# List of top-scoring protein chains for t04-100-30-stride-ebghtl-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 3cbnA 151 3.89e-01 1tmxA 293 5.82e-01 2b4rO 345 1.55e+00 c.2.1.3,d.81.1.1 127845,127846 1qfjA 232 1.84e+00 1qfjA b.43.4.2,c.25.1.1 25655,31545 1obfO 335 1.88e+00 c.2.1.3,d.81.1.1 86768,86769 2c78A 405 1.89e+00 b.43.3.1,b.44.1.1,c.37.1.8 130037,130038,130039 1aipA 405 1.90e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25697,25737,32132 1exmA 405 2.08e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 1x6oA 174 2.17e+00 b.34.5.2,b.40.4.5 109493,109494 1d2eA 397 2.20e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25701,25741,32136 2ifsA 169 2.59e+00 2ny1B 184 2.86e+00 b.1.1.1,b.1.1.3 138764,138765 1khiA 176 3.09e+00 b.34.5.2,b.40.4.5 77408,77409 2f69A 261 3.09e+00 b.76.2.1,b.85.7.1 133035,133036 2ftwA 521 3.18e+00 b.92.1.3,c.1.9.6 134083,134084 2o20A 332 3.22e+00 3bxoA 239 3.35e+00 1bkb 136 3.36e+00 1bkb 1bkbA 136 3.36e+00 b.34.5.2,b.40.4.5 24609,25341 1n6aA 259 4.34e+00 b.76.2.1,b.85.7.1 80121,80122 2z00A 426 4.36e+00 3bmzA 199 5.11e+00 1iz6A 138 5.53e+00 b.34.5.2,b.40.4.5 76976,76977 2hf2A 283 6.39e+00 1q0rA 298 6.61e+00 c.69.1.28 95508 1x74A 360 7.05e+00 c.123.1.1 121771 1pm4A 119 7.74e+00 b.135.1.1 94891 1g13A 162 7.78e+00 1g13A b.95.1.1 60194 1xf1A 926 8.02e+00 1dar 691 8.88e+00 1dar 2uxyA 341 9.00e+00 1e5pA 151 9.01e+00 1bj7 b.60.1.1 59272 1sppB 116 9.30e+00 1sfp b.23.1.1 23897 2v3mA 131 9.30e+00 2j59M 168 9.49e+00 2gciA 360 9.56e+00 c.123.1.1 134983 2jo6A 113 9.65e+00 2a13A 166 9.73e+00 b.60.1.8 125971 2dddA 225 9.85e+00 2e4tA 519 1.05e+01 1rlmA 271 1.08e+01 c.108.1.10 111860 1mkeA 152 1.10e+01 b.55.1.4 79231 2yyoA 171 1.18e+01 1m1hA 248 1.18e+01 b.114.1.1,d.58.42.1 78415,78416 1pfsA 78 1.19e+01 1pfsA b.40.4.7 25391 1dlfL 113 1.25e+01 8fabA b.1.1.1 20382 1iwmA 186 1.27e+01 b.125.1.2 83758 2ag4A 164 1.30e+01 b.95.1.1 126717 2ag9A 164 1.36e+01 1rloA 271 1.36e+01 c.108.1.10 111864 1ex2A 189 1.43e+01 1ex2A c.51.4.2 33225 2bylA 439 1.54e+01 c.67.1.4 129490 2brjA 188 1.57e+01 1z8kA 193 1.59e+01 b.159.1.1 124703 2db9A 149 1.64e+01 2nygA 273 1.64e+01 1o5uA 101 1.67e+01 b.82.1.8 92518 2d9rA 104 1.85e+01 b.129.2.1 131350 3c0fB 91 1.91e+01 1cdy 178 1.92e+01 1cdy 1xssA 225 2.07e+01 1g0cA 364 2.19e+01 7a3hA c.1.8.3 60165 2oatA 439 2.21e+01 2dkb c.67.1.4 34452 2q4nA 166 2.22e+01 b.60.1.8 139871 1rd5A 262 2.23e+01 c.1.2.4 111772 1fjgL 135 2.28e+01 1fjfL b.40.4.5 25346 1g72A 573 2.29e+01 4aahA b.70.1.1 27680 1gadO 330 2.31e+01 1dssG c.2.1.3,d.81.1.1 29950,39865 2atzA 180 2.41e+01 d.264.1.3 127317 1tluA 130 2.41e+01 d.156.1.2 107139 1jjfA 268 2.43e+01 