# List of top-scoring protein chains for t06-100-40-40-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.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 2fhqA 141 9.17e-12 1rfeA 162 1.27e-10 1dnlA 199 1.90e-10 1ci0A b.45.1.1 25753 1g79A 218 2.66e-10 1ci0A b.45.1.1 25752 1nrgA 261 3.34e-10 b.45.1.1 80694 1ty9A 222 5.15e-10 1vl7A 157 3.59e-09 b.45.1.1 108732 2fg9A 178 8.05e-08 2furA 209 9.15e-08 2asfA 137 2.05e-07 1xhnA 184 3.52e-07 2arzA 247 6.72e-07 2aq6A 147 1.95e-06 1w9aA 147 3.11e-05 1flmA 122 6.32e-04 1axj b.45.1.1 25747 1ejeA 192 1.34e-02 1ejeA b.45.1.2 25757 1w3oA 216 1.40e-02 1yoaA 159 1.20e-01 1zirA 173 1.44e-01 1m8uA 173 1.68e-01 b.11.1.1,b.11.1.1 91233,91234 1h4aX 173 1.88e-01 b.11.1.1,b.11.1.1 83479,83480 1rz1A 161 2.52e-01 b.45.1.2 98124 1i0rA 169 2.64e-01 1i0rA b.45.1.2 61489 1ylnA 252 2.66e-01 1vgjA 184 3.94e-01 1amm 174 5.62e-01 1amm b.11.1.1,b.11.1.1 23587,23588 2acaA 189 7.40e-01 1t5rA 284 8.80e-01 f.6.1.1 106465 1yr2A 741 1.08e+00 1w6sA 599 1.16e+00 2dcnA 311 1.23e+00 1v0wA 506 1.51e+00 d.136.1.2,d.136.1.2 108220,108221 2bbkH 355 1.71e+00 2bbkH b.69.2.1 27634 2a1fA 247 1.80e+00 1y43B 173 1.91e+00 3sil 379 1.97e+00 3sil b.68.1.1 27542 1vheA 373 2.11e+00 b.49.3.1,c.56.5.4 100669,100670 1ytqA 204 2.13e+00 2cxcA 144 2.22e+00 1q7fA 286 2.27e+00 b.68.9.1 96036 2d37A 176 2.53e+00 2fp8A 322 2.75e+00 2agyA 361 2.84e+00 2gjgA 248 3.20e+00 1u7bA 261 3.56e+00 1yfqA 342 4.26e+00 1xv2A 237 4.27e+00 1rliA 184 4.28e+00 c.23.5.6 97647 1n3lA 372 4.59e+00 c.26.1.1 79966 1n1tA 641 5.11e+00 b.29.1.15,b.68.1.1 79821,79822 2a6zA 222 5.31e+00 1gotB 340 5.46e+00 1tbgA b.69.4.1 27648 1zd7A 159 5.86e+00 1y07A 128 6.33e+00 2b4yA 271 6.75e+00 2f6kA 307 6.85e+00 1ryaA 160 6.90e+00 d.113.1.5 105122 1xzwA 426 6.95e+00 2cn3A 737 7.11e+00 1y12A 165 7.59e+00 1wj9A 211 7.62e+00 1h6fA 193 7.68e+00 b.2.5.4 70901 2ar1A 172 7.80e+00 2bkrA 212 7.85e+00 1qwlA 505 8.09e+00 e.5.1.1 96483 1wr2A 238 8.10e+00 1vggA 161 8.39e+00 2bv2A 83 9.28e+00 1y08A 323 1.09e+01 1ye8A 178 1.12e+01 1p4uA 153 1.12e+01 b.1.10.2 87780 1pvmA 184 1.13e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1npeA 267 1.14e+01 b.68.5.1 92032 1wzaA 488 1.20e+01 1t77A 414 