# 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 1hq0A 295 5.70e-02 1hzgA d.194.1.1 61122 3cla 213 6.37e-01 3cla c.43.1.1 32610 2ap1A 327 9.05e-01 2b49A 287 9.12e-01 2bkrA 212 9.14e-01 1r6wA 322 1.22e+00 c.1.11.2,d.54.1.1 97165,97166 2dg5B 190 1.33e+00 1q8yA 373 1.59e+00 d.144.1.7 96234 1gw5S 142 1.65e+00 d.110.4.2 70633 1uwzA 136 1.67e+00 c.97.1.1 108081 2g8yA 385 1.72e+00 1ayoA 130 2.32e+00 1ayoA b.2.4.1 22431 1mpxA 615 2.42e+00 b.18.1.13,c.69.1.21 85041,85042 1zxuA 217 2.60e+00 1y74A 57 2.92e+00 1ia9A 280 2.99e+00 1ia9A d.144.1.5 62113 2eu9A 355 3.10e+00 1p90A 145 3.18e+00 c.55.5.2 94377 1zgkA 308 3.26e+00 1pgs 314 3.53e+00 1pgs b.121.1.1,b.121.1.1 23653,23654 1sz2A 332 3.55e+00 1vljA 407 3.71e+00 e.22.1.2 108832 1io1A 398 3.78e+00 1io1A e.32.1.1 62611 1jx4A 352 3.90e+00 d.240.1.1,e.8.1.7 90378,90379 2cayA 145 4.40e+00 2fm8A 135 4.70e+00 1wsrA 375 4.77e+00 1wnaA 131 5.07e+00 2gx9A 129 5.21e+00 2h1tA 188 5.40e+00 1poiB 260 5.95e+00 1poiB c.124.1.3 34155 1o5kA 306 6.06e+00 c.1.10.1 92504 1w9cA 321 6.18e+00 2az4A 429 6.44e+00 1ckaA 57 6.94e+00 1ckaA b.34.2.1 24459 2b7aA 293 7.07e+00 1pme 380 7.15e+00 1hcl d.144.1.7 41653 2cvbA 188 7.28e+00 1nw3A 416 7.30e+00 c.66.1.31 86288 1v4sA 455 7.35e+00 c.55.1.3,c.55.1.3 100309,100310 1qxoA 388 7.68e+00 d.258.1.1 96539 1vl4A 447 7.91e+00 d.283.1.1 108718 1rypA 243 8.89e+00 1pmaA d.153.1.4 41932 1lqaA 346 9.60e+00 c.1.7.1 84674 1ofuX 119 9.87e+00 c.37.1.22 86976 1vrbA 342 1.00e+01 1uheA 97 1.05e+01 1uanA 227 1.07e+01 c.134.1.1 99135 1tfr 305 1.07e+01 1tfr a.60.7.1,c.120.1.2 18081,33351 1euvA 221 1.12e+01 1euvA d.3.1.7 37133 1z2mA 155 1.15e+01 1dc1A 323 1.17e+01 1dc1A c.52.1.11 33321 1k2eA 156 1.17e+01 d.113.1.1 72010 2a10A 125 1.19e+01 2atzA 180 1.24e+01 2beiA 170 1.26e+01 1nriA 306 1.29e+01 c.80.1.3 86123 1on0A 158 1.35e+01 d.108.1.1 87095 1zc6A 305 1.36e+01 1ytqA 204 1.36e+01 1uj0A 62 1.37e+01 b.34.2.1 99449 1xb4A 202 1.41e+01 1c93A 265 1.43e+01 2ebn c.1.8.5 28998 1qopA 268 1.45e+01 2tysA c.1.2.4 28570 1kcqA 104 1.46e+01 d.109.1.1 68449 1j5pA 253 1.47e+01 d.81.1.3,c.2.1.3 71577,83092 1edt 271 1.47e+01 2ebn c.1.8.5 28993 1rlzA 369 1.50e+01 c.31.1.1 104989 3bamA 213 1.52e+01 1bam c.52.1.3 33288 1kfcA 268 1.58e+01 c.1.2.4 77371 1vicA 262 1.62e+01 c.68.1.13 100756 1xd5A 112 1.68e+01 1y88A 199 1.71e+01 1uoyA 64 1.74e+01 g.3.19.1 99709 1hw6A 278 1.76e+01 1frb c.1.7.1 61296 1z6nA 167 1.84e+01 1cq3A 233 1.84e+01 1cq3A b.27.1.1 23923 1svdM 110 1.94e+01 1qz9A 416 1.94e+01 c.67.1.3 96621 1w15A 153 2.00e+01 b.7.1.2 109041 1hqz1 141 2.02e+01 1ne9A 335 2.02e+01 d.108.1.4,d.108.1.4 91839,91840 2g6bA 180 2.02e+01 