c.69.1.2 66765 2byjA 439 2.43e+01 c.67.1.4 129483 2ad6A 571 2.44e+01 b.70.1.1 126568 1thjA 214 2.45e+01 1qreA b.81.1.5 28072 1yb3A 175 2.48e+01 d.296.1.2 122869 1wk8A 194 2.50e+01 1l3aA 228 2.62e+01 d.18.1.2 73531 1iu8A 206 2.65e+01 c.56.4.1 71436 3bo5A 290 2.68e+01 1y0yA 353 2.69e+01 b.49.3.1,c.56.5.4 122514,122515 1z7dA 433 2.74e+01 c.67.1.4 124600 1n9lA 109 2.77e+01 d.110.3.6 85468 2nptB 100 2.77e+01 d.15.2.2 138449 2eifA 136 2.78e+01 1bkb b.34.5.2,b.40.4.5 24607,25339 2fn9A 290 2.83e+01 2qrlA 394 2.89e+01 3cnqP 80 2.90e+01 2cmuA 342 2.94e+01 3c99A 432 2.99e+01 1bw0A 416 3.01e+01 1bw0A c.67.1.1 34385 1ush 550 3.04e+01 1ush 1ifrA 121 3.13e+01 b.1.16.1 71203 2v1lA 148 3.20e+01 1qreA 247 3.29e+01 1qreA b.81.1.5 28066 2nqcA 138 3.35e+01 2e4sA 189 3.36e+01 2uubL 135 3.39e+01 b.40.4.5 139943 1v0aA 178 3.41e+01 b.18.1.30 119815 2ie2A 222 3.47e+01 1bmv1 198 3.48e+01 1bmv1 3b9eA 584 3.49e+01 1kcxA 518 3.52e+01 b.92.1.3,c.1.9.6 90953,90954 1wnyA 186 3.54e+01 1ybdA 239 3.58e+01 c.73.1.3 122884 1o7dD 282 3.61e+01 2ahnA 222 3.65e+01 1xzzA 246 3.68e+01 2uz0A 263 3.70e+01 1kbvA 327 3.70e+01 b.6.1.3,b.6.1.3 68395,68396 2dyuA 334 3.72e+01 1led 243 3.86e+01 1led 1ledA 243 3.86e+01 b.29.1.1 24039 1ymzA 43 3.86e+01 2f4wA 187 3.92e+01 d.20.1.1 132958 2hq9A 149 3.94e+01 b.45.1.1 136659 1udzA 182 3.95e+01 b.51.1.1 99239 2zmfA 189 3.95e+01 3bxpA 277 4.00e+01 2fepA 289 4.02e+01 1jv4A 162 4.04e+01 b.60.1.1 67343 2yweA 600 4.06e+01 1s1fA 406 4.12e+01 a.104.1.1 112008 1namB 113 4.14e+01 b.1.1.1 85489 2hjqA 111 4.16e+01 1xcrA 316 4.19e+01 d.290.1.2 121860 2hlvA 160 4.20e+01 2gsjA 271 4.23e+01 2nvwA 479 4.24e+01 c.2.1.3,d.81.1.5 138665,138666 2g23A 612 4.25e+01 2atvA 196 4.26e+01 c.37.1.8 127308 1vr7A 142 4.36e+01 d.156.1.2 120443 1ygyA 529 4.36e+01 c.2.1.4,c.23.12.1,d.58.18.1,d.81.2.2 123150,123151,123152,123153 2d0eA 407 4.43e+01 1ihjA 98 4.45e+01 1pdr b.36.1.1 62382 1wexA 104 4.48e+01 d.58.7.1 114568 1o4rA 108 4.49e+01 d.93.1.1 92469 1x54A 434 4.49e+01 1cq3A 233 4.50e+01 1cq3A b.27.1.1 23923 2bolA 314 4.54e+01 3b77A 193 4.55e+01 1lqyA 184 4.56e+01 d.167.1.1 74212 1pgl1 185 4.56e+01 3ullA 132 4.63e+01 3ullA b.40.4.3 25282 1ituA 369 4.69e+01 c.1.9.7 71423 1vflA 356 4.74e+01 c.1.9.1 120041 1usrA 454 4.76e+01 b.68.1.1 99881 1obpA 159 4.77e+01 1obpA b.60.1.1 27092 1ile 821 4.77e+01 1ile 2ahuA 531 4.79e+01 c.124.1.3,c.124.1.2 126785,126786 2d09A 407 4.86e+01 1h1yA 228 4.88e+01 c.1.2.2 76506 1w6tA 444 4.95e+01 c.1.11.1,d.54.1.1 120670,120671 2a5zA 262 4.95e+01 b.29.1.24 126184 3c3dA 311 4.98e+01 2gzsA 278 4.98e+01 1xtoA 311 4.99e+01 d.157.1.6 116030 1tvnA 293 5.06e+01 c.1.8.3 119360 2zc0A 407 5.10e+01 