1.22e+01 1dykA 394 1.24e+01 1dykA b.29.1.4,b.29.1.4 24223,24224 1pjxA 314 1.25e+01 b.68.6.1 104167 1zybA 232 1.25e+01 1mxgA 435 1.25e+01 b.71.1.1,c.1.8.1 85193,85194 1dpgA 485 1.26e+01 1dpgA c.2.1.3,d.81.1.5 30074,39989 2cxhA 217 1.26e+01 1jw9B 249 1.26e+01 c.111.1.1 67377 1azo 232 1.30e+01 1azo c.52.1.14 33329 1r6xA 395 1.32e+01 b.122.1.3,c.26.1.5 97167,97168 1hxxA 340 1.33e+01 2omf f.4.3.1 61385 1rocA 155 1.33e+01 b.1.22.1 97673 1k32A 1045 1.36e+01 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 68068,68069,68070,68071 1oz2A 331 1.40e+01 b.34.9.3,b.34.9.3,b.34.9.3 93781,93782,93783 2ffyA 358 1.42e+01 1hm9A 468 1.43e+01 b.81.1.4,c.68.1.5 65866,65867 1yc5A 246 1.43e+01 1cv8 174 1.46e+01 1cv8 d.3.1.1 37089 2sak 121 1.49e+01 2sak d.15.5.1 37711 1w1hA 151 1.51e+01 1k8kC 372 1.54e+01 b.69.4.1 68308 1gt1A 159 1.57e+01 b.60.1.1 90515 1v54B 227 1.58e+01 b.6.1.2,f.17.2.1 100322,100323 7ahlA 293 1.60e+01 7ahlA f.6.1.1 43812 1ww7A 160 1.62e+01 1wp5A 323 1.63e+01 1n0wA 243 1.65e+01 c.37.1.11 79772 1amx 180 1.66e+01 1amx b.2.3.1 22410 1mg4A 113 1.68e+01 d.15.11.1 84953 1dkzA 219 1.74e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 1dgfA 497 1.75e+01 1cf9A e.5.1.1 42782 1zboA 210 1.79e+01 2bklA 695 1.81e+01 2f4nA 273 1.84e+01 2biwA 490 1.85e+01 1rttA 193 1.91e+01 c.23.5.4 105098 1tuhA 156 1.92e+01 d.17.4.11 107345 1n4kA 381 1.93e+01 a.118.22.1,b.42.6.1 79992,79993 1vyfA 135 1.96e+01 b.60.1.2 108902 1r2zA 274 1.99e+01 a.156.1.2,b.113.1.1,g.39.1.8 96892,96893,96894 2bneA 241 2.02e+01 1okiA 210 2.07e+01 b.11.1.1,b.11.1.1 93255,93256 2bu3A 254 2.14e+01 1pvgA 418 2.14e+01 d.14.1.3,d.122.1.2 95161,95162 1vqoD 177 2.15e+01 1nnwA 252 2.17e+01 d.159.1.5 80674 1qyaA 307 2.23e+01 d.21.1.2,d.21.1.2 104653,104654 1a1x 108 2.24e+01 1a1x b.63.1.1 27514 1y8xB 98 2.26e+01 1ojrA 274 2.31e+01 c.74.1.1 93147 1jofA 365 2.31e+01 b.69.10.1 71775 2aa4A 289 2.31e+01 1ybdA 239 2.32e+01 1di6A 195 2.35e+01 1di6A c.57.1.1 33863 2h1tA 188 2.38e+01 1cruA 454 2.44e+01 1c9uA b.68.2.1 27617 2cwsA 237 2.46e+01 1nh8A 304 2.48e+01 c.94.1.1,d.58.5.3 80507,80508 2amhA 207 2.49e+01 2aneA 125 2.50e+01 1r75A 141 2.51e+01 b.134.1.1 97189 2bcjB 340 2.53e+01 3fib 249 2.54e+01 