 84847 2a65A 519 2.34e+01 1mkmA 249 2.34e+01 a.4.5.33,d.110.2.2 79242,79243 1cydA 244 2.36e+01 1cydA c.2.1.2 29825 2fdbM 164 2.37e+01 1j8bA 112 2.37e+01 d.222.1.1 77101 1pii 452 2.47e+01 1pii c.1.2.4,c.1.2.4 28559,28563 2ghsA 326 2.53e+01 1yqgA 263 2.53e+01 1wkqA 164 2.54e+01 c.97.1.2 109393 2f6eA 127 2.54e+01 1regX 122 2.56e+01 1regX d.58.27.1 39406 1lmzA 187 2.60e+01 a.96.1.4 74037 1x3aA 100 2.60e+01 2h1tA 188 2.61e+01 1inlA 296 2.62e+01 c.66.1.17 66220 1g4wR 383 2.64e+01 1g4uS a.24.11.1,c.45.1.2 16644,32692 1s2oA 244 2.67e+01 1ff9A 450 2.69e+01 1ff9A c.2.1.3,d.81.1.2 30039,39954 1jpzA 473 2.69e+01 a.104.1.1 67069 2f9sA 151 2.71e+01 2gz4A 207 2.76e+01 2abqA 306 2.76e+01 1vr0A 247 2.77e+01 1fc4A 401 2.81e+01 1bs0A c.67.1.4 59760 2f06A 144 2.82e+01 1vcc 77 2.84e+01 1vcc d.121.1.1 41092 1uw4A 91 2.85e+01 d.58.7.4 100071 1ug7A 128 2.86e+01 a.24.24.1 107824 1oq9A 363 3.04e+01 a.25.1.2 87257 2bsxA 253 3.05e+01 1yj7A 171 3.06e+01 1twuA 139 3.08e+01 d.32.1.8 107413 2arpA 116 3.12e+01 1hdoA 206 3.12e+01 1he2A c.2.1.2 60965 1jmxA 494 3.12e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 66901,66902,66903,66904,66905 1sk7A 198 3.15e+01 a.132.1.2 105671 1q7fA 286 3.16e+01 b.68.9.1 96036 1fcyA 236 3.18e+01 2lbd a.123.1.1 19282 1nvvS 481 3.22e+01 a.117.1.1 86279 1ytvA 366 3.25e+01 1jf3A 147 3.28e+01 a.1.1.2 71642 2d1yA 256 3.29e+01 1zkrA 153 3.34e+01 1orsC 132 3.36e+01 f.14.1.1 87353 1ylkA 172 3.40e+01 1s1hD 179 3.43e+01 i.1.1.1 105157 1pmzA 86 3.54e+01 a.39.1.10 104195 3thiA 371 3.57e+01 2thiA c.94.1.1 35792 1wnyA 186 3.57e+01 1y81A 138 3.57e+01 1x7yA 400 3.59e+01 1g5aA 628 3.63e+01 b.71.1.1,c.1.8.1 65152,65153 1gqzA 274 3.65e+01 d.21.1.1,d.21.1.1 83311,83312 1yaxA 153 3.68e+01 1pvmA 184 3.69e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1y4tA 322 3.70e+01 1px5A 349 3.80e+01 a.160.1.2,d.218.1.6 95277,95278 1eaiC 61 3.86e+01 1eaiC g.22.1.1 44894 1eiwA 111 3.89e+01 1eiwA c.23.3.1 31130 1zrn 232 3.89e+01 1qq5A c.108.1.1 43323 1nw1A 429 3.89e+01 d.144.1.8 86286 1xnfA 275 3.91e+01 1r8oA 96 3.93e+01 b.42.4.1 104852 2a6hE 99 3.93e+01 2bn5A 33 3.94e+01 1yewC 289 3.96e+01 1xzoA 174 3.97e+01 2bcqA 335 3.97e+01 1z2lA 423 4.00e+01 3htsB 102 4.04e+01 2hts a.4.5.22 16175 1ub1A 133 4.04e+01 d.10.1.3 99140 2bfdA 400 4.12e+01 1r6xA 