# List of top-scoring protein chains for t06-100-30-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 1q7zA 566 1.63e-01 c.1.21.2,c.1.26.1 96090,96091 1aisB 200 3.09e-01 1aisB a.74.1.2,a.74.1.2 18384,18385 1iyeA 309 3.62e-01 e.17.1.1 83786 1o2dA 371 5.12e-01 e.22.1.2 86591 2c78A 405 8.64e-01 1kid 203 1.13e+00 1derA c.8.5.1 30771 1vp4A 425 1.19e+00 1ht6A 405 1.37e+00 b.71.1.1,c.1.8.1 83629,83630 1wleA 501 1.38e+00 2f5gA 133 1.51e+00 1ww9A 392 1.64e+00 2bhuA 602 1.77e+00 1a6q 382 1.93e+00 1a6q a.159.1.1,d.219.1.1 75801,75802 1krhA 338 1.93e+00 b.43.4.2,c.25.1.2,d.15.4.2 72891,72892,72893 1tbd 134 2.21e+00 2tbd d.89.1.1 40240 1zpvA 91 2.31e+00 1xc3A 302 2.39e+00 1e9rA 437 2.53e+00 c.37.1.11 64827 1pvvA 315 2.58e+00 c.78.1.1,c.78.1.1 95190,95191 1vggA 161 2.66e+00 1h3nA 878 2.89e+00 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1sviA 195 2.97e+00 c.37.1.8 106048 1ryiA 382 3.32e+00 3chbD 104 3.42e+00 3chbD b.40.2.1 24970 1jeyA 609 3.65e+00 1jeqA b.131.1.1,c.62.1.3 90370,90371 1kv7A 488 3.69e+00 b.6.1.3,b.6.1.3,b.6.1.3 68873,68874,68875 1jmtA 104 3.73e+00 d.58.7.3 63180 1kblA 873 3.89e+00 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1ooeA 236 4.12e+00 c.2.1.2 87196 1vheA 373 4.29e+00 b.49.3.1,c.56.5.4 100669,100670 2cunA 410 4.52e+00 1c7qA 445 4.79e+00 2pgi c.80.1.2 35307 1wqaA 455 4.94e+00 2fbiA 142 4.96e+00 2cuaA 135 5.15e+00 2cuaA b.6.1.2 23039 1l7aA 318 5.25e+00 c.69.1.25 77772 1aqzA 149 5.29e+00 1aqzA d.1.1.3 36238 1wr8A 231 5.31e+00 1qysA 106 5.61e+00 k.41.1.1 96603 1xknA 355 5.62e+00 2arhA 203 5.84e+00 2f46A 156 5.85e+00 1l8aA 886 6.70e+00 c.36.1.10,c.36.1.6,c.48.1.1 73677,73678,73679 1ymqA 261 7.58e+00 1aocA 175 7.69e+00 1aocA g.17.1.5 44817 1uirA 314 8.04e+00 c.66.1.17 99429 1kafA 108 8.47e+00 d.199.1.1 68372 1ccwB 483 8.50e+00 1cb7B c.1.19.2 29646 1o3yA 166 8.51e+00 c.37.1.8 86618 1ob8A 135 8.62e+00 1xmxA 385 8.71e+00 1ysjA 404 8.84e+00 1wdiA 345 8.99e+00 1pjcA 361 9.81e+00 1sayA c.2.1.4,c.23.12.2 30101,31361 2cnqA 306 9.83e+00 2b0jA 358 9.85e+00 1q6oA 216 9.88e+00 c.1.2.3 95986 1bif 469 9.98e+00 1bif c.37.1.7,c.60.1.4 31961,34003 1wdpA 495 1.02e+01 1r6uA 437 1.05e+01 c.26.1.1 97163 2a5dA 175 1.07e+01 1r8sA 164 1.10e+01 c.37.1.8 97247 1lc5A 364 1.10e+01 c.67.1.1 73827 1qy5A 269 1.13e+01 d.122.1.1 96573 1vjeA 166 1.14e+01 d.185.1.2 100807 1geqA 248 1.16e+01 2tysA c.1.2.4 28589 1g3qA 237 1.17e+01 1hyqA c.37.1.10 60237 1wstA 417 1.18e+01 2ffeA 311 1.19e+01 1rz1A 161 1.23e+01 b.45.1.2 98124 2d1sA 548 1.26e+01 1fmcA 255 1.26e+01 1cydA c.2.1.2 29856 2bryA 497 1.27e+01 1cvrA 435 1.29e+01 1cvrA b.1.18.12,c.17.1.2 21949,31006 1x1zA 252 1.32e+01 1h70A 255 1.33e+01 1h70A d.126.1.3 60711 1nv8A 284 