# List of top-scoring protein chains for t2k-100-30-stride-ebghtl 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 1uujA 88 1.95e-02 a.221.1.1 108046 2fbeA 201 3.29e-02 1dhx 967 9.93e-02 1dhx 1od3A 168 3.00e-01 b.18.1.10 86825 1xgwA 176 6.49e-01 1ok8A 394 6.81e-01 b.1.18.4 93236 f.10.1.1 93237 1k1xA 659 1.67e+00 a.8.3.2 84279 b.30.5.8 84280 c.6.2.2 84281 1ly1A 181 1.74e+00 c.37.1.1 74334 1eulA 994 1.92e+00 1eulA 1p30A 952 2.25e+00 b.121.2.2 93964 b.121.2.2 93965 1gcb 454 2.44e+00 3gcb d.3.1.1 37034 1ruxA 951 2.44e+00 1dhx 1ig8A 486 2.79e+00 2yhx c.55.1.3 64746 c.55.1.3 64747 4kbpA 432 2.87e+00 4kbpA b.1.12.1 22345 d.159.1.1 42064 3gcb 470 3.12e+00 3gcb d.3.1.1 37032 1lylA 504 3.21e+00 1lylA b.40.4.1 25261 d.104.1.1 40717 2c4jA 218 3.26e+00 1xw5A 217 3.50e+00 1e1oA 504 3.75e+00 1lylA b.40.4.1 25258 d.104.1.1 40714 1cr6B 554 3.75e+00 1cr6B c.108.1.2 43338 c.69.1.11 34688 1dhkB 223 3.86e+00 1led b.29.1.1 24157 1kbpA 432 4.08e+00 4kbpA b.1.12.1 22349 d.159.1.1 42068 1q1lA 401 4.12e+00 d.258.1.1 95591 1wjtA 103 4.15e+00 1ei7B 158 4.23e+00 1rmvA a.24.5.1 16585 1omwA 689 4.57e+00 a.91.1.1 87086 b.55.1.1 87087 d.144.1.7 87088 1r77A 103 4.76e+00 2mspA 126 4.80e+00 1mspA b.1.11.2 22335 1kl1A 419 5.03e+00 c.67.1.4 72663 1kkjA 419 5.09e+00 c.67.1.4 72647 1ag8A 499 5.14e+00 1bpwA c.82.1.1 35341 1kpkA 473 5.42e+00 f.20.1.1 68776 1vloA 381 6.51e+00 b.44.2.1 108838 d.250.1.1 108839 1yjsA 419 6.62e+00 1a6r 471 7.02e+00 3gcb d.3.1.1 37033 1ixmB 192 7.36e+00 1ixmA d.123.1.1 41115 1fh0A 221 7.36e+00 1cs8A d.3.1.1 59832 1rj1A 151 7.68e+00 a.29.6.1 97526 2bjqA 345 8.00e+00 1y14B 171 8.25e+00 1viwB 198 8.75e+00 1led b.29.1.1 24170 2tmvP 158 9.00e+00 1rmvA a.24.5.1 16586 1ukz 203 9.27e+00 1zin c.37.1.1 31840 1f5jA 199 9.69e+00 1axkA b.29.1.11 24342 1dar 691 1.01e+01 1dar b.43.3.1 25707 c.37.1.8 32142 d.14.1.1 37547 d.58.11.1 39300 1nnxA 109 1.15e+01 b.40.10.1 92013 1ei7A 158 1.22e+01 1rmvA a.24.5.1 16584 1otkA 249 1.23e+01 a.25.1.2 93521 1ykhA 108 1.25e+01 1ki9A 192 1.26e+01 c.37.1.1 84404 1g5aA 628 1.33e+01 b.71.1.1 65152 c.1.8.1 65153 1hmpA 217 1.37e+01 1qk3A c.61.1.1 34075 1csmA 256 1.38e+01 5csmA a.130.1.2 19495 1lv7A 257 1.41e+01 c.37.1.20 78232 1w7lA 422 1.48e+01 c.67.1.1 109226 1tdpA 111 1.55e+01 a.29.8.1 106781 1e7uA 961 1.56e+01 1e8xA a.118.1.6 19147 b.7.1.1 23182 d.15.1.5 37630 d.144.1.4 41710 1dc1A 323 1.60e+01 1dc1A c.52.1.11 33321 1efm 393 1.63e+01 1efcA c.37.1.8 64732 1tm0A 350 1.72e+01 d.21.1.3 107147 1e6pA 499 1.78e+01 1e15A b.72.2.1 59314 c.1.8.5 59315 d.26.3.1 59316 2a8mA 420 1.78e+01 1mxb 383 1.78e+01 1mxb d.130.1.1 41329 d.130.1.1 41330 d.130.1.1 41331 1t0bA 252 1.79e+01 c.23.16.6 106199 1goiA 499 1.80e+01 b.72.2.1 65413 c.1.8.5 65414 d.26.3.1 65415 2cb5A 453 1.80e+01 3gcb d.3.1.1 37035 1qbiA 454 1.89e+01 1c9uA b.68.2.1 27619 1lkvX 232 1.92e+01 a.118.14.1 73980 1zd3A 555 