# List of top-scoring protein chains for T0344.t04-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 1ehyA 294 2.94e+00 1ehyA c.69.1.11 34693 1nge 386 2.95e+00 1ba1 c.55.1.1,c.55.1.1 33409,33410 1yuwA 554 2.99e+00 1ngc 386 3.47e+00 1ba1 c.55.1.1,c.55.1.1 33411,33412 1ngd 386 3.65e+00 1ba1 c.55.1.1,c.55.1.1 33417,33418 1ba0 386 3.78e+00 1ba1 c.55.1.1,c.55.1.1 33397,33398 1ngf 386 3.78e+00 1ba1 c.55.1.1,c.55.1.1 33405,33406 1kaz 381 3.86e+00 1ba1 c.55.1.1,c.55.1.1 33383,33384 1kay 381 3.87e+00 1ba1 c.55.1.1,c.55.1.1 33385,33386 1kax 381 3.87e+00 1ba1 c.55.1.1,c.55.1.1 33389,33390 1ngg 386 3.88e+00 1ba1 c.55.1.1,c.55.1.1 33415,33416 1ngh 386 3.88e+00 1ba1 c.55.1.1,c.55.1.1 33413,33414 1hpm 386 3.88e+00 1ba1 c.55.1.1,c.55.1.1 33381,33382 1bupA 386 3.89e+00 1ba1 c.55.1.1,c.55.1.1 33377,33378 1ba1 386 3.89e+00 1ba1 c.55.1.1,c.55.1.1 33387,33388 2bupA 381 3.91e+00 1ba1 c.55.1.1,c.55.1.1 33379,33380 1hx1A 400 3.93e+00 1ba1 c.55.1.1,c.55.1.1 61348,61349 1ats 386 4.50e+00 1ba1 c.55.1.1,c.55.1.1 33423,33424 1atr 386 5.79e+00 1ba1 c.55.1.1,c.55.1.1 33421,33422 1ngb 386 6.83e+00 1ba1 c.55.1.1,c.55.1.1 33401,33402 1wxlA 73 6.84e+00 1nga 386 8.05e+00 1ba1 c.55.1.1,c.55.1.1 33407,33408 1qqmA 378 8.29e+00 1ba1 c.55.1.1,c.55.1.1 33391,33392 1qqnA 378 9.76e+00 1ba1 c.55.1.1,c.55.1.1 33393,33394 2cwlA 302 1.25e+01 1hq2A 158 1.49e+01 d.58.30.1 83620 2b9bA 497 1.52e+01 1ru8A 232 1.57e+01 c.26.2.1 97849 1lk3L 210 1.60e+01 b.1.1.1,b.1.1.2 73956,73957 2cqnA 77 1.77e+01 2gmlA 237 1.84e+01 1c5dA 213 1.96e+01 8fabA b.1.1.1,b.1.1.2 20414,21386 1fn4A 211 1.99e+01 b.1.1.1,b.1.1.2 59884,59885 1fobA 334 2.10e+01 c.1.8.3 83255 1bfoA 214 2.13e+01 8fabA b.1.1.1,b.1.1.2 20310,21302 1qqoA 378 2.38e+01 1ba1 c.55.1.1,c.55.1.1 33395,33396 2briA 225 2.38e+01 1tmmA 158 2.39e+01 2bmuA 226 2.40e+01 2brxA 244 2.48e+01 1yp2A 451 2.67e+01 1f9yA 158 2.77e+01 d.58.30.1 83249 2fo1D 85 3.23e+01 2cd7A 131 3.24e+01 1jf8A 131 3.32e+01 c.44.1.1 66621 1f9hA 158 3.34e+01 d.58.30.1 83248 1ljlA 131 3.37e+01 c.44.1.1 73939 1vmoA 163 3.37e+01 1vmoA b.77.1.1 27974 1ljuA 131 3.37e+01 c.44.1.1 73944 1rxiA 131 3.44e+01 c.44.1.1 105116 1ldm 329 3.65e+01 3ldh c.2.1.5,d.162.1.1 30160,42127 6ldh 330 3.66e+01 3ldh c.2.1.5,d.162.1.1 30161,42128 1ur1A 378 3.70e+01 c.1.8.3 99804 2arjA 211 3.75e+01 2h88C 140 4.02e+01 1i10A 331 4.06e+01 3ldh c.2.1.5,d.162.1.1 61499,61500 1o8vA 134 4.11e+01 b.60.1.2 86680 2gboA 104 4.16e+01 1hjoA 380 4.21e+01 1ba1 c.55.1.1,c.55.1.1 33425,33426 1s3xA 382 4.23e+01 c.55.1.1,c.55.1.1 98467,98468 1p5jA 372 4.25e+01 c.79.1.1 104067 1yq3C 141 4.38e+01 1lk0A 131 4.40e+01 c.44.1.1 73948 1fmtA 314 4.41e+01 1fmtA b.46.1.1,c.65.1.1 25758,34174 2b91A 129 4.42e+01 1zanL 214 4.44e+01 1mb3A 124 4.85e+01 c.23.1.1 78907 1ykiA 217 4.86e+01 2eueA 275 4.91e+01 2fpqA 444 4.92e+01 1e6vC 258 5.09e+01 1mroC d.58.31.1 39439 1jn6A 210 5.33e+01 b.1.1.1,b.1.1.2 66923,66924 1jnhA 212 5.36e+01 b.1.1.1,b.1.1.2 