# List of top-scoring protein chains for t06-100-30-bys-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 1vjkA 98 3.40e-05 d.15.3.1 108631 1oqqA 106 1.09e-03 d.15.4.1 93422 1frrA 95 8.41e-03 1awd d.15.4.1 37674 1xlqA 106 9.38e-03 1fm0D 81 1.78e-02 1fmaD d.15.3.1 37642 1uwmA 106 2.24e-02 1jl0A 334 3.10e-02 1jenA d.156.1.1 63155 2bb6A 414 1.35e-01 2cu3A 64 1.78e-01 1zud2 66 1.87e-01 2f4pA 147 1.94e-01 1ra6A 461 2.02e-01 e.8.1.4 104879 1k07A 263 2.13e-01 d.157.1.1 77218 1frd 98 2.33e-01 1awd d.15.4.1 37648 1i7hA 111 2.38e-01 d.15.4.1 71122 1l5pA 93 3.65e-01 d.15.4.1 73598 1doi 128 4.17e-01 1awd d.15.4.1 37676 1dmhA 311 4.69e-01 1dmhA b.3.6.1 22633 1r5lA 262 5.67e-01 a.5.3.1,c.13.1.1 97099,97100 1awd 94 5.70e-01 1awd d.15.4.1 37673 1woqA 267 6.58e-01 c.55.1.10,c.55.1.10 109462,109463 2bwfA 77 6.79e-01 1zu0A 529 7.50e-01 2g1lA 104 7.75e-01 1rfkA 98 7.93e-01 1czpA 98 8.10e-01 1awd d.15.4.1 37645 1offA 97 1.16e+00 d.15.4.1 86947 1l2hA 153 1.19e+00 b.42.1.2 77655 2bpsA 81 1.19e+00 1siqA 392 1.28e+00 a.29.3.1,e.6.1.1 105585,105586 2al3A 90 1.36e+00 1f1uA 323 1.39e+00 d.32.1.3,d.32.1.3 83200,83201 1r3eA 309 1.79e+00 b.122.1.1,d.265.1.2 96907,96908 1f1xA 322 2.18e+00 d.32.1.3,d.32.1.3 83208,83209 1omzA 293 2.58e+00 c.68.1.15 87093 1a70 97 2.91e+00 1awd d.15.4.1 37678 1nw1A 429 2.92e+00 d.144.1.8 86286 1pvmA 184 2.96e+00 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1vr6A 350 3.06e+00 1wruA 379 3.94e+00 1xdyA 298 4.38e+00 1gpr 162 4.42e+00 1gpr b.84.3.1 28267 1uasA 362 4.44e+00 b.71.1.1,c.1.8.1 88388,88389 1cxyA 90 5.56e+00 1cyo d.120.1.1 41085 1wm3A 72 5.93e+00 1wgrA 100 6.07e+00 1ku0A 388 6.15e+00 c.69.1.18 72994 1wwkA 307 6.39e+00 2fcr 173 6.39e+00 1rcf c.23.5.1 31151 2azwA 148 6.52e+00 1kqfC 217 6.83e+00 f.21.1.1 72874 1agjA 242 6.83e+00 1agjA b.47.1.1 25827 2a4hA 126 7.22e+00 1owfB 94 7.44e+00 a.55.1.1 87488 1euvB 86 8.01e+00 1a5r d.15.1.1 37598 2f96A 224 8.07e+00 3grs 478 8.27e+00 3grs c.3.1.5,c.3.1.5,d.87.1.1 30441,30442,40152 1t6aA 126 8.48e+00 d.129.8.1 106555 1xc3A 302 8.65e+00 1ad2 228 8.78e+00 1ad2 e.24.1.1 43353 1vp4A 425 8.97e+00 1ykdA 398 9.07e+00 2d42A 249 9.08e+00 2gaxA 135 9.21e+00 1k94A 165 9.49e+00 a.39.1.8 68333 1tqxA 227 9.68e+00 1twfK 120 9.72e+00 2bt6A 108 9.93e+00 1vf7A 369 1.01e+01 f.46.1.1 108557 1yj1A 76 1.01e+01 2azeB 106 1.05e+01 