# List of top-scoring protein chains for t04-100-30-dssp-ebghstl-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 1ywfA 296 2.68e-01 1hlvA 131 3.32e-01 a.4.1.7,a.4.1.7 65854,65855 1s69A 124 4.18e-01 a.1.1.1 105305 1sedA 117 1.06e+00 a.219.1.1 105449 1huuA 90 1.24e+00 1huuA a.55.1.1 17897 1whzA 70 1.28e+00 1rkbA 173 1.44e+00 1zljA 78 1.60e+00 1w2yA 229 1.63e+00 a.204.1.1 109140 1s9jA 341 2.04e+00 1pyaB 228 2.18e+00 1pyaB 1b8zA 90 2.30e+00 1huuA a.55.1.1 17902 1a41 234 2.53e+00 1a41 d.163.1.2 42174 1ugjA 141 2.53e+00 b.41.1.3 107826 2bjbA 462 2.75e+00 1ffyA 917 2.99e+00 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 1x3lA 440 3.70e+00 1knvA 293 3.73e+00 c.52.1.7 68707 1y63A 184 3.74e+00 1p7tA 731 3.74e+00 c.1.13.1 94319 1ldg 316 3.84e+00 1ceqA c.2.1.5,d.162.1.1 30165,42132 1d8cA 723 3.91e+00 1d8cA c.1.13.1 29325 1z77A 200 4.45e+00 2cg4A 152 4.64e+00 1aua 296 4.87e+00 1aua a.5.3.1,c.13.1.1 16290,30882 1jf2A 195 4.97e+00 1ej3A a.39.1.5 62930 1qh5A 260 5.20e+00 1qh5A d.157.1.2 42057 1qh3A 260 5.26e+00 1qh5A d.157.1.2 42059 1u20A 212 5.51e+00 1zbsA 291 5.79e+00 1el4A 195 5.85e+00 1ej3A a.39.1.5 59453 1ekeA 230 5.94e+00 1ekeA c.55.3.1 33572 1g5cA 170 6.02e+00 1g5cA c.53.2.1 60264 1l9vA 317 6.03e+00 d.13.2.1,d.216.1.1 73760,73761 1n0wA 243 6.07e+00 c.37.1.11 79772 2cfaA 217 6.41e+00 1keaA 221 6.45e+00 a.96.1.2 68491 2cfxA 144 6.56e+00 2bsjA 133 7.20e+00 1ydnA 295 7.26e+00 1kdgA 546 7.76e+00 c.3.1.2,d.16.1.1 77337,77338 1rtxA 123 7.99e+00 a.1.1.1 97827 1zdc 35 8.12e+00 1fc2C k.13.1.1 46434 1o4sA 389 8.48e+00 c.67.1.1 86620 1t2dA 322 8.51e+00 c.2.1.5,d.162.1.1 99084,99085 2ccmA 191 8.70e+00 1jnrA 643 8.78e+00 a.7.3.1,c.3.1.4,d.168.1.1 66966,66967,66968 1u9lA 70 8.84e+00 a.60.4.2 107751 2fjbA 643 8.85e+00 1t3qA 168 8.98e+00 a.56.1.1,d.15.4.2 106367,106368 1fvkA 189 9.94e+00 1fvkA c.47.1.13 90351 1wovA 250 1.04e+01 1l7vA 326 1.05e+01 f.22.1.1 73672 1v7nV 163 1.05e+01 a.26.1.2 100476 1yz4A 160 1.06e+01 1my6A 199 1.06e+01 a.2.11.1,d.44.1.1 85232,85233 1acvA 189 1.08e+01 1fvkA c.47.1.13 90328 1nktA 922 1.09e+01 a.162.1.1,a.172.1.1,c.37.1.19,c.37.1.19 85830,85831,85832,85833 2fnuA 375 1.10e+01 1u7kA 131 1.18e+01 1l6xB 34 1.18e+01 k.13.1.1 73644 1pb6A 212 1.19e+01 a.4.1.9,a.121.1.1 88017,88018 1i88A 389 1.22e+01 c.95.1.2,c.95.1.2 66070,66071 1jq5A 370 1.31e+01 e.22.1.2 67084 1pgjA 478 1.33e+01 2pgd a.100.1.1,c.2.1.6 18783,30195 1neeA 138 1.36e+01 d.241.1.1,g.59.1.1 91841,91842 1iv3A 152 1.38e+01 d.79.5.1 76828 1bi5A 389 1.38e+01 1bi5A c.95.1.2,c.95.1.2 35985,35986 1ka2A 499 1.40e+01 d.92.1.5 77305 1pufA 77 1.48e+01 a.4.1.1 