# List of top-scoring protein chains for t04-100-30-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 2gaeA 346 1.20e-02 2ae0X 345 3.85e-02 1bmv1 198 4.60e-01 1bmv1 2g5dA 422 1.25e+00 1i0lA 221 1.45e+00 c.61.1.1 71096 1sq9A 397 1.66e+00 b.69.4.1 105889 1wucA 250 2.27e+00 2c3mA 1231 2.78e+00 1kekA 1231 2.78e+00 c.36.1.8,c.36.1.12,c.48.1.3,c.64.1.1,d.58.1.5 68524,68525,68526,68527,68528 1wi1A 126 2.94e+00 1y0bA 197 3.06e+00 1b0pA 1231 3.97e+00 c.36.1.8,c.36.1.12,c.48.1.3,c.64.1.1,d.58.1.5 31831,31832,33104,34157,39003 1n67A 359 4.08e+00 b.2.3.4,b.2.3.4 85354,85355 1pgl1 185 4.82e+00 2a74A 643 5.27e+00 1cqyA 99 5.85e+00 1b9zA b.3.1.1 22527 1vjhA 122 5.94e+00 d.129.3.1 100811 1h9sA 140 7.41e+00 1b9mA b.40.6.2,b.40.6.2 60843,60844 1jpc 109 9.13e+00 1b2pA b.78.1.1 27986 1tc6A 236 1.01e+01 d.122.1.1 106756 1vemA 516 1.04e+01 1v04A 355 1.14e+01 b.68.6.2 100240 1kmvA 186 1.18e+01 c.71.1.1 72757 1qy5A 269 1.19e+01 d.122.1.1 96573 1at3A 247 1.24e+01 1at3A b.57.1.1 27021 1z5hA 780 1.32e+01 1a34A 159 1.32e+01 1a34A b.121.7.1 23286 1wocA 103 1.32e+01 2bbkH 355 1.32e+01 2bbkH b.69.2.1 27634 1itcA 516 1.33e+01 b.3.1.1,c.1.8.1 83705,83706 1vr8A 142 1.37e+01 2ghsA 326 1.51e+01 1t9mA 214 1.55e+01 8dfr 189 1.60e+01 1aoeA c.71.1.1 34895 1s5uA 138 1.63e+01 d.38.1.1 98573 2pth 193 1.66e+01 2pth c.56.3.1 33793 1miuA 738 1.72e+01 a.170.1.1,a.171.1.1,b.40.4.3,b.40.4.3,b.40.4.3 79153,79154,79155,79156,79157 1sgjA 284 1.81e+01 c.1.12.5 105535 1v1qA 134 1.83e+01 1uheA 97 1.86e+01 1rypJ 204 1.96e+01 d.153.1.4 41878 1vpjA 192 2.01e+01 1vqvA 306 2.06e+01 1ift 263 2.14e+01 1mrj d.165.1.1 42211 1wi5A 119 2.24e+01 2fdbM 164 2.24e+01 1g2rA 100 2.29e+01 1g2rA d.192.1.1 60231 2gw6A 123 2.33e+01 1jofA 365 2.40e+01 b.69.10.1 71775 1e6oL 212 2.49e+01 32c2A b.1.1.1,b.1.1.2 20494,21452 1ef1A 294 2.63e+01 1ef1A a.11.2.1,b.55.1.5,d.15.1.4 16368,27003,37611 1nulA 152 2.68e+01 1nulA c.61.1.1 34011 1yqzA 438 2.69e+01 1b9mA 265 2.84e+01 1b9mA a.4.5.8,b.40.6.2,b.40.6.2 16118,58938,58939 1cjbA 231 2.87e+01 1qk3A c.61.1.1 34079 1mrj 247 2.88e+01 1mrj d.165.1.1 42177 1uq5A 263 3.02e+01 d.165.1.1 99778 1wdeA 294 3.10e+01 1dywA 173 3.10e+01 2cpl b.62.1.1 27505 1h3gA 601 3.26e+01 b.1.18.2,b.71.1.1,c.1.8.1 90594,90595,90596 2fe5A 94 3.32e+01 1n62B 809 3.37e+01 d.41.1.1,d.133.1.1 80092,80093 1ahsA 126 3.38e+01 1ahsA b.19.1.1 23794 1y2tA 142 3.41e+01 1wit 93 3.46e+01 1wit b.1.1.4 21714 1e7uA 961 3.47e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1cbjA 151 3.49e+01 1mfmA b.1.8.1 22213 1guqA 348 3.59e+01 1guqA d.13.1.2,d.13.1.2 37522,37523 1g7oA 215 3.64e+01 1g7oA a.45.1.1,c.47.1.5 60332,60333 1aw8B 91 3.71e+01 1aw8B 1q5fA 156 3.74e+01 d.24.1.1 104536 1k3tA 359 3.82e+01 c.2.1.3,d.81.1.1 72022,72023 1m2tA 254 3.87e+01 d.165.1.1 84761 1yemA 179 3.94e+01 1j48A 110 4.03e+01 b.1.7.1 84112 1vhh 162 4.06e+01 1vhh d.65.1.2 39550 1e8yA 966 4.23e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 1wmhB 86 4.28e+01 1ixh 321 4.31e+01 1ixh c.94.1.1 35761 1efdN 266 4.34e+01 1efdN c.92.2.1 35597 1rhfA 182 4.37e+01 b.1.1.1,b.1.1.4 97469,97470 1zh5A 195 4.38e+01 1abrB 267 4.46e+01 1abrB