66939,66940 2b8xA 129 5.37e+01 1mfeL 215 5.42e+01 1mfa b.1.1.1,b.1.1.2 19892,20986 1yuhA 211 5.44e+01 1mfa b.1.1.1,b.1.1.2 20098,21130 1dbyA 107 5.51e+01 1thx c.47.1.1 32734 2b8yA 129 5.54e+01 1sm3L 215 5.59e+01 8fabA b.1.1.1,b.1.1.2 20368,21360 1gigL 210 5.62e+01 1mfa b.1.1.1,b.1.1.2 19910,21004 1i7nA 309 5.67e+01 c.30.1.5,d.142.1.3 83681,83682 1ngqL 215 5.72e+01 1mfa b.1.1.1,b.1.1.2 20092,21124 1ntyA 311 5.74e+01 a.87.1.1,b.55.1.1 103873,103874 2fh9A 274 5.75e+01 1h2hA 241 5.82e+01 d.81.1.3,c.2.1.3 70861,83058 1nc2A 215 5.90e+01 b.1.1.1,b.1.1.2 91781,91782 1q0xL 212 5.96e+01 b.1.1.1,b.1.1.2 95519,95520 1f4yL 210 5.97e+01 8fabA b.1.1.1,b.1.1.2 20454,21418 1etzA 215 5.97e+01 8fabA b.1.1.1,b.1.1.2 20480,21444 1zvmA 256 5.99e+01 1j5pA 253 6.00e+01 d.81.1.3,c.2.1.3 71577,83092 1yh3A 256 6.00e+01 1f4xL 210 6.04e+01 8fabA b.1.1.1,b.1.1.2 20450,21414 1qrvA 73 6.06e+01 1cktA a.21.1.1 16425 1e7jA 74 6.07e+01 a.21.1.1 59344 1mroC 247 6.09e+01 1mroC d.58.31.1 39437 1c1eL 216 6.09e+01 8fabA b.1.1.1,b.1.1.2 20238,21250 1a0qL 212 6.09e+01 8fabA b.1.1.1,b.1.1.2 20286,21278 1dbbL 216 6.11e+01 8fabA b.1.1.1,b.1.1.2 19798,20908 1hbnC 248 6.14e+01 1mroC d.58.31.1 60902 1mnuL 219 6.15e+01 8fabA b.1.1.1,b.1.1.2 20358,21350 1rtzA 152 6.37e+01 d.58.30.1 97831 1ldnA 316 6.40e+01 1hyhA c.2.1.5,d.162.1.1 30166,42133 1ldbA 317 6.41e+01 1nj9A 212 6.49e+01 b.1.1.1,b.1.1.2 91897,91898 1indL 215 6.55e+01 1mfa b.1.1.1,b.1.1.2 19838,20942 1u0sY 118 6.57e+01 c.23.1.1 107566 1tmy 120 6.61e+01 1dbwA c.23.1.1 31083 1wk9A 146 6.79e+01 1wkaA 147 6.79e+01 2djjA 121 6.82e+01 2cncA 386 7.04e+01 1a04A 215 7.09e+01 1a04A a.4.6.2,c.23.1.1 16234,31089 1ffuC 287 7.20e+01 1qj2C d.87.2.1,d.145.1.3 40225,41756 2dquL 219 7.22e+01 1blnA 214 7.26e+01 8fabA b.1.1.1,b.1.1.2 20330,21322 1otsD 211 7.34e+01 b.1.1.1,b.1.1.2 87419,87420 1x4gA 109 7.42e+01 1svfB 38 7.59e+01 1svfB h.3.2.1 45764 1eo8L 210 7.61e+01 8fabA b.1.1.1,b.1.1.2 20294,21286 1lldA 319 7.62e+01 3ldh c.2.1.5,d.162.1.1 30177,42144 1kenL 213 7.65e+01 b.1.1.1,b.1.1.2 72381,72382 1pz5A 215 7.73e+01 b.1.1.1,b.1.1.2 95401,95402 1igjA 219 7.79e+01 8fabA b.1.1.1,b.1.1.2 19818,20928 1mreL 219 7.84e+01 8fabA b.1.1.1,b.1.1.2 20018,21072 1i9jL 219 8.05e+01 b.1.1.1,b.1.1.2 71146,71147 1z7wA 322 8.05e+01 1cr9L 219 8.11e+01 8fabA b.1.1.1,b.1.1.2 20430,21400 1z7yA 322 8.21e+01 1cloL 213 8.22e+01 8fabA b.1.1.1,b.1.1.2 20122,21152 1igfL 219 8.33e+01 8fabA b.1.1.1,b.1.1.2 19812,20922 1s1iB 253 8.37e+01 i.1.1.1 105176 1t66C 219 8.37e+01 b.1.1.1,b.1.1.2 106545,106546 1qfuL 217 8.37e+01 8fabA b.1.1.1,b.1.1.2 20292,21284 2bl9A 238 8.46e+01 2gsiA 215 8.50e+01 2bf2A 102 8.58e+01 1bafL 214 8.68e+01 8fabA b.1.1.1,b.1.1.2 19778,20888 1il1B 219 8.81e+01 32c2A b.1.1.1,b.1.1.2 62541,62542 1y7lA 316 8.81e+01 1u2eA 289 8.82e+01 1z3gL 213 8.88e+01 1cl7L 216 8.91e+01 8fabA b.1.1.1,b.1.1.2 20418,21388 1yqvL 211 8.97e+01 1bqlL 212 8.97e+01 8fabA b.1.1.1,b.1.1.2 19970,21028