# 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 1g79A 218 2.41e-20 1ci0A b.45.1.1 25752 1dnlA 199 2.74e-20 1ci0A b.45.1.1 25753 1nrgA 261 2.65e-18 b.45.1.1 80694 1ty9A 222 9.95e-17 1rfeA 162 2.81e-15 2fhqA 141 1.12e-13 2asfA 137 2.74e-12 2arzA 247 3.88e-12 1vl7A 157 1.06e-11 b.45.1.1 108732 2aq6A 147 4.86e-11 1w9aA 147 1.15e-10 2fg9A 178 2.19e-10 2furA 209 4.15e-09 1xhnA 184 1.07e-08 1w3oA 216 7.31e-07 1flmA 122 7.66e-07 1axj b.45.1.1 25747 1ejeA 192 9.32e-04 1ejeA b.45.1.2 25757 1i0rA 169 6.20e-02 1i0rA b.45.1.2 61489 1b8aA 438 2.86e-01 1b8aA b.40.4.1,d.104.1.1 25244,40765 2d37A 176 2.98e-01 1pvtA 238 3.33e-01 c.74.1.1 95189 1rz1A 161 4.67e-01 b.45.1.2 98124 2cw5A 255 4.78e-01 1uscA 178 1.19e+00 b.45.1.2 99860 1h3gA 601 1.52e+00 b.1.18.2,b.71.1.1,c.1.8.1 90594,90595,90596 1llnA 262 1.93e+00 d.165.1.1 84625 2bgiA 272 2.01e+00 1widA 130 2.06e+00 1wsrA 375 2.12e+00 1ylnA 252 2.17e+00 1onwA 390 2.58e+00 b.92.1.7,c.1.9.13 87172,87173 1w8oA 601 2.63e+00 1vclA 432 2.74e+00 b.42.2.1,b.42.2.1,d.281.1.1 108498,108499,108500 1uwvA 433 3.25e+00 b.40.4.12,c.66.1.40 100128,100129 2h1tA 188 3.32e+00 1oa4A 222 3.81e+00 b.29.1.11 86731 1b25A 619 4.02e+00 1b25A a.110.1.1,d.152.1.1 19044,41796 2fauA 341 4.07e+00 1mkaA 171 4.33e+00 1mkaA d.38.1.2 38543 1zd7A 159 4.91e+00 2gjgA 248 5.25e+00 1n6aA 259 5.54e+00 b.76.2.1,b.85.7.1 80121,80122 1bupA 386 6.13e+00 1ba1 c.55.1.1,c.55.1.1 33377,33378 1vqzA 341 6.70e+00 1umwA 237 7.15e+00 d.223.1.2,d.223.1.2 99631,99632 4bcl 366 7.46e+00 4bcl b.75.1.1 27968 1h4gA 207 7.64e+00 b.29.1.11 70863 1yqdA 366 7.72e+00 1ixcA 294 7.73e+00 a.4.5.37,c.94.1.1 83764,83765 1ojrA 274 7.83e+00 c.74.1.1 93147 1ryp1 222 8.06e+00 1ryp1 1yoaA 159 8.20e+00 1rypK 198 8.43e+00 d.153.1.4 41879 1ko3A 230 9.11e+00 d.157.1.1 90974 1vplA 256 1.00e+01 2f69A 261 1.03e+01 1c8nA 276 1.08e+01 1smvA b.121.4.7 23308 7ahlA 293 1.11e+01 7ahlA f.6.1.1 43812 1x54A 434 1.13e+01 1t6gC 184 1.14e+01 b.29.1.11 106569 1k8kC 372 1.18e+01 b.69.4.1 68308 1rocA 155 1.22e+01 b.1.22.1 97673 2gibA 103 1.23e+01 1pbyA 489 1.31e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 94417,94418,94419,94420,94421 2ganA 190 1.31e+01 1jtdB 273 1.32e+01 b.69.5.2 67265 1l0wA 580 1.35e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 1xqbA 247 1.37e+01 1fp2A 352 1.39e+01 1fpxA a.4.5.29,c.66.1.12 