# List of top-scoring protein chains for t2k-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 1fjrA 195 8.30e-01 1fjrA b.102.1.1 59855 1ebfA 358 1.35e+00 1ebuA c.2.1.3,d.81.1.2 30033,39948 1g55A 343 1.45e+00 1g55A c.66.1.26 34247 1tu1A 148 1.70e+00 d.107.1.3 107316 1v8fA 276 2.69e+00 c.26.1.4 100503 3proC 166 3.23e+00 3proC d.52.1.1,d.52.1.1 38812,38813 2cjtA 131 3.26e+00 2bjuA 453 3.43e+00 1kao 167 3.97e+00 1ctqA c.37.1.8 32014 1d8hA 311 4.52e+00 1d8iA d.63.1.1 39544 1x82A 190 4.53e+00 1h8eH 146 4.89e+00 1e79H b.93.1.1 60757 1jae 471 4.96e+00 1smd b.71.1.1,c.1.8.1 27773,28760 1f5mA 180 5.28e+00 1f5mB d.110.2.1 40895 1o0iA 138 5.79e+00 d.38.1.5 86532 1gppA 237 6.45e+00 b.86.1.2 76262 1y8oB 128 6.65e+00 1sxvA 172 7.09e+00 2b20A 403 7.10e+00 1ifrA 121 7.18e+00 b.1.16.1 71203 1mwwA 128 7.42e+00 d.80.1.4 91483 1pyaB 228 7.50e+00 1pyaB 1qksA 567 8.32e+00 1qksA a.3.1.2,b.70.2.1 15951,27710 1dmhA 311 9.11e+00 1dmhA b.3.6.1 22633 1aym3 238 9.13e+00 1aym3 1ly1A 181 9.18e+00 c.37.1.1 74334 1wd3A 482 9.52e+00 b.29.1.21,b.42.8.1 109233,109234 2evwX 166 1.01e+01 2a9dA 372 1.03e+01 1twuA 139 1.05e+01 d.32.1.8 107413 2cyeA 133 1.07e+01 1g8aA 227 1.27e+01 c.66.1.3 90506 1cl8A 276 1.28e+01 1ckqA c.52.1.1 33230 1ryoA 327 1.37e+01 c.94.1.2 98108 2h3bA 494 1.40e+01 1ltqA 301 1.41e+01 c.108.1.9,c.37.1.1 78208,78209 2gj8A 172 1.41e+01 1vj0A 380 1.42e+01 b.35.1.2,c.2.1.1 100786,100787 1b65A 375 1.44e+01 1b65A d.154.1.1 42020 1m7vA 363 1.45e+01 d.174.1.1 78748 1mrzA 293 1.52e+01 b.43.5.1,c.26.1.3 91452,91453 2a90A 240 1.53e+01 1bb9 115 1.61e+01 1bb9 b.34.2.1 24554 2bukA 196 1.76e+01 1y7rA 133 1.78e+01 2faoA 309 1.82e+01 1uyrA 737 1.91e+01 c.14.1.4,c.14.1.4 100188,100189 1gdvA 85 1.92e+01 1ctj a.3.1.1 60458 2apr 325 2.07e+01 2er7E b.50.1.2 26819 2f1lA 187 2.15e+01 1kdj 102 2.16e+01 1plc b.6.1.1 22864 1zsqA 528 2.20e+01 1x9gA 200 2.24e+01 c.33.1.3 109527 1vk0A 206 2.29e+01 c.55.3.5 100839 1d4xG 126 2.32e+01 1d0nA d.109.1.1 59109 1eazA 125 2.33e+01 b.55.1.1 70113 1u04A 771 2.36e+01 b.34.14.1,c.55.3.10 107539,107540 1zgoA 223 2.36e+01 1w2xA 758 2.36e+01 c.14.1.4,c.14.1.4 109134,109135 2as0A 396 2.40e+01 1j7xA 302 2.48e+01 c.14.1.2 66425 1h12A 405 2.52e+01 a.102.1.2 83447 1svy 114 2.56e+01 1svy d.109.1.1 40831 1j83A 180 2.58e+01 b.18.1.12 66430 1wddS 128 2.58e+01 2b1xA 470 2.60e+01 1ze3D 125 2.62e+01 2b18A 164 2.62e+01 1w2lA 99 2.71e+01 1ctqA 166 2.79e+01 1ctqA c.37.1.8 31965 1k7kA 221 2.86e+01 c.51.4.1 72104 1dkzA 219 2.87e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 1ocxA 182 2.96e+01 b.81.1.3 86814 2d4rA 