1z57A 339 2.12e+01 1udxA 416 2.18e+01 b.117.1.1,c.37.1.8,d.242.1.1 99228,99229,99230 1geeA 261 2.20e+01 c.2.1.2 90509 1m2dA 110 2.22e+01 c.47.1.11 78476 5nul 138 2.25e+01 5nul c.23.5.1 31191 1lba 146 2.28e+01 1lba d.118.1.1 41062 1tuaA 191 2.29e+01 d.51.1.1,d.51.1.1 107321,107322 2f51A 118 2.33e+01 1v7pB 128 2.33e+01 d.169.1.1 108407 1n8fA 350 2.35e+01 c.1.10.4 85397 1wdnA 226 2.38e+01 1lst c.94.1.1 35816 1kjkA 64 2.40e+01 d.10.1.4 72613 1u9tA 354 2.41e+01 1spgA 144 2.41e+01 1abwA a.1.1.2 15409 1yw5A 177 2.47e+01 1hywA 68 2.48e+01 1hywA d.186.1.1 61425 2al6A 375 2.49e+01 1lehA 364 2.49e+01 1bw9A c.2.1.7,c.58.1.1 30268,33916 1u7zA 226 2.49e+01 1pi1A 185 2.52e+01 a.29.7.1 94699 1lnsA 763 2.55e+01 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 1e8yA 966 2.55e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 1pbyB 337 2.56e+01 b.69.2.2 94422 1xs0A 136 2.63e+01 1t95A 240 2.71e+01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 2f7tA 227 2.72e+01 1zg2A 107 2.73e+01 1sd4A 126 2.74e+01 a.4.5.39 105428 1x3mA 415 2.76e+01 2bswA 146 2.77e+01 1id1A 153 2.78e+01 1id1A c.2.1.9 62286 1k8kC 372 2.80e+01 b.69.4.1 68308 1cxqA 162 2.81e+01 1cxqA c.55.3.2 33621 1m1hA 248 2.82e+01 b.114.1.1,d.58.42.1 78415,78416 2b5eA 504 2.82e+01 1mqeA 207 2.84e+01 d.113.1.1 91394 2ex3B 264 2.88e+01 2pia 321 2.88e+01 2pia b.43.4.2,c.25.1.2,d.15.4.2 25663,31553,37704 1xngA 268 2.90e+01 2fp4B 395 2.93e+01 1x6oA 174 2.94e+01 b.34.5.2,b.40.4.5 109493,109494 1woqA 267 2.96e+01 c.55.1.10,c.55.1.10 109462,109463 2adzA 178 2.99e+01 1vpjA 192 3.02e+01 1z83A 196 3.05e+01 1n7oA 721 3.08e+01 a.102.3.2,b.24.1.1,b.30.5.2 80259,80260,80261 1ztpA 251 3.14e+01 1gci 269 3.22e+01 1gci c.41.1.1 32503 1yb3A 175 3.23e+01 1xx1A 285 3.24e+01 1oacA 727 3.29e+01 1oacA b.30.2.1,d.17.2.1,d.17.2.1,d.82.1.1 24390,38007,38008,40003 2gtrA 261 3.30e+01 3nul 130 3.31e+01 3nul d.110.1.1 40891 2a6hC 1119 3.31e+01 1uyrA 737 3.32e+01 c.14.1.4,c.14.1.4 100188,100189 1vlaA 150 3.36e+01 d.227.1.2 108735 1ec7A 446 3.38e+01 1bqg c.1.11.2,d.54.1.1 29218,38862 1ad1A 266 3.44e+01 1aj2 c.1.21.1 29668 1zczA 464 3.44e+01 1zdrA 164 3.46e+01 1rz2A 254 3.54e+01 b.100.1.1 105130 1jm1A 204 3.55e+01 b.33.1.1 71745 1z8gA 372 3.59e+01 2alaA 391 3.59e+01 3il8 72 3.60e+01 1tvxA d.9.1.1 37356 2a9sA 171 3.61e+01 1jhgA 101 3.68e+01 1jhgA a.4.12.1 19009 2agaA 190 3.70e+01 1hh1A 143 3.70e+01 1gefA c.52.1.18 61036 1vqoB 338 3.74e+01 1wguA 136 3.84e+01 1qc7A 101 3.87e+01 1qc7A a.118.14.1 18456 1eajA 126 3.90e+01 1f5wA b.1.1.1 59401 1tmy 120 3.91e+01 1dbwA c.23.1.1 31083 1zkrA 153 3.91e+01 1to2E 281 3.91e+01 2biiA 424 3.94e+01 1zxfA 155 