59941,59942 1v0aA 178 1.41e+01 1ff9A 450 1.44e+01 1ff9A c.2.1.3,d.81.1.2 30039,39954 1e1oA 504 1.49e+01 1lylA b.40.4.1,d.104.1.1 25258,40714 2czrA 226 1.50e+01 1xzwA 426 1.53e+01 2cqsA 842 1.53e+01 2cveA 191 1.57e+01 1bqbA 301 1.61e+01 1hyt d.92.1.2 58962 1xkpC 143 1.68e+01 2fe7A 166 1.73e+01 1a7tA 232 1.75e+01 1a7tA d.157.1.1 42041 1a6cA 513 1.81e+01 1a6cA b.121.4.2,b.121.4.2,b.121.4.2 23296,23297,23298 1i39A 225 1.90e+01 1ekeA c.55.3.1 61585 1v84A 253 1.97e+01 c.68.1.7 108419 2arpA 116 1.99e+01 2f06A 144 2.04e+01 1yna 194 2.06e+01 1axkA b.29.1.11 24335 1k32A 1045 2.09e+01 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 68068,68069,68070,68071 1s1dA 331 2.10e+01 b.67.3.1 98344 1aun 208 2.14e+01 1thv b.25.1.1 23900 2aq5A 402 2.15e+01 1o54A 277 2.18e+01 c.66.1.13 92482 1tkeA 224 2.18e+01 1rypF 233 2.19e+01 1rypF d.153.1.4 41937 2acaA 189 2.20e+01 2cw8A 537 2.25e+01 1rjoA 646 2.28e+01 1dkzA 219 2.31e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 1vr6A 350 2.31e+01 2cwsA 237 2.35e+01 1ekeA 230 2.41e+01 1ekeA c.55.3.1 33572 1m1zA 513 2.42e+01 c.26.2.1,d.153.1.1 78457,78458 2bjfA 329 2.43e+01 1iwmA 186 2.54e+01 b.125.1.2 83758 1jjtA 228 2.54e+01 1a7tA d.157.1.1 63139 1wznA 252 2.57e+01 1xnkA 196 2.58e+01 1ockA 412 2.61e+01 c.117.1.1 86802 1pvl 301 2.72e+01 1pvl f.6.1.1 43819 1ta8A 332 2.74e+01 2c78A 405 2.82e+01 2bjrA 368 2.85e+01 1ryaA 160 2.89e+01 d.113.1.5 105122 1rypJ 204 2.95e+01 d.153.1.4 41878 1y7bA 542 2.96e+01 1h7zA 194 3.01e+01 1qhvA b.21.1.1 60733 1w6gA 646 3.05e+01 1kxoA 184 3.10e+01 b.60.1.1 84475 1feuA 206 3.14e+01 1feuA b.53.1.1 59801 1y4wA 518 3.17e+01 1z5hA 780 3.20e+01 2c4xA 260 3.20e+01 1y8tA 324 3.22e+01 1fi4A 416 3.25e+01 1fi4A d.14.1.5,d.58.26.2 59847,59848 1a34A 159 3.27e+01 1a34A b.121.7.1 23286 1bvoA 175 3.31e+01 1a3qA b.2.5.3 22457 2a8jA 420 3.34e+01 1zsyA 357 3.35e+01 1mjfA 281 3.37e+01 c.66.1.17 79198 1j0hA 588 3.38e+01 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 1gtmA 419 3.39e+01 1hwyA c.2.1.7,c.58.1.1 30223,33871 2f9zC 159 3.40e+01 1xypA 190 3.40e+01 1axkA b.29.1.11 24327 1gk9B 557 3.45e+01 2bgcA 238 3.46e+01 1zghA 260 3.50e+01 2bh8A 101 3.63e+01 1fehA 574 3.65e+01 1fehA c.96.1.1,d.15.4.2,d.58.1.5 36015,37690,38998 1rypI 222 3.66e+01 d.153.1.4 41877 1am2 199 3.68e+01 1am2 b.86.1.2 28381 1lkfA 299 3.69e+01 1pvl f.6.1.1 