95131 2fexA 188 1.49e+01 1ta3B 303 1.53e+01 c.1.8.3 106732 5eau 548 1.54e+01 5eat a.102.4.1,a.128.1.3 18851,19443 1v32A 101 1.58e+01 a.42.1.1 100277 1ri5A 298 1.65e+01 c.66.1.34 97502 2fx0A 201 1.66e+01 2fa8A 105 1.69e+01 1q0pA 223 1.75e+01 c.62.1.1 95507 1lxa 262 1.80e+01 1lxa b.81.1.1 28052 1sd4A 126 1.82e+01 a.4.5.39 105428 2a97A 439 1.84e+01 2bshA 125 1.88e+01 1j55A 95 1.91e+01 a.39.1.2 77078 1u3aA 189 1.93e+01 1tca 317 1.96e+01 1tca c.69.1.17 34726 1jt6A 188 1.98e+01 a.4.1.9,a.121.1.1 67247,67248 1oqyA 368 1.98e+01 a.5.2.1,a.5.2.1,a.189.1.1,d.15.1.1 93439,93440,93441,93442 1v96A 149 2.00e+01 1gu9A 177 2.05e+01 a.152.1.1 65540 1h3qA 140 2.12e+01 d.110.4.3 76652 1id0A 152 2.14e+01 d.122.1.3 66111 1lw1A 177 2.15e+01 a.152.1.1 74290 1li5A 461 2.17e+01 a.27.1.1,c.26.1.1 73912,73913 1ve4A 206 2.19e+01 1fnnA 389 2.19e+01 1fnnA a.4.5.11,c.37.1.20 16129,32426 1g99A 408 2.28e+01 1g99A c.55.1.2,c.55.1.2 33457,33458 1je8A 82 2.33e+01 a.4.6.2 77108 3tmkA 216 2.38e+01 3tmkA c.37.1.1 31920 1mdc 133 2.39e+01 1hmt b.60.1.2 27198 5pal 109 2.40e+01 1a75A a.39.1.4 17215 1to2E 281 2.45e+01 1lw6E 281 2.54e+01 c.41.1.1 74293 1d5yA 292 2.56e+01 1d5yA a.4.1.8,a.4.1.8,d.60.1.2 16055,16056,39532 1ka1A 357 2.61e+01 e.7.1.1 68369 1mmiA 366 2.64e+01 d.131.1.1,d.131.1.1,d.131.1.1 91309,91310,91311 1ri7A 171 2.71e+01 a.4.5.32,d.58.4.2 97504,97505 1zv1A 65 2.72e+01 1sup 275 2.75e+01 1gci c.41.1.1 32510 1qgxA 357 2.81e+01 1qgxA e.7.1.1 42973 1fjlA 81 2.91e+01 2hddA a.4.1.1 16017 1dciA 275 2.92e+01 1dciA c.14.1.3 30918 2polA 366 2.92e+01 2polA d.131.1.1,d.131.1.1,d.131.1.1 41356,41357,41358 1li5B 461 2.92e+01 a.27.1.1,c.26.1.1 73914,73915 1wy9A 147 2.92e+01 1pmzA 86 2.93e+01 a.39.1.10 104195 1x42A 232 2.95e+01 1ukxA 137 3.01e+01 d.20.1.3 107919 2au5A 139 3.02e+01 1ci4A 89 3.05e+01 1qckA a.60.5.1 17970 1p49A 562 3.12e+01 c.76.1.2 94089 1ok7A 366 3.14e+01 d.131.1.1,d.131.1.1,d.131.1.1 103992,103993,103994 1nrvA 105 3.22e+01 d.93.1.1 86126 1f7uA 607 3.23e+01 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 59673,59674,59675 1kutA 230 3.24e+01 d.143.1.1 73017 1uz5A 402 3.26e+01 b.85.6.1,b.103.1.1,c.57.1.2 100217,100218,100219 1tkeA 224 3.29e+01 2cmd 312 3.33e+01 2cmd c.2.1.5,d.162.1.1 30135,42102 1kf6D 119 3.37e+01 f.21.2.2 72400 1ji8A 111 3.38e+01 d.203.1.1 66733 1pveA 72 3.42e+01 a.189.1.1 104322 2c30A 321 3.45e+01 1io2A 213 3.49e+01 1ekeA c.55.3.1 62612 1wkaA 147 3.51e+01 1adjA 421 3.52e+01 1adjA c.51.1.1,d.104.1.1 33188,40737 1e2gA 215 3.61e+01 3tmkA c.37.1.1 59165 2gaiA 633 3.63e+01 1h4vB 421 3.63e+01 1adjA c.51.1.1,d.104.1.1 60624,60625 1pjjA 271 