1.35e+01 c.66.1.30 86224 2gf9A 189 1.36e+01 3ullA 132 1.40e+01 3ullA b.40.4.3 25282 1gtmA 419 1.40e+01 1hwyA c.2.1.7,c.58.1.1 30223,33871 1fvgA 199 1.41e+01 1fvaA d.58.28.1 39408 1g94A 448 1.41e+01 b.71.1.1,c.1.8.1 65169,65170 1oneA 436 1.42e+01 4enl c.1.11.1,d.54.1.1 29200,38844 1w5rA 278 1.45e+01 1bqk 124 1.51e+01 1bqk b.6.1.1 22889 1g66A 207 1.57e+01 1bs9 c.69.1.30 31329 1tqjA 230 1.60e+01 c.1.2.2 107228 2fcr 173 1.60e+01 1rcf c.23.5.1 31151 1vhoA 346 1.62e+01 b.49.3.1,c.56.5.4 100694,100695 2akoA 251 1.64e+01 2chnA 716 1.64e+01 1dzkA 157 1.66e+01 1obpA b.60.1.1 27096 2al1A 436 1.68e+01 1xccA 220 1.70e+01 1km4A 247 1.72e+01 c.1.2.3 72740 1gefA 123 1.79e+01 1gefA c.52.1.18 60465 2al2A 436 1.79e+01 1ituA 369 1.79e+01 c.1.9.7 71423 1ursA 402 1.82e+01 c.94.1.1 99833 1wwiA 148 1.83e+01 1w77A 228 1.89e+01 1uc8A 280 1.94e+01 c.30.1.6,d.142.1.7 99165,99166 2h2tB 175 1.99e+01 2atzA 180 2.08e+01 1kq3A 376 2.12e+01 e.22.1.2 68790 1q2lA 939 2.12e+01 2bz1A 196 2.17e+01 1p4xA 250 2.22e+01 a.4.5.28,a.4.5.28 87784,87785 1p5vA 235 2.22e+01 b.1.11.1,b.7.2.1 87812,87813 2c7pA 327 2.24e+01 2a1iA 146 2.24e+01 1b6rA 355 2.25e+01 1b6rA b.84.2.1,c.30.1.1,d.142.1.2 28241,31648,41493 2b69A 343 2.29e+01 1gx3A 284 2.30e+01 d.3.1.5 70678 2akzA 439 2.31e+01 2cxcA 144 2.33e+01 2a8yA 270 2.33e+01 1kv0A 66 2.33e+01 g.3.7.1 91040 1k0eA 453 2.43e+01 d.161.1.1 67938 1y0yA 353 2.47e+01 1m6sA 347 2.49e+01 c.67.1.1 78701 1u9iA 519 2.53e+01 1ve0A 134 2.62e+01 1y7bA 542 2.64e+01 2fvgA 340 2.69e+01 1dc1A 323 2.69e+01 1dc1A c.52.1.11 33321 1geeA 261 2.71e+01 c.2.1.2 90509 2fckA 181 2.73e+01 1pea 385 2.77e+01 1pea c.93.1.1 35662 1ujnA 348 2.82e+01 e.22.1.1 99460 2ff4A 388 2.87e+01 1ejeA 192 2.89e+01 1ejeA b.45.1.2 25757 2czrA 226 2.91e+01 1uayA 242 2.97e+01 c.2.1.2 88390 1fc6A 388 2.97e+01 1fc6A b.36.1.3,c.14.1.2 64738,64739 2bolA 314 2.97e+01 1mr3F 181 2.98e+01 c.37.1.8 79422 2d8dA 90 2.99e+01 2bgcA 238 3.02e+01 1g0oA 283 3.05e+01 1ybvA c.2.1.2 60181 1ujpA 271 3.07e+01 c.1.2.4 99462 1k2xB 143 3.10e+01 1yloA 348 3.11e+01 1shyB 551 3.12e+01 b.69.12.1,g.16.2.1 105565,105566 1fjgP 88 3.13e+01 1emwA d.27.1.1 38444 1bw0A 416 3.13e+01 1bw0A c.67.1.1 34385 1lucA 355 3.16e+01 1lucA c.1.16.1 29547 1eceA 358 3.19e+01 1eceA c.1.8.3 28813 1rzsA 61 3.19e+01 a.35.1.2 105139 2dcnA 311 3.20e+01 1jysA 242 3.30e+01 c.56.2.1 77216 2dri 271 3.30e+01 2dri c.93.1.1 35637 1e5pA 151 3.30e+01 1bj7 b.60.1.1 59272 2c6qA 351 3.31e+01 7odcA 424 3.32e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 1b6g 310 3.33e+01 1b6g c.69.1.8 34661 2bynA 227 3.35e+01 1xjjA 644 3.37e+01 1gegA 256 3.37e+01 1ybvA c.2.1.2 29888 1wtaA 275 3.39e+01 2cw5A 255 3.44e+01 2a3nA 355 3.48e+01 1ok7A 366 