# List of top-scoring protein chains for T0344.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 2frnA 278 6.54e-01 1yuwA 554 9.46e-01 1nge 386 1.09e+00 1ba1 c.55.1.1,c.55.1.1 33409,33410 1ngc 386 1.17e+00 1ba1 c.55.1.1,c.55.1.1 33411,33412 1ngd 386 1.28e+00 1ba1 c.55.1.1,c.55.1.1 33417,33418 1ba0 386 1.31e+00 1ba1 c.55.1.1,c.55.1.1 33397,33398 1kaz 381 1.44e+00 1ba1 c.55.1.1,c.55.1.1 33383,33384 1kax 381 1.44e+00 1ba1 c.55.1.1,c.55.1.1 33389,33390 1ngg 386 1.44e+00 1ba1 c.55.1.1,c.55.1.1 33415,33416 1kay 381 1.44e+00 1ba1 c.55.1.1,c.55.1.1 33385,33386 1hpm 386 1.44e+00 1ba1 c.55.1.1,c.55.1.1 33381,33382 1bupA 386 1.44e+00 1ba1 c.55.1.1,c.55.1.1 33377,33378 1ngh 386 1.44e+00 1ba1 c.55.1.1,c.55.1.1 33413,33414 1ba1 386 1.45e+00 1ba1 c.55.1.1,c.55.1.1 33387,33388 2bupA 381 1.46e+00 1ba1 c.55.1.1,c.55.1.1 33379,33380 1ngf 386 1.47e+00 1ba1 c.55.1.1,c.55.1.1 33405,33406 1hx1A 400 1.48e+00 1ba1 c.55.1.1,c.55.1.1 61348,61349 1ats 386 1.88e+00 1ba1 c.55.1.1,c.55.1.1 33423,33424 2cwlA 302 2.18e+00 1atr 386 2.28e+00 1ba1 c.55.1.1,c.55.1.1 33421,33422 1ngb 386 2.87e+00 1ba1 c.55.1.1,c.55.1.1 33401,33402 1qqmA 378 3.28e+00 1ba1 c.55.1.1,c.55.1.1 33391,33392 1ehyA 294 3.42e+00 1ehyA c.69.1.11 34693 1nga 386 3.53e+00 1ba1 c.55.1.1,c.55.1.1 33407,33408 1qqnA 378 3.57e+00 1ba1 c.55.1.1,c.55.1.1 33393,33394 1wxlA 73 5.73e+00 1nxmA 197 6.75e+00 b.82.1.1 86385 2b9bA 497 8.63e+00 1qqoA 378 1.06e+01 1ba1 c.55.1.1,c.55.1.1 33395,33396 1lk3L 210 1.21e+01 b.1.1.1,b.1.1.2 73956,73957 1fn4A 211 1.34e+01 b.1.1.1,b.1.1.2 59884,59885 1c5dA 213 1.48e+01 8fabA b.1.1.1,b.1.1.2 20414,21386 1fobA 334 1.49e+01 c.1.8.3 83255 2cqnA 77 1.63e+01 2b7oA 464 1.65e+01 2eueA 275 1.72e+01 1ru8A 232 1.75e+01 c.26.2.1 97849 1hq2A 158 1.76e+01 d.58.30.1 83620 1bfoA 214 1.91e+01 8fabA b.1.1.1,b.1.1.2 20310,21302 1hjoA 380 1.98e+01 1ba1 c.55.1.1,c.55.1.1 33425,33426 1s3xA 382 1.99e+01 c.55.1.1,c.55.1.1 98467,98468 2fh9A 274 2.04e+01 1gw0A 559 2.10e+01 b.6.1.3,b.6.1.3,b.6.1.3 70623,70624,70625 2briA 225 2.57e+01 2bmuA 226 2.59e+01 2brxA 244 2.70e+01 1ydwA 362 