# 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 2d4pA 141 1.89e-01 1jysA 242 3.02e-01 c.56.2.1 77216 1rxyA 253 4.54e-01 c.56.2.1 98065 1zbfA 142 5.52e-01 1dj0A 264 8.77e-01 1dj0A d.265.1.1 90337 1pjcA 361 1.33e+00 1sayA c.2.1.4,c.23.12.2 30101,31361 1yt3A 375 1.44e+00 1je0A 236 1.45e+00 c.56.2.1 66581 2a2nA 176 1.47e+00 1vjeA 166 1.70e+00 d.185.1.2 100807 1g3p 217 1.82e+00 1g3p b.37.1.1,b.37.1.1 24788,24789 1vc1A 110 2.00e+00 c.13.2.1 108493 1zosA 230 2.20e+00 1gw5S 142 2.47e+00 d.110.4.2 70633 2bh1X 96 2.71e+00 1g2rA 100 2.71e+00 1g2rA d.192.1.1 60231 1xm7A 195 2.91e+00 1s12A 94 3.78e+00 1ec7A 446 4.44e+00 1bqg c.1.11.2,d.54.1.1 29218,38862 1zo0A 126 4.50e+00 1u04A 771 4.68e+00 b.34.14.1,c.55.3.10 107539,107540 1t6aA 126 4.93e+00 d.129.8.1 106555 1oj4A 283 5.00e+00 d.14.1.5,d.58.26.5 93083,93084 1hi9A 274 5.19e+00 1hi9A c.99.1.1 61063 1z4rA 168 5.23e+00 2bsxA 253 5.43e+00 1zejA 293 5.67e+00 2gd9A 189 5.90e+00 1x8hA 228 6.03e+00 1x8gA 227 6.09e+00 1v37A 177 6.13e+00 1xo7A 166 6.33e+00 1wsrA 375 6.43e+00 2g5cA 281 6.47e+00 1m2xA 223 6.71e+00 d.157.1.1 84764 1xtoA 311 7.11e+00 1a8s 273 7.36e+00 1brt c.69.1.12 34710 1a53 247 7.40e+00 1a53 c.1.2.4 28564 1o0xA 262 7.76e+00 d.127.1.1 80755 1q67A 231 8.37e+00 b.55.1.7 95960 1usyA 275 8.55e+00 1vybA 238 8.97e+00 d.151.1.1 108897 2bhuA 602 9.28e+00 1ylqA 96 1.04e+01 2g3aA 152 1.05e+01 1id1A 153 1.07e+01 1id1A c.2.1.9 62286 1wstA 417 1.09e+01 1wnaA 131 1.10e+01 2aeuA 374 1.13e+01 1th0A 226 1.13e+01 d.3.1.7 106903 1d1gA 168 1.20e+01 1d1gA c.71.1.1 34889 1sl4A 155 1.20e+01 d.169.1.1 105710 1zzoA 136 1.22e+01 1i12A 160 1.23e+01 1i21A d.108.1.1 61515 1vhsA 175 1.23e+01 d.108.1.1 100698 1yymG 313 1.24e+01 1hxhA 253 1.27e+01 c.2.1.2 76725 1ixcA 294 1.27e+01 a.4.5.37,c.94.1.1 83764,83765 2a1hA 365 1.28e+01 1e0tA 470 1.28e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1v6tA 255 1.31e+01 1jykA 254 1.32e+01 c.68.1.13 67458 1szoA 257 1.33e+01 c.14.1.3 106164 2fg1A 158 1.35e+01 1lwdA 413 1.36e+01 c.77.1.1 78265 3nul 130 1.40e+01 3nul d.110.1.1 40891 2plc 274 1.42e+01 2plc c.1.18.2 29614 1rf6A 427 1.43e+01 d.68.2.2 97366 1wdnA 226 1.43e+01 1lst c.94.1.1 35816 1xc3A 302 1.43e+01 2fg9A 178 1.44e+01 1x8bA 289 1.48e+01 1es5A 262 1.48e+01 1skf e.3.1.1 42679 1wosA 364 1.52e+01 b.44.2.1,d.250.1.1 109468,109469 1hyvA 166 1.53e+01 1b9dA c.55.3.2 61424 1prxA 224 1.56e+01 1prxA c.47.1.10 33076 1akz 223 1.57e+01 3eugA c.18.1.1 31007 1jjtA 228 1.57e+01 1a7tA d.157.1.1 63139 1s62A 106 1.60e+01 1k8kA 418 1.61e+01 c.55.1.1,c.55.1.1 