# List of top-scoring protein chains for t06-100-30-str2-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 2.59e-05 d.15.3.1 108631 1xlqA 106 5.87e-04 1oqqA 106 6.27e-04 d.15.4.1 93422 1frrA 95 6.24e-03 1awd d.15.4.1 37674 2bb6A 414 7.39e-03 1uwmA 106 1.60e-02 1zud2 66 2.95e-02 2bpsA 81 4.80e-02 1frd 98 6.29e-02 1awd d.15.4.1 37648 1fm0D 81 1.07e-01 1fmaD d.15.3.1 37642 1awd 94 1.10e-01 1awd d.15.4.1 37673 1vybA 238 1.29e-01 d.151.1.1 108897 2bwfA 77 1.45e-01 2cu3A 64 1.46e-01 1yb5A 351 2.15e-01 1dg6A 191 2.15e-01 1d4vB b.22.1.1 23883 1czpA 98 2.57e-01 1awd d.15.4.1 37645 1c1yB 77 2.71e-01 1c1yB d.15.1.5 37618 1lfdA 87 4.14e-01 1lfdA d.15.1.5 37622 1rfkA 98 4.18e-01 1l5pA 93 5.03e-01 d.15.4.1 73598 1a70 97 5.69e-01 1awd d.15.4.1 37678 1wgrA 100 5.73e-01 1dmhA 311 5.98e-01 1dmhA b.3.6.1 22633 1i7hA 111 7.60e-01 d.15.4.1 71122 1k07A 263 8.00e-01 d.157.1.1 77218 1ryaA 160 9.50e-01 d.113.1.5 105122 1offA 97 9.59e-01 d.15.4.1 86947 2g1lA 104 1.00e-00 1doi 128 1.06e+00 1awd d.15.4.1 37676 2pia 321 1.17e+00 2pia b.43.4.2,c.25.1.2,d.15.4.2 25663,31553,37704 2al3A 90 1.22e+00 1yj1A 76 1.31e+00 2a4hA 126 1.46e+00 2bt6A 108 1.71e+00 1ogwA 76 1.88e+00 d.15.1.1 87001 1yqbA 100 1.89e+00 1r3eA 309 2.07e+00 b.122.1.1,d.265.1.2 96907,96908 1l7yA 94 2.33e+00 d.15.1.6 73676 1jl0A 334 2.57e+00 1jenA d.156.1.1 63155 1ra6A 461 2.67e+00 e.8.1.4 104879 1gskA 513 2.69e+00 b.6.1.3,b.6.1.3,b.6.1.3 83314,83315,83316 1q8rA 120 2.89e+00 d.79.6.1 96225 1u3wA 374 2.91e+00 2c5lC 117 3.03e+00 1t0qC 86 3.28e+00 d.15.12.1 106222 1ib8A 164 3.35e+00 b.38.2.1,d.52.4.1 71168,71169 1p4oA 322 3.45e+00 d.144.1.7 87775 1f1uA 323 3.46e+00 d.32.1.3,d.32.1.3 83200,83201 1euvB 86 3.56e+00 1a5r d.15.1.1 37598 1f1xA 322 3.57e+00 d.32.1.3,d.32.1.3 83208,83209 1pvmA 184 4.12e+00 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1tg7A 971 4.17e+00 2ex2A 458 4.18e+00 1wwtA 88 4.26e+00 1o54A 277 4.42e+00 c.66.1.13 92482 1p0fA 373 4.65e+00 b.35.1.2,c.2.1.1 87642,87643 1siqA 392 4.93e+00 a.29.3.1,e.6.1.1 105585,105586 1wm3A 72 4.97e+00 1n8kA 374 5.03e+00 b.35.1.2,c.2.1.1 80298,80299 1lm8B 118 5.33e+00 d.15.1.1 74033 1rcqA 357 5.40e+00 b.49.2.2,c.1.6.1 104882,104883 2btzA 394 5.83e+00 1pl8A 356 5.90e+00 b.35.1.2,c.2.1.1 94878,94879 1rm6C 161 6.12e+00 1wmhB 