2apoA 357 1.05e+01 1tmxA 293 1.07e+01 1l7aA 318 1.13e+01 c.69.1.25 77772 2h3bA 494 1.13e+01 1q5dA 419 1.15e+01 a.104.1.1 95891 1sfe 180 1.20e+01 1sfe a.4.2.1,c.55.7.1 16073,33748 2g8lA 299 1.21e+01 2fexA 188 1.22e+01 2amdA 311 1.24e+01 1pgs 314 1.25e+01 1pgs b.121.1.1,b.121.1.1 23653,23654 2et1A 201 1.29e+01 1wmzA 140 1.30e+01 d.169.1.1 109422 2bh8A 101 1.33e+01 2cfeA 162 1.34e+01 2h1tA 188 1.37e+01 1zvtA 256 1.37e+01 1knmA 130 1.37e+01 b.42.2.1 72781 1ogwA 76 1.40e+01 d.15.1.1 87001 1ktbA 405 1.43e+01 b.71.1.1,c.1.8.1 72960,72961 1l7yA 94 1.44e+01 d.15.1.6 73676 1dl5A 317 1.47e+01 1dl5A c.66.1.7,d.197.1.1 64720,64721 1uqtA 482 1.55e+01 c.87.1.6 99794 1ejbA 168 1.57e+01 1rvv1 c.16.1.1 59417 2fomB 185 1.62e+01 1v4aA 440 1.64e+01 a.24.16.4,d.218.1.9 108350,108351 2as0A 396 1.65e+01 1snzA 344 1.68e+01 b.30.5.4 98930 1vknA 351 1.72e+01 c.2.1.3,d.81.1.1 108676,108677 2fug1 438 1.76e+01 1wstA 417 1.78e+01 2sns 149 1.84e+01 1snc b.40.1.1 24860 1h8eA 510 1.85e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 2fcfA 103 1.87e+01 1pg4A 652 1.88e+01 e.23.1.1 88067 1m93B 245 1.91e+01 1b9mA 265 1.94e+01 1b9mA a.4.5.8,b.40.6.2,b.40.6.2 16118,58938,58939 1q2lA 939 1.95e+01 1fi2A 201 1.96e+01 1fi2A b.82.1.2 59845 1jb3A 131 1.96e+01 1jc7A b.40.3.2 62833 1vybA 238 1.98e+01 d.151.1.1 108897 2b0vA 153 1.99e+01 1o17A 345 2.02e+01 a.46.2.1,c.27.1.1 80765,80766 1xkpA 246 2.03e+01 1qtnA 164 2.07e+01 1pauA c.17.1.1 30999 1p3qQ 54 2.08e+01 a.5.2.4 87748 1c1yB 77 2.08e+01 1c1yB d.15.1.5 37618 1gsmA 210 2.08e+01 b.1.1.4,b.1.1.4 65535,65536 2fmpA 335 2.13e+01 1lfdA 87 2.17e+01 1lfdA d.15.1.5 37622 1dg6A 191 2.20e+01 1d4vB b.22.1.1 23883 1ylxA 103 2.21e+01 1p4oA 322 2.23e+01 d.144.1.7 87775 1k8wA 327 2.23e+01 b.122.1.1,d.265.1.2 83094,90388 2gptA 523 2.23e+01 1cnzA 363 2.25e+01 1cnzA c.77.1.1 35061 1htrP 43 2.26e+01 1htrP b.50.1.2 26852 1ktgA 138 2.26e+01 d.113.1.1 72972 1o54A 277 2.34e+01 c.66.1.13 92482 1uwwA 191 2.35e+01 b.18.1.23 108079 1ypyA 184 2.38e+01 1kk1A 410 2.38e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1pl8A 356 2.40e+01 b.35.1.2,c.2.1.1 94878,94879 1yqtA 538 2.47e+01 1txnA 328 2.50e+01 1vioA 243 2.51e+01 d.265.1.3,d.66.1.5 100762,100763 1qmvA 197 2.51e+01 1qq2A c.47.1.10 33066 1otgA 125 2.53e+01 1otgA d.80.1.2 39831 1mqiA 263 2.54e+01 c.94.1.1 91398 2c36A 285 