3.96e+01 2cn3A 737 3.99e+01 2f62A 161 4.00e+01 1txoA 237 4.05e+01 1knvA 293 4.07e+01 c.52.1.7 68707 1h32A 261 4.07e+01 a.3.1.8,a.3.1.8 76618,76619 1ek9A 428 4.11e+01 1ek9A f.5.1.1 43809 1unqA 125 4.11e+01 b.55.1.1 107968 1p57A 114 4.14e+01 d.170.1.2 94125 1q0pA 223 4.15e+01 c.62.1.1 95507 1u0sY 118 4.17e+01 c.23.1.1 107566 1w2xA 758 4.19e+01 c.14.1.4,c.14.1.4 109134,109135 1aj2 282 4.20e+01 1aj2 c.1.21.1 29665 2ebn 289 4.21e+01 2ebn c.1.8.5 28990 1khdA 345 4.25e+01 a.46.2.1,c.27.1.1 77400,77401 1r7cA 31 4.28e+01 j.35.1.1 104831 1x72A 334 4.31e+01 d.126.1.6 109495 1shfA 59 4.37e+01 1bbzA b.34.2.1 24462 1hruA 188 4.42e+01 1hruA d.115.1.1 40926 1x9mA 698 4.50e+01 1zndA 174 4.52e+01 1s3aA 102 4.59e+01 2al2A 436 4.61e+01 2al1A 436 4.61e+01 1oneA 436 4.66e+01 4enl c.1.11.1,d.54.1.1 29200,38844 1g5cA 170 4.77e+01 1g5cA c.53.2.1 60264 1s3cA 141 4.80e+01 1dyoA 160 4.95e+01 1dyoA b.18.1.7 23771 1g73C 121 4.95e+01 1g3fA g.52.1.1 45375 1ohfA 644 4.99e+01 b.121.4.8 93014 1yarA 233 4.99e+01 2ag4A 164 5.04e+01 1auk 489 5.08e+01 1auk c.76.1.2 35030 1z9zA 60 5.10e+01 1t46A 313 5.17e+01 d.144.1.7 106397 1tbfA 347 5.19e+01 a.211.1.2 106743 1ua4A 455 5.22e+01 c.72.1.3 99128 1ooeA 236 5.29e+01 c.2.1.2 87196 1r31A 428 5.30e+01 d.58.20.1,d.179.1.1 96897,96898 2an3A 289 5.34e+01 1pbwA 216 5.35e+01 1pbwA a.116.1.1 19103 1wosA 364 5.36e+01 b.44.2.1,d.250.1.1 109468,109469 1qy1A 174 5.40e+01 b.60.1.1 96568 1frb 315 5.44e+01 1frb c.1.7.1 28665 1fmtA 314 5.52e+01 1fmtA b.46.1.1,c.65.1.1 25758,34174 1tmxA 293 5.56e+01 1kblA 873 5.56e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1xjdA 345 5.63e+01 1ydgA 211 5.75e+01 1ctt 294 5.77e+01 1ctt c.97.1.1,c.97.1.1 36022,36023 1pch 88 5.77e+01 1ptf d.94.1.1 40564 1q7zA 566 5.84e+01 c.1.21.2,c.1.26.1 96090,96091 1uwmA 106 5.85e+01 1jhsA 188 5.86e+01 d.107.1.1 84172 1gpc 218 5.94e+01 1gpc b.40.4.7 25393 1nb8A 353 5.96e+01 d.3.1.9 80385 2fhzA 109 5.99e+01 1pmnA 364 6.01e+01 d.144.1.7 94907 1nnwA 252 6.06e+01 d.159.1.5 80674 1jfuA 186 6.06e+01 c.47.1.10 62940 1yd0A 96 6.07e+01 1wxxA 382 6.15e+01 1h09A 338 6.16e+01 b.109.1.1,c.1.8.8 83420,83421 1qmvA 197 6.23e+01 1qq2A c.47.1.10 33066 1wa3A 205 6.24e+01 1dkzA 219 6.24e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 1d7uA 433 6.26e+01 2dkb c.67.1.4 34439 1vlgA 176 6.28e+01 a.25.1.1 108816 2f9lA 199 6.34e+01 1rxdA 159 6.42e+01 1u6eA 335 6.43e+01 2dcnA 311 6.44e+01 1ms9A 648 6.48e+01 b.29.1.15,b.68.1.1 85088,85089 1rybA 212 6.52e+01 c.56.3.1 98098 1cs0A 1073 6.54e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18558,31487,31673,31674,41518,41519 1u84A 90 6.55e+01 1xvhA 129 