1oatA 439 5.11e+01 2dkb c.67.1.4 34461 3d0jA 140 5.15e+01 2h7dA 101 5.16e+01 2bm0A 691 5.16e+01 b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1,d.58.11.1 128748,128749,128750,128751,128752 1y56B 382 5.16e+01 1rwiA 270 5.16e+01 b.68.9.1 97987 1a7s 221 5.21e+01 1a7s 1twfB 1224 5.28e+01 e.29.1.1 112726 2vqeL 135 5.42e+01 2fliA 220 5.46e+01 c.1.2.2 133714 2bzeA 153 5.49e+01 1a7sA 225 5.54e+01 b.47.1.2 26284 2f4lA 297 5.56e+01 b.23.3.1 132927 1lo7A 141 5.69e+01 d.38.1.1 74144 3b8fA 142 5.69e+01 2r0hA 164 5.71e+01 1puiA 210 5.73e+01 c.37.1.8 88292 1ixmA 192 5.79e+01 1ixmA d.123.1.1 41114 1bob 320 5.79e+01 1bob 1bobA 320 5.79e+01 d.108.1.1 40816 2cu1A 103 5.82e+01 d.15.2.2 130802 1z9vA 121 5.82e+01 2ywqA 105 5.83e+01 1dmhA 311 5.87e+01 1dmhA b.3.6.1 22633 3bilA 348 5.89e+01 2fyqA 194 5.91e+01 1qftA 175 5.93e+01 1qftA b.60.1.1 27151 1ctn 540 6.04e+01 1ctn 1vpvA 300 6.04e+01 c.119.1.1 113975 1eejA 216 6.05e+01 1eejA c.47.1.9,d.17.3.1 33057,38071 1scjB 71 6.06e+01 1scjB d.58.3.2 39069 1o1zA 234 6.07e+01 c.1.18.3 86555 2g82A 331 6.08e+01 c.2.1.3,d.81.1.1 134746,134747 1gt1A 159 6.12e+01 b.60.1.1 90515 1u79A 129 6.12e+01 d.26.1.1 107714 1pv5A 264 6.13e+01 d.251.1.1 95150 3cswA 285 6.13e+01 2d73A 738 6.22e+01 1xjvA 294 6.22e+01 b.40.4.3,b.40.4.3 115396,115397 2fwrA 472 6.30e+01 c.37.1.19,c.37.1.19 134253,134254 1o7dC 159 6.36e+01 b.30.5.6 86640 2j8gA 339 6.37e+01 2fz4A 237 6.45e+01 c.37.1.19 134419 1h3fA 432 6.47e+01 c.26.1.1,d.66.1.4 76631,76632 1g2lA 235 6.50e+01 b.47.1.2 65112 2gnqA 336 6.51e+01 1fzyA 149 6.54e+01 d.20.1.1 65072 1xrsB 262 6.63e+01 c.23.6.1,d.230.4.1 115884,115885 1f9zA 135 6.68e+01 1qipA d.32.1.1 38484 2j5zA 221 6.77e+01 2v1oA 151 6.78e+01 1uzxA 169 6.80e+01 d.20.1.2 100238 1xaoA 121 6.80e+01 1ru0A 105 6.84e+01 d.74.1.1 111937 1j6wA 175 6.84e+01 1j98A d.185.1.2 62663 1ikpA 613 6.88e+01 b.29.1.7,d.166.1.1,f.1.5.1 66182,66183,66184 2h5xA 196 6.97e+01 1qz8A 113 6.99e+01 b.140.1.1 96619 2nytA 190 7.01e+01 1hqlA 257 7.03e+01 b.29.1.1 65907 2pr3A 234 7.09e+01 1q7hA 153 7.27e+01 b.122.1.1,d.17.6.2 96042,96043 2h14A 317 7.27e+01 2nzxA 371 7.30e+01 1ko3A 230 7.33e+01 d.157.1.1 90974 2bokA 241 7.36e+01 b.47.1.2 128916 1xfoA 357 7.40e+01 b.49.3.1,c.56.5.4 115265,115266 1h09A 338 7.41e+01 b.109.1.1,c.1.8.8 83420,83421 1g8kB 133 7.42e+01 1g8jB b.33.1.1 24435 1dt9A 437 7.51e+01 1dt9A c.55.4.2,d.79.3.2,d.91.1.1 33738,39815,40257 1i06A 180 7.58e+01 1mup b.60.1.1 27131 2qs8A 418 7.61e+01 1fkx 349 7.64e+01 1a4mA 2o95A 187 7.64e+01 1zmoA 244 7.70e+01 1vlqA 337 7.71e+01 c.69.1.25 108848 2o4cA 380 7.71e+01 1nar 290 7.89e+01 1nar 1narA 290 7.89e+01 c.1.8.5 28988 2j5uA 255 7.98e+01