147 2.99e+01 1rliA 184 3.02e+01 c.23.5.6 97647 1xkzA 255 3.05e+01 2ff4A 388 3.16e+01 1vj2A 126 3.16e+01 b.82.1.10 100796 1x9pA 523 3.17e+01 1ois 223 3.19e+01 1a36A e.15.1.1 43267 3sil 379 3.25e+01 3sil b.68.1.1 27542 1dbhA 354 3.26e+01 1awe a.87.1.1,b.55.1.1 18514,26967 1xakA 83 3.27e+01 1b9wA 89 3.32e+01 1b9wA g.3.11.4,g.3.11.4 44334,44335 1tvdA 116 3.35e+01 1tvdA b.1.1.1 20650 1rgxA 114 3.40e+01 g.77.1.1 104932 1qwtA 255 3.43e+01 b.26.1.3 96501 3tdt 274 3.48e+01 3tdt b.81.1.2 28053 1wteA 272 3.49e+01 1v3yA 192 3.53e+01 1o6aA 96 3.55e+01 b.139.1.1 92562 1ub1A 133 3.57e+01 d.10.1.3 99140 1t44G 147 3.61e+01 d.109.1.1 106395 1dhkB 223 3.63e+01 1led b.29.1.1 24157 1hw6A 278 3.65e+01 1frb c.1.7.1 61296 1tmxA 293 3.65e+01 1xvsA 126 3.65e+01 2b4wA 315 3.66e+01 1xneA 113 3.67e+01 1nu0A 138 3.67e+01 c.55.3.8 92165 2axyA 73 3.68e+01 1iybA 208 3.74e+01 d.124.1.1 90720 1ctj 89 3.74e+01 1ctj a.3.1.1 15798 1fjgE 162 3.75e+01 1pkp d.14.1.1,d.50.1.2 37553,38789 1bkjA 240 3.77e+01 1bkjA d.90.1.1 40243 1x1rA 178 3.88e+01 1dy9A 187 3.90e+01 1jxpA b.47.1.3 26400 1wi1A 126 3.91e+01 1ohpA 125 3.97e+01 1wloA 136 3.99e+01 2a6hC 1119 4.01e+01 1vl2A 421 4.03e+01 c.26.2.1,d.210.1.1 108708,108709 2cttA 104 4.06e+01 2bvfA 459 4.09e+01 2biwA 490 4.12e+01 1yn4A 99 4.41e+01 1fadA 99 4.49e+01 1fadA a.77.1.2 18428 1jxcA 68 4.49e+01 g.3.7.5 77201 1yewA 382 4.58e+01 2cz2A 223 4.63e+01 1bw0A 416 4.70e+01 1bw0A c.67.1.1 34385 1wkaA 147 4.77e+01 1wtaA 275 4.78e+01 2a5jA 191 4.82e+01 1eljA 381 4.88e+01 4mbp c.94.1.1 35791 1q9rA 219 5.02e+01 b.1.1.1,b.1.1.2 96305,96306 1b34B 118 5.03e+01 1b34B b.38.1.1 24797 1xl3C 92 5.08e+01 1qd6C 240 5.14e+01 1qd5A 1pa1A 310 5.20e+01 c.45.1.2 94404 1to2E 281 5.26e+01 1qy1A 174 5.27e+01 b.60.1.1 96568 1d0dA 60 5.33e+01 1kigI g.8.1.2 44566 1uteA 313 5.33e+01 1uteA d.159.1.1 42078 1zndA 174 5.35e+01 1rwiA 270 5.38e+01 b.68.9.1 97987 1gvp 87 5.40e+01 1gvp b.40.4.7 25369 1tocR 120 5.51e+01 1tocR g.8.1.2,g.8.1.2 44558,44559 2bmjA 178 5.52e+01 1jltB 122 5.59e+01 a.133.1.2 66868 1ckmA 330 5.62e+01 1ckmA b.40.4.6,d.142.2.3 25358,41585 2cohA 202 5.63e+01 1ta9A 450 5.67e+01 1g2nA 264 5.68e+01 1lbd a.123.1.1 60227 1dq3A 454 5.70e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1m1zA 513 5.78e+01 c.26.2.1,d.153.1.1 78457,78458 1xiyA 182 5.80e+01 1pg6A 243 5.96e+01 b.82.5.2 94673 1jmcA 246 5.99e+01 1jmcA b.40.4.3,b.40.4.3 25300,25301 1xtqA 177 6.00e+01 1gw5S 142 6.01e+01 d.110.4.2 70633 2bmwA 304 6.07e+01 1q15A 503 6.16e+01 c.26.2.1,d.153.1.1 95538,95539 1w96A 554 6.19e+01 1e19A 314 6.22e+01 1b7bA c.73.1.1 