# 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 1jogA 146 7.71e-19 a.24.16.2 77142 1dgmA 363 1.39e+00 1bx4A c.72.1.1 34936 1or7A 194 1.60e+00 a.4.13.2 87332 a.177.1.1 87333 1rx0A 393 1.61e+00 a.29.3.1 -742 e.6.1.1 -11858 1s7zA 117 1.81e+00 unknown_sccs -344 3lynA 136 1.98e+00 1lis a.19.1.1 16413 1buoA 121 2.10e+00 1buoA d.42.1.1 38631 1o3uA 135 3.52e+00 a.24.16.3 86615 1t7pA 698 3.65e+00 1t7pA c.55.3.5 33712 e.8.1.1 43005 1rktA 205 3.89e+00 a.4.1.9 -210 a.121.1.1 -1663 1fr0A 125 4.39e+00 2a0b a.24.10.1 59996 2a0b 125 4.40e+00 2a0b a.24.10.1 16630 1ks9A 291 5.17e+00 a.100.1.7 68857 c.2.1.6 68858 1ee4A 423 5.29e+00 1ee4A a.118.1.1 19128 1lis 136 5.80e+00 1lis a.19.1.1 16406 2lisA 136 5.80e+00 1lis a.19.1.1 16405 1bk5A 422 6.30e+00 1bk5A a.118.1.1 19130 1bhdA 118 6.54e+00 1bkrA a.40.1.1 17398 1bk6A 422 7.34e+00 1bk5A a.118.1.1 19133 1mojA 182 7.40e+00 a.25.1.1 -669 1pq9A 253 7.57e+00 a.123.1.1 -1687 1dw9A 156 7.67e+00 1dw9A a.35.1.4 17065 d.72.1.1 39596 1dwkA 156 7.67e+00 1dw9A a.35.1.4 17075 d.72.1.1 39606 1aua 296 7.82e+00 1aua a.5.3.1 16290 c.13.1.1 30882 1eq1A 166 9.28e+00 a.63.1.1 64910 1jthB 77 9.33e+00 h.1.15.1 67271 1kbuA 349 9.45e+00 a.60.9.1 72284 d.163.1.1 72285 1dat 174 9.52e+00 2fha a.25.1.1 16677 1aew 174 9.61e+00 2fha a.25.1.1 16676 1i58A 189 9.65e+00 1b3qA d.122.1.3 61773 1cxzB 86 9.81e+00 1cxzB a.2.6.1 15705 1e6yB 433 1.00e+01 1mroB a.89.1.1 18535 d.58.31.2 39453 1g60A 260 1.04e+01 c.66.1.11 70151 1uqvA 85 1.10e+01 a.60.1.2 -1010 1mb3A 124 1.11e+01 c.23.1.1 78907 1m5tA 124 1.11e+01 c.23.1.1 78660 1j99A 293 1.14e+01 c.37.1.5 71618 1cjcA 460 1.14e+01 1cjcA c.3.1.1 30319 c.4.1.1 30604 1nfn 191 1.17e+01 1nfn a.24.1.1 16523 1sfcB 83 1.21e+01 1sfcB h.1.15.1 45644 1bgp 309 1.31e+01 1bgp a.93.1.1 18690 1ibrB 462 1.32e+01 1qgrA a.118.1.1 19120 1hvvA 75 1.33e+01 1hvvA h.1.15.1 45639 1gkxA 388 1.34e+01 a.29.5.1 65266 d.122.1.4 65267 1jqhA 308 1.38e+01 d.144.1.7 71793 2tct 207 1.43e+01 2tct a.4.1.9 16063 a.121.1.1 19240 1jigA 146 1.44e+01 a.25.1.1 71685 1p4oA 322 1.44e+01 d.144.1.7 87775 2sas 185 1.48e+01 2sas a.39.1.5 17258 3crxA 343 1.51e+01 4crxA a.60.9.1 18101 d.163.1.1 42161 1bz4A 144 1.57e+01 1nfn a.24.1.1 16521 1mx3A 347 1.60e+01 c.2.1.4 79638 c.23.12.1 79639 1h6pA 203 1.66e+01 a.146.1.1 60690 1qgrA 876 1.66e+01 1qgrA a.118.1.1 19119 1f88A 348 1.68e+01 1f88A f.13.1.2 43429 1qq7A 253 1.72e+01 1qq5A c.108.1.1 43329 1n7sB 68 1.73e+01 h.1.15.1 80272 1qq5A 253 1.75e+01 1qq5A c.108.1.1 43327 1qmyA 167 1.79e+01 1qmyA d.3.1.2 