# List of top-scoring protein chains for t04-100-30-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.soe.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 3e8tA 220 7.88e-01 3gwfA 540 1.00e+00 1kcgC 178 1.26e+00 d.19.1.1 68440 2ai4A 119 1.28e+00 b.6.1.7 126816 2h1tA 188 1.30e+00 b.178.1.1 147215 2j04A 588 1.31e+00 1q7fA 286 1.37e+00 b.68.9.1 96036 2cxxA 190 1.47e+00 c.37.1.8 131013 2ox7A 155 1.76e+00 b.172.1.1 149054 2wjrA 214 1.79e+00 1zarA 282 1.81e+00 a.4.5.56,d.144.1.9 124843,124844 1cy5A 97 1.98e+00 1cy5A a.77.1.3 18430 3lzjA 903 2.20e+00 1tqmA 282 2.24e+00 a.4.5.56,d.144.1.9 107236,107237 1nn7A 105 2.50e+00 d.42.1.2 85894 1z2iA 358 2.74e+00 1wtjA 343 3.00e+00 3f04A 143 3.09e+00 1x12A 208 3.17e+00 1nt2A 210 3.64e+00 c.66.1.3 86149 1rsy 152 3.88e+00 1rsy 1rsyA 152 3.88e+00 b.7.1.2 23192 3f85A 463 4.10e+00 3gkuA 225 4.25e+00 1vbiA 344 4.43e+00 1pbe 394 4.74e+00 1pbe 1pbeA 394 4.74e+00 c.3.1.2,d.16.1.2 30338,37869 3l8bA 906 4.78e+00 1jmmA 377 5.02e+00 b.30.6.1 71749 3h5lA 419 5.03e+00 2pkpA 170 5.67e+00 1w0pA 781 5.97e+00 b.29.1.8,b.29.1.8,b.68.1.1 109038,109039,109040 1u6rA 380 6.04e+00 a.83.1.1,d.128.1.2 119600,119601 2vh1A 220 6.12e+00 2bbeA 108 6.15e+00 1i6wA 181 6.22e+00 1i6wA c.69.1.18 61859 1ispA 181 6.33e+00 c.69.1.18 76778 1ykjA 394 6.54e+00 c.3.1.2,d.16.1.2 145914,145915 2dbnA 461 7.58e+00 1hd2A 161 7.89e+00 c.47.1.10 60962 1r03A 182 7.93e+00 a.25.1.1 104675 2hy7A 406 7.93e+00 2dulA 378 8.40e+00 c.66.1.58 146588 3e8vA 82 8.94e+00 2q4vA 170 9.21e+00 d.108.1.1 139878 2v4cA 309 9.48e+00 3c3yA 237 9.52e+00 3ipkA 497 9.64e+00 3licA 274 9.69e+00 1k0iA 394 9.72e+00 c.3.1.2,d.16.1.2 67942,67943 2oaaA 249 9.84e+00 2wmiA 606 9.89e+00 1qstA 160 9.93e+00 1yghA d.108.1.1 40804 2dr3A 247 1.07e+01 1xahA 354 1.10e+01 3ioxA 497 1.10e+01 2cw3A 280 1.13e+01 1yd9A 193 1.16e+01 c.50.1.2 122976 3eeyA 197 1.20e+01 1lu4A 136 1.21e+01 c.47.1.10 91124 1gcuA 295 1.24e+01 1gcuA c.2.1.3,d.81.1.4 30063,39978 3b50A 310 1.26e+01 2fh1A 344 1.27e+01 d.109.1.1,d.109.1.1,d.109.1.1 133441,133442,133443 1ep1B 261 1.30e+01 1ep2B b.43.4.2,c.25.1.3 25665,31555 2j6vA 301 1.34e+01 2zv3A 115 1.35e+01 