395 4.14e+01 b.122.1.3,c.26.1.5 97167,97168 1ly1A 181 4.19e+01 c.37.1.1 74334 2erfA 209 4.19e+01 1zq6A 359 4.24e+01 1dmgA 225 4.26e+01 1dmgA c.22.1.1 31036 1b4pA 217 4.26e+01 a.45.1.1,c.47.1.5 83158,83159 1t0tV 248 4.28e+01 d.58.4.10 106229 1yw5A 177 4.29e+01 1tueA 212 4.30e+01 c.37.1.20 107323 1cojA 212 4.31e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1vr5A 547 4.32e+01 1h0pA 182 4.34e+01 b.62.1.1 76450 1gvfA 286 4.37e+01 c.1.10.2 70599 2aaxA 275 4.44e+01 1yh1A 359 4.45e+01 2g09A 297 4.47e+01 2fwhA 134 4.48e+01 1xqoA 256 4.49e+01 1xkpA 246 4.51e+01 1zklA 353 4.54e+01 1lrzA 426 4.56e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1uc7A 125 4.59e+01 c.47.1.1 99163 1w6uA 302 4.62e+01 1cs1A 386 4.63e+01 1ibjA c.67.1.3 34399 2b7kA 200 4.65e+01 1bjt 793 4.67e+01 1bjt e.11.1.1 43249 1lm8V 160 4.69e+01 b.3.3.1 74035 2es7A 142 4.73e+01 1s8nA 205 4.75e+01 c.23.1.1 105374 1ash 150 4.77e+01 1ash a.1.1.2 15622 1bm9A 122 4.77e+01 1bm9A a.4.5.7 16116 1vlmA 219 4.79e+01 c.66.1.41 108836 1lktA 104 4.82e+01 1lktA b.90.1.1 28398 1xpcA 248 4.85e+01 1rypF 233 4.85e+01 1rypF d.153.1.4 41937 1hyoA 421 4.88e+01 1qcnA b.34.8.1,d.177.1.1 59001,59002 2csgA 424 4.89e+01 1v72A 356 4.94e+01 1x9mA 698 4.94e+01 1y0nA 78 5.00e+01 1oshA 232 5.01e+01 a.123.1.1 93496 1k9uA 78 5.03e+01 a.39.1.10 84348 1i8oA 114 5.05e+01 1ycc a.3.1.1 61979 2gdqA 382 5.06e+01 1v58A 241 5.06e+01 c.47.1.9,d.17.3.1 108371,108372 1ovlA 271 5.08e+01 a.123.1.1 87455 1ur4A 399 5.09e+01 1whzA 70 5.10e+01 1ja9A 274 5.14e+01 c.2.1.2 62817 1udzA 182 5.15e+01 b.51.1.1 99239 2gaiA 633 5.16e+01 1o6dA 163 5.16e+01 c.116.1.3 92567 1mkiA 330 5.17e+01 e.3.1.2 84994 1unlD 208 5.24e+01 2gkeA 274 5.26e+01 1gt1A 159 5.27e+01 b.60.1.1 90515 1sv0C 82 5.30e+01 a.60.1.1 106037 1ywfA 296 5.31e+01 1icfI 65 5.31e+01 1icfI g.28.1.1 44958 1ois 223 5.33e+01 1a36A e.15.1.1 43267 1dp4A 435 5.33e+01 1dp4A c.93.1.1 35710 1wlgA 299 5.33e+01 1w9yA 319 5.37e+01 1tif 78 5.41e+01 1tif d.15.8.1 37836 1fjgK 129 5.45e+01 1fjfK c.55.4.1 33733 1lq9A 112 5.53e+01 d.58.4.3 78129 1vchA 175 5.60e+01 1lmq 129 5.61e+01 3lzt d.2.1.2 36588 1gpr 162 5.70e+01 1gpr b.84.3.1 28267 1nkiA 135 5.71e+01 d.32.1.2 91941 1wz3A 96 5.71e+01 1v93A 296 5.75e+01 c.1.23.1 100532 1vjfA 180 5.76e+01 d.116.1.1 100809 1r8eA 278 