# List of top-scoring protein chains for t06-100-30-alpha-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 1na3A 91 6.31e-04 k.38.1.1 85481 2fbnA 198 9.20e-04 1elwA 118 1.46e-03 1a17 a.118.8.1 19207 1hz4A 373 1.33e-02 a.118.8.2 65960 1ihgA 370 5.48e-02 2cpl a.118.8.1,b.62.1.1 62380,62381 2ff4A 388 1.60e-01 1x0lA 333 5.21e-01 1vlgA 176 6.37e-01 a.25.1.1 108816 1oshA 232 6.87e-01 a.123.1.1 93496 1za0A 275 8.29e-01 2dg5A 366 8.79e-01 1xnfA 275 1.24e+00 1elrA 131 1.44e+00 1a17 a.118.8.1 19209 1x46A 150 1.45e+00 1paqA 189 1.51e+00 a.118.1.14 94413 1fjgT 106 2.14e+00 1fjfT a.7.6.1 16338 1vf1A 229 2.41e+00 1uzbA 516 2.53e+00 c.82.1.1 100220 2bjkA 516 2.53e+00 1dc1A 323 2.66e+00 1dc1A c.52.1.11 33321 1r0dA 206 3.05e+00 a.216.1.1 104715 1orjA 130 3.66e+00 a.24.19.1 93456 1n46A 258 3.75e+00 a.123.1.1 85315 1w36B 1180 3.86e+00 1khoA 370 4.20e+00 a.124.1.1,b.12.1.3 72489,72490 1zejA 293 4.29e+00 1ek9A 428 4.36e+00 1ek9A f.5.1.1 43809 2gtrA 261 4.51e+00 3lynA 136 4.54e+00 1lis a.19.1.1 16413 1w79A 489 4.66e+00 2d2yA 145 4.85e+00 1txgA 335 4.96e+00 2azjA 289 5.20e+00 2g7gA 213 5.38e+00 1ydiA 263 5.65e+00 1mlwA 301 5.69e+00 d.178.1.1 79289 1mswD 883 6.17e+00 e.8.1.3 79427 1knqA 175 6.42e+00 c.37.1.17 72786 1hh8A 213 7.02e+00 1e96B a.118.8.1 61042 2lisA 136 7.04e+00 1lis a.19.1.1 16405 1ovlA 271 7.46e+00 a.123.1.1 87455 1gpjA 404 7.78e+00 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1ux5A 411 8.11e+00 a.207.1.1 100144 3gcb 470 8.20e+00 3gcb d.3.1.1 37032 1upvA 257 8.22e+00 1lk9A 448 8.32e+00 c.67.1.1 78057 1f6fA 199 8.52e+00 1f6fA a.26.1.1 16839 2bl2A 156 8.97e+00 2c2aA 258 9.63e+00 1ug7A 128 1.05e+01 a.24.24.1 107824 1ppjF 110 1.07e+01 f.27.1.1 104262 1w5tA 412 1.14e+01 1t2bA 397 1.15e+01 1xg7A 250 1.19e+01 1pb6A 212 1.21e+01 a.4.1.9,a.121.1.1 88017,88018 1lfpA 249 1.28e+01 e.39.1.1 73885 2f3yA 148 1.29e+01 1m7vA 363 1.31e+01 d.174.1.1 78748 1pl5A 142 1.40e+01 h.1.23.1 104186 2crbA 97 1.41e+01 1uliA 460 1.43e+01 b.33.1.2,d.129.3.3 107921,107922 2gboA 104 1.44e+01 1ic2A 81 1.46e+01 h.1.5.1 62247 1avsA 90 1.47e+01 1cll a.39.1.5 17226 1pyoB 105 1.47e+01 1x3kA 152 1.50e+01 1su8A 636 1.58e+01 e.26.1.2 98999 1ka2A 499 1.58e+01 d.92.1.5 77305 1j8uA 325 1.59e+01 d.178.1.1 71611 2awiA 317 1.60e+01 1n83A 270 1.61e+01 a.123.1.1 80276 1fnnA 389 1.62e+01 