6.58e+01 1vqvA 306 6.60e+01 1xviA 275 6.64e+01 1yloA 348 6.74e+01 2c71A 216 6.84e+01 2fpeA 62 6.85e+01 2cmuA 342 6.85e+01 1zpyA 95 6.90e+01 1euvB 86 6.96e+01 1a5r d.15.1.1 37598 1oihA 301 6.99e+01 b.82.2.5 93051 2bu3A 254 6.99e+01 2djkA 133 7.00e+01 1o2dA 371 7.02e+01 e.22.1.2 86591 1usgA 346 7.08e+01 c.93.1.1 99864 1vjlA 164 7.11e+01 d.257.1.1 100822 1m8uA 173 7.11e+01 b.11.1.1,b.11.1.1 91233,91234 1jhdA 396 7.15e+01 b.122.1.3,c.26.1.5 66712,66713 2a0mA 316 7.17e+01 1e19A 314 7.18e+01 1b7bA c.73.1.1 34967 1zy9A 564 7.19e+01 1p2fA 220 7.24e+01 a.4.6.1,c.23.1.1 87720,87721 1ppjJ 62 7.25e+01 f.23.14.1 104266 2fpoA 202 7.26e+01 1frd 98 7.32e+01 1awd d.15.4.1 37648 1z5yE 149 7.33e+01 1wqwA 235 7.35e+01 1r0rE 274 7.41e+01 c.41.1.1 96735 1sfxA 109 7.41e+01 a.4.5.50 105505 1rjdA 334 7.47e+01 c.66.1.37 97558 2a1kA 233 7.52e+01 2cr9A 139 7.52e+01 1w66A 232 7.55e+01 1wdtA 665 7.57e+01 1gpmA 525 7.59e+01 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1a9xA 1058 7.61e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18550,31479,31657,31658,41502,41503 2a4hA 126 7.63e+01 1b8zA 90 7.66e+01 1huuA a.55.1.1 17902 1o17A 345 7.71e+01 a.46.2.1,c.27.1.1 80765,80766 1oxkB 134 7.75e+01 c.23.1.1 93691 1m8aA 70 7.77e+01 d.9.1.1 74579 1qmeA 702 7.80e+01 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37487,37488,42560,42769 1puoA 170 7.82e+01 a.101.1.1,a.101.1.1 95134,95135 1uv4A 293 7.89e+01 1qlmA 316 7.90e+01 1qlmA d.147.1.1 41765 1tc5A 194 7.93e+01 c.110.1.1 106752 2b0oE 301 7.94e+01 1o1zA 234 7.95e+01 c.1.18.3 86555 2bo9B 222 7.96e+01 1mi3A 322 7.99e+01 c.1.7.1 91274 1whzA 70 8.04e+01 1oc2A 348 8.05e+01 c.2.1.2 92765 1yqtA 538 8.08e+01 1ix9A 205 8.08e+01 a.2.11.1,d.44.1.1 76899,76900 1mqoA 227 8.15e+01 d.157.1.1 103846 1k7kA 221 8.19e+01 c.51.4.1 72104 1azo 232 8.25e+01 1azo c.52.1.14 33329 1a8y 367 8.32e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1twdA 256 8.38e+01 c.1.30.1 107397 2a8jA 420 8.41e+01 1qwdA 177 8.46e+01 b.60.1.1 96471 1qfjA 232 8.51e+01 1qfjA b.43.4.2,c.25.1.1 25655,31545 1e7uA 961 8.51e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 2a2pA 129 8.52e+01 1ep3A 311 8.54e+01 2dorA c.1.4.1 28597 2bjfA 329 8.55e+01 1m2xA 223 8.57e+01 d.157.1.1 84764 1pfvA 551 8.64e+01 a.27.1.1,c.26.1.1,g.41.1.1 94660,94661,94662 1mp8A 281 8.66e+01 d.144.1.7 91384 2abqA 306 8.77e+01 1r5iD 216 8.77e+01 a.202.1.1 97091 1k4mA 213 8.89e+01 c.26.1.3 77258 1cojA 212 8.89e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1eo1A 124 8.93e+01 1eo1A c.55.5.1 33739 1noyA 388 8.97e+01 1clqA c.55.3.5 33713 1tp9A 162 8.99e+01 1dbiA 280 8.99e+01 1gci c.41.1.1 32543