2.70e+01 2arjA 211 2.81e+01 1yp2A 451 3.10e+01 1tmmA 158 3.16e+01 1dcuA 357 3.22e+01 1frpA e.7.1.1 42943 1zanL 214 3.25e+01 1vmoA 163 3.29e+01 1vmoA b.77.1.1 27974 1x0mA 403 3.38e+01 1jf8A 131 3.45e+01 c.44.1.1 66621 1ljuA 131 3.52e+01 c.44.1.1 73944 1ljlA 131 3.52e+01 c.44.1.1 73939 1rxiA 131 3.59e+01 c.44.1.1 105116 1f9yA 158 3.61e+01 d.58.30.1 83249 1h2hA 241 3.79e+01 d.81.1.3,c.2.1.3 70861,83058 1j5pA 253 3.90e+01 d.81.1.3,c.2.1.3 71577,83092 1yhwA 297 3.99e+01 1ykiA 217 3.99e+01 1fmtA 314 4.00e+01 1fmtA b.46.1.1,c.65.1.1 25758,34174 1g0vA 329 4.03e+01 1smrA b.50.1.2 60189 2jxrA 329 4.13e+01 1smrA b.50.1.2 26831 1dpjA 329 4.13e+01 1smrA b.50.1.2 26828 2b91A 129 4.14e+01 1p5jA 372 4.31e+01 c.79.1.1 104067 1mb3A 124 4.32e+01 c.23.1.1 78907 1f9hA 158 4.32e+01 d.58.30.1 83248 1yq3C 141 4.44e+01 1lk0A 131 4.61e+01 c.44.1.1 73948 2b99A 156 4.74e+01 1e6vC 258 4.86e+01 1mroC d.58.31.1 39439 1ur1A 378 5.11e+01 c.1.8.3 99804 1a0qL 212 5.13e+01 8fabA b.1.1.1,b.1.1.2 20286,21278 2b8xA 129 5.27e+01 2gboA 104 5.41e+01 1ldbA 317 5.42e+01 2b8yA 129 5.44e+01 1ldnA 316 5.44e+01 1hyhA c.2.1.5,d.162.1.1 30166,42133 1dbzA 357 5.56e+01 1frpA e.7.1.1 42951 2c9yA 242 5.57e+01 1mfeL 215 5.73e+01 1mfa b.1.1.1,b.1.1.2 19892,20986 1dbyA 107 5.76e+01 1thx c.47.1.1 32734 1ak2 233 5.90e+01 1zin c.37.1.1,g.41.2.1 31894,45195 1jn6A 210 6.05e+01 b.1.1.1,b.1.1.2 66923,66924 1jnhA 212 6.07e+01 b.1.1.1,b.1.1.2 66939,66940 1te0A 318 6.08e+01 1wd5A 208 6.08e+01 1f4yL 210 6.29e+01 8fabA b.1.1.1,b.1.1.2 20454,21418 1f4xL 210 6.41e+01 8fabA b.1.1.1,b.1.1.2 20450,21414 1c1eL 216 6.41e+01 8fabA b.1.1.1,b.1.1.2 20238,21250 1ntyA 311 6.47e+01 a.87.1.1,b.55.1.1 103873,103874 1mnuL 219 6.51e+01 8fabA b.1.1.1,b.1.1.2 20358,21350 1y7lA 316 6.51e+01 1gigL 210 6.51e+01 1mfa b.1.1.1,b.1.1.2 19910,21004 1sm3L 215 6.53e+01 8fabA b.1.1.1,b.1.1.2 20368,21360 1u2eA 289 6.54e+01 1igjA 219 6.56e+01 8fabA b.1.1.1,b.1.1.2 19818,20928 1ngqL 215 6.60e+01 1mfa b.1.1.1,b.1.1.2 20092,21124 1dbbL 216 6.65e+01 8fabA b.1.1.1,b.1.1.2 19798,20908 1e7jA 74 6.66e+01 a.21.1.1 59344 1qrvA 