# List of top-scoring protein chains for T0344.t2k-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 6.39e-01 1yuwA 554 1.26e+00 1nge 386 1.53e+00 1ba1 c.55.1.1,c.55.1.1 33409,33410 1ngc 386 1.58e+00 1ba1 c.55.1.1,c.55.1.1 33411,33412 1ngd 386 1.72e+00 1ba1 c.55.1.1,c.55.1.1 33417,33418 1ba0 386 1.74e+00 1ba1 c.55.1.1,c.55.1.1 33397,33398 1kay 381 1.97e+00 1ba1 c.55.1.1,c.55.1.1 33385,33386 1kax 381 1.97e+00 1ba1 c.55.1.1,c.55.1.1 33389,33390 1kaz 381 1.97e+00 1ba1 c.55.1.1,c.55.1.1 33383,33384 1ngg 386 1.98e+00 1ba1 c.55.1.1,c.55.1.1 33415,33416 1bupA 386 1.98e+00 1ba1 c.55.1.1,c.55.1.1 33377,33378 1ngh 386 1.98e+00 1ba1 c.55.1.1,c.55.1.1 33413,33414 1hpm 386 1.98e+00 1ba1 c.55.1.1,c.55.1.1 33381,33382 1ba1 386 1.99e+00 1ba1 c.55.1.1,c.55.1.1 33387,33388 2bupA 381 1.99e+00 1ba1 c.55.1.1,c.55.1.1 33379,33380 1hx1A 400 2.02e+00 1ba1 c.55.1.1,c.55.1.1 61348,61349 1ngf 386 2.03e+00 1ba1 c.55.1.1,c.55.1.1 33405,33406 1ats 386 2.61e+00 1ba1 c.55.1.1,c.55.1.1 33423,33424 2cwlA 302 2.75e+00 1atr 386 3.01e+00 1ba1 c.55.1.1,c.55.1.1 33421,33422 1ngb 386 3.81e+00 1ba1 c.55.1.1,c.55.1.1 33401,33402 1ehyA 294 4.10e+00 1ehyA c.69.1.11 34693 1qqmA 378 4.34e+00 1ba1 c.55.1.1,c.55.1.1 33391,33392 1qqnA 378 4.51e+00 1ba1 c.55.1.1,c.55.1.1 33393,33394 1nga 386 4.65e+00 1ba1 c.55.1.1,c.55.1.1 33407,33408 1nxmA 197 5.99e+00 b.82.1.1 86385 1wxlA 73 6.81e+00 2b9bA 497 9.23e+00 1qqoA 378 1.30e+01 1ba1 c.55.1.1,c.55.1.1 33395,33396 1lk3L 210 1.42e+01 b.1.1.1,b.1.1.2 73956,73957 2eueA 275 1.49e+01 1fn4A 211 1.59e+01 b.1.1.1,b.1.1.2 59884,59885 1fobA 334 1.68e+01 c.1.8.3 83255 1c5dA 213 1.72e+01 8fabA b.1.1.1,b.1.1.2 20414,21386 2fh9A 274 1.75e+01 2b7oA 464 1.80e+01 2cqnA 77 1.83e+01 1ru8A 232 1.89e+01 c.26.2.1 97849 1hq2A 158 2.02e+01 d.58.30.1 83620 1bfoA 214 2.20e+01 8fabA b.1.1.1,b.1.1.2 20310,21302 1hjoA 380 2.34e+01 1ba1 c.55.1.1,c.55.1.1 33425,33426 1s3xA 382 2.35e+01 c.55.1.1,c.55.1.1 98467,98468 2briA 225 2.80e+01 2bmuA 226 2.82e+01 1dcuA 357 2.91e+01 1frpA e.7.1.1 42943 2brxA 244 2.94e+01 2arjA 211 3.20e+01 1ydwA 362 3.35e+01 1tmmA 158 3.54e+01 1zanL 214 3.64e+01 1yp2A 451 3.66e+01 1vmoA 163 3.87e+01 1vmoA b.77.1.1 27974 1jf8A 131 3.88e+01 c.44.1.1 66621 1ljuA 131 3.97e+01 c.44.1.1 73944 1ljlA 131 3.97e+01 c.44.1.1 73939 1f9yA 158 4.03e+01 d.58.30.1 83249 1h2hA 241 4.06e+01 d.81.1.3,c.2.1.3 70861,83058 1rxiA 131 4.07e+01 c.44.1.1 105116 1g0vA 329 4.17e+01 1smrA b.50.1.2 60189 1j5pA 253 4.18e+01 d.81.1.3,c.2.1.3 71577,83092 1ykiA 217 4.22e+01 1fmtA 314 4.27e+01 1fmtA b.46.1.1,c.65.1.1 25758,34174 2jxrA 329 4.49e+01 1smrA b.50.1.2 26831 1dpjA 329 4.49e+01 1smrA b.50.1.2 26828 1gw0A 559 4.50e+01 b.6.1.3,b.6.1.3,b.6.1.3 70623,70624,70625 2b91A 129 4.55e+01 1mb3A 124 4.72e+01 c.23.1.1 78907 1f9hA 158 