68305,68306 2gx9A 129 1.62e+01 2bswA 146 1.64e+01 1mw7A 240 1.67e+01 e.39.1.1 79557 1odkA 235 1.70e+01 c.56.2.1 86863 1k8kB 394 1.72e+01 c.55.1.1 68307 1vk8A 106 1.73e+01 d.58.48.1 108636 2a1vA 144 1.75e+01 1hrhA 136 1.77e+01 1rthA c.55.3.1 33577 2a1iA 146 1.80e+01 1on0A 158 1.85e+01 d.108.1.1 87095 2czrA 226 1.86e+01 1qlmA 316 1.86e+01 1qlmA d.147.1.1 41765 1g4wR 383 1.86e+01 1g4uS a.24.11.1,c.45.1.2 16644,32692 1n6zA 105 1.87e+01 d.263.1.1 85369 1jc4A 148 1.88e+01 1jc4A d.32.1.4 62863 1xkpC 143 1.95e+01 1ohlA 342 1.96e+01 c.1.10.3 87035 1ypfA 336 2.00e+01 1vd6A 224 2.02e+01 1srqA 341 2.03e+01 e.55.1.1 105967 1efvB 255 2.06e+01 1efvB c.26.2.3 31634 1m15A 357 2.08e+01 a.83.1.1,d.128.1.2 78368,78369 1pvgA 418 2.09e+01 d.14.1.3,d.122.1.2 95161,95162 1vhwA 253 2.10e+01 c.56.2.1 100706 2fymA 431 2.10e+01 2ptd 298 2.11e+01 2plc c.1.18.2 29605 1sx5A 244 2.13e+01 c.52.1.2 99023 1oaoC 729 2.13e+01 e.26.1.3 86746 1o20A 427 2.14e+01 c.82.1.1 86556 1q6zA 528 2.19e+01 3cla 213 2.21e+01 3cla c.43.1.1 32610 1dq3A 454 2.22e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1t4oA 117 2.25e+01 d.50.1.1 106425 1x9zA 188 2.25e+01 1wduA 245 2.30e+01 d.151.1.1 109286 1v5vA 401 2.40e+01 1tp9A 162 2.44e+01 1ik9A 213 2.48e+01 b.59.1.1,h.1.11.1 66176,66177 1ydyA 356 2.55e+01 1ow1A 195 2.58e+01 b.131.1.3 93625 1wtjA 343 2.59e+01 1y1nA 291 2.59e+01 1y1pA 342 2.60e+01 1mgtA 174 2.62e+01 1mgtA a.4.2.1,c.55.7.1 16078,33753 1tcvA 287 2.63e+01 1kqpA 271 2.66e+01 c.26.2.1 72883 1pjhA 280 2.70e+01 c.14.1.3 94761 1tqzA 133 2.72e+01 1l0qA 391 2.72e+01 b.1.3.1,b.69.2.3 77644,77645 1vpqA 273 2.72e+01 1gg4A 452 2.73e+01 1gg4A c.59.1.1,c.98.1.1,c.72.2.1 33957,58985,58986 1bn7A 294 2.75e+01 1bn6A c.69.1.8 34677 1sjdA 368 2.76e+01 c.1.11.2,d.54.1.1 105632,105633 1lssA 140 2.77e+01 c.2.1.9 74246 1d4xG 126 2.78e+01 1d0nA d.109.1.1 59109 1wdiA 345 2.79e+01 1txdA 385 2.81e+01 a.87.1.1,b.55.1.1 107422,107423 1r77A 103 2.82e+01 1e8cA 498 2.83e+01 c.98.1.1,c.59.1.1,c.72.2.1 59377,59378,59379 1pzxA 289 2.85e+01 c.119.1.1 95484 1cnv 299 2.85e+01 1cnv c.1.8.5 28989 1xt8A 292 2.86e+01 1tt7A 330 2.89e+01 1vj1A 363 2.93e+01 b.35.1.2,c.2.1.1 100794,100795 1nv8A 284 2.93e+01 c.66.1.30 86224 1d1qA 161 2.93e+01 1dg9A c.44.1.1 32642 2bl9A 238 2.98e+01 1qysA 106 3.02e+01 k.41.1.1 96603 1aa7A 158 3.02e+01 1aa7A a.95.1.1 18741 2bogX 286 3.04e+01 1nnvA 110 3.06e+01 d.17.7.1 92012 1vp2A 208 3.06e+01 1j8mF 297 3.07e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 2aefA 234 3.07e+01 1vliA 385 3.08e+01 b.85.1.1,c.1.10.6 