37094 1aq6A 253 1.81e+01 1qq5A c.108.1.1 43331 1gxyA 226 1.85e+01 d.166.1.3 76380 1chkA 238 1.86e+01 1chkA d.2.1.7 36999 1jvsA 400 1.88e+01 a.69.3.1 77187 c.2.1.3 77188 d.81.1.3 77189 1oahA 519 1.91e+01 a.138.1.3 86736 1d3yA 301 1.92e+01 1d3yA e.12.1.1 43252 1iw7C 1119 1.96e+01 e.29.1.1 71474 1q0qA 406 2.03e+01 1ns1A 73 2.03e+01 1ail a.16.1.1 16382 1nu7D 282 2.19e+01 unknown_sccs -433 unknown_sccs -434 1bjz 207 2.31e+01 2tct a.4.1.9 16065 a.121.1.1 19242 1im4A 221 2.32e+01 unknown_sccs 62581 1fpoA 171 2.32e+01 1fpoA a.2.3.1 15693 a.23.1.1 16487 1cxc 124 2.40e+01 1ycc a.3.1.1 15890 1j09A 468 2.43e+01 a.97.1.1 77025 c.26.1.1 77026 1q1aA 289 2.46e+01 c.31.1.5 -6781 1jcrA 377 2.53e+01 a.118.6.1 66506 1gkzA 388 2.60e+01 a.29.5.1 65268 d.122.1.4 65269 1cm5A 759 2.68e+01 1cm5A c.7.1.1 30671 1h16A 759 2.69e+01 c.7.1.1 76462 1nznA 126 2.76e+01 a.118.8.1 -1616 3pflA 759 2.77e+01 1cm5A c.7.1.1 30673 1ujwB 135 2.78e+01 h.4.9.1 -12996 1bp3A 191 2.79e+01 1huw a.26.1.1 16838 1r8iA 213 2.85e+01 unknown_sccs -411 1b8dA 164 2.94e+01 1cpcA a.1.1.3 15665 1js8A 394 2.94e+01 a.86.1.1 67219 b.112.1.1 67220 1jchA 551 2.95e+01 b.101.1.1 66491 b.110.1.1 66492 h.4.9.1 66493 1jchC 551 2.95e+01 b.101.1.1 66495 b.110.1.1 66496 h.4.9.1 66497 1liaA 164 2.95e+01 1cpcA a.1.1.3 15661 1liiA 363 3.04e+01 c.72.1.1 73921 1i50B 1224 3.08e+01 e.29.1.1 61755 2pflA 759 3.10e+01 1cm5A c.7.1.1 30675 1i39A 225 3.10e+01 1ekeA c.55.3.1 61585 1g59A 468 3.11e+01 a.97.1.1 60257 c.26.1.1 60258 1o9rA 162 3.12e+01 a.25.1.1 86706 1gehA 444 3.16e+01 c.1.14.1 65181 d.58.9.1 65182 1ngkA 128 3.17e+01 a.1.1.1 85673 1dk8A 147 3.20e+01 1agrE a.91.1.1 18548 1i8jA 323 3.24e+01 1b4kA c.1.10.3 61968 1m6kA 251 3.37e+01 e.3.1.1 78695 1or3A 165 3.37e+01 1nfn a.24.1.1 16522 1tk9A 188 3.39e+01 1gr8A 412 3.39e+01 1ockA 412 3.39e+01 c.117.1.1 86802 1lpe 144 3.60e+01 1nfn a.24.1.1 16524 1go3F 107 3.60e+01 a.60.8.2 65407 1d8dA 377 3.60e+01 1ft1A a.118.6.1 19185 1ezfA 340 3.67e+01 1ezfA a.128.1.2 19440 1l6sA 323 3.73e+01 c.1.10.3 73627 1ihgA 370 3.75e+01 2cpl a.118.8.1 62380 b.62.1.1 62381 2cxbA 124 3.79e+01 1ycc a.3.1.1 15891 1f6kA 293 3.83e+01 1nal3 c.1.10.1 29081 1dcs 311 3.85e+01 1dcs b.82.2.1 28124 1ltm 320 3.90e+01 1ltm d.2.1.6 36992 1l3lA 234 3.90e+01 a.4.6.2 73541 d.110.5.1 73542 1ft1A 377 3.93e+01 1ft1A a.118.6.1 19186 1sqsA 242 3.93e+01 unknown_sccs -6433 1qqfA 277 3.94e+01 1c3d a.102.4.4 18875 1igd 61 3.96e+01 2igd d.15.7.1 37822 2igd 61 3.96e+01 2igd d.15.7.1 37821 1b4eA 323 3.97e+01 1b4kA c.1.10.3 29186