4.79e+01 d.58.30.1 83248 1x0mA 403 4.95e+01 1yq3C 141 4.97e+01 1p5jA 372 5.03e+01 c.79.1.1 104067 1dbzA 357 5.08e+01 1frpA e.7.1.1 42951 2c9yA 242 5.10e+01 1lk0A 131 5.21e+01 c.44.1.1 73948 2b99A 156 5.24e+01 1ak2 233 5.35e+01 1zin c.37.1.1,g.41.2.1 31894,45195 1ur1A 378 5.43e+01 c.1.8.3 99804 1e6vC 258 5.44e+01 1mroC d.58.31.1 39439 1a0qL 212 5.61e+01 8fabA b.1.1.1,b.1.1.2 20286,21278 2fp8A 322 5.64e+01 2b8xA 129 5.67e+01 2fpbA 322 5.73e+01 2b8yA 129 5.87e+01 1ldbA 317 6.00e+01 1ldnA 316 6.03e+01 1hyhA c.2.1.5,d.162.1.1 30166,42133 2gboA 104 6.12e+01 1yhwA 297 6.23e+01 1dbyA 107 6.28e+01 1thx c.47.1.1 32734 1wd5A 208 6.29e+01 1mfeL 215 6.52e+01 1mfa b.1.1.1,b.1.1.2 19892,20986 1c1eL 216 6.65e+01 8fabA b.1.1.1,b.1.1.2 20238,21250 1o8vA 134 6.74e+01 b.60.1.2 86680 1jmxB 349 6.86e+01 b.69.2.2 66906 1ntyA 311 6.92e+01 a.87.1.1,b.55.1.1 103873,103874 1mnuL 219 7.04e+01 8fabA b.1.1.1,b.1.1.2 20358,21350 1f4yL 210 7.06e+01 8fabA b.1.1.1,b.1.1.2 20454,21418 1igjA 219 7.08e+01 8fabA b.1.1.1,b.1.1.2 19818,20928 1qrvA 73 7.13e+01 1cktA a.21.1.1 16425 1e7jA 74 7.13e+01 a.21.1.1 59344 1jn6A 210 7.14e+01 b.1.1.1,b.1.1.2 66923,66924 1u0sY 118 7.16e+01 c.23.1.1 107566 1jnhA 212 7.17e+01 b.1.1.1,b.1.1.2 66939,66940 1tmy 120 7.17e+01 1dbwA c.23.1.1 31083 1zvmA 256 7.17e+01 1yh3A 256 7.18e+01 1dbbL 216 7.19e+01 8fabA b.1.1.1,b.1.1.2 19798,20908 1f4xL 210 7.20e+01 8fabA b.1.1.1,b.1.1.2 20450,21414 1t6kA 278 7.37e+01 1otsD 211 7.39e+01 b.1.1.1,b.1.1.2 87419,87420 1u1wA 298 7.44e+01 1y7lA 316 7.47e+01 1i7nA 309 7.48e+01 c.30.1.5,d.142.1.3 83681,83682 1gigL 210 7.53e+01 1mfa b.1.1.1,b.1.1.2 19910,21004 1sm3L 215 7.54e+01 8fabA b.1.1.1,b.1.1.2 20368,21360 1a04A 215 7.58e+01 1a04A a.4.6.2,c.23.1.1 16234,31089 1ngqL 215 7.61e+01 1mfa b.1.1.1,b.1.1.2 20092,21124 2fpqA 444 7.77e+01 1svfB 38 7.83e+01 1svfB h.3.2.1 45764 1syxB 86 7.84e+01 1q0xL 212 7.92e+01 b.1.1.1,b.1.1.2 95519,95520 1yavA 159 8.11e+01 1cr9L 219 8.21e+01 8fabA b.1.1.1,b.1.1.2 20430,21400 1etzA 215 8.25e+01 8fabA b.1.1.1,b.1.1.2 20480,21444 1xqsC 191 8.28e+01 1yuhA 211 8.31e+01 1mfa b.1.1.1,b.1.1.2 20098,21130 1cloL 213 8.49e+01 8fabA b.1.1.1,b.1.1.2 20122,21152 1nj9A 212 8.57e+01 b.1.1.1,b.1.1.2 91897,91898 1il1B 219 8.57e+01 32c2A b.1.1.1,b.1.1.2 62541,62542 1indL 215 8.60e+01 1mfa b.1.1.1,b.1.1.2 19838,20942 2djjA 121 8.65e+01 2ffcA 353 8.70e+01 1gyfA 62 8.74e+01 1gyfA d.76.1.1 39749 1z3gL 213 8.74e+01 1lldA 319 8.87e+01 3ldh c.2.1.5,d.162.1.1 30177,42144 1eo8L 210 8.91e+01 8fabA b.1.1.1,b.1.1.2 20294,21286 1bqlL 212 8.91e+01 8fabA b.1.1.1,b.1.1.2 19970,21028 1yqvL 211 8.94e+01 1xubA 298 8.95e+01 1kenL 213 8.96e+01 b.1.1.1,b.1.1.2 72381,72382 1nc2A 215 8.99e+01 b.1.1.1,b.1.1.2 91781,91782 1mreL 219 9.00e+01 8fabA b.1.1.1,b.1.1.2 20018,21072