34967 7taa 478 6.23e+01 7taa b.71.1.1,c.1.8.1 27778,28765 2cwsA 237 6.23e+01 1w8oA 601 6.24e+01 1rlw 126 6.25e+01 1rlw b.7.1.1 23177 2cviA 83 6.25e+01 1smd 496 6.33e+01 1smd b.71.1.1,c.1.8.1 27768,28755 1x99A 145 6.35e+01 2axcA 264 6.36e+01 2fmlA 273 6.39e+01 1fzqA 181 6.40e+01 1hurA c.37.1.8 32060 1jb0C 80 6.51e+01 1jb0C d.58.1.2 62822 1gs5A 258 6.55e+01 c.73.1.2 70395 2c7pA 327 6.56e+01 1y4wA 518 6.56e+01 2gp5A 349 6.59e+01 1bj7 156 6.61e+01 1bj7 b.60.1.1 27113 1oe8A 211 6.65e+01 a.45.1.1,c.47.1.5 86905,86906 2f1nA 262 6.70e+01 1gcqC 70 6.74e+01 1gcpA b.34.2.1 60436 2f71A 298 6.75e+01 1t46A 313 6.75e+01 d.144.1.7 106397 1fuiA 591 6.79e+01 1fuiA b.43.2.1,c.85.1.1 25674,35444 1ef8A 261 6.84e+01 1ef8A c.14.1.3 30921 1res 43 6.85e+01 1ret a.4.1.2 16023 2gokA 429 6.86e+01 1rwyA 109 7.00e+01 a.39.1.4 98002 1jyhA 157 7.01e+01 d.60.1.3 71956 2c27A 315 7.02e+01 3vub 101 7.09e+01 3vub b.34.6.1 24613 1x54A 434 7.10e+01 1j1lA 290 7.18e+01 b.82.1.12 90766 2fjrA 189 7.24e+01 2c52B 59 7.24e+01 1ogiA 303 7.27e+01 b.43.4.2,c.25.1.1 92914,92915 2biiA 424 7.27e+01 1b6rA 355 7.29e+01 1b6rA b.84.2.1,c.30.1.1,d.142.1.2 28241,31648,41493 2d93A 134 7.34e+01 2exnA 136 7.35e+01 1uf5A 303 7.36e+01 d.160.1.2 107808 1xzoA 174 7.37e+01 1ik9A 213 7.43e+01 b.59.1.1,h.1.11.1 66176,66177 1za7A 165 7.45e+01 1bcpF 99 7.45e+01 1prtF b.40.2.1 25142 1oygA 447 7.46e+01 b.67.2.2 93726 2cglA 489 7.49e+01 2a1xA 308 7.53e+01 1fbr 93 7.59e+01 1fbr g.27.1.1,g.27.1.1 44948,44949 2fp7B 172 7.62e+01 1dfmA 223 7.63e+01 1d2iA c.52.1.5 33295 1voqa 90 7.63e+01 2gfaA 119 7.74e+01 1ds1A 324 7.75e+01 1drtA b.82.2.2 28127 1p0hA 318 7.79e+01 d.108.1.1 93866 1vg0A 650 7.80e+01 c.3.1.3,d.16.1.6 108596,108597 1tqnA 486 7.93e+01 a.104.1.1 107238 1v8hA 107 7.96e+01 2iwrA 178 7.98e+01 1y07A 128 8.00e+01 1e58A 249 8.00e+01 1qhfA c.60.1.1 59262 1ecrA 309 8.06e+01 1ecrA e.2.1.1 42678 1yzfA 195 8.06e+01 2bkrA 212 8.09e+01 1ddwA 120 8.09e+01 1evhA b.55.1.4 27001 1hqz1 141 8.10e+01 1j3wA 163 8.10e+01 d.110.7.1 90833 1dbxA 158 8.13e+01 1dbuA d.116.1.1 40928 1uxjA 309 8.17e+01 c.2.1.5,d.162.1.1 108112,108113 1k32A 1045 8.30e+01 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 68068,68069,68070,68071 1ujnA 348 8.32e+01 e.22.1.1 99460 1yemA 179 8.36e+01 1dxrH 258 8.42e+01 6prcH b.41.1.1,f.23.10.1 25456,43433 1z2aA 168 8.49e+01 1lj5A 379 8.50e+01 e.1.1.1 73928 1zxkA 98 8.57e+01 1whsA 255 8.61e+01 1ivyA c.69.1.5 34649 1lq9A 112 8.61e+01 d.58.4.3 78129 1f9vA 347 8.77e+01 1bg2 c.37.1.9 59745 1rwrA 301 8.91e+01 b.80.1.11 97990 2iugA 120 8.95e+01 2bokA 241 8.96e+01