# List of top-scoring protein chains for t04-100-30-str2-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 1rtfB 252 2.66e-01 5ptp 1fjrA 195 8.44e-01 1fjrA b.102.1.1 59855 1ebfA 358 1.41e+00 1ebuA c.2.1.3,d.81.1.2 30033,39948 1g55A 343 1.52e+00 1g55A c.66.1.26 34247 1tu1A 148 1.80e+00 d.107.1.3 107316 1lf2A 331 2.69e+00 b.50.1.2 77914 1v8fA 276 2.91e+00 c.26.1.4 100503 3proC 166 3.53e+00 3proC d.52.1.1,d.52.1.1 38812,38813 2cjtA 131 3.56e+00 2bjuA 453 3.76e+00 1kao 167 4.38e+00 1ctqA c.37.1.8 32014 1qxrA 189 4.93e+00 b.82.1.7 96552 1d8hA 311 5.02e+00 1d8iA d.63.1.1 39544 1x82A 190 5.04e+00 1h8eH 146 5.45e+00 1e79H b.93.1.1 60757 1jae 471 5.53e+00 1smd b.71.1.1,c.1.8.1 27773,28760 1f5mA 180 5.90e+00 1f5mB d.110.2.1 40895 1e79H 146 6.38e+00 1e79H a.2.10.1,b.93.1.1 15721,28438 1o0iA 138 6.51e+00 d.38.1.5 86532 1gppA 237 7.29e+00 b.86.1.2 76262 1y8oB 128 7.52e+00 1sxvA 172 8.04e+00 2b20A 403 8.07e+00 1ifrA 121 8.16e+00 b.1.16.1 71203 1mwwA 128 8.44e+00 d.80.1.4 91483 1pyaB 228 8.54e+00 1pyaB 1qksA 567 9.52e+00 1qksA a.3.1.2,b.70.2.1 15951,27710 1k4tA 592 9.92e+00 a.2.8.1,d.163.1.2,e.15.1.1 77263,77264,77265 1dmhA 311 1.05e+01 1dmhA b.3.6.1 22633 1aym3 238 1.05e+01 1aym3 1ly1A 181 1.05e+01 c.37.1.1 74334 1wd3A 482 1.10e+01 b.29.1.21,b.42.8.1 109233,109234 1dixA 208 1.12e+01 1bk7A d.124.1.1 41122 1soxA 466 1.14e+01 1soxA b.1.18.6,d.120.1.1,d.176.1.1 21947,41090,42563 2evwX 166 1.17e+01 2a9dA 372 1.19e+01 1twuA 139 1.22e+01 d.32.1.8 107413 2cyeA 133 1.24e+01 1y6hA 177 1.37e+01 1xw2A 405 1.38e+01 1g8aA 227 1.48e+01 c.66.1.3 90506 1cl8A 276 1.49e+01 1ckqA c.52.1.1 33230 1ryoA 327 1.61e+01 c.94.1.2 98108 2h3bA 494 1.64e+01 1iw7C 1119 1.65e+01 e.29.1.1 71474 1ltqA 301 1.66e+01 c.108.1.9,c.37.1.1 78208,78209 2gj8A 172 1.66e+01 1vj0A 380 1.66e+01 b.35.1.2,c.2.1.1 100786,100787 1b65A 375 1.69e+01 1b65A d.154.1.1 42020 1m7vA 363 1.71e+01 d.174.1.1 78748 1xwtA 405 1.72e+01 1mrzA 293 1.78e+01 b.43.5.1,c.26.1.3 91452,91453 2a90A 240 1.80e+01 1c3hA 137 1.88e+01 b.22.1.1 90405 1bb9 115 1.90e+01 1bb9 b.34.2.1 24554 1a8e 329 1.93e+01 1cb6A c.94.1.2 35888 2stv 195 2.09e+01 2stv b.121.7.1 23287 2bukA 196 