3fib d.171.1.1 42455 1lkfA 299 2.55e+01 1pvl f.6.1.1 43821 1sgpE 185 2.64e+01 1qq4A b.47.1.1 25816 1dkiA 371 2.68e+01 1dkiA d.3.1.1 37090 1v4pA 157 2.68e+01 1gy7A 125 2.71e+01 d.17.4.2 70738 1jfuA 186 2.73e+01 c.47.1.10 62940 2a13A 166 2.75e+01 2gfgA 193 2.83e+01 1gsoA 431 2.84e+01 1gsoA b.84.2.1,c.30.1.1,d.142.1.2 28240,31647,41492 1jz8A 1023 2.85e+01 b.1.4.1,b.1.4.1,b.18.1.5,b.30.5.1,c.1.8.3 67830,67831,67832,67833,67834 1u00A 227 2.89e+01 1lktA 104 2.92e+01 1lktA b.90.1.1 28398 1m4jA 142 2.93e+01 d.109.1.2 78602 1h2wA 710 2.94e+01 b.69.7.1,c.69.1.4 76596,76597 1n08A 163 2.94e+01 b.43.5.1 79730 1pfo 500 2.94e+01 1pfo f.9.1.1 43826 1ud9A 245 2.94e+01 d.131.1.2,d.131.1.2 107768,107769 1al3 324 2.94e+01 1al3 c.94.1.1 35835 2erfA 209 2.97e+01 1bcpB 199 3.04e+01 1bcpB b.40.2.1,d.169.1.2 25120,42429 2bgoA 140 3.05e+01 1rgzA 363 3.09e+01 e.3.1.1 97457 2fwuA 157 3.13e+01 1t6lA 290 3.13e+01 d.131.1.2,d.131.1.2 106574,106575 1h2cA 140 3.14e+01 b.31.1.1 83462 2bwqA 129 3.20e+01 1i4uA 181 3.20e+01 b.60.1.1 61732 2flsA 132 3.25e+01 1z7xW 461 3.25e+01 2ai4A 119 3.28e+01 1ewfA 456 3.31e+01 1bp1 d.83.1.1,d.83.1.1 40024,40025 1zm8A 259 3.31e+01 2cxvA 219 3.34e+01 1t0iA 191 3.36e+01 c.23.5.4 106209 1os8A 223 3.38e+01 b.47.1.1 93481 1gppA 237 3.43e+01 b.86.1.2 76262 1iuqA 367 3.45e+01 c.112.1.1 90703 1ckmA 330 3.51e+01 1ckmA b.40.4.6,d.142.2.3 25358,41585 1rloA 271 3.57e+01 1y7bA 542 3.60e+01 1z2wA 192 3.61e+01 1gv9A 260 3.63e+01 b.29.1.13 70596 1x67A 146 3.63e+01 1kxoA 184 3.67e+01 b.60.1.1 84475 1iukA 140 3.69e+01 c.2.1.8 83712 1kuuA 202 3.73e+01 d.153.2.1 73019 1zh5A 195 3.74e+01 1bj7 156 3.76e+01 1bj7 b.60.1.1 27113 1ysjA 404 3.76e+01 1guiA 155 3.79e+01 b.18.1.14 76351 1bfg 146 3.83e+01 1bfg b.42.1.1 25485 1kk1A 410 3.83e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1w07A 659 3.84e+01 2cwzA 141 3.91e+01 1h30A 422 3.93e+01 b.29.1.4,b.29.1.4 76604,76605 2gclA 261 3.96e+01 2fvgA 340 3.98e+01 1ysrA 150 4.09e+01 1vpkA 378 4.11e+01 1h7zA 194 4.13e+01 1qhvA b.21.1.1 60733 2f06A 144 4.18e+01 2a1vA 144 4.19e+01 1jx4A 352 4.23e+01 d.240.1.1,e.8.1.7 90378,90379 1xfkA 336 4.25e+01 1feuA 206 4.27e+01 1feuA b.53.1.1 59801 1z90A 469 4.35e+01 1i12A 