# List of top-scoring protein chains for t04-100-40-40-str2+CB_burial_14_7-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.soe.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 1wy1A 172 1.95e-01 2rfbA 343 8.44e-01 1n4kA 381 1.14e+00 a.118.22.1,b.42.6.1 79992,79993 3cxbA 336 2.18e+00 3kvlA 390 2.48e+00 1qmqA 414 2.59e+00 1phd a.104.1.1 18907 3kraB 274 2.63e+00 1d3gA 367 2.63e+00 1d3gA c.1.4.1 28600 2dvtA 327 2.88e+00 c.1.9.15 131793 3l22A 441 3.09e+00 1zp2A 235 3.49e+00 2b0mA 393 3.61e+00 c.1.4.1 127644 2uuqA 414 3.64e+00 2zwuA 415 3.68e+00 1yrcA 414 3.95e+00 a.104.1.1 123917 3jq1A 481 4.26e+00 1dz4A 414 4.55e+00 1phd a.104.1.1 18903 2whfA 413 4.65e+00 2cwlA 302 5.39e+00 a.25.1.3 130927 1tqnA 486 5.48e+00 a.104.1.1 107238 1knvA 293 5.66e+00 c.52.1.7 68707 2b76A 602 5.80e+00 a.7.3.1,c.3.1.4,d.168.1.1 128009,128010,128011 3draB 390 6.43e+00 2ou6A 190 6.63e+00 a.213.1.2 149020 1aisB 200 6.71e+00 1aisB a.74.1.2,a.74.1.2 18384,18385 2v8tA 302 6.88e+00 1jf4A 147 7.71e+00 a.1.1.2 71643 1lis 136 7.79e+00 1lis 1huw 166 7.80e+00 1huw 2lisA 136 8.03e+00 1lis a.19.1.1 16405 1ah7 245 8.56e+00 1ah7 1ah7A 245 8.56e+00 a.124.1.1 19339 2yx0A 342 9.06e+00 1i45A 248 9.46e+00 1amk c.1.1.1 61665 3g23A 274 9.56e+00 2aaxA 275 1.03e+01 1fj2A 232 1.11e+01 1auoA c.69.1.14 34720 3hyjA 198 1.12e+01 1dlwA 116 1.13e+01 1dlyA a.1.1.1 14982 2jdiD 482 1.18e+01 a.69.1.1,b.49.1.1,c.37.1.11 138263,138264,138265 2idrA 177 1.19e+01 16vpA 366 1.20e+01 16vpA d.180.1.1 42601 2jg6A 186 1.25e+01 1i9gA 280 1.28e+01 c.66.1.13 62090 1xg7A 250 1.32e+01 a.96.1.6 115281 3ci3A 194 1.33e+01 3mekA 429 1.36e+01 2va8A 715 1.39e+01 2k3nA 160 1.49e+01 3b34A 891 1.51e+01 3gwzA 369 1.54e+01 3gd7A 390 1.56e+01 2p3nA 256 1.66e+01 1z5zA 271 1.68e+01 c.37.1.19 124499 1wab 232 1.69e+01 1wab 2bkhA 814 1.70e+01 1ej6D 418 1.78e+01 i.7.1.1 45970 2hivA 621 1.80e+01 1llnA 262 1.81e+01 d.165.1.1 84625 3cvzA 273 1.82e+01 1lmzA 187 1.82e+01 a.96.1.4 74037 1q0sA 259 1.85e+01 c.66.1.28 95509 2ff4A 388 1.91e+01 a.4.6.1,a.118.8.3,b.26.1.2 133367,133368,133369 1wy7A 207 1.91e+01 c.66.1.32 121433 2iagA 482 1.92e+01 2db0A 253 1.92e+01 2v26A 784 1.95e+01 1ek0A 170 2.02e+01 1ctqA c.37.1.8 32076 3cprA 304 2.02e+01 1iq0A 592 2.03e+01 a.27.1.1,c.26.1.1,d.67.2.1 66257,66258,66259 1evlA 401 2.06e+01 1qf6A c.51.1.1,d.104.1.1 33202,40751 1lfkA 398 2.10e+01 a.104.1.1 77926 3gahA 194 2.13e+01 2qgsA 225 2.15e+01 a.211.1.1 150782 1es9A 232 2.17e+01 