2.09e+01 1y7rA 133 2.11e+01 1blxA 326 2.14e+01 1hcl d.144.1.7 41596 2faoA 309 2.16e+01 1uyrA 737 2.27e+01 c.14.1.4,c.14.1.4 100188,100189 1gdvA 85 2.29e+01 1ctj a.3.1.1 60458 1g6oA 330 2.37e+01 1g6oA c.37.1.11 32430 3aprE 325 2.41e+01 2er7E b.50.1.2 26820 2apr 325 2.47e+01 2er7E b.50.1.2 26819 1q9jA 422 2.50e+01 c.43.1.2,c.43.1.2 104590,104591 2f1lA 187 2.56e+01 2b6eA 146 2.58e+01 1kdj 102 2.59e+01 1plc b.6.1.1 22864 1zq4A 693 2.61e+01 1zsqA 528 2.63e+01 1x9gA 200 2.68e+01 c.33.1.3 109527 1vk0A 206 2.74e+01 c.55.3.5 100839 1d4xG 126 2.78e+01 1d0nA d.109.1.1 59109 1eazA 125 2.79e+01 b.55.1.1 70113 1u04A 771 2.83e+01 b.34.14.1,c.55.3.10 107539,107540 1zgoA 223 2.83e+01 1w2xA 758 2.83e+01 c.14.1.4,c.14.1.4 109134,109135 1ggxA 223 2.86e+01 1ggxA d.22.1.1 38367 1pfzA 380 2.87e+01 1smrA b.50.1.2 26881 2as0A 396 2.88e+01 1mup 166 2.89e+01 1mup b.60.1.1 27133 1j7xA 302 2.98e+01 c.14.1.2 66425 1h12A 405 3.03e+01 a.102.1.2 83447 1svy 114 3.08e+01 1svy d.109.1.1 40831 1j83A 180 3.10e+01 b.18.1.12 66430 1wddS 128 3.11e+01 2b1xA 470 3.13e+01 1ze3D 125 3.15e+01 2b18A 164 3.16e+01 3mddA 385 3.18e+01 3mdeA a.29.3.1,e.6.1.1 16592,42853 1w2lA 99 3.27e+01 1pvc3 238 3.27e+01 1aym3 1t8sA 484 3.31e+01 c.56.2.1 106679 1ctqA 166 3.38e+01 1ctqA c.37.1.8 31965 1tdtA 259 3.44e+01 3tdt b.81.1.2 28055 1xa1A 255 3.46e+01 e.3.1.1 109529 1k7kA 221 3.46e+01 c.51.4.1 72104 1dkzA 219 3.47e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 1nm1G 125 3.51e+01 d.109.1.1 80653 1ocxA 182 3.58e+01 b.81.1.3 86814 2d4rA 147 3.62e+01 1g0hA 252 3.64e+01 1dk4A e.7.1.1 60171 1rliA 184 3.66e+01 c.23.5.6 97647 1xkzA 255 3.69e+01 2ff4A 388 3.83e+01 1vj2A 126 3.83e+01 b.82.1.10 100796 1x9pA 523 3.85e+01 1ois 223 3.88e+01 1a36A e.15.1.1 43267 3sil 379 3.95e+01 3sil b.68.1.1 27542 1hnf 182 3.96e+01 1qa9A b.1.1.1,b.1.1.3 19741,21680 1dbhA 354 3.96e+01 1awe a.87.1.1,b.55.1.1 18514,26967 1xakA 83 3.98e+01 1b9wA 89 4.03e+01 1b9wA g.3.11.4,g.3.11.4 44334,44335 1tvdA 116 4.07e+01 1tvdA b.1.1.1 20650 1vdeA 454 4.09e+01 1vdeA b.86.1.2,d.95.2.2,d.95.2.2 28378,40581,40582 1wfuA 120 4.13e+01 1rgxA 114 4.14e+01 g.77.1.1 104932 1g2aA 168 4.14e+01 