# List of top-scoring protein chains for t04-100-30-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 1xb4A 202 3.19e-01 1u5tC 202 4.54e-01 a.4.5.54,a.4.5.54 107688,107689 1iuhA 198 1.26e+00 d.61.1.2 83711 1o20A 427 3.20e+00 c.82.1.1 86556 1exqA 154 4.33e+00 1b9dA c.55.3.2 33646 1kiyA 374 4.84e+00 a.128.1.5 72555 2aelA 374 5.16e+00 1yyqA 374 5.25e+00 2bivA 243 5.33e+00 1wkaA 147 5.67e+00 1qqyA 130 5.88e+00 3lzt d.2.1.2 36586 1y9kA 157 6.58e+00 1kx5B 102 6.77e+00 a.22.1.1 77594 1pv5A 264 6.96e+00 d.251.1.1 95150 1d9tA 289 7.62e+00 1deaA 1w85A 368 7.80e+00 1a6m 151 8.56e+00 1a6m a.1.1.2 15018 2cvxA 888 8.86e+00 1ne7A 289 9.23e+00 c.124.1.1 91833 1z15A 344 9.44e+00 2fdbM 164 9.60e+00 1bzpA 153 9.70e+00 1a6m a.1.1.2 15020 1oz2A 331 9.74e+00 b.34.9.3,b.34.9.3,b.34.9.3 93781,93782,93783 2bbrA 195 9.87e+00 1za0A 275 9.94e+00 1z0kB 69 1.00e+01 1gqvA 135 1.03e+01 d.5.1.1 70376 1hi2A 135 1.06e+01 7rsa d.5.1.1 61057 1nksA 194 1.19e+01 1nksA c.37.1.1 31886 1eceA 358 1.22e+01 1eceA c.1.8.3 28813 1mlg 154 1.23e+01 1a6m a.1.1.2 15104 103m 154 1.23e+01 1a6m a.1.1.2 15124 1mlo 154 1.25e+01 1a6m a.1.1.2 15085 1jsf 130 1.27e+01 3lzt d.2.1.2 36410 1mll 154 1.27e+01 1a6m a.1.1.2 15057 1mod 154 1.27e+01 1a6m a.1.1.2 15107 1lz1 130 1.27e+01 3lzt d.2.1.2 36415 1zs9A 261 1.27e+01 1y0nA 78 1.29e+01 1zz1A 369 1.30e+01 2b49A 287 1.30e+01 1yewC 289 1.33e+01 1e7wA 291 1.38e+01 c.2.1.2 59373 1a48 306 1.40e+01 1a48 d.143.1.1 41590 1mym 154 1.41e+01 1a6m a.1.1.2 15054 2mgb 154 1.41e+01 1a6m a.1.1.2 15102 1cf2O 337 1.43e+01 1b7gO c.2.1.3,d.81.1.1 29994,39909 1k99A 99 1.52e+01 a.21.1.1 68341 2ftwA 521 1.57e+01 1ignA 246 1.60e+01 1ignA a.4.1.6,a.4.1.6 16048,16049 2cnqA 306 1.61e+01 2spl 154 1.61e+01 1a6m a.1.1.2 15047 1obdA 306 1.65e+01 d.143.1.1 86767 1jug 125 1.70e+01 3lzt d.2.1.2 36587 1pylA 97 1.75e+01 d.1.1.2 104391 1b4pA 217 1.87e+01 a.45.1.1,c.47.1.5 83158,83159 1gjnA 153 1.87e+01 a.1.1.2 70191 1nekA 588 1.88e+01 a.7.3.1,c.3.1.4,d.168.1.1 80426,80427,80428 2f1sA 186 1.89e+01 1bif 469 1.92e+01 1bif c.37.1.7,c.60.1.4 31961,34003 1vr5A 547 1.93e+01 1ltqA 301 1.95e+01 c.108.1.9,c.37.1.1 78208,78209 2frfA 153 1.96e+01 1xjeA 644 1.97e+01 1uc7A 125 1.99e+01 c.47.1.1 99163 