86 6.55e+00 1sv6A 269 6.61e+00 d.177.1.1 106043 2c1vA 338 6.81e+00 1n2eA 300 7.17e+00 c.26.1.4 85268 1yqzA 438 7.23e+00 1t3qA 168 7.33e+00 a.56.1.1,d.15.4.2 106367,106368 1p99A 295 7.62e+00 c.94.1.1 94384 2f96A 224 7.67e+00 1xe1A 116 7.78e+00 b.43.3.1 109571 1omzA 293 8.22e+00 c.68.1.15 87093 1xgsA 295 8.36e+00 1bn5 a.4.5.25,d.127.1.1 16216,41153 1xc3A 302 8.39e+00 1ooyA 481 8.52e+00 c.124.1.3,c.124.1.2 93388,93389 2dafA 118 8.61e+00 1iqcA 308 8.92e+00 a.3.1.5,a.3.1.5 66266,66267 2aefA 234 9.03e+00 2fcfA 103 9.28e+00 1agjA 242 9.37e+00 1agjA b.47.1.1 25827 2cfeA 162 9.61e+00 1tmxA 293 9.97e+00 1n62A 166 1.02e+01 a.56.1.1,d.15.4.2 80090,80091 4tsvA 150 1.05e+01 2tnfA b.22.1.1 23860 1wzlA 585 1.11e+01 1z06A 189 1.12e+01 1krhA 338 1.17e+01 b.43.4.2,c.25.1.2,d.15.4.2 72891,72892,72893 2b5wA 357 1.20e+01 1udkA 51 1.22e+01 g.3.14.1 99211 1m93B 245 1.30e+01 1vc3B 97 1.32e+01 2sak 121 1.32e+01 2sak d.15.5.1 37711 2fnjB 118 1.41e+01 1pcxA 810 1.47e+01 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 94497,94498,94499,94500,94501 1k8wA 327 1.48e+01 b.122.1.1,d.265.1.2 83094,90388 1pgs 314 1.48e+01 1pgs b.121.1.1,b.121.1.1 23653,23654 1rkuA 206 1.50e+01 c.108.1.11 97627 1b9mA 265 1.50e+01 1b9mA a.4.5.8,b.40.6.2,b.40.6.2 16118,58938,58939 1zvtA 256 1.52e+01 2fcr 173 1.52e+01 1rcf c.23.5.1 31151 1qysA 106 1.55e+01 k.41.1.1 96603 1x8bA 289 1.56e+01 1zy4A 303 1.57e+01 2azwA 148 1.57e+01 1vj0A 380 1.61e+01 b.35.1.2,c.2.1.1 100786,100787 1q1oA 98 1.64e+01 d.15.2.2 95596 1r5lA 262 1.68e+01 a.5.3.1,c.13.1.1 97099,97100 1k47A 337 1.69e+01 d.14.1.5,d.58.26.4 72040,72041 1tjxA 159 1.69e+01 1jb3A 131 1.70e+01 1jc7A b.40.3.2 62833 1avbA 226 1.72e+01 1led b.29.1.1 24158 1knmA 130 1.74e+01 b.42.2.1 72781 1drw 273 1.85e+01 1drw c.2.1.3,d.81.1.3 30057,39972 1gvp 87 1.85e+01 1gvp b.40.4.7 25369 1meoA 209 1.91e+01 c.65.1.1 79035 1iueA 98 1.98e+01 d.15.4.1 90697 1wojA 214 1.99e+01 2apoA 357 2.01e+01 1vqoT 120 2.01e+01 1wruA 379 2.02e+01 1w5fA 353 2.03e+01 2blnA 305 2.05e+01 2gk3A 256 2.06e+01 1s9jA 341 2.09e+01 1nls 237 2.09e+01 1nls b.29.1.1 23928 1so9A 164 2.10e+01 b.146.1.1 105842 2fm8A 135 2.15e+01 1ng2A 193 2.16e+01 b.34.2.1,b.34.2.1 85660,85661 1t9fA 187 2.19e+01 b.42.6.1 106710 2as0A 396 2.23e+01 2gaxA 135 2.23e+01 2bh1A 