1wab c.23.10.3 31340 2dq6A 870 2.20e+01 1e79D 482 2.20e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 18272,26437,32317 1dhpA 292 2.21e+01 1dhpA c.1.10.1 29097 3hf2A 482 2.21e+01 2wm5A 435 2.25e+01 2atsA 292 2.27e+01 c.1.10.1 127306 1wf3A 301 2.31e+01 c.37.1.8,d.52.3.1 114574,114575 2r60A 499 2.32e+01 3h4cA 260 2.35e+01 3b6hA 498 2.37e+01 2btvA 901 2.38e+01 2btvA e.28.1.1 43376 2purA 292 2.40e+01 1uumA 372 2.45e+01 c.1.4.1 100010 1aw2A 256 2.45e+01 1amk c.1.1.1 28523 2nt8A 223 2.46e+01 2dokA 186 2.47e+01 1k0eA 453 2.47e+01 d.161.1.1 67938 2gpyA 233 2.50e+01 1izmA 184 2.52e+01 a.199.1.1 90725 3c0qA 301 2.54e+01 1xm5A 155 2.57e+01 d.92.1.15 115467 1qf6A 642 2.57e+01 1qf6A c.51.1.1,d.15.10.1,d.67.1.1,d.104.1.1 33210,39551,39562,40759 2a8aA 439 2.60e+01 1zymA 258 2.62e+01 1zymA a.60.10.1,c.8.1.2 18110,30705 3lewA 495 2.63e+01 2ojpA 292 2.64e+01 1u04A 771 2.65e+01 b.34.14.1,c.55.3.10 107539,107540 2ox1A 196 2.66e+01 1xjjA 644 2.66e+01 2hc9A 491 2.67e+01 1i84S 1184 2.70e+01 1lvk i.15.1.1 61940 3fobA 281 2.72e+01 3hnhA 258 2.73e+01 3elfA 349 2.76e+01 2a6lA 292 2.82e+01 c.1.10.1 126285 1ijxA 127 2.82e+01 1ijxA a.141.1.1 62511 1zlpA 318 2.83e+01 1lm5A 214 2.89e+01 d.211.2.1 74029 2r4gA 267 2.91e+01 1hm6A 346 2.92e+01 1avc a.65.1.1 18147 1neyA 247 2.94e+01 c.1.1.1 80449 3eslA 202 2.97e+01 2ejcA 280 3.00e+01 1dlyA 164 3.04e+01 1dlyA a.1.1.1 14983 2zvyA 183 3.04e+01 3l1bA 233 3.06e+01 3js4A 227 3.11e+01 1n40A 396 3.11e+01 a.104.1.1 79977 3mcxA 477 3.14e+01 1s4bP 674 3.15e+01 d.92.1.5 105252 3gajA 187 3.16e+01 1krqA 167 3.17e+01 a.25.1.1 68855 2hyvA 308 3.19e+01 2j6vA 301 3.19e+01 2o36A 674 3.24e+01 2x97A 598 3.25e+01 3gaiA 194 3.28e+01 3fluA 297 3.31e+01 3myfA 119 3.42e+01 1rwhA 757 3.46e+01 a.102.3.2,b.24.1.1,b.30.5.2 97984,97985,97986 2fulA 178 3.48e+01 2osoA 163 3.52e+01 d.278.1.3 149006 2kvcA 103 3.52e+01 1p2xA 159 3.58e+01 a.40.1.1 104062 2eb1A 200 3.59e+01 2ex3B 264 3.59e+01 a.263.1.1 132500 3ebmA 180 3.66e+01 2paqA 201 3.72e+01 a.211.1.1 139643 2zovA 210 3.73e+01 3k9vA 482 3.79e+01 2qr5A 582 3.82e+01 b.69.7.2,c.69.1.33 151278,151279 1tm9A 137 3.82e+01 a.225.1.1 107150 1nv8A 284 3.83e+01 c.66.1.30 86224 1zzpA 130 3.85e+01 2dpmA 284 3.86e+01 2dpmA c.66.1.28 34246 3lkdA 542 3.87e+01 3h4lA 367 3.87e+01 1wnhA 225 3.89e+01 2a6nA 292 3.91e+01 c.1.10.1 126289 3kezA 461 3.91e+01 1nx8A 273 3.96e+01 b.82.2.8 86374 2bo9B 222 3.98e+01 d.17.1.5,d.17.1.5 128898,128899 1io7A 368 