# List of top-scoring protein chains for T0325.t06-w0.5 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 1m61A 259 6.28e-01 d.93.1.1,d.93.1.1 90398,90399 2ah5A 210 8.37e-01 1lluA 342 1.30e+00 b.35.1.2,c.2.1.1 91064,91065 1ffyA 917 1.81e+00 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 1e6yA 569 2.04e+00 1mroA a.89.1.1,d.58.31.2 18529,39447 1a81A 254 3.82e+00 1a81A d.93.1.1,d.93.1.1 40507,40508 1xzpB 150 3.88e+00 1xzqB 149 3.97e+00 1j7xA 302 4.25e+00 c.14.1.2 66425 1oafA 261 4.54e+00 a.93.1.1 86734 12asA 330 5.40e+00 12asA d.104.1.1 40783 1q9jA 422 7.33e+00 c.43.1.2,c.43.1.2 104590,104591 1w0hA 204 7.82e+00 1v4tA 451 7.89e+00 c.55.1.3,c.55.1.3 100311,100312 1v4sA 455 7.93e+00 c.55.1.3,c.55.1.3 100309,100310 1cnt1 187 8.13e+00 1cnt3 3tatA 397 1.07e+01 1ajsA c.67.1.1 34379 1ngr 85 1.10e+01 1ngr a.77.1.2 18422 1en7A 157 1.10e+01 1en7A a.140.4.1,d.4.1.5 64733,64734 1vp5A 298 1.12e+01 1e7lA 157 1.14e+01 1en7A a.140.4.1,d.4.1.5 64728,64729 2f4pA 147 1.29e+01 1sm9A 322 1.29e+01 1z9aA 321 1.31e+01 1mi3A 322 1.31e+01 c.1.7.1 91274 2f1sA 186 1.31e+01 1ye6A 322 1.33e+01 1wd5A 208 1.36e+01 2bs3B 239 1.37e+01 1mroA 548 1.50e+01 1mroA a.89.1.1,d.58.31.2 18525,39443 1hbnA 549 1.50e+01 1mroA a.89.1.1,d.58.31.2 60898,60899 1r38A 322 1.57e+01 1e6vA 553 1.74e+01 1mroA a.89.1.1,d.58.31.2 18527,39445 1q4kA 259 1.75e+01 d.223.1.2,d.223.1.2 95797,95798 1yc5A 246 1.80e+01 1x42A 232 1.87e+01 1w56A 337 1.88e+01 2bbrA 195 1.93e+01 2bbzA 249 1.94e+01 1imjA 210 1.94e+01 c.69.1.23 71246 1umwA 237 1.99e+01 d.223.1.2,d.223.1.2 99631,99632 1vl4A 447 2.18e+01 d.283.1.1 108718 1vf1A 229 2.19e+01 2a8yA 270 2.25e+01 1w5oA 337 2.38e+01 1v6tA 255 2.39e+01 1t0hA 132 2.48e+01 b.34.2.1 106207 1dy2A 180 2.50e+01 1koe d.169.1.5 42451 2alr 324 2.77e+01 1frb c.1.7.1 28679 1ku1A 230 2.82e+01 a.118.3.1 72996 1ubpB 122 2.83e+01 1ubpB b.85.3.1 28346 4ubpB 126 2.83e+01 1ubpB b.85.3.1 28345 1b35A 260 2.88e+01 1b35A b.121.4.1 23333 1l9vA 317 2.90e+01 d.13.2.1,d.216.1.1 73760,73761 1ry8A 323 2.91e+01 1vm7A 311 2.99e+01 c.72.1.1 108884 1s1pA 331 2.99e+01 c.1.7.1 98350 1pk0A 507 3.01e+01 e.41.1.1 94795 1qwkA 317 3.06e+01 c.1.7.1 96482 1k8tA 510 3.07e+01 e.41.1.1 68316 1zc0A 309 3.10e+01 1iayA 428 3.16e+01 1b8gA c.67.1.4 62130 1q7fA 286 3.37e+01 b.68.9.1 96036 1p8lA 304 3.42e+01 b.40.4.6,d.142.2.1 94363,94364 1s2oA 244 3.44e+01 1vlmA 219 3.50e+01 c.66.1.41 108836 1w5mA 337 3.75e+01 1zeeA 403 3.86e+01 1k6mA 432 3.91e+01 c.37.1.7,c.60.1.4 77275,77276 1w5nA 337 4.01e+01 1td2A 287 4.03e+01 c.72.1.5 106765 2gp0A 309 4.18e+01 1n11A 437 4.22e+01 d.211.1.1 79778 1vi9A 299 4.23e+01 c.72.1.5 100750 2ao0A 324 4.23e+01 1ws6A 171 4.31e+01 1knxA 312 4.46e+01 c.98.2.1,c.91.1.2 77459,77460 1cwn 324 4.48e+01 1frb c.1.7.1 28686 1ae4 325 4.50e+01 1frb c.1.7.1 28689 1hqtA 326 4.65e+01 1frb c.1.7.1 61156 1g2oA 268 4.68e+01 1b8oA c.56.2.1 60228 1m65A 245 