d.167.1.1 65109 1jv4A 162 4.17e+01 b.60.1.1 67343 1qwtA 255 4.18e+01 b.26.1.3 96501 1epaA 164 4.23e+01 1epaA b.60.1.1 27128 3tdt 274 4.25e+01 3tdt b.81.1.2 28053 1wteA 272 4.25e+01 1v3yA 192 4.31e+01 1o6aA 96 4.34e+01 b.139.1.1 92562 1i06A 180 4.34e+01 1mup b.60.1.1 27131 1ub1A 133 4.35e+01 d.10.1.3 99140 1t44G 147 4.41e+01 d.109.1.1 106395 1dhkB 223 4.44e+01 1led b.29.1.1 24157 1hw6A 278 4.46e+01 1frb c.1.7.1 61296 1tmxA 293 4.46e+01 1xvsA 126 4.46e+01 2b4wA 315 4.47e+01 1xneA 113 4.49e+01 1nu0A 138 4.49e+01 c.55.3.8 92165 2axyA 73 4.50e+01 1i05A 180 4.52e+01 1mup b.60.1.1 27130 1iybA 208 4.58e+01 d.124.1.1 90720 1ctj 89 4.58e+01 1ctj a.3.1.1 15798 1fjgE 162 4.59e+01 1pkp d.14.1.1,d.50.1.2 37553,38789 1bkjA 240 4.62e+01 1bkjA d.90.1.1 40243 1x1rA 178 4.75e+01 1dy9A 187 4.78e+01 1jxpA b.47.1.3 26400 1wi1A 126 4.79e+01 1ocvA 125 4.83e+01 d.17.4.3 86810 1ohpA 125 4.86e+01 1wloA 136 4.89e+01 2a6hC 1119 4.92e+01 1vl2A 421 4.94e+01 c.26.2.1,d.210.1.1 108708,108709 2cttA 104 4.98e+01 2bvfA 459 5.02e+01 1uch 230 5.02e+01 1uch d.3.1.6 37129 2biwA 490 5.06e+01 1lw3A 657 5.28e+01 b.55.1.8,c.45.1.3 91152,91153 1yn4A 99 5.43e+01 1fadA 99 5.53e+01 1fadA a.77.1.2 18428 1jxcA 68 5.53e+01 g.3.7.5 77201 1yewA 382 5.65e+01 2cz2A 223 5.72e+01 1sup 275 5.76e+01 1gci c.41.1.1 32510 1bw0A 416 5.80e+01 1bw0A c.67.1.1 34385 1wkaA 147 5.89e+01 1wtaA 275 5.90e+01 2a5jA 191 5.96e+01 1h0xA 100 6.00e+01 d.68.6.1 76451 1eljA 381 6.03e+01 4mbp c.94.1.1 35791 1lw6E 281 6.07e+01 c.41.1.1 74293 1tx4B 178 6.11e+01 1ctqA c.37.1.8 32045 1q9rA 219 6.22e+01 b.1.1.1,b.1.1.2 96305,96306 1b34B 118 6.22e+01 1b34B b.38.1.1 24797 1xl3C 92 6.29e+01 1qd6C 240 6.37e+01 1qd5A 1ltsA 185 6.39e+01 1lt3A d.166.1.1 42229 1pa1A 310 6.44e+01 c.45.1.2 94404 1to2E 281 6.52e+01 1qy1A 174 6.53e+01 b.60.1.1 96568 1d0dA 60 6.61e+01 1kigI g.8.1.2 44566 1uteA 313 6.62e+01 1uteA d.159.1.1 42078 1zndA 174 6.64e+01 1vqb 87 6.66e+01 1gvp b.40.4.7 25370 1rwiA 270 6.67e+01 b.68.9.1 97987 1gvp 87 6.70e+01 1gvp b.40.4.7 25369 1tufA 434 6.78e+01 b.49.2.3,c.1.6.1 107335,107336 1h59B 54 6.82e+01 g.3.9.1 70881 1tocR 120 6.84e+01 1tocR g.8.1.2,g.8.1.2 