1dwtA 153 1.99e+01 1a6m a.1.1.2 15190 2fwhA 134 2.01e+01 1oe4A 247 2.03e+01 c.18.1.3 86895 2liv 344 2.05e+01 2liv c.93.1.1 35708 1oi1A 221 2.10e+01 b.34.9.3,b.34.9.3 87037,87038 1g4yR 148 2.17e+01 1cll a.39.1.5 60252 1mlwA 301 2.19e+01 d.178.1.1 79289 2ch0A 133 2.23e+01 1rgeA 96 2.33e+01 1rgeA d.1.1.2 36028 1b7dA 61 2.34e+01 1aho g.3.7.1 44139 1npiA 61 2.38e+01 g.3.7.1 80685 2bn5A 33 2.41e+01 1mgrA 99 2.46e+01 d.1.1.2 79106 1ly1A 181 2.56e+01 c.37.1.1 74334 1bkdS 439 2.66e+01 1bkdS a.117.1.1 19111 1vf8A 377 2.68e+01 2f6rA 281 2.75e+01 1e9lA 377 2.76e+01 1e9lA c.1.8.5,d.26.3.1 59395,59396 1auvA 311 2.76e+01 1auvA c.30.1.5,d.142.1.3 31723,41558 2ew8A 249 2.89e+01 1rztA 331 2.91e+01 a.60.6.1,a.60.12.1,d.218.1.2 98224,98225,98226 1jdlA 121 2.95e+01 a.3.1.1 66557 1tfzA 424 3.07e+01 d.32.1.3,d.32.1.3 106886,106887 1whzA 70 3.10e+01 1xvxA 312 3.11e+01 1ff9A 450 3.17e+01 1ff9A c.2.1.3,d.81.1.2 30039,39954 2a65A 519 3.18e+01 1augA 215 3.21e+01 1a2zA c.56.4.1 33798 1st9A 143 3.27e+01 c.47.1.10 98987 2mgg 154 3.32e+01 1a6m a.1.1.2 15069 1bjt 793 3.32e+01 1bjt e.11.1.1 43249 1nnhA 294 3.33e+01 d.104.1.1 92005 2g0uA 92 3.49e+01 1dixA 208 3.54e+01 1bk7A d.124.1.1 41122 1xu9A 286 3.57e+01 1h5uA 842 3.68e+01 1a8i c.87.1.4 60655 1h0pA 182 3.75e+01 b.62.1.1 76450 2pil 159 3.75e+01 2pil d.24.1.1 38376 2a0kA 161 3.75e+01 2f2tA 161 3.75e+01 1bu7A 455 3.79e+01 1bu7A a.104.1.1 18937 2gs5A 198 3.80e+01 1bl3A 160 3.89e+01 1b9dA c.55.3.2 33655 1zv9A 172 3.92e+01 2aa1B 146 3.94e+01 2b30A 301 3.96e+01 1a8i 842 3.98e+01 1a8i c.87.1.4 35490 2boqA 331 3.99e+01 2gviA 204 3.99e+01 1k4cC 124 3.99e+01 f.14.1.1 68130 1r3jC 124 3.99e+01 f.14.1.1 96932 2a5yA 204 4.03e+01 1qi9A 556 4.08e+01 1qhbA a.111.1.2 19053 1vm8A 534 4.11e+01 2c4jA 218 4.14e+01 1wtaA 275 4.17e+01 1oshA 232 4.24e+01 a.123.1.1 93496 1s72I 162 4.24e+01 a.4.7.1 105328 1zelA 298 4.27e+01 1o5iA 249 4.28e+01 c.2.1.2 92499 1b0nA 111 4.30e+01 1b0nA a.34.1.1,a.35.1.3 17001,17064 1mw9X 592 4.30e+01 e.10.1.1 91480 1ustA 93 4.35e+01 a.4.5.13 99884 1xw5A 217 4.36e+01 1sk7A 198 4.42e+01 a.132.1.2 105671 2f62A 161 4.42e+01 1yw5A 177 4.42e+01 1i7nA 309 4.50e+01 c.30.1.5,d.142.1.3 83681,83682 1bzkA 43 4.57e+01 1bzkA j.35.1.1 