3.63e+01 a.156.1.2,b.113.1.1,g.39.1.8 104164,104165,104166 1nn5A 215 3.72e+01 c.37.1.1 85892 1nnjA 271 3.79e+01 a.156.1.2,b.113.1.1,g.39.1.8 80669,80670,80671 1wy5A 317 3.85e+01 1a04A 215 3.97e+01 1a04A a.4.6.2,c.23.1.1 16234,31089 2gfnA 209 4.00e+01 1bed 181 4.00e+01 1fvkA c.47.1.13 90330 2vhbA 146 4.07e+01 2vhbA a.1.1.2 15629 1tdzA 272 4.09e+01 a.156.1.2,b.113.1.1,g.39.1.8 106787,106788,106789 1fc3A 120 4.09e+01 1fc3A a.4.6.3 16237 1p5hA 428 4.09e+01 c.123.1.1 87802 1mla 309 4.11e+01 1mla c.19.1.1,d.58.23.1 31031,39383 1dpgA 485 4.15e+01 1dpgA c.2.1.3,d.81.1.5 30074,39989 1a8b 318 4.16e+01 1avc a.65.1.1 18171 1ukz 203 4.17e+01 1zin c.37.1.1 31840 1woyA 500 4.18e+01 1i7nA 309 4.18e+01 c.30.1.5,d.142.1.3 83681,83682 1pzgA 331 4.20e+01 c.2.1.5,d.162.1.1 95425,95426 1cs1A 386 4.21e+01 1ibjA c.67.1.3 34399 1y01A 102 4.25e+01 1u14A 172 4.25e+01 c.51.4.3 107579 1k8uA 90 4.26e+01 a.39.1.2 72181 1v3yA 192 4.33e+01 2adcA 229 4.37e+01 1o65A 246 4.38e+01 b.58.1.2 92544 1kp8A 547 4.44e+01 a.129.1.1,c.8.5.1,d.56.1.1 84414,84415,84416 1f1eA 154 4.46e+01 a.22.1.2 64927 1yl31 118 4.46e+01 1hm6A 346 4.50e+01 1avc a.65.1.1 18147 1yxmA 303 4.57e+01 1hqsA 423 4.58e+01 1iso c.77.1.1 61154 1cojA 212 4.61e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1s5jA 847 4.61e+01 1cjgA 62 4.68e+01 1pru a.35.1.5 17112 1tgrA 52 4.68e+01 1l8nA 679 4.73e+01 c.1.8.10,d.92.2.2 84564,84565 2bnkA 67 4.73e+01 1vj7A 393 4.77e+01 a.211.1.1,d.218.1.8 100801,100802 1lm5A 214 4.82e+01 d.211.2.1 74029 2c5rA 67 4.89e+01 1mswD 883 4.93e+01 e.8.1.3 79427 1ct9A 553 4.94e+01 1ct9A c.26.2.1,d.153.1.1 31616,41834 1res 43 4.95e+01 1ret a.4.1.2 16023 1vydA 116 4.96e+01 a.3.1.1 108900 1vjxA 157 4.97e+01 a.25.1.1 100837 2g7gA 213 5.05e+01 1bqbA 301 5.06e+01 1hyt d.92.1.2 58962 1t1jA 125 5.11e+01 c.137.1.1 106249 1tv8A 340 5.24e+01 c.1.28.3 107352 1c3wA 222 5.25e+01 1c3wA f.13.1.1 43405 2g8lA 299 5.25e+01 1wzdA 215 5.31e+01 1pb1A 416 5.32e+01 c.77.1.1 88014 1y88A 199 5.34e+01 1jd1A 129 5.38e+01 1qu9A d.79.1.1 62890 1o0uA 429 5.40e+01 c.118.1.1 80743 1yh2A 175 5.41e+01 1v2yA 105 5.41e+01 d.15.1.1 100275 1t0gA 109 5.43e+01 d.120.1.2 99063 1y89A 238 5.44e+01 2cchB 260 5.45e+01 1rybA 212 5.47e+01 c.56.3.1 98098 1zuhA 168 5.60e+01 1oaoA 674 5.61e+01 e.26.1.2 86744 1v4sA 455 5.62e+01 c.55.1.3,c.55.1.3 100309,100310 1oz9A 150 5.69e+01 d.92.1.15 93808 1gv3A 248 5.70e+01 a.2.11.1,d.44.1.1 70585,70586 1phnB 172 5.72e+01 1qgwC a.1.1.3 15642 2a8aA 439 5.77e+01 2ahyA 110 5.78e+01 2h0uA 217 5.79e+01 1tuoA 464 5.80e+01 1ui5A 215 5.90e+01 a.4.1.9,a.121.1.1 107856,107857 1m3kA 392 5.98e+01 