160 4.38e+01 1i21A d.108.1.1 61515 1m1zA 513 4.39e+01 c.26.2.1,d.153.1.1 78457,78458 1pg6A 243 4.40e+01 b.82.5.2 94673 2eveA 157 4.42e+01 1yt3A 375 4.42e+01 1v2xA 194 4.42e+01 c.116.1.1 100274 1o1yA 239 4.50e+01 c.23.16.1 86554 1bjt 793 4.52e+01 1bjt e.11.1.1 43249 1h3gA 601 4.55e+01 b.1.18.2,b.71.1.1,c.1.8.1 90594,90595,90596 1u0kA 288 4.55e+01 d.21.1.2,d.21.1.2 107547,107548 1ex2A 189 4.63e+01 1ex2A c.51.4.2 33225 1nni1 174 4.63e+01 1uxaA 194 4.64e+01 b.21.1.1 108091 1yrbA 262 4.65e+01 1ijqA 316 4.68e+01 1ijqA b.68.5.1,g.3.11.1 62506,62507 1z4vA 532 4.71e+01 1kjlA 146 4.72e+01 1lr5A 163 4.75e+01 b.82.1.2 74215 1l0wA 580 4.78e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 1rsy 152 4.80e+01 1rsy b.7.1.2 23192 1suuA 312 4.81e+01 b.68.10.1 99006 1uj6A 227 4.85e+01 c.124.1.4,d.58.40.1 107898,107899 1g291 372 4.89e+01 1g291 1z5bA 469 4.92e+01 1zud1 251 4.96e+01 1gtkA 313 4.98e+01 c.94.1.1,d.50.2.1 76346,76347 1c93A 265 5.00e+01 2ebn c.1.8.5 28998 1d4oA 184 5.01e+01 1d4oA c.31.1.4 31748 1umwA 237 5.02e+01 d.223.1.2,d.223.1.2 99631,99632 1s3zA 165 5.02e+01 d.108.1.1 105250 1ri6A 343 5.04e+01 b.69.11.1 97503 1v3eA 431 5.13e+01 b.68.1.1 100287 2aukA 190 5.13e+01 1qipA 183 5.16e+01 1qipA d.32.1.1 38470 1im5A 180 5.17e+01 c.33.1.3 66211 1vgyA 393 5.23e+01 c.56.5.4,d.58.19.1 100620,100621 1zhxA 438 5.25e+01 1lvwA 295 5.30e+01 c.68.1.6 84723 1ofzA 312 5.32e+01 b.68.8.1 86978 2d13A 227 5.40e+01 2g0qA 173 5.40e+01 2ghsA 326 5.41e+01 1iirA 415 5.53e+01 1iirA c.87.1.5 62453 1e4fT 419 5.60e+01 1e4fT c.55.1.1,c.55.1.1 33453,33454 4dfrA 159 5.61e+01 1vdrA c.71.1.1 34822 1lp9E 194 5.63e+01 b.1.1.1,b.1.1.2 91086,91087 1tq4A 413 5.70e+01 c.37.1.8 107201 2fdiA 211 5.71e+01 1uscA 178 5.72e+01 b.45.1.2 99860 1e4iA 447 5.73e+01 1e70M c.1.8.4 59225 1txvA 452 5.74e+01 1wzvA 155 5.83e+01 1amuA 563 5.84e+01 1amuA e.23.1.1 43351 1x54A 434 5.96e+01 1jlyA 304 5.97e+01 1jlyA b.42.3.1,b.42.3.1 25587,25588 1bf6A 291 6.08e+01 1pscA c.1.9.3 29065 2f46A 156 6.10e+01 1gdhA 320 6.12e+01 1gdhA c.2.1.4,c.23.12.1 30095,31355 2g8lA 299 6.24e+01 1y4hA 188 6.24e+01 1pvl 301 6.26e+01 1pvl f.6.1.1 43819 1wmmA 145 6.33e+01 1w8oA 601 6.36e+01 1h5wA 309 6.38e+01 e.27.1.1 65635 