# List of top-scoring protein chains for t04-100-30-dssp-ehl2-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 1o2dA 371 6.42e-02 e.22.1.2 86591 1oz9A 150 6.72e-02 d.92.1.15 93808 1g94A 448 8.36e-02 b.71.1.1,c.1.8.1 65169,65170 1aqm 453 3.54e-01 1smd b.71.1.1,c.1.8.1 27717,28704 2f51A 118 3.67e-01 1zjrA 211 3.80e-01 1g3qA 237 5.20e-01 1hyqA c.37.1.10 60237 1fmcA 255 6.54e-01 1cydA c.2.1.2 29856 1xx6A 191 6.70e-01 1wwiA 148 1.15e+00 2d00A 109 1.16e+00 2bgkA 278 1.60e+00 1j93A 353 1.89e+00 c.1.22.1 66454 1v98A 140 1.91e+00 1uayA 242 2.13e+00 c.2.1.2 88390 1fohA 664 2.54e+00 1fohA c.3.1.2,c.47.1.10,d.16.1.2 30381,33078,37900 1gcoA 261 2.56e+00 1ybvA c.2.1.2 29884 1geeA 261 2.57e+00 c.2.1.2 90509 1dqnA 230 2.64e+00 1dqnA c.61.1.1 34067 1fnlA 175 2.67e+00 2fcbA b.1.1.4,b.1.1.4 21783,21784 1w44A 331 2.92e+00 1oaa 259 3.07e+00 1oaa c.2.1.2 29829 2bx6A 350 3.19e+00 1oi7A 288 3.28e+00 c.2.1.8,c.23.4.1 87049,87050 1jg8A 347 3.39e+00 1jg8A c.67.1.1 62946 1m6sA 347 3.39e+00 c.67.1.1 78701 1dqpA 230 3.48e+00 1dqnA c.61.1.1 34069 1de4C 640 3.97e+00 1cx8B a.48.2.1,c.8.4.1,c.56.5.5 17779,30760,33848 1pg4A 652 4.16e+00 e.23.1.1 88067 1olmA 403 4.32e+00 a.5.3.1,b.132.1.1,c.13.1.1 104008,104009,104010 1yymG 313 4.51e+00 1hw5A 210 4.54e+00 2cgpA a.4.5.4,b.82.3.2 16098,28137 1pn0A 665 4.70e+00 c.3.1.2,c.47.1.10,d.16.1.2 94918,94919,94920 1sdsA 117 4.94e+00 d.79.3.1 105439 1ecfA 504 5.10e+00 1ecfB c.61.1.1,d.153.1.1 34053,41820 1vp4A 425 5.32e+00 1cvrA 435 5.88e+00 1cvrA b.1.18.12,c.17.1.2 21949,31006 1lvaA 258 6.38e+00 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 1o6uA 403 6.49e+00 a.5.3.1,b.132.1.1,c.13.1.1 92589,92590,92591 1gveA 327 6.53e+00 c.1.7.1 70597 1o7jA 327 6.60e+00 c.88.1.1 81140 1zin 217 6.77e+00 1zin c.37.1.1,g.41.2.1 31915,45178 1xn7A 78 7.00e+00 1zip 217 7.23e+00 1zin c.37.1.1,g.41.2.1 31916,45179 2bz1A 196 7.32e+00 1pxwA 128 8.13e+00 d.79.3.1 95305 2f46A 156 8.22e+00 1twdA 256 8.58e+00 c.1.30.1 107397 2fcr 173 8.62e+00 1rcf c.23.5.1 31151 1pbjA 125 8.84e+00 d.37.1.1,d.37.1.1 94414,94415 1e6wA 260 8.85e+00 1e6wA c.2.1.2 59326 1k2xB 143 8.90e+00 1yavA 159 8.90e+00 1xbiA 120 9.13e+00 1i6xA 209 9.48e+00 a.4.5.4,b.82.3.2 83673,83674 1ugpA 203 9.53e+00 d.149.1.1 107831 1jmkC 230 9.55e+00 c.69.1.22 71747 1knwA 425 9.68e+00 b.49.2.3,c.1.6.1 90969,90970 