# List of top-scoring protein chains for t04-100-30-stride-ebghtl-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 1w2yA 229 5.88e-01 a.204.1.1 109140 1hlvA 131 6.87e-01 a.4.1.7,a.4.1.7 65854,65855 1huuA 90 6.90e-01 1huuA a.55.1.1 17897 1s69A 124 9.50e-01 a.1.1.1 105305 1rkbA 173 1.57e+00 1x3lA 440 1.80e+00 1ywfA 296 1.85e+00 1b8zA 90 2.66e+00 1huuA a.55.1.1 17902 2cfaA 217 2.83e+00 1z77A 200 2.86e+00 1rtxA 123 2.87e+00 a.1.1.1 97827 1ekeA 230 3.00e+00 1ekeA c.55.3.1 33572 1ugjA 141 3.60e+00 b.41.1.3 107826 1a41 234 4.17e+00 1a41 d.163.1.2 42174 1y63A 184 4.45e+00 1p7tA 731 4.53e+00 c.1.13.1 94319 1bi5A 389 4.64e+00 1bi5A c.95.1.2,c.95.1.2 35985,35986 2gfnA 209 4.71e+00 1d8cA 723 4.75e+00 1d8cA c.1.13.1 29325 1keaA 221 5.14e+00 a.96.1.2 68491 1sedA 117 5.58e+00 a.219.1.1 105449 2fx0A 201 6.01e+00 1zljA 78 6.06e+00 2cfxA 144 6.27e+00 2cg4A 152 7.10e+00 1g5cA 170 7.15e+00 1g5cA c.53.2.1 60264 1whzA 70 7.36e+00 1qh3A 260 7.97e+00 1qh5A d.157.1.2 42059 1qh5A 260 8.02e+00 1qh5A d.157.1.2 42057 2bjbA 462 8.60e+00 1ldg 316 8.63e+00 1ceqA c.2.1.5,d.162.1.1 30165,42132 1lxa 262 9.10e+00 1lxa b.81.1.1 28052 1ydnA 295 9.24e+00 2a97A 439 9.32e+00 1t2dA 322 9.35e+00 c.2.1.5,d.162.1.1 99084,99085 1jf2A 195 1.09e+01 1ej3A a.39.1.5 62930 1aua 296 1.13e+01 1aua a.5.3.1,c.13.1.1 16290,30882 1pb6A 212 1.15e+01 a.4.1.9,a.121.1.1 88017,88018 1g99A 408 1.16e+01 1g99A c.55.1.2,c.55.1.2 33457,33458 2c30A 321 1.18e+01 1el4A 195 1.20e+01 1ej3A a.39.1.5 59453 1s9jA 341 1.21e+01 2guhA 214 1.32e+01 1ffyA 917 1.34e+01 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 1iw0A 215 1.39e+01 a.132.1.1 83720 1wovA 250 1.46e+01 1kdgA 546 1.50e+01 c.3.1.2,d.16.1.1 77337,77338 1wzdA 215 1.50e+01 5eau 548 1.52e+01 5eat a.102.4.1,a.128.1.3 18851,19443 2fnuA 375 1.53e+01 2ccmA 191 1.64e+01 1tgrA 52 1.69e+01 1zbsA 291 1.85e+01 1knvA 293 1.86e+01 c.52.1.7 68707 1tca 317 1.87e+01 1tca c.69.1.17 34726 1l9vA 317 1.88e+01 d.13.2.1,d.216.1.1 73760,73761 1zdc 35 1.90e+01 1fc2C k.13.1.1 46434 1l6xB 34 1.91e+01 k.13.1.1 73644 1neeA 138 1.99e+01 d.241.1.1,g.59.1.1 91841,91842 2b3oA 532 1.99e+01 1sd4A 126 2.06e+01 a.4.5.39 105428 1pgjA 478 2.09e+01 2pgd a.100.1.1,c.2.1.6 18783,30195 1nnwA 252 2.14e+01 d.159.1.5 80674 1ukz 203 2.17e+01 1zin c.37.1.1 31840 1ta3B 303 2.20e+01 c.1.8.3 106732 1io2A 213 2.23e+01 1ekeA c.55.3.1 62612 1u20A 212 2.23e+01 1n0wA 243 2.26e+01 c.37.1.11 79772 1i88A 389 2.29e+01 c.95.1.2,c.95.1.2 66070,66071 1f3mC 297 2.30e+01 1hcl d.144.1.7 41677 1dciA 275 2.33e+01 1dciA c.14.1.3 30918 1ui5A 