1fnnA a.4.5.11,c.37.1.20 16129,32426 1jb0A 755 1.62e+01 1jb0A f.29.1.1 62820 1at3A 247 1.63e+01 1at3A b.57.1.1 27021 1in6A 334 1.64e+01 1hqcA a.4.5.11,c.37.1.20 62601,62602 1w0dA 337 1.64e+01 1ggzA 148 1.65e+01 a.39.1.5 70176 1in4A 334 1.66e+01 1hqcA a.4.5.11,c.37.1.20 62597,62598 1yfsA 465 1.67e+01 2gaiA 633 1.69e+01 1kcfA 258 1.70e+01 a.140.2.1,c.55.3.7 68434,68435 1ng6A 148 1.70e+01 a.182.1.1 85670 1izcA 339 1.73e+01 c.1.12.5 83838 2c5kT 95 1.74e+01 1k3yA 221 1.75e+01 a.45.1.1,c.47.1.5 77245,77246 1zrn 232 1.77e+01 1qq5A c.108.1.1 43323 1l3pA 102 1.80e+01 a.24.17.1 84520 2cvzA 289 1.82e+01 2f57A 317 1.83e+01 1bx4A 345 1.90e+01 1bx4A c.72.1.1 34935 1wm1A 317 1.93e+01 c.69.1.7 109405 1knyA 253 1.97e+01 1knyA a.24.16.1,d.218.1.1 75896,75897 1uhkA 191 1.97e+01 2ghjA 118 2.00e+01 2fztA 79 2.02e+01 1tujA 123 2.13e+01 1nrgA 261 2.15e+01 b.45.1.1 80694 2cqsA 842 2.17e+01 1ca1 370 2.18e+01 1ca1 a.124.1.1,b.12.1.3 19340,23648 1yrcA 414 2.18e+01 2bnxA 386 2.27e+01 1i5nA 146 2.27e+01 1i5nA a.24.10.3 61805 1nc5A 373 2.28e+01 a.102.1.6 85548 1joyA 67 2.30e+01 1joyA a.30.2.1 16991 2az0A 73 2.30e+01 1di1A 300 2.34e+01 1di1A a.128.1.4 19446 1xdzA 240 2.44e+01 1orsC 132 2.47e+01 f.14.1.1 87353 1x91A 153 2.55e+01 2g7sA 194 2.57e+01 1u14A 172 2.75e+01 c.51.4.3 107579 1kxpD 458 2.75e+01 a.126.1.1,a.126.1.1,a.126.1.1 73160,73161,73162 1rss 151 2.77e+01 1rss a.75.1.1 18392 1twfB 1224 2.77e+01 2d29A 387 2.77e+01 1evsA 187 2.79e+01 1evsA a.26.1.1 16845 1exrA 148 2.80e+01 1cll a.39.1.5 17299 1ouvA 273 2.80e+01 a.118.18.1 93570 1f0yA 302 2.81e+01 2hdhA a.100.1.3,c.2.1.6 18793,30197 1af7 274 2.82e+01 1af7 a.58.1.1,c.66.1.8 17928,34203 1ustA 93 2.82e+01 a.4.5.13 99884 1uhgA 385 2.88e+01 e.1.1.1 88491 2f71A 298 2.90e+01 1zy4A 303 2.90e+01 1yc9A 442 2.92e+01 1rx0A 393 3.01e+01 a.29.3.1,e.6.1.1 98007,98008 2bl0C 142 3.07e+01 1bdmA 327 3.13e+01 1bmdA c.2.1.5,d.162.1.1 30137,42104 1io2A 213 3.13e+01 1ekeA c.55.3.1 62612 1p68A 102 3.18e+01 k.8.1.1 94158 1bc5A 269 3.19e+01 1af7 a.58.1.1,c.66.1.8 17929,34204 2bikB 313 3.22e+01 1xo0A 324 3.22e+01 1dvkA 173 3.22e+01 1dvkA a.72.1.1 18319 1wchA 315 3.26e+01 1nu5A 370 3.34e+01 c.1.11.2,d.54.1.1 92183,92184 1i36A 264 3.35e+01 a.100.1.8,c.2.1.6 71108,71109 1ra6A 461 3.37e+01 e.8.1.4 104879 2bo4A 397 3.47e+01 1unlD 208 3.49e+01 