1k3eA 156 9.71e+00 d.198.1.1 68103 1c6vX 81 1.02e+01 1ihvA b.34.7.1 24641 1d2eA 397 1.04e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25701,25741,32136 4pgaA 337 1.05e+01 4pgaA c.88.1.1 35565 1rzsA 61 1.09e+01 a.35.1.2 105139 1y0nA 78 1.12e+01 1hl2A 297 1.26e+01 c.1.10.1 83581 2dexX 671 1.26e+01 1ipaA 274 1.31e+01 c.116.1.1,d.79.3.3 71254,71255 1wdaA 670 1.34e+01 b.2.9.1,b.6.1.6,d.126.1.5 109243,109244,109245 2gdjA 264 1.35e+01 1o60A 292 1.35e+01 c.1.10.4 92532 1srvA 145 1.37e+01 1derA c.8.5.1 30817 1xkyA 301 1.40e+01 1p2fA 220 1.40e+01 a.4.6.1,c.23.1.1 87720,87721 1apxA 249 1.40e+01 1ryc a.93.1.1 18669 1nal1 297 1.40e+01 1nal3 1iybA 208 1.46e+01 d.124.1.1 90720 1ojxA 263 1.52e+01 c.1.10.1 93164 1l2uA 245 1.53e+01 c.1.2.3 73516 2fw2A 260 1.55e+01 1ja9A 274 1.58e+01 c.2.1.2 62817 2b99A 156 1.60e+01 1ymiA 334 1.61e+01 1d4oA 184 1.65e+01 1d4oA c.31.1.4 31748 1x1zA 252 1.69e+01 1gwiA 411 1.74e+01 a.104.1.1 76364 1fjgB 256 1.76e+01 1fjfB c.23.15.1 31400 2d1sA 548 1.81e+01 1km4A 247 1.82e+01 c.1.2.3 72740 1kid 203 1.82e+01 1derA c.8.5.1 30771 2d93A 134 1.82e+01 1g9mG 321 1.86e+01 1gc1G d.172.1.1 42492 2ghcX 261 1.87e+01 1u5tA 233 1.93e+01 a.4.5.54,a.4.5.54 107684,107685 1wgzA 510 1.94e+01 1dar 691 1.94e+01 1dar b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1 25707,32142,37547,39300 2c7pA 327 2.00e+01 2fbmA 291 2.01e+01 1byb 495 2.03e+01 1byb c.1.8.1 28790 1x6vA 630 2.07e+01 1prxA 224 2.08e+01 1prxA c.47.1.10 33076 1vclA 432 2.10e+01 b.42.2.1,b.42.2.1,d.281.1.1 108498,108499,108500 1pot 325 2.11e+01 1pot c.94.1.1 35807 1dvjA 246 2.14e+01 1dvjA c.1.2.3 28546 1yhpA 212 2.14e+01 2gukA 120 2.15e+01 1ireA 204 2.21e+01 d.149.1.1 76769 2gtrA 261 2.22e+01 1t9bA 677 2.23e+01 2cw5A 255 2.24e+01 1fbnA 230 2.26e+01 1fbnA c.66.1.3 34181 2fbiA 142 2.26e+01 1yoeA 322 2.27e+01 1hw7A 255 2.28e+01 1i7fA d.193.1.1 61297 1y1oA 203 2.29e+01 1g8sA 230 2.30e+01 c.66.1.3 90507 1rkuA 206 2.33e+01 c.108.1.11 97627 1fehA 574 2.33e+01 1fehA c.96.1.1,d.15.4.2,d.58.1.5 36015,37690,38998 1bli 483 2.37e+01 1bli b.71.1.1,c.1.8.1 27715,28702 2bolA 314 2.37e+01 6mhtA 327 2.37e+01 6mhtA c.66.1.26 34226 2gptA 523 2.40e+01 1jj2F 119 2.42e+01 1ffkE d.79.3.1 63091 2rslA 140 2.44e+01 2rslA c.53.1.1 33345 1fnsA 196 2.44e+01 1auq c.62.1.1 34136 1aisB 200 2.45e+01 1aisB a.74.1.2,a.74.1.2 