108830,108831 1zu4A 320 3.08e+01 1wy1A 172 3.08e+01 2d28C 149 3.17e+01 1u6rA 380 3.23e+01 1ct5A 256 3.27e+01 1ct5A c.1.6.2 28663 1vjlA 164 3.32e+01 d.257.1.1 100822 1djrD 103 3.34e+01 3chbD b.40.2.1 24865 1stzA 338 3.35e+01 a.4.5.51,d.110.2.3 106009,106010 1twyA 290 3.39e+01 2ge7A 108 3.50e+01 2cqsA 842 3.50e+01 2hvm 273 3.54e+01 1cnv c.1.8.5 28985 1cliA 345 3.57e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 1xewX 182 3.62e+01 1p4cA 380 3.66e+01 c.1.4.1 94100 1ekgA 127 3.67e+01 1dlxA d.82.2.1 40021 1ki9A 192 3.69e+01 c.37.1.1 84404 2beiA 170 3.69e+01 1hw7A 255 3.69e+01 1i7fA d.193.1.1 61297 1yqdA 366 3.71e+01 1vqtA 213 3.75e+01 1t95A 240 3.75e+01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 1h70A 255 3.77e+01 1h70A d.126.1.3 60711 1ou8A 111 3.77e+01 b.136.1.1 93543 1c4oA 664 3.81e+01 1d2mA c.37.1.19,c.37.1.19 32415,32416 1t44G 147 3.84e+01 d.109.1.1 106395 1khtA 192 3.85e+01 c.37.1.1 84401 1v4pA 157 3.85e+01 2booA 247 3.88e+01 1xjjA 644 3.89e+01 1w78A 422 3.91e+01 1vkhA 273 3.92e+01 c.69.1.32 108662 1wu7A 434 3.95e+01 2gcuA 245 3.97e+01 1hjrA 158 3.97e+01 1hjrA c.55.3.6 33727 1yw5A 177 3.99e+01 1i4wA 353 4.06e+01 c.66.1.24 66028 2c5qA 240 4.10e+01 1hruA 188 4.12e+01 1hruA d.115.1.1 40926 1rlmA 271 4.15e+01 1poiB 260 4.17e+01 1poiB c.124.1.3 34155 1ycoA 279 4.23e+01 1xl7A 612 4.23e+01 2d83A 363 4.25e+01 1yhvA 297 4.25e+01 1kblA 873 4.25e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1y5eA 169 4.29e+01 2azpA 318 4.34e+01 1xfjA 261 4.37e+01 d.194.1.2 109585 1wy7A 207 4.38e+01 1va6A 518 4.39e+01 1ymiA 334 4.40e+01 1i39A 225 4.41e+01 1ekeA c.55.3.1 61585 1nu0A 138 4.44e+01 c.55.3.8 92165 1onrA 316 4.45e+01 1onrA c.1.10.1 29169 1yqhA 109 4.46e+01 1zvdA 380 4.51e+01 1pb7A 292 4.51e+01 c.94.1.1 88025 1ns5A 155 4.55e+01 c.116.1.3 80705 1vjhA 122 4.57e+01 d.129.3.1 100811 1zgkA 308 4.57e+01 1fehA 574 4.60e+01 1fehA c.96.1.1,d.15.4.2,d.58.1.5 36015,37690,38998 1hfc 169 4.64e+01 1hfc d.92.1.11 40335 1tvnA 293 4.65e+01 1yfqA 342 4.68e+01 1zuwA 272 4.70e+01 1a41 234 4.71e+01 1a41 d.163.1.2 42174 1vj0A 380 4.71e+01 b.35.1.2,c.2.1.1 100786,100787 1vjnA 220 4.74e+01 d.157.1.4 100825 1n1xA 124 4.76e+01 d.5.1.1 91548 1p5tA 127 4.78e+01 b.55.1.2 94148 2aifA 135 4.80e+01 1q8iA 783 4.80e+01 c.55.3.5,e.8.1.1 96208,96209 1kamA 194 4.81e+01 c.26.1.3 72254 1mvfD 82 4.82e+01 b.129.1.1 85143 2dbyA 368 4.84e+01 1vk9A 151 4.85e+01 c.139.1.1 108640 2aq6A 147 4.87e+01 1w9aA 147 4.92e+01 1xkrA 206 4.93e+01 1dqaA 467 4.94e+01 1dqaA d.58.20.1,d.179.1.1 39364,42585 1vqoE 178 