1sl4A 155 6.39e+01 d.169.1.1 105710 1bkzA 135 6.43e+01 1a3k b.29.1.3 24202 1aapA 58 6.45e+01 1bpi g.8.1.1 44543 1l7dA 384 6.46e+01 c.2.1.4,c.23.12.2 77774,77775 1tg7A 971 6.52e+01 2c9wA 169 6.54e+01 2a1rA 430 6.54e+01 1eaxA 241 6.55e+01 b.47.1.2 64889 1c0pA 363 6.56e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 1ik9A 213 6.56e+01 b.59.1.1,h.1.11.1 66176,66177 1erjA 393 6.62e+01 1erjA b.69.4.1 27660 1r5mA 425 6.66e+01 1t3gA 159 6.66e+01 2fy6A 143 6.66e+01 1vhoA 346 6.67e+01 b.49.3.1,c.56.5.4 100694,100695 1gweA 503 6.71e+01 e.5.1.1 70667 1e5pA 151 6.76e+01 1bj7 b.60.1.1 59272 1wi1A 126 6.77e+01 1qs1A 462 6.81e+01 1qs1A d.166.1.1,d.166.1.1 42260,42261 2aexA 346 6.90e+01 2b06A 155 7.23e+01 1juvA 193 7.24e+01 c.71.1.1 90912 1xt5A 135 7.30e+01 1ash 150 7.41e+01 1ash a.1.1.2 15622 2bjqA 345 7.43e+01 1y55X 126 7.44e+01 1xo0A 324 7.44e+01 2basA 431 7.45e+01 1e58A 249 7.46e+01 1qhfA c.60.1.1 59262 1uyjA 296 7.47e+01 f.8.1.2 108143 1jubA 311 7.50e+01 c.1.4.1 90908 1s14A 194 7.50e+01 d.122.1.2 98329 1v04A 355 7.54e+01 b.68.6.2 100240 2trcP 217 7.56e+01 1b9yC c.47.1.6 33051 1uzxA 169 7.56e+01 d.20.1.2 100238 1rg8A 146 7.59e+01 1kt6A 183 7.72e+01 b.60.1.1 84466 2bzvA 181 7.78e+01 1jkgA 140 7.88e+01 d.17.4.2 66795 1pxvA 183 7.88e+01 d.3.1.1 95301 1sb8A 352 7.96e+01 c.2.1.2 105410 1yixA 265 7.99e+01 1ifc 132 8.01e+01 b.60.1.2 27173 1vhsA 175 8.08e+01 d.108.1.1 100698 1j8mF 297 8.21e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1r77A 103 8.29e+01 1d1gA 168 8.32e+01 1d1gA c.71.1.1 34889 2gq1A 332 8.35e+01 2ftrA 108 8.37e+01 2gokA 429 8.50e+01 1zjjA 263 8.53e+01 1oacA 727 8.55e+01 1oacA b.30.2.1,d.17.2.1,d.17.2.1,d.82.1.1 24390,38007,38008,40003 1vkbA 161 8.56e+01 d.269.1.1 108643 1v30A 124 8.58e+01 1ci9A 392 8.60e+01 e.3.1.1 64767 1othA 321 8.62e+01 1othA c.78.1.1,c.78.1.1 35260,35261 1fg7A 356 8.66e+01 1gewA c.67.1.1 59819 1wcuA 153 8.68e+01 1npuA 117 8.73e+01 b.1.1.1 92038 1z0wA 207 8.73e+01 1zpwX 90 8.75e+01 1qtnA 164 8.78e+01 1pauA c.17.1.1 30999 1z5zA 271 8.78e+01 1dmhA 311 8.79e+01 1dmhA b.3.6.1 22633 1edt 271 8.84e+01 2ebn c.1.8.5 28993 2bvfA 459 8.89e+01 1sdjA 310 8.92e+01 d.21.1.2,d.21.1.2 98807,98808 2cfxA 144 8.98e+01