# List of top-scoring protein chains for t2k-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 1jt8A 102 6.75e-01 b.40.4.5 63279 1mjc 69 9.99e-01 1mjc b.40.4.5 25319 1wkaA 147 2.29e+00 1ro7A 259 2.50e+00 c.130.1.1 97667 1gaxA 862 2.58e+00 1gaxA b.51.1.1,c.26.1.1,a.2.7.3,a.27.1.1 26893,31595,75842,75843 1csp 67 2.80e+00 1mjc b.40.4.5 25321 1mwmA 320 3.44e+00 c.55.1.1,c.55.1.1 79580,79581 1vhsA 175 3.90e+00 d.108.1.1 100698 1c9oA 66 4.39e+00 1mjc b.40.4.5 25325 3mefA 69 4.42e+00 1mjc b.40.4.5 25320 1wjnA 97 4.51e+00 1vjvA 415 5.44e+00 d.3.1.9 108632 1xn5A 146 5.89e+00 1lshA 1056 7.06e+00 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 2ff4A 388 7.85e+00 1c8gA 548 9.85e+00 2cas b.121.5.2 23380 1vbkA 307 1.12e+01 1ndoA 449 1.13e+01 1ndoA b.33.1.2,d.129.3.3 24444,41323 1eg9A 449 1.14e+01 1ndoA b.33.1.2,d.129.3.3 24443,41322 1o7nA 449 1.14e+01 b.33.1.2,d.129.3.3 81162,81163 1l1oC 181 1.26e+01 b.40.4.3 73480 1mqdA 261 1.31e+01 c.94.1.1 85049 1wwzA 159 1.38e+01 1e79H 146 1.43e+01 1e79H a.2.10.1,b.93.1.1 15721,28438 1yu6A 275 1.45e+01 1avt 274 1.46e+01 1gci c.41.1.1 32488 1r0rE 274 1.47e+01 c.41.1.1 96735 1m5dA 263 1.47e+01 c.94.1.1 78641 1h95A 79 1.47e+01 b.40.4.5 65742 1mqiA 263 1.48e+01 c.94.1.1 91398 1ev7B 317 1.53e+01 1ev7B c.52.1.9 33316 1svb 395 1.54e+01 1svb b.1.18.4,f.10.1.1 21814,43827 1aw9 216 1.60e+01 1gnwA a.45.1.1,c.47.1.5 17736,33030 1v30A 124 1.60e+01 1bf2 750 1.60e+01 1bf2 b.1.18.2,b.71.1.1,c.1.8.1 21860,27787,28774 1vjlA 164 1.62e+01 d.257.1.1 100822 1u69A 163 1.73e+01 d.32.1.7 107699 2fdiA 211 1.73e+01 2fpeA 62 1.75e+01 1sqhA 312 1.75e+01 d.108.1.5 98966 1vr9A 213 1.77e+01 2bbvA 363 1.92e+01 2bbvA b.121.4.4 23323 1f1sA 814 1.93e+01 a.102.3.2,b.1.18.2,b.24.1.1,b.30.5.2 64928,64929,64930,64931 1pmt 203 1.94e+01 1a0fA a.45.1.1,c.47.1.5 17740,33034 1ev7A 317 2.09e+01 1ev7B c.52.1.9 33315 2dg5A 366 2.17e+01 1qu0A 191 2.21e+01 1dykA b.29.1.4 24225 2bbvC 363 2.26e+01 2bbvA b.121.4.4 23325 1iawA 317 2.26e+01 c.52.1.9 62126 1dkuA 317 2.28e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 2fsrA 195 2.31e+01 1vdwA 254 2.50e+01 e.7.1.1 100569 1zkoA 136 2.53e+01 1m5eA 263 2.58e+01 c.94.1.1 78642 1kcqA 104 2.64e+01 d.109.1.1 68449 1gr2A 279 2.64e+01 1gr2A c.94.1.1 35825 2bf6A 449 2.64e+01 12e8H 221 2.69e+01 1igtB b.1.1.1,b.1.1.2 20269,21269 2cas 548 2.70e+01 2cas b.121.5.2 23376 1a8q 274 2.73e+01 1brt c.69.1.12 34702 1jqpA 438 2.76e+01 b.61.5.1,d.3.1.1 77162,77163 1h8eH 146 2.77e+01 1e79H b.93.1.1 60757 1yr1A 119 2.91e+01 1a2q 275 2.94e+01 1gci c.41.1.1 32512 1qdlA 422 2.97e+01 1qdlA d.161.1.1 42088 1sup 275 3.09e+01 1gci c.41.1.1 32510 1lw6E 281 3.09e+01 