2.54e+01 1oi2A 366 2.54e+01 c.119.1.2 103802 1yfbA 59 2.57e+01 1otrA 49 2.58e+01 a.5.2.4 87413 1zn8A 180 2.67e+01 1xe1A 116 2.70e+01 b.43.3.1 109571 2ck3A 510 2.70e+01 1ey4A 149 2.72e+01 1snc b.40.1.1 24815 1txqA 93 2.73e+01 1uj8A 77 2.83e+01 1vq2A 193 2.92e+01 2gupA 292 2.96e+01 2es7A 142 2.96e+01 2gcuA 245 2.97e+01 1fmtA 314 2.98e+01 1fmtA b.46.1.1,c.65.1.1 25758,34174 1oruA 195 2.99e+01 b.58.1.2 93464 1wkaA 147 3.06e+01 1iv8A 720 3.17e+01 b.71.1.1,c.1.8.1 76842,76843 1o50A 157 3.17e+01 d.37.1.1,d.37.1.1 92478,92479 1qrvA 73 3.24e+01 1cktA a.21.1.1 16425 2b3nA 159 3.25e+01 1g0sA 209 3.32e+01 1g0sA d.113.1.1 60187 1o4sA 389 3.33e+01 c.67.1.1 86620 1yzhA 214 3.34e+01 2d7nA 93 3.45e+01 1v8fA 276 3.56e+01 c.26.1.4 100503 2au3A 407 3.63e+01 2c9lY 63 3.63e+01 1gxuA 91 3.72e+01 d.58.10.1 76378 1aohA 147 3.74e+01 1aohA b.2.2.2 22401 2hlcA 230 3.78e+01 5ptp b.47.1.2 26074 1eokA 290 3.79e+01 1eokA c.1.8.5 28991 4tsvA 150 3.79e+01 2tnfA b.22.1.1 23860 2c5lC 117 3.79e+01 1sjyA 159 3.82e+01 d.113.1.1 98900 1in0A 163 3.85e+01 d.58.49.1,d.58.49.1 83694,83695 1v9sA 208 3.89e+01 1zn6A 227 3.89e+01 1tp6A 128 3.90e+01 d.17.4.12 107184 1gcqC 70 3.90e+01 1gcpA b.34.2.1 60436 1xt8A 292 3.90e+01 1to2I 64 4.04e+01 2fv1A 377 4.04e+01 1el5A 389 4.06e+01 1b3mA c.3.1.2,d.16.1.3 30369,37937 1nhs 447 4.11e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1vd5A 377 4.15e+01 a.102.1.7 108518 1d02A 202 4.19e+01 1d02A c.52.1.8 33313 1r53A 382 4.25e+01 d.258.1.1 97063 1bbhA 131 4.27e+01 1bbhA a.24.3.2 16546 2h2bA 107 4.52e+01 1w77A 228 4.63e+01 1vlaA 150 4.79e+01 d.227.1.2 108735 1iyjB 817 4.80e+01 a.170.1.1,a.171.1.1,b.40.4.3,b.40.4.3,b.40.4.3 76948,76949,76950,76951,76952 2fqmA 75 4.81e+01 1jae 471 4.83e+01 1smd b.71.1.1,c.1.8.1 27773,28760 1ub0A 258 4.88e+01 c.72.1.2 88394 1uliA 460 4.92e+01 b.33.1.2,d.129.3.3 107921,107922 1egpA 45 4.94e+01 1egpA d.40.1.1 38561 1z3qA 200 4.97e+01 2ab0A 205 5.00e+01 1wmmA 145 5.02e+01 2a4vA 159 5.06e+01 1j3mA 129 5.21e+01 d.129.7.1 103836 2a5sA 284 5.32e+01 1ryaA 160 5.32e+01 d.113.1.5 105122 2b5rC 165 5.33e+01 1ixmA 192 5.43e+01 1ixmA d.123.1.1 41114 1t5hX 504 5.46e+01 e.23.1.1 106449 1lm8B 118 5.51e+01 d.15.1.1 74033 2fp7B 172 5.53e+01 2gimA 106 5.53e+01 1wehA 171 5.55e+01 1kmvA 186 5.66e+01 c.71.1.1 72757 1avqA 228 5.74e+01 1avqA c.52.1.13 33326 