c.95.1.1,c.95.1.1 78565,78566 2ran 316 5.98e+01 1avc a.65.1.1 18170 2gvkA 317 6.02e+01 1vh4A 435 6.10e+01 b.80.6.1 100640 1sfxA 109 6.21e+01 a.4.5.50 105505 1xk7A 408 6.22e+01 1xa3A 437 6.24e+01 1rlzA 369 6.24e+01 c.31.1.1 104989 1so2A 420 6.25e+01 a.211.1.2 98936 1w0dA 337 6.25e+01 2bmjA 178 6.28e+01 1vdlA 80 6.29e+01 a.5.2.1 108528 1hkkA 364 6.33e+01 c.1.8.5,d.26.3.1 90634,90635 1wb0A 445 6.38e+01 1iso 416 6.58e+01 1iso c.77.1.1 35065 1o6zA 303 6.59e+01 c.2.1.5,d.162.1.1 81107,81108 1j1vA 94 6.60e+01 a.4.12.2 83981 1pufB 73 6.60e+01 a.4.1.1 95132 2a25A 193 6.62e+01 1tg7A 971 6.62e+01 2b3oA 532 6.67e+01 1r5jA 337 6.67e+01 c.77.1.5 97097 2gh1A 301 6.74e+01 1rfmA 344 6.81e+01 c.122.1.1 97385 1yzbA 182 6.83e+01 2hddA 61 6.85e+01 2hddA a.4.1.1 15971 1e54A 332 6.85e+01 1e54A f.4.3.1 59258 2fgqX 332 6.87e+01 2aeuA 374 6.87e+01 1eexB 224 6.98e+01 1dioB c.51.3.1 33213 1zmoA 244 6.99e+01 1cpcA 162 6.99e+01 1cpcA a.1.1.3 15643 1c52 131 7.00e+01 1c52 a.3.1.1 15810 1hruA 188 7.02e+01 1hruA d.115.1.1 40926 1vkeA 133 7.03e+01 a.152.1.2 108650 1bg4 302 7.06e+01 1taxA c.1.8.3 28806 1oyiA 82 7.07e+01 a.4.5.19 93729 1e9lA 377 7.10e+01 1e9lA c.1.8.5,d.26.3.1 59395,59396 1qc7A 101 7.13e+01 1qc7A a.118.14.1 18456 1khyA 148 7.15e+01 a.174.1.1 77410 1eudB 396 7.23e+01 2scuB c.23.4.1,d.142.1.4 31150,41571 1b5l 172 7.25e+01 1b5l a.26.1.3 16900 2cunA 410 7.26e+01 1no4A 97 7.28e+01 h.1.24.1 85918 2bjcA 62 7.37e+01 1m1nA 491 7.42e+01 c.92.2.3 78417 1e2fA 215 7.44e+01 3tmkA c.37.1.1 59164 1vf8A 377 7.50e+01 2h21A 440 7.55e+01 2fp4B 395 7.57e+01 1xikA 375 7.57e+01 1xikA a.25.1.2 16784 1yemA 179 7.65e+01 1enh 54 7.67e+01 2hddA a.4.1.1 15973 2fw2A 260 7.70e+01 1o6uA 403 7.74e+01 a.5.3.1,b.132.1.1,c.13.1.1 92589,92590,92591 1z2iA 358 7.77e+01 1pa2A 306 7.86e+01 1bgp a.93.1.1 18693 1m0kA 262 7.92e+01 f.13.1.1 78344 1ow1A 195 7.93e+01 b.131.1.3 93625 1zdzA 302 7.97e+01 1zd0A 150 7.99e+01 2ga1A 106 8.06e+01 1xx1A 285 8.06e+01 1qflA 389 8.10e+01 1afwA c.95.1.1,c.95.1.1 35908,35909 1y8oA 419 8.15e+01 1ax4A 467 8.19e+01 1ax4A c.67.1.2 34391 3thiA 371 8.23e+01 2thiA c.94.1.1 35792 1x9mA 698 8.26e+01 1m4tA 392 8.31e+01 c.95.1.1,c.95.1.1 78617,78618 1dhs 344 8.35e+01 1dhs c.31.1.1 31727 2b8nA 429 8.37e+01 1u0jA 267 8.50e+01 c.37.1.20 107546 1deeG 54 8.54e+01 1fc2C a.8.1.1 16343 1rx0A 393 8.57e+01 a.29.3.1,e.6.1.1 98007,98008 1n1fA 159 8.74e+01 a.26.1.3 79803 1olmA 403 8.74e+01 a.5.3.1,b.132.1.1,c.13.1.1 104008,104009,104010 1ewqA 765 8.79e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 1lmzA 187 8.85e+01 a.96.1.4 74037 2f1lA 187 8.92e+01 2bhoA 130 8.98e+01