5.77e+01 a.6.1.3,d.60.1.1 104843,104844 1tdhA 364 5.80e+01 a.156.1.2,b.113.1.1,g.39.1.8 106772,106773,106774 1ltqA 301 5.82e+01 c.108.1.9,c.37.1.1 78208,78209 2bt6A 108 5.83e+01 1wi9A 72 5.84e+01 1uv7A 110 5.88e+01 d.67.4.1 100040 2arzA 247 5.88e+01 2gs5A 198 5.89e+01 1dxsA 80 5.89e+01 1cokA a.60.1.2 17944 1nzjA 298 5.89e+01 c.26.1.1 92377 1xvxA 312 5.90e+01 1tfzA 424 5.93e+01 d.32.1.3,d.32.1.3 106886,106887 1yhvA 297 5.94e+01 1vcdA 126 5.95e+01 1exrA 148 5.99e+01 1cll a.39.1.5 17299 1vfsA 386 6.00e+01 b.49.2.2,c.1.6.1 108584,108585 1mvcA 240 6.04e+01 a.123.1.1 79499 1gvnB 287 6.05e+01 c.37.1.21 76354 1lm8C 96 6.07e+01 d.42.1.1 74034 1gefA 123 6.07e+01 1gefA c.52.1.18 60465 1wy9A 147 6.08e+01 2amxA 376 6.14e+01 1w94A 156 6.23e+01 1vp4A 425 6.23e+01 1mzgA 146 6.24e+01 d.224.1.1 79696 1byi 224 6.25e+01 1byi c.37.1.10 32199 1umdA 367 6.29e+01 c.36.1.11 99599 1o26A 232 6.34e+01 d.207.1.1 86566 1q1uA 144 6.34e+01 b.42.1.1 95608 1ef8A 261 6.37e+01 1ef8A c.14.1.3 30921 2btdA 210 6.40e+01 1wzoA 246 6.42e+01 1ustA 93 6.43e+01 a.4.5.13 99884 1kafA 108 6.44e+01 d.199.1.1 68372 1zvtA 256 6.45e+01 1f0yA 302 6.45e+01 2hdhA a.100.1.3,c.2.1.6 18793,30197 2a6sA 84 6.52e+01 1nuuA 252 6.54e+01 c.26.1.3 86209 1s9pA 227 6.57e+01 a.123.1.1 105384 2aukA 190 6.57e+01 1qtnA 164 6.57e+01 1pauA c.17.1.1 30999 1uhgA 385 6.59e+01 e.1.1.1 88491 2b95A 106 6.61e+01 1wp5A 323 6.63e+01 1wrjA 156 6.71e+01 1t95A 240 6.75e+01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 1rkuA 206 6.76e+01 c.108.1.11 97627 2jdxA 385 6.79e+01 1jdw d.126.1.2 41139 1xkpB 124 6.79e+01 1upvA 257 6.83e+01 1jz8A 1023 6.86e+01 b.1.4.1,b.1.4.1,b.18.1.5,b.30.5.1,c.1.8.3 67830,67831,67832,67833,67834 2frnA 278 6.94e+01 2g0uA 92 6.95e+01 1iqzA 81 6.95e+01 d.58.1.4 66281 1wzcA 249 6.96e+01 1yn8A 59 6.96e+01 1ngnA 155 7.00e+01 a.96.1.2 85697 1pjvA 32 7.02e+01 g.3.7.2 94792 1eokA 290 7.03e+01 1eokA c.1.8.5 28991 2cw5A 255 7.09e+01 2freA 200 7.10e+01 1j96A 323 7.11e+01 c.1.7.1 71616 1z6oM 191 7.11e+01 1gcvB 136 7.15e+01 1cg5B a.1.1.2 15589 2f6rA 281 7.15e+01 1xtmA 175 7.16e+01 1fjgP 88 7.19e+01 1emwA d.27.1.1 38444 1uluA 261 7.24e+01 1a8l 226 7.25e+01 1a8l c.47.1.2,c.47.1.2 32777,32778 1o50A 157 7.30e+01 d.37.1.1,d.37.1.1 92478,92479 1fobA 334 7.30e+01 c.1.8.3 83255 1a9xB 379 