2r7hA 177 1.35e+01 1lc0A 294 1.38e+01 c.2.1.3,d.81.1.4 73823,73824 2ceyA 306 1.40e+01 2wmiB 606 1.43e+01 2w02A 620 1.46e+01 1v9cA 218 1.48e+01 c.23.17.1 100533 1svdA 473 1.49e+01 c.1.14.1,d.58.9.1 119057,119058 2wmkA 606 1.51e+01 3lacA 215 1.55e+01 1g8aA 227 1.62e+01 c.66.1.3 90506 1czaN 917 1.68e+01 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33463,33464,33465,33466 2izpA 303 1.71e+01 a.250.1.1 137826 2wozA 318 1.72e+01 1cbgA 490 1.76e+01 c.1.8.4 28933 1qh4A 380 1.78e+01 1qh4A a.83.1.1,d.128.1.2 18462,41197 1ug8A 87 1.78e+01 d.68.7.1 107825 3cniA 156 1.78e+01 1rtwA 220 1.80e+01 a.132.1.3 97823 1urmA 172 1.86e+01 c.47.1.10 113413 3hihA 223 1.87e+01 3i3wA 443 1.88e+01 1iu8A 206 1.89e+01 c.56.4.1 71436 3gwaA 365 1.90e+01 3griA 424 1.90e+01 3k5sA 217 2.06e+01 1s1dA 331 2.11e+01 b.67.3.1 98344 3i0yA 140 2.12e+01 1mkyA 439 2.13e+01 c.37.1.8,c.37.1.8,d.52.5.1 79250,79251,79252 1z5hA 780 2.14e+01 1b56A 135 2.16e+01 b.60.1.2 27183 2obdA 476 2.18e+01 2p0wA 324 2.29e+01 1nmmB 286 2.30e+01 c.68.1.2 80662 3f9sA 146 2.37e+01 2w7qA 204 2.39e+01 2fy7A 287 2.39e+01 3enbA 222 2.41e+01 c.55.3.14 158189 1otkA 249 2.44e+01 a.25.1.2 93521 2wmfA 581 2.50e+01 2rdyA 803 2.68e+01 1fgxA 288 2.79e+01 1fgxA c.68.1.2 34508 1nr3A 122 2.79e+01 d.236.1.1 86092 2cxhA 217 2.89e+01 c.51.1.2 131005 2jf7A 532 2.89e+01 3gwqA 426 2.91e+01 2b5gA 171 2.95e+01 d.108.1.1 127892 1ew4A 106 3.05e+01 1ew4A d.82.2.1 40023 1ep3B 262 3.05e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 1vrpA 381 3.12e+01 a.83.1.1,d.128.1.2 120473,120474 1lb3A 182 3.13e+01 a.25.1.1 77873 2i5fA 109 3.15e+01 b.55.1.1 147512 3hikA 237 3.15e+01 1yroB 286 3.17e+01 c.68.1.2 123932 2ivfB 352 3.20e+01 2cihA 183 3.24e+01 1zr5A 214 3.27e+01 c.50.1.2 125525 2bc4B 211 3.28e+01 1pztA 286 3.31e+01 c.68.1.2 95470 3bn0A 112 3.33e+01 d.27.1.1 155425 2fqmA 75 3.36e+01 d.378.1.1 147042 1umwA 237 3.38e+01 d.223.1.2,d.223.1.2 99631,99632 2bkwA 385 3.40e+01 c.67.1.3 128714 1vf1A 229 3.41e+01 3h51A 156 3.42e+01 3fvhA 237 3.43e+01 1dk8A 147 3.45e+01 1agrE a.91.1.1 18548 2pm7A 399 3.45e+01 2fha 183 3.50e+01 2fha 3lfmA 495 3.52e+01 2gzxA 265 3.58e+01 3l57A 