1urvA 190 3.51e+01 1csn 298 3.52e+01 1csn d.144.1.7 41664 1owlA 484 3.55e+01 a.99.1.1,c.28.1.1 93647,93648 1go3F 107 3.63e+01 a.60.8.2 65407 1v0lA 313 3.63e+01 c.1.8.3 108207 1ow4A 129 3.64e+01 a.39.2.1 93628 1xeaA 323 3.65e+01 c.2.1.3,d.81.1.5 109572,109573 1p4kA 295 3.68e+01 d.153.1.5 87772 2abk 211 3.73e+01 2abk a.96.1.1 18743 1rrmA 386 3.82e+01 e.22.1.2 105081 1x3lA 440 3.84e+01 1uddA 226 3.90e+01 a.132.1.3 107776 1wg8A 285 3.92e+01 2a65A 519 3.94e+01 1n5uA 585 3.94e+01 a.126.1.1,a.126.1.1,a.126.1.1 85339,85340,85341 1wxcA 281 4.02e+01 1t1dA 100 4.04e+01 1t1dA d.42.1.2 38637 1u2eA 289 4.04e+01 1e4iA 447 4.09e+01 1e70M c.1.8.4 59225 1pa1A 310 4.13e+01 c.45.1.2 94404 1m0kA 262 4.17e+01 f.13.1.1 78344 1ehyA 294 4.27e+01 1ehyA c.69.1.11 34693 1nznA 126 4.32e+01 a.118.8.1 92382 1jalA 363 4.37e+01 c.37.1.8,d.15.10.2 84138,84139 1ykhA 108 4.40e+01 1tw9A 206 4.43e+01 a.45.1.1,c.47.1.5 107381,107382 2ak3A 226 4.46e+01 1zin c.37.1.1,g.41.2.1 31892,45193 1pmi 440 4.53e+01 1pmi b.82.1.3 28114 1zd8A 227 4.54e+01 1ufaA 520 4.56e+01 a.8.3.3,c.6.2.4 99329,99330 2baa 243 4.63e+01 1cnsA d.2.1.1 36243 1lucB 324 4.66e+01 1lucA c.1.16.1 29548 2abqA 306 4.68e+01 2d3dA 88 4.73e+01 1rxdA 159 4.74e+01 2tct 207 4.78e+01 2tct a.4.1.9,a.121.1.1 16063,19240 2cw9A 194 4.86e+01 1iomA 377 4.95e+01 a.103.1.1 83698 1anf 370 5.04e+01 4mbp c.94.1.1 35776 2a2mA 258 5.09e+01 1lq7A 67 5.14e+01 k.9.1.1 74183 1uq5A 263 5.31e+01 d.165.1.1 99778 2f4lA 297 5.39e+01 2bvlA 543 5.39e+01 1w53A 84 5.40e+01 a.186.1.2 109175 2bg1A 494 5.43e+01 1q5nA 454 5.59e+01 a.127.1.1 95901 1qb2A 109 5.66e+01 1qb2A a.36.1.1 17125 2sqcA 631 5.71e+01 2sqcA a.102.4.2,a.102.4.2 18854,18855 1b06A 210 5.74e+01 1avmA a.2.11.1,d.44.1.1 15740,38737 1yarA 233 5.81e+01 1rq6A 62 5.81e+01 2aq9A 262 5.89e+01 1ofcX 304 5.91e+01 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 1umwA 237 5.94e+01 d.223.1.2,d.223.1.2 99631,99632 2c30A 321 5.95e+01 1fiuA 286 5.96e+01 1fiuA c.52.1.10 33317 1ornA 226 5.96e+01 a.96.1.1 87342 1i1wA 303 6.00e+01 c.1.8.3 76732 1rtwA 220 6.05e+01 a.132.1.3 97823 1uesA 191 6.09e+01 a.2.11.1,d.44.1.1 107798,107799 1m9xC 146 6.14e+01 a.73.1.1 84907 1iq8A 582 6.15e+01 c.1.20.1,b.122.1.1,d.17.6.1 71270,83074,83075 1twdA 256 6.24e+01 c.1.30.1 107397 1vimA 200 6.26e+01 c.80.1.3 100758 