73 6.67e+01 1cktA a.21.1.1 16425 1u0sY 118 6.76e+01 c.23.1.1 107566 1tmy 120 6.80e+01 1dbwA c.23.1.1 31083 1q0xL 212 6.83e+01 b.1.1.1,b.1.1.2 95519,95520 1zvmA 256 6.84e+01 1yh3A 256 6.84e+01 1otsD 211 6.88e+01 b.1.1.1,b.1.1.2 87419,87420 1i7nA 309 6.93e+01 c.30.1.5,d.142.1.3 83681,83682 1a04A 215 7.07e+01 1a04A a.4.6.2,c.23.1.1 16234,31089 1etzA 215 7.09e+01 8fabA b.1.1.1,b.1.1.2 20480,21444 1o8vA 134 7.10e+01 b.60.1.2 86680 2bhsA 303 7.15e+01 1yuhA 211 7.19e+01 1mfa b.1.1.1,b.1.1.2 20098,21130 1svfB 38 7.29e+01 1svfB h.3.2.1 45764 1xqsC 191 7.43e+01 1nj9A 212 7.51e+01 b.1.1.1,b.1.1.2 91897,91898 1t6kA 278 7.51e+01 1indL 215 7.55e+01 1mfa b.1.1.1,b.1.1.2 19838,20942 1yavA 159 7.57e+01 1u1wA 298 7.59e+01 1nc2A 215 7.60e+01 b.1.1.1,b.1.1.2 91781,91782 2fpqA 444 7.61e+01 1cr9L 219 7.70e+01 8fabA b.1.1.1,b.1.1.2 20430,21400 1olzA 663 7.78e+01 b.1.1.4,b.69.12.1,g.16.2.1 93341,93342,93343 1cloL 213 7.89e+01 8fabA b.1.1.1,b.1.1.2 20122,21152 1il1B 219 8.02e+01 32c2A b.1.1.1,b.1.1.2 62541,62542 1sozA 314 8.04e+01 b.36.1.4,b.47.1.1 105859,105860 1sotA 320 8.04e+01 b.36.1.4,b.47.1.1 105852,105853 2fp8A 322 8.05e+01 1z3gL 213 8.10e+01 1mroC 247 8.11e+01 1mroC d.58.31.1 39437 2fpbA 322 8.13e+01 1hbnC 248 8.15e+01 1mroC d.58.31.1 60902 1eo8L 210 8.29e+01 8fabA b.1.1.1,b.1.1.2 20294,21286 1mreL 219 8.31e+01 8fabA b.1.1.1,b.1.1.2 20018,21072 1bqlL 212 8.34e+01 8fabA b.1.1.1,b.1.1.2 19970,21028 1kenL 213 8.35e+01 b.1.1.1,b.1.1.2 72381,72382 1jmxB 349 8.35e+01 b.69.2.2 66906 1l4iA 206 8.37e+01 b.1.11.1,b.7.2.1 73564,73565 1yqvL 211 8.38e+01 1hyxL 216 8.44e+01 8fabA b.1.1.1,b.1.1.2 20166,21190 1pz5A 215 8.47e+01 b.1.1.1,b.1.1.2 95401,95402 1pj5A 830 8.51e+01 b.44.2.1,c.3.1.2,d.16.1.5,d.250.1.1 94742,94743,94744,94745 1bafL 214 8.51e+01 8fabA b.1.1.1,b.1.1.2 19778,20888 1wstA 417 8.64e+01 2djjA 121 8.68e+01 1lldA 319 8.72e+01 3ldh c.2.1.5,d.162.1.1 30177,42144 1e7qA 321 8.77e+01 1bsvA c.2.1.2 29807 2fo1D 85 8.79e+01 1q9rA 219 8.82e+01 b.1.1.1,b.1.1.2 96305,96306 1u9lA 70 8.87e+01 a.60.4.2 107751 1e7sA 321 8.98e+01 1bsvA c.2.1.2 29806