250 2.24e+01 1zu0A 529 2.32e+01 1bbhA 131 2.33e+01 1bbhA a.24.3.2 16546 1k94A 165 2.36e+01 a.39.1.8 68333 1yf9A 171 2.36e+01 1whvA 100 2.36e+01 1xi1A 575 2.36e+01 1gcqC 70 2.39e+01 1gcpA b.34.2.1 60436 3prn 289 2.44e+01 3prn f.4.3.1 43761 2fqmA 75 2.44e+01 2fug1 438 2.44e+01 1k8kC 372 2.53e+01 b.69.4.1 68308 1epfA 191 2.54e+01 2ncm b.1.1.4,b.1.1.4 21694,21695 1sfe 180 2.56e+01 1sfe a.4.2.1,c.55.7.1 16073,33748 1dljA 402 2.56e+01 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1nw1A 429 2.64e+01 d.144.1.8 86286 1woqA 267 2.64e+01 c.55.1.10,c.55.1.10 109462,109463 1w3iA 293 2.65e+01 c.1.10.1 109152 1tpm 50 2.66e+01 1tpg g.27.1.1 44957 1z6bA 154 2.68e+01 1wriA 93 2.69e+01 1qfxA 460 2.71e+01 1qfxA c.60.1.2 33994 2rspA 124 2.71e+01 2rspB b.50.1.1 26771 2fp7B 172 2.72e+01 1oruA 195 2.73e+01 b.58.1.2 93464 1vlbA 907 2.75e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.133.1.1 108739,108740,108741,108742 1jsdA 319 2.78e+01 b.19.1.2 63258 2bkfA 87 2.78e+01 1vr6A 350 2.80e+01 1gttA 429 2.80e+01 d.177.1.1,d.177.1.1 70529,70530 1wvqA 167 2.84e+01 1wloA 136 2.87e+01 2bj0A 203 2.90e+01 1aqzA 149 2.91e+01 1aqzA d.1.1.3 36238 2b7aA 293 2.97e+01 2b0vA 153 3.02e+01 1fmtA 314 3.02e+01 1fmtA b.46.1.1,c.65.1.1 25758,34174 2d7nA 93 3.07e+01 2f69A 261 3.07e+01 2giyA 191 3.08e+01 1iyjB 817 3.08e+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 1zx8A 136 3.10e+01 1uuqA 440 3.14e+01 c.1.8.3 100015 1snzA 344 3.14e+01 b.30.5.4 98930 1v5mA 136 3.15e+01 b.55.1.1 108379 1z2mA 155 3.15e+01 1u94A 356 3.16e+01 c.37.1.11,d.48.1.1 107743,107744 1gzcA 239 3.19e+01 b.29.1.1 70803 1y9aA 360 3.22e+01 1cbf 285 3.22e+01 1cbf c.90.1.1 35587 1mtpA 323 3.26e+01 e.1.1.1 85107 1pt6A 213 3.27e+01 c.62.1.1 95091 2gptA 523 3.28e+01 2azeB 106 3.28e+01 1gg4A 452 3.31e+01 1gg4A c.59.1.1,c.98.1.1,c.72.2.1 33957,58985,58986 1xnzA 264 3.37e+01 1aop 497 3.42e+01 2aop d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39501,39502,41425,41426 1o17A 345 3.42e+01 a.46.2.1,c.27.1.1 80765,80766 1xs0A 136 3.44e+01 1prxA 224 3.48e+01 1prxA c.47.1.10 33076 1lurA 339 3.51e+01 b.30.5.4 84717 2bh8A 101 3.56e+01 1kk1A 410 3.56e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1s55A 156 3.57e+01 1h2bA 359 3.58e+01 b.35.1.2,c.2.1.1 90543,90544 1rq2A 382 