c.41.1.1 74293 1to2E 281 3.10e+01 1u2xA 474 3.14e+01 c.72.1.3 107622 1wruA 379 3.16e+01 1ak2 233 3.24e+01 1zin c.37.1.1,g.41.2.1 31894,45195 2bcoA 350 3.24e+01 1yhtA 367 3.43e+01 1n7oA 721 3.54e+01 a.102.3.2,b.24.1.1,b.30.5.2 80259,80260,80261 1op4A 159 3.55e+01 b.1.6.1 93397 1a4iB 301 3.60e+01 1a4iA c.2.1.7,c.58.1.2 30279,33927 1ee6A 197 3.66e+01 1ee6A b.80.1.1 28024 1eu3A 210 3.76e+01 1an8 b.40.2.2,d.15.6.1 25206,37795 2f4qA 346 3.78e+01 1h0cA 392 3.79e+01 c.67.1.3 83424 1dkrA 317 3.80e+01 1dkuA c.61.1.2,c.61.1.2 34114,34115 1koe 172 3.82e+01 1koe d.169.1.5 42448 1o6aA 96 3.85e+01 b.139.1.1 92562 2bmoA 447 3.88e+01 2mcm 112 3.93e+01 2mcm b.1.7.1 22207 1v88A 130 4.00e+01 b.55.1.1 108423 1sz7A 200 4.05e+01 1ts3A 194 4.08e+01 1aw7A b.40.2.2,d.15.6.1 25168,37757 1eguA 731 4.10e+01 1eguA a.102.3.2,b.24.1.1,b.30.5.2 18850,23899,24423 1gkpA 458 4.10e+01 b.92.1.3,c.1.9.6 70231,70232 1lxkA 721 4.11e+01 a.102.3.2,b.24.1.1,b.30.5.2 74331,74332,74333 1pc0A 61 4.16e+01 b.137.1.1 94426 1mr1C 99 4.17e+01 d.217.1.2 79420 1br2A 791 4.20e+01 1lvk b.34.3.1,c.37.1.9 24558,32155 1dykA 394 4.20e+01 1dykA b.29.1.4,b.29.1.4 24223,24224 1cseE 274 4.22e+01 1gci c.41.1.1 32481 1mfn 185 4.29e+01 1qr4B b.1.2.1,b.1.2.1 21984,21985 1mb4A 370 4.30e+01 c.2.1.3,d.81.1.1 78908,78909 1ijaA 148 4.45e+01 1ijaA b.100.1.1 62484 1ojxA 263 4.65e+01 c.1.10.1 93164 1cd1A 315 4.67e+01 1cd1A b.1.1.2,d.19.1.1 21579,38155 1iq0A 592 4.72e+01 a.27.1.1,c.26.1.1,d.67.2.1 66257,66258,66259 1ue1A 164 4.79e+01 b.40.4.3 99243 1q38A 89 4.85e+01 b.1.2.1 95663 1w8sA 263 4.86e+01 1t2wA 145 4.86e+01 b.100.1.1 106289 1ahk 129 4.89e+01 1a9v b.1.18.7 21945 1aw7A 194 4.97e+01 1aw7A b.40.2.2,d.15.6.1 25164,37753 1txqA 93 4.97e+01 1vplA 256 4.98e+01 1gj7B 253 4.99e+01 1c5yB 253 5.00e+01 5ptp 1k3bA 119 5.00e+01 b.61.5.1 72016 1moq 368 5.16e+01 1moq c.80.1.1 35302 1ak9 275 5.18e+01 1gci c.41.1.1 32517 1aqn 275 5.20e+01 1gci c.41.1.1 32514 2b1xA 470 5.26e+01 1afvH 220 5.39e+01 1mfa b.1.1.1,b.1.1.2 20131,21161 1eb0A 147 5.46e+01 b.107.1.1,d.58.38.1 64890,64891 1uliA 460 5.56e+01 b.33.1.2,d.129.3.3 107921,107922 1va0A 239 5.56e+01 1fnhA 271 5.58e+01 1fnhA b.1.2.1,b.1.2.1,b.1.2.1 21976,21977,21978 1ibsA 317 5.60e+01 c.61.1.2,c.61.1.2 66107,66108 1s9aA 257 5.68e+01 b.3.6.1 105379 1cdwA 179 5.70e+01 1ytbA d.129.1.1,d.129.1.1 41212,41213 1q6hA 224 5.71e+01 d.26.1.1 95975 1jbuH 254 5.77e+01 5ptp b.47.1.2 62856 1q6uA 245 5.82e+01 d.26.1.1 95998 1o54A 277 5.82e+01 c.66.1.13 92482 1jroA 462 5.83e+01 a.56.1.1,d.15.4.2,d.87.2.1,d.145.1.3 67137,67138,67139,67140 2bs9A 503 5.85e+01 2bfgA 503 5.91e+01 1w66A 232 5.94e+01 1nnxA 109 6.01e+01 b.40.10.1 