7.41e+01 1c3oB c.8.3.1,c.23.16.1 30732,31409 1ucsA 64 7.51e+01 b.85.1.1 88466 1gwiA 411 7.51e+01 a.104.1.1 76364 1lshA 1056 7.51e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1xvsA 126 7.56e+01 6rxn 46 7.57e+01 1rb9 g.41.5.1 45222 1sqnA 261 7.61e+01 a.123.1.1 105944 1ve6A 582 7.62e+01 2bneA 241 7.67e+01 1dzkA 157 7.69e+01 1obpA b.60.1.1 27096 1qmvA 197 7.73e+01 1qq2A c.47.1.10 33066 1iujA 106 7.75e+01 d.58.4.5 90701 1c30B 382 7.76e+01 c.8.3.1,c.23.16.1 30736,31413 2aqaA 63 7.76e+01 1p1mA 406 7.80e+01 b.92.1.4,c.1.9.9 87696,87697 1j30A 144 7.81e+01 a.25.1.1 90806 2napA 723 7.81e+01 2napA b.52.2.2,c.81.1.1 26926,35334 1dbwA 126 7.85e+01 1dbwA c.23.1.1 31095 1mwmA 320 7.85e+01 c.55.1.1,c.55.1.1 79580,79581 1zsqA 528 7.87e+01 1e5mA 416 7.87e+01 1dd8A c.95.1.1,c.95.1.1 58973,58974 2fiyA 309 7.90e+01 1uvjA 664 7.95e+01 e.8.1.6 100045 1ksoA 101 7.97e+01 a.39.1.2 72926 1xi7A 61 7.97e+01 1np7A 489 7.98e+01 a.99.1.1,c.28.1.1 80677,80678 1vlbA 907 8.04e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.133.1.1 108739,108740,108741,108742 1z5yE 149 8.07e+01 2cu6A 103 8.09e+01 1jv1A 505 8.10e+01 c.68.1.5 71892 1zm0A 114 8.10e+01 1agi 125 8.10e+01 7rsa d.5.1.1 37303 1pcfA 66 8.12e+01 1pcfA d.18.1.1 38142 1rypB 250 8.13e+01 1rypB d.153.1.4 41933 1xc1A 309 8.16e+01 c.94.1.1 109543 1kb0A 677 8.19e+01 a.3.1.6,b.70.1.1 68378,68379 1cfzA 162 8.19e+01 1cfzA c.56.1.1 33754 1tp9A 162 8.21e+01 1gngX 39 8.21e+01 1ihkA 174 8.24e+01 1bfg b.42.1.1 62384 1uzmA 247 8.25e+01 1g8kA 825 8.28e+01 1g8jA b.52.2.2,c.81.1.1 26920,35328 1pylA 97 8.30e+01 d.1.1.2 104391 1s1pA 331 8.34e+01 c.1.7.1 98350 1v8cA 168 8.46e+01 d.15.3.1,d.129.5.1 100495,100496 1w7lA 422 8.48e+01 c.67.1.1 109226 2ex0A 399 8.51e+01 2gh1A 301 8.53e+01 1ju2A 536 8.58e+01 c.3.1.2,d.16.1.1 77169,77170 1l0wA 580 8.58e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 1w36B 1180 8.63e+01 1m0wA 491 8.65e+01 c.30.1.4,d.142.1.6 78363,78364 1k4nA 192 8.66e+01 d.32.1.5 72059 2cy5A 140 8.66e+01 1yuzA 202 8.68e+01 1wmhA 89 8.73e+01 1hh1A 143 8.74e+01 1gefA c.52.1.18 61036 1r4vA 171 8.78e+01 a.197.1.1 97049 1qusA 322 8.82e+01 1ltm d.2.1.6 36991 1v71A 323 8.84e+01 1zv9A 172 8.84e+01 1m33A 258 8.87e+01 c.69.1.26 78514 2h21A 440 8.96e+01 1snrA 341 8.98e+01 b.6.1.3,b.6.1.3 105823,105824