3.63e+01 c.32.1.1,d.79.2.1 105048,105049 1ku0A 388 3.64e+01 c.69.1.18 72994 2amdA 311 3.64e+01 2b3hA 329 3.67e+01 2a6zA 222 3.71e+01 1y1nA 291 3.75e+01 2ggcA 263 3.80e+01 2cyjA 118 4.00e+01 1l2hA 153 4.01e+01 b.42.1.2 77655 1aohA 147 4.02e+01 1aohA b.2.2.2 22401 1z9zA 60 4.04e+01 2bwnA 401 4.05e+01 1gsmA 210 4.07e+01 b.1.1.4,b.1.1.4 65535,65536 1n6aA 259 4.24e+01 b.76.2.1,b.85.7.1 80121,80122 1mh1 186 4.25e+01 1eesA c.37.1.8 32002 1f8vA 355 4.28e+01 2bbvA b.121.4.4 23329 1h0hA 977 4.32e+01 b.52.2.2,c.81.1.1 76435,76436 1jx6A 342 4.33e+01 c.93.1.1 67406 2gimA 106 4.34e+01 1ad2 228 4.34e+01 1ad2 e.24.1.1 43353 1f06A 320 4.36e+01 1dapA c.2.1.3,d.81.1.3 59556,59557 1vioA 243 4.40e+01 d.265.1.3,d.66.1.5 100762,100763 1yarA 233 4.48e+01 1m7yA 435 4.49e+01 c.67.1.4 78761 1ghhA 81 4.51e+01 1ghhA d.57.1.1 38940 1yoxA 250 4.56e+01 1lfwA 470 4.56e+01 c.56.5.4,d.58.19.1 77942,77943 1vr9A 213 4.58e+01 2f4pA 147 4.66e+01 1rl0A 255 4.66e+01 1k0eA 453 4.67e+01 d.161.1.1 67938 1msk 331 4.68e+01 1msk d.173.1.1 42495 1gpr 162 4.71e+01 1gpr b.84.3.1 28267 1ypyA 184 4.83e+01 1rypH 205 4.85e+01 d.153.1.4 41876 1dfuP 94 4.87e+01 1dfuP b.53.1.1 26936 1yqtA 538 4.87e+01 1xuvA 178 4.99e+01 1rx0A 393 5.06e+01 a.29.3.1,e.6.1.1 98007,98008 1ev7A 317 5.08e+01 1ev7B c.52.1.9 33315 2gupA 292 5.09e+01 2bw3A 534 5.11e+01 1uhgA 385 5.30e+01 e.1.1.1 88491 1t6aA 126 5.31e+01 d.129.8.1 106555 1xhcA 367 5.32e+01 1cznA 169 5.34e+01 1rcf c.23.5.1 31181 1wb4A 297 5.42e+01 1ztdA 133 5.49e+01 1vhoA 346 5.51e+01 b.49.3.1,c.56.5.4 100694,100695 2fd4A 122 5.52e+01 1he7A 126 5.57e+01 1wwcA b.1.1.4 60970 1yfbA 59 5.62e+01 2bgoA 140 5.67e+01 1oi2A 366 5.68e+01 c.119.1.2 103802 2c3vA 102 5.71e+01 1d9uA 154 5.71e+01 1am7A d.2.1.4 59111 2cwpA 112 5.73e+01 1o50A 157 5.78e+01 d.37.1.1,d.37.1.1 92478,92479 1p5tA 127 5.80e+01 b.55.1.2 94148 1ejbA 168 5.82e+01 1rvv1 c.16.1.1 59417 1h8mA 140 5.89e+01 1h8mA d.110.4.1 60782 1ju2A 536 5.89e+01 c.3.1.2,d.16.1.1 77169,77170 1v8cA 168 5.96e+01 d.15.3.1,d.129.5.1 100495,100496 1ty0A 211 5.99e+01 b.40.2.2,d.15.6.1 107440,107441 1ootA 60 6.08e+01 b.34.2.1 93386 1u0sA 86 6.09e+01 d.58.24.1 107565 1e8gA 560 6.11e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1grj 158 6.13e+01 1grj a.2.1.1,d.26.1.2 15691,38433 1yb2A 275 