18384,18385 1yc5A 246 2.45e+01 1o97C 264 2.46e+01 c.26.2.3 81232 1elvA 333 2.51e+01 5ptp b.47.1.2,g.18.1.1 59454,59455 1kl1A 419 2.52e+01 c.67.1.4 72663 1k8kF 168 2.52e+01 d.198.2.1 68312 1euhA 475 2.53e+01 1euhA c.82.1.1 35369 1om1A 332 2.54e+01 d.144.1.7 93347 2anxA 146 2.57e+01 2fv7A 331 2.59e+01 1q1hA 110 2.63e+01 a.4.5.41 95580 1bif 469 2.64e+01 1bif c.37.1.7,c.60.1.4 31961,34003 1xmxA 385 2.66e+01 1rzjG 321 2.66e+01 d.172.1.1 98200 2bd0A 244 2.67e+01 1efpB 252 2.70e+01 1efvB c.26.2.3 31636 1fnoA 417 2.72e+01 d.58.19.1,c.56.5.4 70145,75841 2bhvA 246 2.73e+01 2bp1A 360 2.74e+01 1v8aA 265 2.79e+01 c.72.1.2 100494 1q6cA 495 2.79e+01 c.1.8.1 95970 1gx3A 284 2.82e+01 d.3.1.5 70678 1m2rA 327 2.87e+01 d.144.1.7 84760 1yjsA 419 2.94e+01 1oeyJ 107 2.99e+01 d.15.2.2 92804 1c1lA 136 3.00e+01 1c1lA b.29.1.3 24219 1yw3A 208 3.00e+01 1kjwA 295 3.04e+01 b.34.2.1,c.37.1.1 68643,68644 1g5bA 221 3.11e+01 1g5bA d.159.1.3 60261 1wmiA 90 3.14e+01 2dri 271 3.19e+01 2dri c.93.1.1 35637 1hkfA 122 3.25e+01 b.1.1.1 83553 1vmjA 151 3.26e+01 1qgdA 662 3.28e+01 c.36.1.6,c.36.1.10,c.48.1.1 88367,88368,88369 1geqA 248 3.30e+01 2tysA c.1.2.4 28589 2cx5A 158 3.31e+01 1wdpA 495 3.39e+01 2rn2 155 3.40e+01 2rn2 c.55.3.1 33551 2feaA 236 3.41e+01 1b7yB 785 3.42e+01 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,d.138.1.1 16301,16302,25312,39311,40780,41456 2f6uA 234 3.43e+01 1wv2A 265 3.46e+01 2b7nA 273 3.46e+01 1zzpA 130 3.49e+01 1jfuA 186 3.51e+01 c.47.1.10 62940 1hxhA 253 3.60e+01 c.2.1.2 76725 1v8gA 329 3.61e+01 a.46.2.1,c.27.1.1 100505,100506 2f96A 224 3.63e+01 1zkdA 387 3.64e+01 1zczA 464 3.74e+01 1igwA 434 3.77e+01 c.1.12.7 62370 1uc7A 125 3.80e+01 c.47.1.1 99163 1kkoA 413 3.81e+01 c.1.11.2,d.54.1.1 68675,68676 1ijbA 202 3.87e+01 c.62.1.1 71229 2a6qA 86 3.88e+01 1thg 544 3.90e+01 1thg c.69.1.17 34763 1utg 70 3.91e+01 1utg a.101.1.1 18813 2gaiA 633 3.99e+01 1aocA 175 4.00e+01 1aocA g.17.1.5 44817 1jtvA 327 4.01e+01 c.2.1.2 84230 1z15A 344 4.08e+01 1ee4A 423 4.08e+01 1ee4A a.118.1.1 19128 1ryp2 233 4.09e+01 1ryp2 1yacA 208 4.14e+01 1yacA c.33.1.3 31757 1q8yA 373 4.16e+01 d.144.1.7 96234 1fds 327 4.17e+01 1fds c.2.1.2 29838 1dcjA 81 4.21e+01 1dcjA d.68.3.3 59115 1w5rA 278 4.22e+01 1jy5A 212 4.26e+01 d.124.1.1 71940 2b3nA 159 4.29e+01 1oafA 261 4.31e+01 a.93.1.1 86734 1svmA 377 