2b49A 287 6.26e+01 1s3eA 520 6.31e+01 c.3.1.2,d.16.1.5 98426,98427 1e8yA 966 6.36e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 2gfoA 396 6.36e+01 1ef8A 261 6.38e+01 1ef8A c.14.1.3 30921 2bg5A 324 6.40e+01 1kn1B 161 6.41e+01 a.1.1.3 77456 1xm9A 457 6.44e+01 1hqsA 423 6.54e+01 1iso c.77.1.1 61154 1nz6A 101 6.62e+01 a.2.3.1 86441 1sazA 381 6.73e+01 1t5oA 351 6.75e+01 c.124.1.5 106459 1bco 327 6.83e+01 1bco b.48.1.1,c.55.3.3 26431,33676 1xtpA 254 6.83e+01 1ayaA 101 6.84e+01 1qadA d.93.1.1 40460 1dbhA 354 6.87e+01 1awe a.87.1.1,b.55.1.1 18514,26967 1alu 186 6.92e+01 1alu a.26.1.1 16826 1gcvB 136 6.97e+01 1cg5B a.1.1.2 15589 1h8eA 510 7.00e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 1mtyG 162 7.15e+01 1mtyG a.23.3.1 16498 1z6oM 191 7.18e+01 1ib2A 349 7.21e+01 1ib2A a.118.1.8 62141 1xkpC 143 7.21e+01 1i4jA 110 7.23e+01 d.55.1.1 76734 1nu7D 282 7.24e+01 a.8.6.1,a.8.6.1 92191,92192 2cchB 260 7.24e+01 1g6uA 48 7.31e+01 1g6uA k.9.1.1 46425 2g3bA 208 7.33e+01 1kkhA 317 7.35e+01 d.14.1.5,d.58.26.3 72645,72646 1y791 680 7.36e+01 1pw4A 451 7.48e+01 f.38.1.1 95198 2btdA 210 7.49e+01 1yewA 382 7.60e+01 1a32 88 7.62e+01 1a32 a.16.1.2 16384 1lucA 355 7.66e+01 1lucA c.1.16.1 29547 1w5qA 337 7.72e+01 1l5oA 356 7.74e+01 c.39.1.1 77711 2g0dA 409 7.77e+01 2pvbA 107 7.77e+01 1a75A a.39.1.4 17205 1te2A 226 7.79e+01 c.108.1.6 106792 1t7lA 766 7.83e+01 1pa2A 306 7.86e+01 1bgp a.93.1.1 18693 1iqvA 218 7.88e+01 1rss a.75.1.1 62661 1dxjA 242 7.92e+01 1cnsA d.2.1.1 36244 1wy6A 172 7.94e+01 1siqA 392 7.95e+01 a.29.3.1,e.6.1.1 105585,105586 2gmyA 153 8.11e+01 1wzdA 215 8.14e+01 1wdcB 156 8.14e+01 1wdcB a.39.1.5 17302 1wkuA 254 8.20e+01 1tbfA 347 8.22e+01 a.211.1.2 106743 2jdxA 385 8.24e+01 1jdw d.126.1.2 41139 1gqpA 221 8.28e+01 b.18.1.9 70372 1xg2B 153 8.34e+01 1xsvA 113 8.39e+01 1g9gA 629 8.40e+01 a.102.1.2 83279 1c4oA 664 8.45e+01 1d2mA c.37.1.19,c.37.1.19 32415,32416 1d2mA 665 8.47e+01 1d2mA c.37.1.19,c.37.1.19 32417,32418 1jogA 146 8.50e+01 a.24.16.2 77142 1tffA 234 8.56e+01 d.3.1.11 106854 1jfiA 98 8.64e+01 1jfiA a.22.1.3 62936 1v9nA 360 8.68e+01 1li5A 461 8.71e+01 a.27.1.1,c.26.1.1 73912,73913 1iy8A 267 8.72e+01 c.2.1.2 83774 1yiiA 320 8.82e+01 1tmxA 293 8.85e+01 1klxA 138 8.93e+01 a.118.18.1 77440 1tuaA 191 8.98e+01 d.51.1.1,d.51.1.1 107321,107322