43821 1ms9A 648 3.72e+01 b.29.1.15,b.68.1.1 85088,85089 1bif 469 3.79e+01 1bif c.37.1.7,c.60.1.4 31961,34003 1jvbA 347 3.80e+01 b.35.1.2,c.2.1.1 77181,77182 1l3iA 192 3.87e+01 c.66.1.22 77676 1pg6A 243 3.92e+01 b.82.5.2 94673 1wgrA 100 3.94e+01 1w6sA 599 3.99e+01 1ve6A 582 4.19e+01 3eipA 84 4.20e+01 3eipA d.26.2.1 38434 1lbvA 252 4.22e+01 e.7.1.1 73813 1yge 839 4.28e+01 1yge a.119.1.1,b.12.1.1 19234,23634 1oacA 727 4.35e+01 1oacA b.30.2.1,d.17.2.1,d.17.2.1,d.82.1.1 24390,38007,38008,40003 1dpo 223 4.42e+01 5ptp b.47.1.2 25975 1rg9A 383 4.48e+01 d.130.1.1,d.130.1.1,d.130.1.1 97427,97428,97429 1f7zA 233 4.50e+01 5ptp b.47.1.2 59681 1mhnA 59 4.63e+01 b.34.9.1 84964 1xyiA 66 4.63e+01 1vcaA 202 4.64e+01 1vcaA b.1.1.3,b.1.1.4 21649,21685 1ir6A 424 4.64e+01 c.107.1.2 71342 2bjqA 345 4.67e+01 2cbzA 237 4.69e+01 1vajA 214 4.69e+01 1h72C 296 4.79e+01 d.14.1.5,d.58.26.1 60712,60713 1ta9A 450 4.80e+01 1h6lA 353 4.88e+01 b.68.3.1 60687 1jhdA 396 4.88e+01 b.122.1.3,c.26.1.5 66712,66713 1ywxA 102 4.93e+01 1h9hE 223 5.03e+01 b.47.1.2 103810 1q32A 544 5.03e+01 d.136.1.3,d.136.1.3 104507,104508 1e3dB 542 5.03e+01 1h2rL e.18.1.1 59189 2fswA 107 5.04e+01 2bhuA 602 5.07e+01 1wubA 178 5.08e+01 1apyB 141 5.08e+01 1apyB 1pvxA 194 5.13e+01 1axkA b.29.1.11 24341 1njhA 119 5.19e+01 b.128.1.1 85787 1u9aA 160 5.22e+01 1u9aA d.20.1.1 38333 1yr2A 741 5.22e+01 2aukA 190 5.23e+01 1u79A 129 5.24e+01 d.26.1.1 107714 1nxuA 333 5.26e+01 c.122.1.1 86389 1at0 145 5.27e+01 1at0 b.86.1.1 28374 1ep3B 262 5.31e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 1hs6A 611 5.32e+01 1hs6A a.118.1.7,b.98.1.1,d.92.1.13 61233,61234,61235 2grrA 161 5.32e+01 2b4wA 315 5.34e+01 1lfdA 87 5.36e+01 1lfdA d.15.1.5 37622 1xrtA 467 5.37e+01 2ew0A 192 5.37e+01 1zzkA 82 5.47e+01 2f15A 96 5.55e+01 1i9zA 347 5.57e+01 1i9yA d.151.1.2 62102 1b6a 478 5.66e+01 1bn5 a.4.5.25,d.127.1.1 16223,41160 1k0iA 394 5.67e+01 c.3.1.2,d.16.1.2 67942,67943 1vkbA 161 5.67e+01 d.269.1.1 108643 1b5qA 472 5.72e+01 1b37B c.3.1.2,d.16.1.5 30404,37968 1ag6 99 5.79e+01 1plc b.6.1.1 22857 1avbA 226 5.83e+01 1led b.29.1.1 24158 1l0qA 391 5.83e+01 b.1.3.1,b.69.2.3 77644,77645 1rloA 271 5.86e+01 2dcyA 185 5.89e+01 1wocA 103 6.00e+01 1xr4A 509 6.01e+01 1ze3C 205 6.05e+01 2d13A 227 6.15e+01 1jz8A 1023 6.20e+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 