46250 1dmgA 225 4.58e+01 1dmgA c.22.1.1 31036 2erfA 209 4.60e+01 1bea 127 4.67e+01 1bea a.52.1.2 17826 2f9zC 159 4.80e+01 1uvjA 664 4.81e+01 e.8.1.6 100045 1zoyA 622 4.83e+01 1lniA 96 4.86e+01 d.1.1.2 74046 1anf 370 4.91e+01 4mbp c.94.1.1 35776 1unlD 208 4.92e+01 1ug7A 128 4.95e+01 a.24.24.1 107824 1hhsA 664 4.95e+01 1hi0P e.8.1.6 61045 1k6xA 352 4.97e+01 c.2.1.2 68238 1iybA 208 4.99e+01 d.124.1.1 90720 1gpl 432 5.03e+01 1gpl b.12.1.2,c.69.1.19 23645,34793 1lngA 87 5.12e+01 d.201.1.1 74045 2f9sA 151 5.16e+01 1bwzA 274 5.21e+01 1bwzA d.21.1.1,d.21.1.1 38337,38338 1qh8A 478 5.23e+01 1qguA c.92.2.3 35633 1qznA 173 5.27e+01 b.2.2.2 104669 1vejA 74 5.35e+01 2sas 185 5.43e+01 2sas a.39.1.5 17258 2gz4A 207 5.44e+01 1k1xA 659 5.45e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 1cydA 244 5.54e+01 1cydA c.2.1.2 29825 1lwdA 413 5.54e+01 c.77.1.1 78265 2f3yA 148 5.58e+01 1e6iA 121 5.61e+01 1b91A a.29.2.1 16969 1lmzA 187 5.67e+01 a.96.1.4 74037 2ffjA 300 5.67e+01 1yhuB 144 5.69e+01 1np7A 489 5.71e+01 a.99.1.1,c.28.1.1 80677,80678 1j95A 125 5.73e+01 1bl8A f.14.1.1 62749 1xgkA 352 5.74e+01 2a6sA 84 5.78e+01 2dfkA 402 5.79e+01 1mngA 203 5.80e+01 1avmA a.2.11.1,d.44.1.1 15776,38701 1ro2A 216 5.86e+01 d.264.1.2 97665 1nzjA 298 5.94e+01 c.26.1.1 92377 2an3A 289 5.96e+01 1ro0A 216 5.98e+01 d.264.1.2 97664 1f3mC 297 5.99e+01 1hcl d.144.1.7 41677 1ek1A 554 5.99e+01 1cr6B c.69.1.11,c.108.1.2 34685,43335 1s2oA 244 6.00e+01 1jpzA 473 6.07e+01 a.104.1.1 67069 1omp 370 6.08e+01 4mbp c.94.1.1 35778 2a4dA 160 6.18e+01 1yqgA 263 6.28e+01 1gnlA 544 6.29e+01 e.26.1.1 70287 1x9mA 698 6.31e+01 1bf2 750 6.35e+01 1bf2 b.1.18.2,b.71.1.1,c.1.8.1 21860,27787,28774 1xsnA 335 6.36e+01 1x6oA 174 6.43e+01 b.34.5.2,b.40.4.5 109493,109494 1cei 94 6.43e+01 1cei a.28.2.1 16939 1ywfA 296 6.46e+01 1top 162 6.50e+01 1ncx a.39.1.5 17223 1xjjA 644 6.51e+01 1jmaA 290 6.64e+01 b.1.1.1 63177 1wzzA 334 6.70e+01 2cmwA 310 6.71e+01 4mbp 370 6.74e+01 4mbp c.94.1.1 35777 3htsB 102 6.76e+01 2hts a.4.5.22 16175 1zklA 353 6.79e+01 1laxA 370 6.83e+01 c.94.1.1 84576 1agi 125 6.86e+01 7rsa d.5.1.1 37303 1bk7A 190 6.91e+01 1bk7A d.124.1.1 41121 1tueA 212 6.92e+01 c.37.1.20 107323 2a8yA 270 6.94e+01 