299 3.59e+01 3bjoA 103 3.60e+01 2wmhA 581 3.64e+01 2atrA 138 3.66e+01 d.108.1.1 127305 3lhnA 126 3.70e+01 1iyeA 309 3.73e+01 e.17.1.1 83786 1kit 757 3.73e+01 1kit 3hhyA 280 3.74e+01 2jkgA 179 3.74e+01 1g60A 260 3.77e+01 c.66.1.11 70151 3g3lA 327 3.79e+01 3h92A 92 3.80e+01 1k8tA 510 3.83e+01 e.41.1.1 68316 2vk3A 142 3.86e+01 3duzA 487 3.87e+01 2wmgA 581 3.89e+01 1xmtA 103 3.90e+01 d.108.1.1 115561 3blnA 143 4.00e+01 1y55X 126 4.02e+01 2wfcA 167 4.07e+01 2eezA 369 4.15e+01 2icwG 213 4.15e+01 a.202.1.1 137251 2bbhA 269 4.15e+01 d.328.1.1 128266 1at0 145 4.28e+01 1at0 1at0A 145 4.28e+01 b.86.1.1 28374 1ualA 274 4.34e+01 c.116.1.4 88383 2qf3A 243 4.36e+01 b.47.1.1 150724 2cy2A 174 4.40e+01 d.108.1.1 131016 1nqnA 122 4.42e+01 b.61.1.1 86042 1augA 215 4.46e+01 1a2zA c.56.4.1 33798 2w5nA 367 4.50e+01 1j58A 385 4.53e+01 b.82.1.2 71531 3bdqA 110 4.58e+01 1egaA 301 4.59e+01 1egaA c.37.1.8,d.52.3.1 32150,38836 2oryA 346 4.59e+01 1qxrA 189 4.62e+01 b.82.1.7 96552 3by8A 142 4.68e+01 d.110.6.1 155722 2aj7A 163 4.73e+01 b.158.1.1 126842 1ig9A 903 4.75e+01 1clqA c.55.3.5,e.8.1.1 62367,62368 2uxqA 402 4.76e+01 1gqeA 365 4.88e+01 e.38.1.1 70351 2z0uA 155 4.92e+01 1nwbA 124 4.92e+01 b.124.1.1 86296 2o7tA 199 4.97e+01 a.4.1.9,a.121.1.1 148670,148671 2e2oA 299 5.01e+01 2eeyA 162 5.06e+01 1nxuA 333 5.14e+01 c.122.1.1 86389 2w2sA 202 5.17e+01 2r60A 499 5.19e+01 1l4dB 122 5.20e+01 d.15.5.1 77684 2qg3A 208 5.22e+01 1idsA 207 5.22e+01 1avmA a.2.11.1,d.44.1.1 15722,38730 2bneA 241 5.23e+01 c.73.1.3 128824 1ts9A 102 5.28e+01 b.137.1.1 112618 3mggA 276 5.31e+01 1tljA 213 5.32e+01 d.282.1.1 107126 2qztA 111 5.36e+01 2bwqA 129 5.41e+01 b.7.1.2 129380 3cp5A 124 5.44e+01 2iwaA 266 5.50e+01 2oxgA 108 5.51e+01 1bob 320 5.53e+01 1bob 1bobA 320 5.53e+01 d.108.1.1 40816 1xn5A 146 5.64e+01 d.129.3.5 115574 1s12A 94 5.65e+01 d.64.2.1 112003 1vyoA 128 5.66e+01 1bd8 156 5.66e+01 1bd8 1bd8A 156 5.66e+01 d.211.1.1 19157 1pb1A 416 5.67e+01 c.77.1.1 88014 3dr2A 305 5.71e+01 3lpzA 336 5.74e+01 3d37A 381 5.76e+01 b.106.1.1,b.106.1.1 157269,157270 2dk7A 73 5.87e+01 2i5hA 205 5.90e+01 e.71.1.1 147513 1g9gA 629 5.93e+01 a.102.1.2 