44558,44559 2bmjA 178 6.87e+01 2atvA 196 6.88e+01 1c8zA 265 6.94e+01 1c8zA d.23.1.1 38375 1jltB 122 6.94e+01 a.133.1.2 66868 1ckmA 330 6.99e+01 1ckmA b.40.4.6,d.142.2.3 25358,41585 2cohA 202 7.00e+01 1ta9A 450 7.05e+01 1g2nA 264 7.06e+01 1lbd a.123.1.1 60227 1xt9A 212 7.09e+01 1dq3A 454 7.09e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1prtF 98 7.09e+01 1prtF b.40.2.1 25140 1wcqA 601 7.15e+01 2bkqA 212 7.17e+01 1sskA 158 7.17e+01 b.148.1.1 105986 1m1zA 513 7.19e+01 c.26.2.1,d.153.1.1 78457,78458 1xiyA 182 7.22e+01 2bsaA 303 7.25e+01 1plq 258 7.38e+01 1plq d.131.1.2,d.131.1.2 41388,41389 1pg6A 243 7.42e+01 b.82.5.2 94673 1jmcA 246 7.46e+01 1jmcA b.40.4.3,b.40.4.3 25300,25301 1xtqA 177 7.49e+01 1gw5S 142 7.49e+01 d.110.4.2 70633 2bmwA 304 7.58e+01 1q15A 503 7.69e+01 c.26.2.1,d.153.1.1 95538,95539 1w34A 304 7.69e+01 1w96A 554 7.73e+01 1gg3A 279 7.76e+01 1ef1A a.11.2.1,b.55.1.5,d.15.1.4 16372,27007,37615 1e19A 314 7.76e+01 1b7bA c.73.1.1 34967 1go2A 304 7.77e+01 b.43.4.2,c.25.1.1 76243,76244 7taa 478 7.78e+01 7taa b.71.1.1,c.1.8.1 27778,28765 2cwsA 237 7.78e+01 1w8oA 601 7.79e+01 1rlw 126 7.80e+01 1rlw b.7.1.1 23177 2cviA 83 7.80e+01 1smd 496 7.91e+01 1smd b.71.1.1,c.1.8.1 27768,28755 1x99A 145 7.94e+01 2axcA 264 7.95e+01 2fmlA 273 7.99e+01 1fzqA 181 8.00e+01 1hurA c.37.1.8 32060 1jb0C 80 8.15e+01 1jb0C d.58.1.2 62822 1txvB 440 8.16e+01 1gs5A 258 8.20e+01 c.73.1.2 70395 2c7pA 327 8.20e+01 1y4wA 518 8.21e+01 2gp5A 349 8.25e+01 1bj7 156 8.28e+01 1bj7 b.60.1.1 27113 1oe8A 211 8.32e+01 a.45.1.1,c.47.1.5 86905,86906 2f1nA 262 8.39e+01 1gcqC 70 8.44e+01 1gcpA b.34.2.1 60436 2f71A 298 8.45e+01 1t46A 313 8.46e+01 d.144.1.7 106397 1fuiA 591 8.50e+01 1fuiA b.43.2.1,c.85.1.1 25674,35444 1xvjA 109 8.51e+01 1ef8A 261 8.57e+01 1ef8A c.14.1.3 30921 1g2lA 235 8.57e+01 b.47.1.2 65112 1res 43 8.58e+01 1ret a.4.1.2 16023 2gokA 429 8.60e+01 1u1zA 168 8.72e+01 d.38.1.6 107602 1mv3A 213 8.76e+01 b.34.2.1 91468 1rwyA 109 8.79e+01 a.39.1.4 98002 1jyhA 157 8.79e+01 d.60.1.3 71956 2c27A 315 8.81e+01 1fu1A 203 8.81e+01 1fu1B b.59.1.1,h.1.11.1 27076,45630 3vub 101 8.89e+01 3vub b.34.6.1 24613 1x54A 434 8.91e+01