215 2.36e+01 a.4.1.9,a.121.1.1 107856,107857 1pyaB 228 2.40e+01 1pyaB 1t3qA 168 2.45e+01 a.56.1.1,d.15.4.2 106367,106368 1fvkA 189 2.47e+01 1fvkA c.47.1.13 90351 1acvA 189 2.49e+01 1fvkA c.47.1.13 90328 1zuhA 168 2.52e+01 2a8aA 439 2.60e+01 1v7nV 163 2.61e+01 a.26.1.2 100476 1vi0A 206 2.64e+01 a.4.1.9,a.121.1.1 100720,100721 1mswD 883 2.69e+01 e.8.1.3 79427 1mmiA 366 2.77e+01 d.131.1.1,d.131.1.1,d.131.1.1 91309,91310,91311 1o4sA 389 2.77e+01 c.67.1.1 86620 1j55A 95 2.83e+01 a.39.1.2 77078 1u3aA 189 2.88e+01 1my6A 199 2.90e+01 a.2.11.1,d.44.1.1 85232,85233 1fc3A 120 2.90e+01 1fc3A a.4.6.3 16237 1d8bA 81 2.91e+01 1d8bA a.60.8.1 18094 1e2gA 215 2.94e+01 3tmkA c.37.1.1 59165 1nn5A 215 2.97e+01 c.37.1.1 85892 2fjbA 643 2.97e+01 1jnrA 643 2.98e+01 a.7.3.1,c.3.1.4,d.168.1.1 66966,66967,66968 3tmkA 216 3.04e+01 3tmkA c.37.1.1 31920 1rktA 205 3.08e+01 a.4.1.9,a.121.1.1 97623,97624 1pufA 77 3.20e+01 a.4.1.1 95131 1mla 309 3.21e+01 1mla c.19.1.1,d.58.23.1 31031,39383 1cqxA 403 3.55e+01 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 1e2fA 215 3.67e+01 3tmkA c.37.1.1 59164 1iv3A 152 3.68e+01 d.79.5.1 76828 1pveA 72 3.71e+01 a.189.1.1 104322 2f4mB 61 3.79e+01 1dhs 344 3.81e+01 1dhs c.31.1.1 31727 1nktA 922 3.81e+01 a.162.1.1,a.172.1.1,c.37.1.19,c.37.1.19 85830,85831,85832,85833 1o0uA 429 3.91e+01 c.118.1.1 80743 1t0gA 109 4.07e+01 d.120.1.2 99063 1gu9A 177 4.09e+01 a.152.1.1 65540 1fjlA 81 4.11e+01 2hddA a.4.1.1 16017 1pmzA 86 4.12e+01 a.39.1.10 104195 1l7vA 326 4.18e+01 f.22.1.1 73672 1oqyA 368 4.19e+01 a.5.2.1,a.5.2.1,a.189.1.1,d.15.1.1 93439,93440,93441,93442 1vrmA 325 4.22e+01 1y01A 102 4.24e+01 1ri7A 171 4.27e+01 a.4.5.32,d.58.4.2 97504,97505 1ow1A 195 4.42e+01 b.131.1.3 93625 1jqlB 140 4.47e+01 c.37.1.20 63234 1sfxA 109 4.52e+01 a.4.5.50 105505 1uz5A 402 4.57e+01 b.85.6.1,b.103.1.1,c.57.1.2 100217,100218,100219 1lw1A 177 4.60e+01 a.152.1.1 74290 1woyA 500 4.61e+01 1cjgA 62 4.71e+01 1pru a.35.1.5 17112 1p5hA 428 4.74e+01 c.123.1.1 87802 2dafA 118 4.81e+01 1u7kA 131 4.82e+01 2b8nA 429 4.89e+01 1zdzA 302 4.90e+01 1rlzA 369 5.01e+01 c.31.1.1 104989 1u9lA 70 5.03e+01 a.60.4.2 107751 1l8nA 679 5.03e+01 c.1.8.10,d.92.2.2 84564,84565 1x42A 232 5.04e+01 2fexA 188 5.26e+01 1a8h 500 5.30e+01 1a8h a.27.1.1,c.26.1.1 16922,31589 2aeuA 374 5.48e+01 1f7uA 607 5.63e+01 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 59673,59674,59675 1dlyA 164 5.66e+01 1dlyA a.1.1.1 14983 1sw5B 275 5.74e+01 c.94.1.1 106070 1ci4A 89 5.76e+01 1qckA a.60.5.1 17970 2bjcA 62 5.90e+01 2vhbA 146 