2bmoB 194 5.78e+01 1e2wA 251 5.84e+01 1hcz b.2.6.1,b.84.2.2 22466,28252 2btzA 394 5.86e+01 1h21A 247 5.87e+01 a.138.1.3 76510 1u09A 476 5.89e+01 e.8.1.4 107545 1pb7A 292 5.96e+01 c.94.1.1 88025 1yb5A 351 6.12e+01 1vkyA 347 6.18e+01 e.53.1.1 108696 1krhA 338 6.25e+01 b.43.4.2,c.25.1.2,d.15.4.2 72891,72892,72893 1jsdA 319 6.28e+01 b.19.1.2 63258 1va6A 518 6.37e+01 1msk 331 6.46e+01 1msk d.173.1.1 42495 1jtgB 165 6.54e+01 d.98.1.1 67267 1ghhA 81 6.56e+01 1ghhA d.57.1.1 38940 1jvwA 167 6.57e+01 d.26.1.1 71907 2fd4A 122 6.61e+01 1fjgQ 105 6.64e+01 1fjfQ b.40.4.5 25352 1sacA 204 6.70e+01 1sacA b.29.1.5 24237 1yg6A 193 6.73e+01 1vcdA 126 6.75e+01 1u94A 356 6.75e+01 c.37.1.11,d.48.1.1 107743,107744 1v76A 96 6.84e+01 2ah5A 210 6.93e+01 2ff4A 388 6.95e+01 1wriA 93 6.97e+01 1t0qC 86 7.00e+01 d.15.12.1 106222 1xxaA 78 7.10e+01 1xxaA d.74.2.1 39700 1ukkA 142 7.18e+01 d.227.1.1 99491 8tfvA 21 7.19e+01 j.3.1.2 46071 1f9zA 135 7.31e+01 1qipA d.32.1.1 38484 2f20A 240 7.31e+01 2aioA 269 7.35e+01 2ai4A 119 7.40e+01 1z06A 189 7.43e+01 1w78A 422 7.44e+01 1pk1B 89 7.51e+01 1gttA 429 7.60e+01 d.177.1.1,d.177.1.1 70529,70530 1rl0A 255 7.67e+01 1nqzA 194 7.69e+01 d.113.1.1 86077 1m6yA 301 7.71e+01 a.60.13.1,c.66.1.23 78716,78717 1wb4A 297 7.78e+01 1vk6A 269 7.78e+01 d.113.1.4,d.113.1.4 100851,100852 2aj6A 159 7.80e+01 1rx0A 393 7.80e+01 a.29.3.1,e.6.1.1 98007,98008 1n83A 270 7.91e+01 a.123.1.1 80276 2fzsA 193 7.98e+01 1z2kA 109 7.99e+01 1el6A 219 8.02e+01 1el6B d.182.1.1 42606 1ws8A 109 8.03e+01 1ei9A 279 8.09e+01 1ei9A c.69.1.13 34713 1sgvA 316 8.11e+01 b.122.1.1,d.265.1.2 98858,98859 1o7jA 327 8.12e+01 c.88.1.1 81140 1p99A 295 8.16e+01 c.94.1.1 94384 1k8kC 372 8.27e+01 b.69.4.1 68308 1h9mA 145 8.28e+01 1h9jA b.40.6.2,b.40.6.2 60833,60834 1g8kA 825 8.30e+01 1g8jA b.52.2.2,c.81.1.1 26920,35328 1lbvA 252 8.44e+01 e.7.1.1 73813 1qhoA 686 8.47e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21844,22513,27751,28738 1q6zA 528 8.51e+01 2fsqA 243 8.54e+01 1ep3B 262 8.55e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 2tpsA 227 8.61e+01 2tpsA c.1.3.1 28591 3il8 72 8.62e+01 1tvxA d.9.1.1 37356 1uhgA 385 8.65e+01 e.1.1.1 88491 1pi1A 185 8.66e+01 a.29.7.1 94699 1yp5A 58 8.66e+01 2evbA 74 8.84e+01 1yqbA 100 8.88e+01 1ucsA 64 8.93e+01 b.85.1.1 88466 1cc8A 73 8.98e+01 1cc8A d.58.17.1 39343