b.42.2.1,b.42.2.1 25563,25564 1tqyB 415 4.48e+01 c.95.1.1,c.95.1.1 107247,107248 1sz6A 249 4.76e+01 1ryp2 233 4.81e+01 1ryp2 1txyA 104 4.91e+01 1s68A 249 4.96e+01 d.142.2.4 98591 1ms9A 648 5.01e+01 b.29.1.15,b.68.1.1 85088,85089 1jayA 212 5.05e+01 c.2.1.6 66478 1yqvL 211 5.07e+01 1mrg 263 5.07e+01 1mrj d.165.1.1 42183 1xm8A 254 5.08e+01 1vlyA 338 5.09e+01 b.44.2.1,d.250.1.1 108871,108872 1n2fA 142 5.10e+01 d.227.1.1 79853 1ty9A 222 5.14e+01 2awpA 198 5.18e+01 3cox 507 5.21e+01 1b8sA c.3.1.2,d.16.1.1 30332,37863 1zxiB 809 5.28e+01 1nciA 110 5.29e+01 1edhA b.1.6.1 22191 1xw4X 110 5.32e+01 1xw3A 110 5.33e+01 1d2fA 390 5.35e+01 1d2fA c.67.1.3 34411 1v0jA 399 5.47e+01 1yueA 427 5.49e+01 1ton 235 5.58e+01 5ptp b.47.1.2 26307 1m26A 133 5.63e+01 1vd2A 89 5.65e+01 d.15.2.2 108517 1aoeA 192 5.66e+01 1aoeA c.71.1.1 34923 2f0aA 98 5.67e+01 1tyyA 339 5.74e+01 1vkyA 347 5.88e+01 e.53.1.1 108696 1zd0A 150 5.95e+01 1qauA 112 6.05e+01 1qauA b.36.1.1 24779 1iooA 196 6.13e+01 d.124.1.1 71250 3gcb 470 6.14e+01 3gcb d.3.1.1 37032 1l6oA 95 6.27e+01 b.36.1.1 84534 1iyjB 817 6.27e+01 a.170.1.1,a.171.1.1,b.40.4.3,b.40.4.3,b.40.4.3 76948,76949,76950,76951,76952 1ixmA 192 6.30e+01 1ixmA d.123.1.1 41114 1qj2B 809 6.30e+01 1qj2B 1lyqA 104 6.31e+01 b.1.18.17 78302 1jb0E 75 6.33e+01 1pse b.34.4.2 62824 1v3yA 192 6.35e+01 1oewA 329 6.38e+01 b.50.1.2 86924 1cz4A 185 6.45e+01 1cz4A b.52.2.3,d.31.1.1 26934,38468 1pqhA 143 6.45e+01 b.52.2.1 95017 1uirA 314 6.46e+01 c.66.1.17 99429 2ac5A 316 6.48e+01 1dyoA 160 6.48e+01 1dyoA b.18.1.7 23771 1x8vA 455 6.58e+01 1xwl 580 6.58e+01 1xwl c.55.3.5,e.8.1.1 33708,43001 1rypL 212 6.59e+01 d.153.1.4 41880 1u13A 455 6.59e+01 a.104.1.1 107578 2fg9A 178 6.60e+01 1e9xA 455 6.61e+01 1ea1A a.104.1.1 18969 1h4rA 314 6.65e+01 a.11.2.1,b.55.1.5,d.15.1.4 65616,65617,65618 1l3sA 580 6.73e+01 c.55.3.5,e.8.1.1 84521,84522 1nk4A 580 6.75e+01 c.55.3.5,e.8.1.1 91923,91924 1h5zA 455 6.75e+01 a.104.1.1 90622 1u4bA 580 6.87e+01 c.55.3.5,e.8.1.1 107664,107665 2er7E 330 6.95e+01 2er7E b.50.1.2 26779 1ti6B 274 7.04e+01 b.3.5.1,d.58.1.5 106976,106977 1e9pA 151 7.09e+01 1mfmA b.1.8.1 22215 1q47A 495 7.13e+01 b.69.12.1 104532 1udzA 182 7.13e+01 b.51.1.1 99239 2c1cA 312 7.16e+01 1ro7A 259 7.18e+01 c.130.1.1 97667 1zkpA 268 7.21e+01 1io1A 398 7.29e+01 1io1A e.32.1.1 62611 1dnlA 199 7.34e+01 1ci0A b.45.1.1 25753 1ew4A 106 7.50e+01 1ew4A d.82.2.1 40023 1wnyA 186 7.57e+01 1ct9A 553 7.59e+01 1ct9A c.26.2.1,d.153.1.1 31616,41834 1iz0A 302 7.66e+01 b.35.1.2,c.2.1.1 83821,83822 1y8qB 640 7.76e+01 1v0eA 666 7.78e+01 1lfdA 87 7.82e+01 1lfdA d.15.1.5 37622 1n9pA 207 7.96e+01 b.1.18.16 80343 1v9sA 208 7.98e+01 1txkA 498 8.10e+01 b.1.18.2,b.30.5.9 107425,107426 1wk8A 194 8.34e+01 1ry6A 360 8.44e+01 c.37.1.9 98090 1shyB 551 8.45e+01 b.69.12.1,g.16.2.1 105565,105566 1x3mA 415 8.46e+01 1yndA 165 8.48e+01 1rocA 155 8.49e+01 b.1.22.1 97673 1knmA 130 8.51e+01 b.42.2.1 72781 2asuB 234 8.68e+01 1lf6A 684 8.74e+01 a.102.1.5,b.30.5.5 77918,77919 1t0yA 122 8.79e+01 d.15.1.1 99066 1sglA 209 8.82e+01 d.124.1.1 105536 1tp5A 119 8.84e+01 1qciA 262 8.95e+01 1qi7A d.165.1.1 42201