6.14e+01 1ihgA 370 6.22e+01 2cpl a.118.8.1,b.62.1.1 62380,62381 3grs 478 6.22e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30441,30442,40152 3seb 238 6.26e+01 3seb b.40.2.2,d.15.6.1 25184,37773 1ixmA 192 6.27e+01 1ixmA d.123.1.1 41114 2sns 149 6.29e+01 1snc b.40.1.1 24860 1p5vA 235 6.30e+01 b.1.11.1,b.7.2.1 87812,87813 2bt9A 90 6.31e+01 1yksA 440 6.34e+01 1by2 119 6.35e+01 1by2 d.170.1.1 42452 1zldA 120 6.36e+01 1ey4A 149 6.38e+01 1snc b.40.1.1 24815 2fh1A 344 6.44e+01 1jalA 363 6.54e+01 c.37.1.8,d.15.10.2 84138,84139 1x8qA 184 6.54e+01 1zavA 180 6.63e+01 2eulA 156 6.65e+01 1tygB 87 6.82e+01 d.15.3.2 107455 1w78A 422 6.97e+01 2tgi 112 6.97e+01 2tgi g.17.1.2 44777 1yhvA 297 7.05e+01 1u09A 476 7.06e+01 e.8.1.4 107545 1gpjA 404 7.09e+01 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 2fomB 185 7.09e+01 1nkqA 259 7.10e+01 d.177.1.1 103862 1nytA 271 7.14e+01 c.2.1.7,c.58.1.5 86417,86418 1rktA 205 7.17e+01 a.4.1.9,a.121.1.1 97623,97624 1c96A 753 7.39e+01 1amj c.8.2.1,c.83.1.1 30727,35403 1wy2A 351 7.50e+01 2bw0A 329 7.51e+01 1yg6A 193 7.60e+01 1o4tA 133 7.72e+01 b.82.1.9 86622 2fz0A 149 7.73e+01 1mugA 168 7.74e+01 1mugA c.18.1.2 31030 1yopA 83 7.78e+01 1vbiA 344 7.80e+01 1mr3F 181 7.83e+01 c.37.1.8 79422 1w77A 228 7.84e+01 1iw0A 215 7.85e+01 a.132.1.1 83720 2fzsA 193 7.86e+01 2a7bA 120 7.90e+01 1gyvA 120 7.91e+01 b.1.10.2 70790 1tvxA 75 7.94e+01 1tvxA d.9.1.1 37441 1twfK 120 7.94e+01 1iow 306 7.96e+01 1iow c.30.1.2,d.142.1.1 31713,41481 1v72A 356 7.97e+01 1o0xA 262 8.02e+01 d.127.1.1 80755 1wz9A 375 8.05e+01 1h8eH 146 8.06e+01 1e79H b.93.1.1 60757 2fazA 78 8.09e+01 1qxyA 252 8.15e+01 d.127.1.1 96565 1m1hA 248 8.15e+01 b.114.1.1,d.58.42.1 78415,78416 1inlA 296 8.16e+01 c.66.1.17 66220 2fp4B 395 8.24e+01 1wstA 417 8.24e+01 2a84A 300 8.28e+01 1v4aA 440 8.31e+01 a.24.16.4,d.218.1.9 108350,108351 2h2bA 107 8.47e+01 1rypI 222 8.55e+01 d.153.1.4 41877 1z3qA 200 8.62e+01 1bf2 750 8.63e+01 1bf2 b.1.18.2,b.71.1.1,c.1.8.1 21860,27787,28774 1i7kA 179 8.63e+01 1u9aA d.20.1.1 61889 1ui5A 215 8.68e+01 a.4.1.9,a.121.1.1 107856,107857 1wteA 272 8.69e+01 1wzdA 215 8.76e+01 1vfgA 390 8.77e+01 a.173.1.1,d.218.1.4 108570,108571 1jmuB 666 8.81e+01 1ckmA 330 8.85e+01 1ckmA b.40.4.6,d.142.2.3 25358,41585 1yp5A 58 8.88e+01