4.32e+01 1o1zA 234 4.37e+01 c.1.18.3 86555 1g7dA 106 4.40e+01 1g7dA a.71.1.1 18318 1ofdA 1520 4.51e+01 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 2utgA 70 4.57e+01 1utg a.101.1.1 18814 1wkyA 464 4.73e+01 2fwhA 134 4.80e+01 1jl2A 156 4.82e+01 c.55.3.1 66822 2ae2A 260 4.86e+01 1bdb c.2.1.2 29945 1oq9A 363 4.87e+01 a.25.1.2 87257 2liv 344 4.90e+01 2liv c.93.1.1 35708 1usgA 346 4.91e+01 c.93.1.1 99864 1nq7A 244 4.91e+01 a.123.1.1 92047 1v93A 296 5.00e+01 c.1.23.1 100532 1hq8A 123 5.06e+01 1b6e d.169.1.1 61127 1y5eA 169 5.07e+01 1wqaA 455 5.12e+01 1yzhA 214 5.22e+01 1j5kA 89 5.33e+01 d.51.1.1 71565 1rcuA 195 5.35e+01 c.129.1.1 97295 1lam 484 5.38e+01 1lam c.50.1.1,c.56.5.3 33166,33829 1qopA 268 5.40e+01 2tysA c.1.2.4 28570 2d0eA 407 5.41e+01 2cj4A 150 5.44e+01 1qtsA 247 5.46e+01 1qtsA b.1.10.1,d.105.1.1 22313,40789 1g3mA 294 5.47e+01 c.37.1.5 83268 2cunA 410 5.50e+01 1s58A 554 5.54e+01 b.121.5.2 105262 1rrmA 386 5.61e+01 e.22.1.2 105081 1y02A 120 5.66e+01 1kyfA 247 5.67e+01 b.1.10.1,d.105.1.1 73220,73221 2d8dA 90 5.69e+01 1x9mA 698 5.70e+01 1v8fA 276 5.72e+01 c.26.1.4 100503 1a8q 274 5.72e+01 1brt c.69.1.12 34702 1l8aA 886 5.73e+01 c.36.1.10,c.36.1.6,c.48.1.1 73677,73678,73679 1jbkA 195 5.76e+01 c.37.1.20 71631 2b0cA 206 5.87e+01 1l2lA 457 5.99e+01 c.72.1.3 77656 1zcjA 463 6.02e+01 1n83A 270 6.12e+01 a.123.1.1 80276 1m5q1 130 6.12e+01 2d09A 407 6.13e+01 1s1iG 119 6.17e+01 i.1.1.1 105181 1wy2A 351 6.21e+01 1gc0A 398 6.24e+01 c.67.1.3 70168 1tz9A 367 6.29e+01 c.1.15.6 107466 1thx 115 6.31e+01 1thx c.47.1.1 32732 1dm5A 315 6.35e+01 1avc a.65.1.1 18186 1iioA 84 6.36e+01 a.39.4.1 66150 1n25A 368 6.40e+01 c.37.1.20 85264 1ebfA 358 6.42e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 1lt8A 406 6.43e+01 c.1.26.1 78186 1z7yA 322 6.45e+01 2tysA 268 6.48e+01 2tysA c.1.2.4 28572 1ct9A 553 6.52e+01 1ct9A c.26.2.1,d.153.1.1 31616,41834 1vllA 334 6.52e+01 c.2.1.13 108834 1exmA 405 6.57e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 2c78A 405 6.59e+01 2dkb 433 6.60e+01 2dkb c.67.1.4 34438 1lddA 74 6.61e+01 a.4.5.34 73841 1a32 88 6.62e+01 1a32 a.16.1.2 16384 1t7pA 698 6.62e+01 1t7pA c.55.3.5,e.8.1.1 33712,43005 1vflA 356 6.65e+01 1kuuA 202 6.85e+01 d.153.2.1 73019 1ycoA 279 6.88e+01 1kp8A 547 6.96e+01 a.129.1.1,c.8.5.1,d.56.1.1 84414,84415,84416 1o65A 246 