1htrP 43 7.02e+01 1htrP b.50.1.2 26852 1w1iE 357 7.03e+01 c.1.9.1 109051 1l4dB 122 7.05e+01 d.15.5.1 77684 1ituA 369 7.06e+01 c.1.9.7 71423 1obpA 159 7.07e+01 1obpA b.60.1.1 27092 1zu0A 529 7.10e+01 1apyA 162 7.11e+01 1apyA d.153.1.5 42004 2es7A 142 7.13e+01 1ja9A 274 7.24e+01 c.2.1.2 62817 2hts 88 7.26e+01 2hts a.4.5.22 16174 1r0pA 312 7.27e+01 d.144.1.7 96734 1hw7A 255 7.28e+01 1i7fA d.193.1.1 61297 1zrn 232 7.28e+01 1qq5A c.108.1.1 43323 1k28A 584 7.31e+01 b.40.8.1,b.108.1.2,d.2.1.3 68049,68050,68051 2fhfA 1083 7.32e+01 1urjA 1136 7.45e+01 1j5vA 351 7.48e+01 c.72.1.1 71585 2bcqA 335 7.48e+01 1ngnA 155 7.53e+01 a.96.1.2 85697 2btdA 210 7.57e+01 1ihkA 174 7.58e+01 1bfg b.42.1.1 62384 1fmcA 255 7.58e+01 1cydA c.2.1.2 29856 2bznA 351 7.66e+01 6gsvA 217 7.66e+01 1b8xA a.45.1.1,c.47.1.5 17633,32925 1zvtA 256 7.76e+01 2g09A 297 7.78e+01 1ob8A 135 7.86e+01 1h1yA 228 7.88e+01 c.1.2.2 76506 1mgpA 313 7.89e+01 c.119.1.1 79098 1nuuA 252 7.91e+01 c.26.1.3 86209 1q1uA 144 7.95e+01 b.42.1.1 95608 1tc5A 194 8.01e+01 c.110.1.1 106752 1k8qA 377 8.07e+01 c.69.1.6 72177 1jmxA 494 8.08e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 66901,66902,66903,66904,66905 1yj7A 171 8.14e+01 1m65A 245 8.17e+01 c.6.3.1 84847 1dp4A 435 8.20e+01 1dp4A c.93.1.1 35710 1m32A 366 8.21e+01 c.67.1.3 78508 1nf3A 195 8.23e+01 c.37.1.8 85594 1gpr 162 8.25e+01 1gpr b.84.3.1 28267 1x0rA 249 8.29e+01 1i1iP 681 8.29e+01 1i1iP d.92.1.5 40297 1j99A 293 8.31e+01 c.37.1.5 71618 2b9wA 424 8.33e+01 1orsC 132 8.34e+01 f.14.1.1 87353 1pii 452 8.36e+01 1pii c.1.2.4,c.1.2.4 28559,28563 2ex0A 399 8.37e+01 2dd8S 202 8.46e+01 1iwmA 186 8.48e+01 b.125.1.2 83758 1seiA 130 8.48e+01 1seiA d.140.1.1 41463 2fiyA 309 8.48e+01 1tn6A 382 8.50e+01 1aihA 170 8.50e+01 1aihA d.163.1.1 42149 2gh1A 301 8.54e+01 1v58A 241 8.56e+01 c.47.1.9,d.17.3.1 108371,108372 1x7yA 400 8.58e+01 1v1rA 400 8.58e+01 c.36.1.11 108272 1vr0A 247 8.63e+01 1xriA 151 8.79e+01 1dfaA 454 8.83e+01 1vdeA b.86.1.2,d.95.2.2,d.95.2.2 28375,40575,40576 1snrA 341 8.84e+01 b.6.1.3,b.6.1.3 105823,105824 2f96A 224 8.85e+01 1nvvS 481 8.89e+01 a.117.1.1 86279 1wvfA 520 8.91e+01 2afaA 425 8.91e+01 1jq0A 84 8.96e+01 h.3.2.1 71786 2ajfE 180 8.98e+01