1pl8A 356 6.20e+01 b.35.1.2,c.2.1.1 94878,94879 1tt7A 330 6.21e+01 1bfg 146 6.27e+01 1bfg b.42.1.1 25485 1ut7A 171 6.36e+01 b.143.1.1 99906 1ut9A 609 6.44e+01 a.102.1.2,b.1.18.2 99912,99913 1b7yA 350 6.51e+01 1pysA d.104.1.1 40776 1tt8A 164 6.56e+01 2gwnA 452 6.58e+01 1aisA 182 6.60e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1quqB 121 6.60e+01 1quqB b.40.4.3 25305 2bmwA 304 6.68e+01 1vk8A 106 6.69e+01 d.58.48.1 108636 1ogiA 303 6.76e+01 b.43.4.2,c.25.1.1 92914,92915 1yqfA 203 6.82e+01 1vmjA 151 6.85e+01 1wluA 136 6.89e+01 1cjxA 357 6.91e+01 1cjxA d.32.1.3,d.32.1.3 38516,38517 1krhA 338 6.92e+01 b.43.4.2,c.25.1.2,d.15.4.2 72891,72892,72893 1s4iA 175 6.94e+01 1rlmA 271 6.97e+01 1xdfA 157 6.99e+01 1ykjA 394 7.00e+01 1gwyA 175 7.03e+01 b.97.1.1 83356 1vkkA 154 7.05e+01 d.109.1.2 108669 1h54A 754 7.08e+01 a.102.1.4,b.30.5.3 60634,60635 1f5jA 199 7.09e+01 1axkA b.29.1.11 24342 2ar1A 172 7.11e+01 1cruA 454 7.19e+01 1c9uA b.68.2.1 27617 1gpc 218 7.22e+01 1gpc b.40.4.7 25393 2culA 232 7.28e+01 1jkeA 145 7.30e+01 c.110.1.1 66791 1yoxA 250 7.30e+01 1z84A 351 7.30e+01 1n9lA 109 7.31e+01 d.110.3.6 85468 1h4rA 314 7.34e+01 a.11.2.1,b.55.1.5,d.15.1.4 65616,65617,65618 1yeyA 444 7.35e+01 1i2aA 219 7.48e+01 e.24.1.1 90660 1p0fA 373 7.55e+01 b.35.1.2,c.2.1.1 87642,87643 1z0nA 96 7.58e+01 1w07A 659 7.58e+01 1h2wA 710 7.63e+01 b.69.7.1,c.69.1.4 76596,76597 1xv2A 237 7.70e+01 1hx6A 394 7.76e+01 1cjdA b.121.2.1,b.121.2.1 58995,58996 1zkpA 268 7.77e+01 1k8kD 300 7.82e+01 d.198.2.1,d.198.2.1 68309,68310 1kgcD 206 7.84e+01 b.1.1.1,b.1.1.2 77384,77385 1mqoA 227 7.86e+01 d.157.1.1 103846 1vj0A 380 7.92e+01 b.35.1.2,c.2.1.1 100786,100787 1jyoA 130 7.93e+01 d.198.1.1 67483 1vavA 222 8.01e+01 b.29.1.18 108472 1o22A 170 8.02e+01 d.238.1.1 86557 1r4xA 275 8.12e+01 b.1.10.3,d.105.1.2 97054,97055 1pm4A 119 8.16e+01 b.135.1.1 94891 1wvhA 134 8.17e+01 1x6mA 196 8.20e+01 1hzdA 272 8.29e+01 c.14.1.3 65969 1f8fA 371 8.31e+01 b.35.1.2,c.2.1.1 83246,83247 1g8aA 227 8.32e+01 c.66.1.3 90506 1ospO 257 8.37e+01 1ospO b.76.1.1 27971 1xipA 388 8.68e+01 1zh1A 163 8.71e+01 1rypL 212 8.76e+01 d.153.1.4 41880 1uzxA 169 8.79e+01 d.20.1.2 100238 1oi0A 124 8.82e+01 c.97.3.1 93045 2basA 431 8.84e+01 2a1kA 233 8.84e+01 1cjcA 460 8.89e+01 1cjcA c.3.1.1,c.4.1.1 30319,30604 1bkf 107 8.95e+01 1fkj d.26.1.1 38382