3.50e+01 d.131.1.1,d.131.1.1,d.131.1.1 103992,103993,103994 1n40A 396 3.57e+01 a.104.1.1 79977 1tc1A 220 3.60e+01 1tc1A c.61.1.1 34083 1inlA 296 3.61e+01 c.66.1.17 66220 1jli 112 3.64e+01 1jli a.26.1.2 16884 1zd3A 555 3.77e+01 1o4sA 389 3.79e+01 c.67.1.1 86620 1sdsA 117 3.82e+01 d.79.3.1 105439 1oxxK 353 3.83e+01 b.40.6.3,c.37.1.12 93715,93716 1czaN 917 3.85e+01 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33463,33464,33465,33466 1qmyA 167 3.85e+01 1qmyA d.3.1.2 37094 2av4A 162 3.91e+01 2bpqA 373 3.92e+01 1qo0D 196 3.92e+01 1qo0D c.23.1.3 31125 1oz9A 150 3.93e+01 d.92.1.15 93808 1nwwA 149 4.01e+01 d.17.4.8 86306 1v60A 123 4.06e+01 2asbA 251 4.07e+01 2bsxA 253 4.08e+01 1cv8 174 4.11e+01 1cv8 d.3.1.1 37089 1yavA 159 4.12e+01 1kwfA 363 4.12e+01 a.102.1.2 73078 1f08A 148 4.23e+01 1f08A d.89.1.2 59564 1x6oA 174 4.24e+01 b.34.5.2,b.40.4.5 109493,109494 1oacA 727 4.27e+01 1oacA b.30.2.1,d.17.2.1,d.17.2.1,d.82.1.1 24390,38007,38008,40003 2bo4A 397 4.31e+01 1djrD 103 4.34e+01 3chbD b.40.2.1 24865 1z5bA 469 4.59e+01 2bzlA 325 4.61e+01 1wy2A 351 4.62e+01 1o58A 303 4.68e+01 c.79.1.1 92491 1wf3A 301 4.70e+01 2as9A 210 4.72e+01 1rhfA 182 4.73e+01 b.1.1.1,b.1.1.4 97469,97470 2bgkA 278 4.78e+01 1prxA 224 4.79e+01 1prxA c.47.1.10 33076 1r88A 280 4.81e+01 c.69.1.3 97219 1w6gA 646 4.86e+01 1j1tA 233 4.94e+01 b.29.1.18 90771 1fnlA 175 4.94e+01 2fcbA b.1.1.4,b.1.1.4 21783,21784 1ja9A 274 4.94e+01 c.2.1.2 62817 1ctt 294 4.95e+01 1ctt c.97.1.1,c.97.1.1 36022,36023 1l6sA 323 4.99e+01 c.1.10.3 73627 1efpB 252 5.12e+01 1efvB c.26.2.3 31636 1gpiA 431 5.14e+01 b.29.1.10 65450 1ckeA 227 5.17e+01 1ckeA c.37.1.1 31846 1d3yA 301 5.17e+01 1d3yA e.12.1.1 43252 1rttA 193 5.25e+01 c.23.5.4 105098 2cw6A 298 5.28e+01 1rgyA 360 5.31e+01 e.3.1.1 97456 1i0lA 221 5.33e+01 c.61.1.1 71096 1vjjA 692 5.36e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 100814,100815,100816,100817 1yacA 208 5.37e+01 1yacA c.33.1.3 31757 1jhfA 202 5.38e+01 a.4.5.2,b.87.1.1 63057,63058 2bogX 286 5.39e+01 1wwzA 159 5.40e+01 1u2wA 122 5.42e+01 1v04A 355 5.60e+01 b.68.6.2 100240 1tkeA 224 5.70e+01 1qb5D 99 5.71e+01 b.40.2.1 88357 1srvA 145 5.71e+01 1derA c.8.5.1 30817 2cu6A 103 5.74e+01 1b8oA 284 5.79e+01 1b8oA c.56.2.1 33762 1vljA 407 5.81e+01 e.22.1.2 108832 1eejA 216 5.82e+01 1eejA c.47.1.9,d.17.3.1 33057,38071 1u5uA 374 5.90e+01 1m4jA 142 5.94e+01 d.109.1.2 78602 1dqpA 230 5.95e+01 1dqnA c.61.1.1 34069 1yhpA 212 5.96e+01 1l5oA 356 5.97e+01 c.39.1.1 77711 1zbxB 141 5.98e+01 1twdA 256 6.04e+01 c.1.30.1 107397 1obdA 306 6.14e+01 d.143.1.1 86767 1o7nA 449 6.15e+01 b.33.1.2,d.129.3.3 81162,81163 1yb0A 159 6.15e+01 1srqA 341 6.20e+01 e.55.1.1 105967 2ca6A 386 6.21e+01 