5.00e+01 2fu0A 160 5.05e+01 1914 232 5.07e+01 1914 d.49.1.1,d.49.1.1 83028,83029 1bif 469 5.07e+01 1bif c.37.1.7,c.60.1.4 31961,34003 2akaB 299 5.07e+01 1xyiA 66 5.09e+01 1umkA 275 5.11e+01 1u6tA 121 5.11e+01 7a3hA 303 5.11e+01 7a3hA c.1.8.3 28817 1ejfA 125 5.16e+01 1ejfA b.15.1.2 23683 1chd 203 5.18e+01 1chd c.40.1.1 32478 1vk1A 242 5.18e+01 d.268.1.2 108634 1exqA 154 5.22e+01 1b9dA c.55.3.2 33646 1xzpB 150 5.24e+01 1owlA 484 5.25e+01 a.99.1.1,c.28.1.1 93647,93648 1ru3A 732 5.28e+01 e.26.1.3 97835 1ztuA 341 5.29e+01 2bgkA 278 5.30e+01 1e8gA 560 5.40e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 2c43A 323 5.40e+01 1ej6D 418 5.40e+01 i.7.1.1 45970 1ne2A 200 5.41e+01 c.66.1.32 85586 1wrvA 308 5.42e+01 1yrkA 126 5.48e+01 1vefA 395 5.50e+01 1u59A 287 5.50e+01 d.144.1.7 107681 1jetA 517 5.54e+01 1jevA c.94.1.1 35718 1fjgK 129 5.56e+01 1fjfK c.55.4.1 33733 1rz3A 201 5.76e+01 c.37.1.6 98132 2fp4B 395 5.84e+01 1vs0A 310 5.85e+01 1a0p 290 5.89e+01 1a0p a.60.9.1,d.163.1.1 18105,42165 1zy9A 564 5.92e+01 1ukfA 188 5.93e+01 d.3.1.10 99488 1up7A 417 5.96e+01 1euvA 221 6.00e+01 1euvA d.3.1.7 37133 1p2hA 571 6.03e+01 a.138.1.3,c.3.1.4,d.168.1.1 93930,93931,93932 1wd5A 208 6.03e+01 1va4A 279 6.04e+01 c.69.1.12 108458 1fg7A 356 6.04e+01 1gewA c.67.1.1 59819 1uwvA 433 6.07e+01 b.40.4.12,c.66.1.40 100128,100129 2gptA 523 6.10e+01 1z85A 234 6.10e+01 1nnxA 109 6.10e+01 b.40.10.1 92013 1h3qA 140 6.10e+01 d.110.4.3 76652 1ktgA 138 6.12e+01 d.113.1.1 72972 1k8kD 300 6.13e+01 d.198.2.1,d.198.2.1 68309,68310 2f1kA 279 6.14e+01 1khyA 148 6.16e+01 a.174.1.1 77410 1h75A 81 6.18e+01 1h75A c.47.1.1 60716 1zxxA 319 6.18e+01 1kyhA 276 6.20e+01 c.72.1.4 73222 1mk0A 97 6.21e+01 d.226.1.1 79216 2dg5A 366 6.26e+01 1gmeA 151 6.26e+01 b.15.1.1 65305 1zavA 180 6.28e+01 2arzA 247 6.30e+01 1iibA 106 6.30e+01 1iibA c.44.2.1 32648 2cvlA 124 6.35e+01 1f8fA 371 6.47e+01 b.35.1.2,c.2.1.1 83246,83247 1rl6A 177 6.50e+01 1rl6A d.141.1.1,d.141.1.1 41473,41474 1fpzA 212 6.54e+01 1fpzA c.45.1.1 59976 1knqA 175 6.63e+01 c.37.1.17 72786 1om1A 332 6.64e+01 d.144.1.7 93347 2fmmA 74 6.64e+01 1earA 147 6.65e+01 b.107.1.1,d.58.38.1 64875,64876 2fz4A 237 6.74e+01 1iujA 106 6.75e+01 d.58.4.5 90701 1xphA 150 6.80e+01 1j24A 143 6.85e+01 c.52.1.20 84008 1z9tA 255 6.85e+01 2fl4A 149 6.86e+01 1vzyA 291 6.88e+01 1lopA 164 6.91e+01 2cpl b.62.1.1 27510 1sviA 195 6.94e+01 c.37.1.8 106048 1vloA 381 6.94e+01 b.44.2.1,d.250.1.1 108838,108839 2gjgA 248 6.94e+01 1ny1A 240 6.96e+01 c.6.2.3 86395 1ftrA 296 6.97e+01 1ftrA