4.02e+01 1f4tA a.104.1.1 18971 3fxvA 233 4.08e+01 2dg6A 222 4.11e+01 1zkrA 153 4.15e+01 a.101.1.1,a.101.1.1 125209,125210 1zoiA 276 4.16e+01 3enbA 222 4.16e+01 c.55.3.14 158189 2f94F 350 4.20e+01 1jf3A 147 4.24e+01 a.1.1.2 71642 2a97A 439 4.25e+01 1edg 380 4.26e+01 1edg 1edgA 380 4.26e+01 c.1.8.3 28807 3hgtA 328 4.36e+01 3f5cB 268 4.37e+01 2pdrA 149 4.38e+01 1n4qB 377 4.38e+01 a.102.4.3 91636 2waoA 341 4.40e+01 1jqoA 970 4.42e+01 c.1.12.3 77160 1tffA 234 4.45e+01 d.3.1.11 106854 3hx3A 316 4.46e+01 3c4bA 265 4.46e+01 1yz1A 174 4.48e+01 b.88.1.2 124264 2hc5A 117 4.52e+01 d.352.1.1 147255 3eb2A 300 4.56e+01 3h51A 156 4.56e+01 2pd8A 149 4.63e+01 3gwjA 674 4.64e+01 3eehA 125 4.65e+01 3daqA 292 4.66e+01 1p5sA 203 4.66e+01 a.40.1.1 94147 1w7bA 339 4.71e+01 a.65.1.1 114317 3c8tA 451 4.75e+01 2e8gA 241 4.78e+01 1ng6A 148 4.87e+01 a.182.1.1 85670 2nwbA 400 4.92e+01 1o5xA 248 4.93e+01 c.1.1.1 92528 2zs0C 147 4.99e+01 2bceA 585 5.00e+01 c.69.1.1 34625 2otnA 308 5.01e+01 2jbwA 386 5.04e+01 c.69.1.41 147962 1a88A 275 5.06e+01 1brt c.69.1.12 34707 1s1fA 406 5.07e+01 a.104.1.1 112008 2rauA 354 5.07e+01 1mvwA 840 5.08e+01 i.15.1.1 79523 3b8lA 163 5.10e+01 d.17.4.28 154955 1qusA 322 5.16e+01 1ltm d.2.1.6 36991 3h9mA 436 5.17e+01 2ofkA 183 5.22e+01 2qn0A 430 5.22e+01 1upkA 341 5.23e+01 a.118.1.15 99758 1j09A 468 5.24e+01 a.97.1.1,c.26.1.1 77025,77026 2x41A 721 5.30e+01 2x26A 308 5.32e+01 2rioA 434 5.33e+01 3i65A 415 5.34e+01 2ejnA 153 5.35e+01 a.101.1.1,a.101.1.1 132279,132280 2parA 201 5.39e+01 3d72A 149 5.43e+01 2czqA 205 5.44e+01 1wwzA 159 5.50e+01 d.108.1.1 121380 2etsA 128 5.51e+01 a.24.26.1 132371 1n7oA 721 5.53e+01 a.102.3.2,b.24.1.1,b.30.5.2 80259,80260,80261 1gw5A 621 5.54e+01 a.118.1.10 70629 1s1eA 224 5.56e+01 a.39.1.5 112007 2q4uA 272 5.57e+01 2hmaA 376 5.58e+01 1g8xA 1010 5.59e+01 1lvk k.1.1.1 46378 3g2mA 299 5.61e+01 2gakA 391 5.62e+01 2wabA 341 5.62e+01 3l55A 353 5.63e+01 2wslA 529 5.65e+01 3dzvA 273 5.67e+01 2a7oA 112 5.70e+01 2r8bA 251 5.73e+01 c.69.1.14 151696 3g16A 156 5.76e+01 3eweB 564 5.81e+01 3ie7A 320 5.83e+01 2hwwA 181 5.85e+01 1xn8A 131 5.85e+01 a.229.1.1 115577 2dp3A 257 5.87e+01 2hbg 147 5.88e+01 2hbg 1a8qA 274 5.88e+01 c.69.1.12 34702 1bdfA 235 5.89e+01 1bdfA d.74.3.1,d.181.1.1 39727,42602 3hu3A 489 5.90e+01 2i0xA 85 5.90e+01 d.58.58.1 147482 3gr0A 197 5.92e+01 1eysC 382 5.98e+01 6prcC a.138.1.2 19678 2qhbA 86 6.00e+01 a.4.1.3 150786 2z51A 154 6.00e+01 2w7wA 194 