83279 1xrhA 351 5.94e+01 c.122.1.1 115871 1w36C 1122 6.06e+01 c.37.1.19,c.37.1.19,c.52.1.25 114125,114126,114127 1q2lA 939 6.06e+01 d.185.1.1,d.185.1.1,d.185.1.1,d.185.1.1 118731,118732,118733,118734 1uw4B 248 6.09e+01 a.118.1.14 100072 1hh1A 143 6.16e+01 1gefA c.52.1.18 61036 1mppA 361 6.16e+01 b.50.1.2 26856 2jzbB 74 6.18e+01 1wchA 315 6.19e+01 c.45.1.2 114508 1amp 291 6.22e+01 1amp 3dmcA 134 6.23e+01 d.17.4.10 157805 1s3zA 165 6.26e+01 d.108.1.1 105250 1wdaA 670 6.27e+01 b.2.9.1,b.6.1.6,d.126.1.5 109243,109244,109245 3dv8A 220 6.30e+01 1xpjA 126 6.37e+01 c.108.1.18 115739 2w6kA 145 6.46e+01 c.151.1.1 153740 3a68A 212 6.46e+01 2bsnA 145 6.48e+01 2vqeR 88 6.48e+01 a.4.8.1 153442 3hxrA 761 6.58e+01 3l6tA 302 6.61e+01 3lorA 160 6.64e+01 1d5rA 324 6.70e+01 1d5rA b.7.1.1,c.45.1.1 23181,32697 1xi7A 61 6.72e+01 g.3.6.5 115348 2nxpA 156 6.76e+01 d.379.1.1 148504 1rfmA 344 6.78e+01 c.122.1.1 97385 2aamA 309 6.81e+01 c.1.8.15 126489 2bibA 547 6.83e+01 b.109.1.1,d.157.1.8 128581,128582 3hrqA 357 6.83e+01 2gagA 965 6.86e+01 2q0iA 303 6.90e+01 d.157.1.14 149986 3mtiA 185 7.04e+01 3ygsP 97 7.07e+01 3ygsP a.77.1.3 18435 2fbqA 235 7.21e+01 a.4.1.9,a.121.1.1 133256,133257 2vdwA 302 7.23e+01 1wbiA 129 7.26e+01 3dodA 448 7.27e+01 2carA 196 7.27e+01 c.51.4.1 130161 1yixA 265 7.30e+01 c.1.9.12 123371 2o35A 105 7.31e+01 a.293.1.1 148566 2v78A 313 7.31e+01 2i8dA 123 7.34e+01 d.198.4.1 147561 1faeA 629 7.35e+01 1fce a.102.1.2 18837 1hn4A 131 7.37e+01 a.133.1.2 65893 3ie0A 431 7.37e+01 1npeA 267 7.43e+01 b.68.5.1 92032 2b06A 155 7.43e+01 d.113.1.1 127624 2r3uA 211 7.54e+01 b.47.1.1 151558 2v8fA 140 7.58e+01 3dfuA 232 7.59e+01 1dpgA 485 7.63e+01 1dpgA c.2.1.3,d.81.1.5 30074,39989 2rfrA 155 7.65e+01 d.17.4.28 152000 2c0gA 248 7.66e+01 a.71.1.1,c.47.1.7 129590,129591 3i33A 404 7.67e+01 2yvlA 248 7.67e+01 3brcA 156 7.73e+01 2whqA 548 7.74e+01 2jttC 35 7.78e+01 1h09A 338 7.79e+01 b.109.1.1,c.1.8.8 83420,83421 1e8oA 85 7.80e+01 1914 d.49.1.1 38773 2v4iB 213 7.81e+01 2o1mA 258 7.83e+01 2r6oA 294 7.84e+01 2uubR 88 7.87e+01 a.4.8.1 139949 2k4qA 156 7.90e+01 2uykA 129 7.92e+01 3kq5A 393 7.93e+01 2p91A 285 7.95e+01