1ur1A 378 6.27e+01 c.1.8.3 99804 2c1lA 358 6.30e+01 1w0pA 781 6.30e+01 b.29.1.8,b.29.1.8,b.68.1.1 109038,109039,109040 1o57A 291 6.31e+01 a.4.5.40,c.61.1.1 92483,92484 1i2aA 219 6.32e+01 e.24.1.1 90660 1whsA 255 6.35e+01 1ivyA c.69.1.5 34649 1oi7A 288 6.35e+01 c.2.1.8,c.23.4.1 87049,87050 1oj4A 283 6.38e+01 d.14.1.5,d.58.26.5 93083,93084 1yycA 174 6.40e+01 1pn0A 665 6.50e+01 c.3.1.2,c.47.1.10,d.16.1.2 94918,94919,94920 1g55A 343 6.61e+01 1g55A c.66.1.26 34247 1euhA 475 6.62e+01 1euhA c.82.1.1 35369 1t9bA 677 6.71e+01 1hw5A 210 6.85e+01 2cgpA a.4.5.4,b.82.3.2 16098,28137 2b4aA 138 6.90e+01 1go4A 205 6.90e+01 d.135.1.1 70292 2bhvA 246 6.92e+01 1w78A 422 6.93e+01 1lvwA 295 6.95e+01 c.68.1.6 84723 1uok 558 6.96e+01 1uok b.71.1.1,c.1.8.1 27801,28788 1hw7A 255 6.96e+01 1i7fA d.193.1.1 61297 1z41A 338 7.01e+01 1chd 203 7.02e+01 1chd c.40.1.1 32478 1e8gA 560 7.04e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1rkuA 206 7.07e+01 c.108.1.11 97627 1e8cA 498 7.12e+01 c.98.1.1,c.59.1.1,c.72.2.1 59377,59378,59379 2ffyA 358 7.17e+01 1t0hB 224 7.19e+01 c.37.1.1 106208 1o6dA 163 7.20e+01 c.116.1.3 92567 1x82A 190 7.21e+01 1knwA 425 7.21e+01 b.49.2.3,c.1.6.1 90969,90970 1vc4A 254 7.21e+01 c.1.2.4 100557 2b3nA 159 7.35e+01 2ab5A 269 7.42e+01 2frnA 278 7.44e+01 1l0wA 580 7.46e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 2c5aA 379 7.48e+01 2f1rA 171 7.50e+01 2evwX 166 7.55e+01 1xmbA 418 7.61e+01 2cb2A 318 7.62e+01 1guxA 218 7.62e+01 1guxA a.74.1.3 18388 1w41A 101 7.69e+01 1auoA 218 7.73e+01 1auoA c.69.1.14 34716 2f6uA 234 7.81e+01 1mbyA 88 7.83e+01 d.223.1.1 78931 1ywxA 102 7.87e+01 1s8nA 205 7.97e+01 c.23.1.1 105374 1xfsA 178 7.98e+01 d.129.3.5 109589 2d00A 109 8.07e+01 1wkoA 180 8.08e+01 1fm0E 150 8.08e+01 1fmaE d.41.5.1 38629 1gveA 327 8.10e+01 c.1.7.1 70597 1xn7A 78 8.11e+01 1g5hA 454 8.14e+01 1g5hA c.51.1.1,d.104.1.1 60270,60271 1uz3A 102 8.15e+01 1jdpA 441 8.18e+01 c.93.1.1 62906 2hgsA 474 8.24e+01 2hgsA c.30.1.4,d.142.1.6 31722,75997 1vk0A 206 8.28e+01 c.55.3.5 100839 1wcuA 153 8.45e+01 1o22A 170 8.47e+01 d.238.1.1 86557 1wmiA 90 8.52e+01 1ctqA 166 8.54e+01 1ctqA c.37.1.8 31965 1kdoA 227 8.55e+01 c.37.1.1 68478 1rr7A 129 8.55e+01 a.4.1.14 105075 1k0fA 277 8.61e+01 c.92.2.2 71974 1d5tA 433 8.68e+01 1gnd c.3.1.3,d.16.1.6 30422,37986 1zarA 282 8.70e+01 1usuB 170 8.71e+01 d.83.2.1 99886 1tfr 305 8.80e+01 1tfr a.60.7.1,c.120.1.2 18081,33351 2dbbA 151 8.80e+01 2f4nA 273 8.82e+01 1bj7 156 8.83e+01 1bj7 b.60.1.1 27113 1t95A 240 8.90e+01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 1vhwA 253 8.92e+01 c.56.2.1 100706 1u4nA 310 8.94e+01 1y791 680 8.95e+01 1w5fA 353 8.95e+01 1jztA 246 8.96e+01 c.104.1.1 63319