6.96e+01 b.58.1.2 92544 1wwuA 99 6.99e+01 1r6wA 322 7.03e+01 c.1.11.2,d.54.1.1 97165,97166 1ffyA 917 7.08e+01 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 2fb0A 94 7.13e+01 2bryA 497 7.15e+01 1nhcA 336 7.16e+01 b.80.1.3 91879 1hjrA 158 7.23e+01 1hjrA c.55.3.6 33727 1k0fA 277 7.28e+01 c.92.2.2 71974 1y0uA 96 7.29e+01 2gcc 70 7.29e+01 2gcc d.10.1.2 37484 1opr 213 7.35e+01 1opr c.61.1.1 34091 1xqiA 195 7.39e+01 1bc8C 93 7.39e+01 1awcA a.4.5.21 16168 1i5gA 144 7.40e+01 1ewxA c.47.1.10 61784 1d2fA 390 7.42e+01 1d2fA c.67.1.3 34411 1vkfA 188 7.46e+01 c.1.29.1 108656 1kfcA 268 7.46e+01 c.1.2.4 77371 1pmi 440 7.48e+01 1pmi b.82.1.3 28114 1dlwA 116 7.50e+01 1dlyA a.1.1.1 14982 2bogX 286 7.52e+01 1ihoA 283 7.60e+01 1ihoA c.26.1.4 62390 1n7oA 721 7.62e+01 a.102.3.2,b.24.1.1,b.30.5.2 80259,80260,80261 1xkqA 280 7.63e+01 1ub9A 100 7.66e+01 a.4.5.28 99159 1zbsA 291 7.69e+01 1qlpA 394 7.69e+01 1ovaA e.1.1.1 42628 1i7qB 193 7.70e+01 1qdlB c.23.16.1 61902 1xm3A 264 7.71e+01 1cf2O 337 7.73e+01 1b7gO c.2.1.3,d.81.1.1 29994,39909 2ca6A 386 7.77e+01 1o69A 394 7.78e+01 c.67.1.4 92560 1on3A 523 7.80e+01 c.14.1.4,c.14.1.4 87107,87108 1u4nA 310 7.80e+01 1k0eA 453 7.85e+01 d.161.1.1 67938 2ffeA 311 7.86e+01 2etvA 346 7.87e+01 1bza 262 7.93e+01 1btl e.3.1.1 42701 1y7lA 316 7.97e+01 2c0hA 353 8.02e+01 1z2lA 423 8.02e+01 1p4xA 250 8.07e+01 a.4.5.28,a.4.5.28 87784,87785 1tljA 213 8.07e+01 d.282.1.1 107126 2c46A 241 8.08e+01 1rxdA 159 8.09e+01 1uxtA 501 8.17e+01 c.82.1.1 108125 1erw 105 8.20e+01 1erv c.47.1.1 32745 1ha3A 405 8.29e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 2cwkA 160 8.32e+01 1q7eA 428 8.33e+01 c.123.1.1 96035 1fonA 240 8.35e+01 5ptp b.47.1.2 26231 1wi9A 72 8.42e+01 1mdbA 539 8.42e+01 e.23.1.1 79008 1vmhA 144 8.44e+01 1rsgA 516 8.47e+01 1yy5B 513 8.49e+01 1po5A 476 8.52e+01 a.104.1.1 94963 2avuE 192 8.62e+01 1h96A 182 8.65e+01 2fha a.25.1.1 60811 1lb3A 182 8.65e+01 a.25.1.1 77873 1wzcA 249 8.67e+01 1sflA 238 8.68e+01 1d7uA 433 8.69e+01 2dkb c.67.1.4 34439 1josA 128 8.71e+01 d.52.7.1 84191 1es6A 296 8.71e+01 1es6A b.31.1.1,b.31.1.1 83048,83049 2lbp 346 8.77e+01 2liv c.93.1.1 35709 1k7kA 221 8.79e+01 c.51.4.1 72104 1ckeA 227 8.81e+01 1ckeA c.37.1.1 31846 1mkmA 249 8.82e+01 a.4.5.33,d.110.2.2 79242,79243 1zckA 154 8.91e+01 1ua4A 455 8.95e+01 c.72.1.3 99128