d.58.33.1,d.58.33.1 39485,39486 1pz7A 204 6.97e+01 b.29.1.4 95405 1gnkA 112 7.04e+01 2pii d.58.5.1 39073 1qx4A 274 7.04e+01 b.43.4.2,c.25.1.1 104624,104625 1yq5A 144 7.11e+01 1l8bA 190 7.12e+01 d.86.1.1 73683 1qmvA 197 7.14e+01 1qq2A c.47.1.10 33066 1xkzA 255 7.21e+01 1qh5A 260 7.21e+01 1qh5A d.157.1.2 42057 1u02A 239 7.26e+01 c.108.1.15 107538 1x54A 434 7.28e+01 1mqoA 227 7.29e+01 d.157.1.1 103846 1xmxA 385 7.30e+01 1b8aA 438 7.36e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 2a5sA 284 7.37e+01 1k0fA 277 7.38e+01 c.92.2.2 71974 1p3dA 475 7.41e+01 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1ceo 343 7.47e+01 1ceo c.1.8.3 28808 3pmgA 561 7.49e+01 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 1nzaA 103 7.50e+01 d.58.5.2 86444 1a7tA 232 7.52e+01 1a7tA d.157.1.1 42041 1w1hA 151 7.60e+01 1xxaA 78 7.60e+01 1xxaA d.74.2.1 39700 1e87A 118 7.61e+01 1b6e d.169.1.1 42327 1qqp3 220 7.61e+01 1qqp3 2f5xA 312 7.62e+01 1nh2B 53 7.64e+01 a.32.1.1 91874 1i76A 163 7.68e+01 1hfc d.92.1.11 61877 1usmA 80 7.69e+01 d.74.1.1 99876 2fm8A 135 7.72e+01 1mveA 243 7.73e+01 b.29.1.2 85140 1ygmA 118 7.81e+01 1hr6A 475 7.84e+01 1hr6A d.185.1.1,d.185.1.1 61164,61165 1yemA 179 7.86e+01 2rmcA 182 7.87e+01 2cpl b.62.1.1 27491 1ne9A 335 7.90e+01 d.108.1.4,d.108.1.4 91839,91840 2eifA 136 7.95e+01 1bkb b.34.5.2,b.40.4.5 24607,25339 1zc3B 113 7.97e+01 2c27A 315 7.99e+01 1t9bA 677 8.00e+01 2cxaA 256 8.05e+01 1qstA 160 8.07e+01 1yghA d.108.1.1 40804 1yrtA 364 8.09e+01 5nul 138 8.14e+01 5nul c.23.5.1 31191 1gs5A 258 8.14e+01 c.73.1.2 70395 1im5A 180 8.18e+01 c.33.1.3 66211 1rypI 222 8.22e+01 d.153.1.4 41877 2h1nA 567 8.27e+01 1jihA 531 8.29e+01 d.240.1.1,e.8.1.7 90374,90375 1h1dA 221 8.30e+01 c.66.1.1 83452 1l6rA 227 8.30e+01 c.108.1.10 77768 2cwxA 430 8.31e+01 1uyjA 296 8.32e+01 f.8.1.2 108143 1fvuB 125 8.32e+01 1ixxB d.169.1.1 42346 1ebfA 358 8.44e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 1ryiA 382 8.55e+01 1xmbA 418 8.58e+01 1w6vA 141 8.60e+01 1ro0A 216 8.68e+01 d.264.1.2 97664 1uh5A 329 8.68e+01 c.2.1.2 107840 1pii 452 8.69e+01 1pii c.1.2.4,c.1.2.4 28559,28563 1s4nA 348 8.71e+01 c.68.1.16 98501 2b20A 403 8.73e+01 2c4wA 176 8.77e+01 1juvA 193 8.78e+01 c.71.1.1 90912 1h2bA 359 8.79e+01 b.35.1.2,c.2.1.1 90543,90544 1jb0D 138 8.79e+01 1jb0D d.187.1.1 62823 1uuyA 167 8.82e+01 c.57.1.1 108059 1xccA 220 8.84e+01 2d42A 249 8.86e+01 1ed8A 449 8.86e+01 1b8jA c.76.1.1 34988 1othA 321 8.87e+01 1othA c.78.1.1,c.78.1.1 35260,35261 1zlqA 502 8.90e+01 1n5nA 180 8.90e+01 d.167.1.1 85336