6.03e+01 1o0pA 104 6.05e+01 d.58.7.1 86535 3m07A 618 6.06e+01 1d4aA 273 6.12e+01 1d4aA c.23.5.3 31219 3hdxA 478 6.13e+01 2klcA 101 6.14e+01 1e8gA 560 6.16e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 2ah6A 208 6.16e+01 1jliA 112 6.22e+01 a.26.1.2 16884 2hu5A 582 6.29e+01 b.69.7.2,c.69.1.33 136763,136764 1vrmA 325 6.29e+01 d.96.2.1 120472 2jynA 146 6.29e+01 3mbjA 291 6.30e+01 2pbeA 294 6.31e+01 a.160.1.5,d.218.1.13 149355,149356 1puc 105 6.38e+01 1puc 1pucA 105 6.38e+01 d.97.1.1 40675 1tig 94 6.43e+01 1tig 1tigA 94 6.43e+01 d.68.1.1 39566 1xfjA 261 6.44e+01 d.194.1.2 109585 1gxqA 106 6.46e+01 a.4.6.1 70721 2a35A 215 6.46e+01 c.2.1.2 126072 1eu8A 409 6.47e+01 1eu8A c.94.1.1 59502 1f2tB 148 6.48e+01 1f2tB 2qr7A 342 6.49e+01 1y791 680 6.49e+01 1eguA 731 6.52e+01 1eguA a.102.3.2,b.24.1.1,b.30.5.2 18850,23899,24423 1w44A 331 6.52e+01 c.37.1.11 114147 1r2fA 319 6.62e+01 1r2fA a.25.1.2 16800 2ij2A 470 6.68e+01 a.104.1.1 137449 3hxiA 189 6.71e+01 3fayA 387 6.72e+01 1bsmA 201 6.73e+01 1avmA a.2.11.1,d.44.1.1 15780,38743 3i4gA 528 6.78e+01 1k6xA 352 6.79e+01 c.2.1.2 68238 3hklA 197 6.82e+01 1x58A 62 6.84e+01 a.4.1.1 121705 2qyuA 627 6.92e+01 2vhjA 331 6.98e+01 3bi8A 291 7.04e+01 1y14A 187 7.08e+01 a.60.8.2 116322 1ypfA 336 7.08e+01 1tzvA 142 7.12e+01 a.79.1.1 107526 2yvlA 248 7.16e+01 1qhhA 167 7.20e+01 1pjr c.37.1.19 32393 1rtrA 301 7.22e+01 a.128.1.1 97820 2bkmA 128 7.26e+01 2hldD 478 7.30e+01 1ovaA 386 7.32e+01 1ovaA e.1.1.1 42619 2ccmA 191 7.33e+01 1ztsA 139 7.35e+01 1rkpA 326 7.38e+01 a.211.1.2 97620 2g1pA 278 7.40e+01 1wa5C 960 7.40e+01 a.118.1.1 114433 1yyaA 250 7.40e+01 1p16A 395 7.42e+01 b.40.4.6,d.142.2.3 87661,87662 1brwA 433 7.47e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 2rekA 199 7.48e+01 3f1xA 310 7.53e+01 2np5A 203 7.56e+01 a.4.1.9,a.121.1.1 138424,138425 3m6jA 145 7.60e+01 3fdqA 170 7.61e+01 2rajA 392 7.63e+01 1p0yA 444 7.64e+01 a.166.1.1,b.85.7.3 87654,87655 1gln 468 7.69e+01 1gln 3d79A 179 7.69e+01 1p0iA 529 7.75e+01 c.69.1.1 93867 1go4A 205 7.76e+01 d.135.1.1 70292 2zu0C 267 7.77e+01 2v5xA 388 7.87e+01 1ee8A 266 7.87e+01 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 1v9mA 323 7.88e+01 f.40.1.1 100543 2zfyA 234 7.89e+01 1d0yA 761 7.92e+01 1lvk b.34.3.1,c.37.1.9 24581,32178 2qnlA 162 7.92e+01 1mijA 152 7.93e+01 a.4.1.1 79150 1avmA 201 7.96e+01 1avmA a.2.11.1,d.44.1.1 15782,38745 2zfoC 147 7.96e+01 2vl7A 540 7.97e+01 3cnlA 262 7.97e+01