1.99e+01 1n0lA 224 2.02e+01 b.1.11.1 79744 b.7.2.1 79745 1mxa 383 2.03e+01 1mxb d.130.1.1 41326 d.130.1.1 41327 d.130.1.1 41328 1r75A 141 2.05e+01 b.134.1.1 97189 1vctA 205 2.06e+01 1cb8A 678 2.07e+01 1cb8A a.102.3.2 18849 b.24.1.1 23898 b.30.5.2 24422 2ai4A 119 2.07e+01 1bet 107 2.10e+01 1bndA g.17.1.3 44801 1pg4A 652 2.15e+01 e.23.1.1 88067 1cruA 454 2.22e+01 1c9uA b.68.2.1 27617 1rg9A 383 2.27e+01 d.130.1.1 97427 d.130.1.1 97428 d.130.1.1 97429 1btgA 110 2.31e+01 1bndA g.17.1.3 44802 1eysH 259 2.37e+01 6prcH b.41.1.1 25484 f.23.10.1 43517 1kd6A 179 2.38e+01 b.97.1.1 68459 2a6zA 222 2.39e+01 1cnt2 187 2.39e+01 1cnt3 2g5cA 281 2.39e+01 1o7nB 194 2.41e+01 d.17.4.4 81164 1yer 228 2.48e+01 1yer d.122.1.1 41101 1su4A 994 2.48e+01 b.82.7.1 98993 c.108.1.7 98994 d.220.1.1 98995 f.33.1.1 98996 1hqz9 141 2.51e+01 1eg9B 194 2.53e+01 1ndoB d.17.4.4 38120 1hqz1 141 2.54e+01 2ayh 214 2.55e+01 1axkA b.29.1.2 24172 1c9uA 454 2.55e+01 1c9uA b.68.2.1 27623 1cnt1 187 2.55e+01 1cnt3 1efaA 333 2.59e+01 1tlfA a.35.1.5 17106 c.93.1.1 35691 1kz7A 353 2.61e+01 a.87.1.1 73333 b.55.1.1 73334 1qpxA 218 2.62e+01 1qpxA b.1.11.1 22318 b.7.2.1 23200 1ck7A 631 2.62e+01 1ck7A a.20.1.2 58969 b.66.1.1 27538 d.92.1.11 58970 g.14.1.2 44674 g.14.1.2 44675 g.14.1.2 44676 1e8xA 961 2.62e+01 1e8xA a.118.1.6 19148 b.7.1.1 23183 d.15.1.5 37631 d.144.1.4 41711 1aym2 261 2.68e+01 1aym2 1k8cA 322 2.70e+01 c.1.7.1 72172 1sg6A 393 2.87e+01 e.22.1.1 105522 1xksA 450 2.89e+01 1bd8 156 2.95e+01 1bd8 d.211.1.1 19157 1cnt3 187 2.95e+01 1cnt3 1j71A 334 2.96e+01 1eagA b.50.1.2 62669 1kdj 102 3.04e+01 1plc b.6.1.1 22864 1qdlA 422 3.12e+01 1qdlA d.161.1.1 42088 1uylA 236 3.12e+01 d.122.1.1 108147 1qasA 622 3.15e+01 1djxB a.39.1.7 17340 b.7.1.1 23157 c.1.18.1 29585 1tf1A 198 3.16e+01 d.110.2.2 106826 1gr3A 160 3.17e+01 b.22.1.1 65476 1ltqA 301 3.22e+01 c.108.1.9 78208 c.37.1.1 78209 2cbp 96 3.23e+01 2cbp b.6.1.1 22895 1npeA 267 3.24e+01 b.68.5.1 92032 1exmA 405 3.26e+01 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1hm2A 700 3.28e+01 1cb8A a.102.3.2 61083 b.24.1.1 61084 b.30.5.2 61085 1v7wA 807 3.33e+01 a.102.1.4 108411 b.30.5.3 108412 1x9zA 188 3.33e+01 1dy9A 187 3.36e+01 1jxpA b.47.1.3 26400 5csmA 256 3.37e+01 5csmA a.130.1.2 19494 1v9yA 167 3.42e+01 d.110.3.2 108454 2a8lA 420 3.45e+01 1ndoB 194 3.46e+01 1ndoB d.17.4.4 38121 1mspA 126 3.50e+01 1mspA b.1.11.2 22333 1e15A 499 3.51e+01 1e15A b.72.2.1 27810 c.1.8.5 29006 d.26.3.1 38440 1yspA 181 3.54e+01 1ixxB 123 3.62e+01 1ixxB d.169.1.1 42336 1jwhC 215 3.66e+01 g.41.4.1 71915 3aprE 325 3.74e+01 2er7E b.50.1.2 26820 2a8jA 420 3.76e+01 2b71A 196 3.79e+01 1uy4A 145 3.81e+01 b.18.1.10 108131 1js3A 486 3.82e+01 c.67.1.6 67215 1tqzA 133 3.82e+01 1qhbA 596 3.88e+01 1qhbA a.111.1.2 19055 1ugnA 198 3.94e+01 b.1.1.4 107828 b.1.1.4 107829 1rj8A 164 3.95e+01 b.22.1.1 97547 1wgkA 114 3.97e+01