4.71e+01 c.6.3.1 84847 1gzgA 337 4.72e+01 c.1.10.3 70805 1g7oA 215 4.72e+01 1g7oA a.45.1.1,c.47.1.5 60332,60333 1tj7A 457 4.73e+01 1j8fA 323 4.95e+01 1j8fA c.31.1.5 62738 1wr2A 238 5.07e+01 2g3mA 693 5.10e+01 1apxA 249 5.14e+01 1ryc a.93.1.1 18669 1r75A 141 5.16e+01 b.134.1.1 97189 1chuA 540 5.17e+01 1chuA a.7.3.1,c.3.1.4,d.168.1.1 16325,30424,42307 1knrA 540 5.18e+01 a.7.3.1,c.3.1.4,d.168.1.1 72788,72789,72790 1bgp 309 5.22e+01 1bgp a.93.1.1 18690 2madH 373 5.23e+01 2bbkH b.69.2.1 27639 1gq1A 567 5.33e+01 a.3.1.2,b.70.2.1 76264,76265 1hj5A 567 5.35e+01 1qksA a.3.1.2,b.70.2.1 15927,27684 1b4kA 337 5.37e+01 1b4kA c.1.10.3 29184 1mrqA 323 5.48e+01 c.1.7.1 91445 1deqB 408 5.50e+01 i.9.1.1 45991 2amxA 376 5.57e+01 2ffiA 288 5.60e+01 1ukcA 522 5.62e+01 c.69.1.17 107911 1e2rA 567 5.62e+01 1qksA a.3.1.2,b.70.2.1 15953,27712 1qksA 567 5.65e+01 1qksA a.3.1.2,b.70.2.1 15951,27710 1h2bA 359 5.91e+01 b.35.1.2,c.2.1.1 90543,90544 1m5xA 170 5.92e+01 d.95.2.1 84844 1s06A 429 5.99e+01 c.67.1.4 98255 1z3aA 168 6.18e+01 2d7uA 339 6.25e+01 2ae8A 221 6.32e+01 1wzuA 300 6.33e+01 1mdoA 393 6.40e+01 c.67.1.4 79013 2tpt 440 6.48e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17759,31623,38621 1v70A 105 6.49e+01 1dtyA 429 6.73e+01 1dtyA c.67.1.4 34495 1nffA 260 6.74e+01 c.2.1.2 80457 1nvtA 287 6.77e+01 c.2.1.7,c.58.1.5 86270,86271 1w54A 337 6.94e+01 1tyyA 339 7.09e+01 1mgvA 429 7.16e+01 c.67.1.4 79107 1s08A 429 7.20e+01 c.67.1.4 98259 1il2A 590 7.25e+01 b.40.4.1,d.74.4.1,d.104.1.1 66193,66194,66195 1c0aA 585 7.28e+01 1c0aA b.40.4.1,d.74.4.1,d.104.1.1 25246,39731,40767 2ewrA 170 7.36e+01 1vixA 420 7.37e+01 c.56.5.4,d.58.19.1 100777,100778 1dy1A 188 7.39e+01 1koe d.169.1.5 42450 1xi6A 262 7.40e+01 2fclA 169 7.51e+01 1lfkA 398 7.55e+01 a.104.1.1 77926 1km6A 247 7.55e+01 c.1.2.3 72742 1u1zA 168 7.67e+01 d.38.1.6 107602 1zbdB 134 7.68e+01 1zbdB g.50.1.1 45359 1s09A 429 7.71e+01 c.67.1.4 98261 1koe 172 7.75e+01 1koe d.169.1.5 42448 1uocA 289 7.81e+01 c.55.3.9 99686 1xm8A 254 7.81e+01 1xhbA 472 7.86e+01 1indH 226 7.87e+01 1igtB b.1.1.1,b.1.1.2 19839,20943 1ig8A 486 7.90e+01 2yhx c.55.1.3,c.55.1.3 64746,64747 1qj5A 429 7.91e+01 1dtyA c.67.1.4 34493 1s0aA 429 7.98e+01 c.67.1.4 98263 1hxaA 548 8.04e+01 a.102.4.1,a.128.1.3 83641,83642 1km4A 247 8.15e+01 c.1.2.3 72740 1cjxA 357 8.23e+01 1cjxA d.32.1.3,d.32.1.3 38516,38517 1km0A 247 8.29e+01 c.1.2.3 72732 2g8yA 385 8.29e+01 5eau 548 8.46e+01 5eat a.102.4.1,a.128.1.3 18851,19443 1hskA 326 8.49e+01 2mbr d.145.1.2,d.146.1.1 61241,61242 1s07A 429 8.66e+01 c.67.1.4 98257 1bxxA 285 8.77e+01 1bw8A b.2.7.1 22483 1ub1A 133 8.80e+01 d.10.1.3 99140 5eat 548 8.82e+01 5eat a.102.4.1,a.128.1.3 18853,19445 1lci 550 8.84e+01 1lci e.23.1.1 43349 1j96A 323 8.85e+01 c.1.7.1 71616 1ihiA 323 8.87e+01 c.1.7.1 66142 1xjbA 325 8.95e+01 1pv8A 330 8.97e+01 c.1.10.3 95155 1loqA 228 9.00e+01 c.1.2.3 74155