5.90e+01 2vhbA a.1.1.2 15629 1c3wA 222 5.92e+01 1c3wA f.13.1.1 43405 1c52 131 5.93e+01 1c52 a.3.1.1 15810 2fokA 579 6.20e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16131,16132,16133,33323 1cojA 212 6.23e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1je8A 82 6.28e+01 a.4.6.2 77108 1phnB 172 6.32e+01 1qgwC a.1.1.3 15642 2bnkA 67 6.36e+01 1t1jA 125 6.38e+01 c.137.1.1 106249 2bvaA 292 6.41e+01 1res 43 6.47e+01 1ret a.4.1.2 16023 1w0bA 102 6.50e+01 a.7.11.1 108985 1wy9A 147 6.56e+01 1vjxA 157 6.59e+01 a.25.1.1 100837 1gv3A 248 6.61e+01 a.2.11.1,d.44.1.1 70585,70586 1y89A 238 6.62e+01 1ewqA 765 6.62e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 1deeG 54 6.68e+01 1fc2C a.8.1.1 16343 1z8uA 102 6.80e+01 1iz0A 302 6.91e+01 b.35.1.2,c.2.1.1 83821,83822 1fcjA 322 6.97e+01 1oasA c.79.1.1 35289 1wy5A 317 6.98e+01 2fa8A 105 6.99e+01 2aaa 484 7.09e+01 7taa b.71.1.1,c.1.8.1 27777,28764 1p49A 562 7.12e+01 c.76.1.2 94089 1v3yA 192 7.12e+01 1tv8A 340 7.19e+01 c.1.28.3 107352 1u14A 172 7.19e+01 c.51.4.3 107579 5pal 109 7.20e+01 1a75A a.39.1.4 17215 1pb1A 416 7.28e+01 c.77.1.1 88014 1yhvA 297 7.29e+01 1qgxA 357 7.43e+01 1qgxA e.7.1.1 42973 1nzjA 298 7.43e+01 c.26.1.1 92377 1sw5A 275 7.43e+01 c.94.1.1 106069 1ka1A 357 7.43e+01 e.7.1.1 68369 1yl31 118 7.75e+01 1b8gA 429 7.80e+01 1b8gA c.67.1.4 34499 1nrvA 105 7.81e+01 d.93.1.1 86126 2c7nA 74 7.88e+01 1yzxA 226 7.88e+01 1k8uA 90 7.90e+01 a.39.1.2 72181 1w0hA 204 7.95e+01 1a04A 215 7.98e+01 1a04A a.4.6.2,c.23.1.1 16234,31089 1sqiA 393 7.99e+01 d.32.1.3,d.32.1.3 105914,105915 1qflA 389 7.99e+01 1afwA c.95.1.1,c.95.1.1 35908,35909 1wh5A 80 8.00e+01 1ri5A 298 8.09e+01 c.66.1.34 97502 1adjA 421 8.11e+01 1adjA c.51.1.1,d.104.1.1 33188,40737 1oaoA 674 8.11e+01 e.26.1.2 86744 1so2A 420 8.11e+01 a.211.1.2 98936 1u0mA 382 8.13e+01 c.95.1.2,c.95.1.2 107557,107558 1ji8A 111 8.16e+01 d.203.1.1 66733 1h4vB 421 8.19e+01 1adjA c.51.1.1,d.104.1.1 60624,60625 2cmd 312 8.22e+01 2cmd c.2.1.5,d.162.1.1 30135,42102 1wudA 89 8.24e+01 1tg7A 971 8.36e+01 2ran 316 8.41e+01 1avc a.65.1.1 18170 2g8lA 299 8.50e+01 1kp8A 547 8.50e+01 a.129.1.1,c.8.5.1,d.56.1.1 84414,84415,84416 1a8b 318 8.53e+01 1avc a.65.1.1 18171 1n1fA 159 8.57e+01 a.26.1.3 79803 1r1tA 122 8.68e+01 a.4.5.5 104769 1qlnA 883 8.70e+01 1cezA e.8.1.3 43111 2bsjA 133 8.75e+01 1wkuA 254 8.77e+01 1jt6A 188 8.77e+01 a.4.1.9,a.121.1.1 67247,67248 1q0pA 223 8.79e+01 c.62.1.1 95507 1pa2A 306 8.80e+01 1bgp a.93.1.1 18693 1kutA 230 8.82e+01 d.143.1.1 73017 2g7gA 213 8.88e+01 2fifB 70 8.92e+01