92013 1ah9 71 6.01e+01 1ah9 b.40.4.5 25330 2rspB 124 6.10e+01 2rspB b.50.1.1 26772 1c9fA 90 6.11e+01 1c9fA d.15.2.1 37639 3ssi 113 6.19e+01 3ssi d.84.1.1 40032 1tdhA 364 6.27e+01 a.156.1.2,b.113.1.1,g.39.1.8 106772,106773,106774 1i8kA 107 6.31e+01 b.1.1.1 71130 2fbwA 621 6.32e+01 1j9qA 341 6.39e+01 1nif b.6.1.3,b.6.1.3 62765,62766 1snrA 341 6.44e+01 b.6.1.3,b.6.1.3 105823,105824 1a0lA 244 6.50e+01 5ptp b.47.1.2 26286 1ua4A 455 6.50e+01 c.72.1.3 99128 1pm4A 119 6.64e+01 b.135.1.1 94891 2bg9A 370 6.72e+01 1ytbB 180 6.77e+01 1ytbA d.129.1.1,d.129.1.1 41278,41279 1qfmA 710 6.81e+01 1qfmA b.69.7.1,c.69.1.4 27673,34641 1y9zA 441 6.90e+01 1v6cA 441 6.91e+01 2d1pC 95 6.92e+01 1c9bB 180 7.00e+01 1ytbA d.129.1.1,d.129.1.1 41216,41217 1ytbA 180 7.10e+01 1ytbA d.129.1.1,d.129.1.1 41276,41277 1ymiA 334 7.12e+01 1tbaB 180 7.25e+01 1ytbA d.129.1.1,d.129.1.1 41286,41287 1b7dA 61 7.32e+01 1aho g.3.7.1 44139 1cdb 105 7.33e+01 1qa9A b.1.1.1 19744 1eaiC 61 7.39e+01 1eaiC g.22.1.1 44894 1dkgB 197 7.41e+01 1dkgA b.73.1.1,h.1.9.1 27813,45627 1nekA 588 7.43e+01 a.7.3.1,c.3.1.4,d.168.1.1 80426,80427,80428 1as6A 343 7.48e+01 1nif b.6.1.3,b.6.1.3 23090,23091 1cm9A 74 7.49e+01 1b3aA d.9.1.1 37405 2ai4A 119 7.49e+01 1as8A 343 7.51e+01 1nif b.6.1.3,b.6.1.3 23074,23075 1h2wA 710 7.68e+01 b.69.7.1,c.69.1.4 76596,76597 1a8y 367 7.73e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1ng5A 215 7.77e+01 b.100.1.1 91867 1cur 155 7.83e+01 1rcy b.6.1.1 23021 1e1dA 553 7.87e+01 1e1dA e.26.1.1 43363 1gntA 553 7.88e+01 e.26.1.1 70290 1nr4A 71 7.89e+01 d.9.1.1 92077 1e2uA 553 7.89e+01 1e1dA e.26.1.1 43362 1lp4A 332 7.92e+01 d.144.1.7 74170 1h2xA 710 7.94e+01 b.69.7.1,c.69.1.4 76598,76599 1g7tA 594 7.97e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25714,25715,31033,32148 1rcy 151 7.97e+01 1rcy b.6.1.1 23018 1qwzA 235 7.98e+01 b.100.1.1 96510 1zejA 293 8.00e+01 1jb7B 260 8.15e+01 1otcB b.40.4.3 62839 1yqtA 538 8.18e+01 3sicI 107 8.26e+01 3ssi d.84.1.1 40028 487dH 224 8.31e+01 1ad2 i.1.1.2 45835 1bxwA 172 8.31e+01 1bxwA f.4.1.1 43743 1gv3A 248 8.33e+01 a.2.11.1,d.44.1.1 70585,70586 1autC 250 8.38e+01 5ptp b.47.1.2 26348 1ri9A 102 8.39e+01 b.34.2.1 97506 1r4xA 275 8.48e+01 b.1.10.3,d.105.1.2 97054,97055 1crl 534 8.49e+01 1thg c.69.1.17 34765 1t8hA 277 8.52e+01 d.194.1.2 106664 3dapA 320 8.56e+01 1dapA c.2.1.3,d.81.1.3 30051,39966 1vp6A 138 8.69e+01 1g7rA 594 8.83e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25716,25717,31034,32149 1vc3B 97 8.84e+01 1gci 269 8.93e+01 1gci c.41.1.1 32503 2scuB 388 8.95e+01 2scuB c.23.4.1,d.142.1.4 31141,41562 1khoA 370 8.98e+01 a.124.1.1,b.12.1.3 72489,72490