# List of top-scoring protein chains for t06-100-30-stride-ebghtl-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 1z47A 355 1.68e-02 1fobA 334 3.92e-02 c.1.8.3 83255 1l2tA 235 4.21e-02 c.37.1.12 73514 1sg4A 260 1.16e-01 2b99A 156 2.03e-01 1c9kA 180 3.61e-01 1c9kB c.37.1.11 32363 1jf8A 131 5.05e-01 c.44.1.1 66621 1b0uA 262 6.53e-01 1b0uA c.37.1.12 32370 1vyrA 364 8.25e-01 c.1.4.1 108906 1w44A 331 9.30e-01 1vplA 256 1.20e+00 2gtrA 261 1.24e+00 1e6uA 321 1.28e+00 1bsvA c.2.1.2 29805 1k77A 260 1.36e+00 c.1.15.5 72096 1mb3A 124 1.46e+00 c.23.1.1 78907 1lt8A 406 1.76e+00 c.1.26.1 78186 2f9zC 159 1.85e+00 2anuA 255 1.91e+00 1ivyA 452 2.33e+00 1ivyA c.69.1.5 34654 1srrA 124 2.48e+00 1dz3A c.23.1.1 31110 1f28A 297 2.52e+00 1bkpA d.117.1.1 59608 2gqrA 237 2.60e+00 1m3uA 264 2.63e+00 c.1.12.8 84784 1v33A 366 2.75e+00 d.264.1.1 100278 1ek0A 170 2.88e+00 1ctqA c.37.1.8 32076 1u94A 356 3.01e+00 c.37.1.11,d.48.1.1 107743,107744 1wb0A 445 3.13e+00 1u0sY 118 3.16e+00 c.23.1.1 107566 1tmy 120 3.53e+00 1dbwA c.23.1.1 31083 1i39A 225 3.56e+00 1ekeA c.55.3.1 61585 1g291 372 3.71e+00 1g291 1v02A 565 3.76e+00 c.1.8.4 108194 1vf8A 377 3.80e+00 1e19A 314 3.93e+00 1b7bA c.73.1.1 34967 1gheA 177 3.94e+00 d.108.1.1 76222 1xubA 298 4.06e+00 1z2lA 423 4.22e+00 2c31A 568 4.37e+00 1edqA 540 4.41e+00 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 1kutA 230 4.69e+00 d.143.1.1 73017 1yavA 159 5.00e+00 1wy5A 317 5.03e+00 1iy8A 267 5.16e+00 c.2.1.2 83774 1cnzA 363 5.22e+00 1cnzA c.77.1.1 35061 1g6hA 257 5.44e+00 1gajA c.37.1.12 60318 1z41A 338 5.49e+00 1vpqA 273 5.93e+00 1c44A 123 6.36e+00 1qndA d.106.1.1 40795 1i60A 278 6.77e+00 c.1.15.4 71118 1bqcA 302 7.27e+00 1bqcA c.1.8.3 28831 1cr1A 296 7.42e+00 1cr1A c.37.1.11 32286 1jmvA 141 7.44e+00 c.26.2.4 66897 1uh5A 329 7.47e+00 c.2.1.2 107840 1szoA 257 7.82e+00 c.14.1.3 106164 1ispA 181 8.09e+00 c.69.1.18 76778 1odzA 386 8.55e+00 c.1.8.3 86889 2bbsA 290 8.78e+00 2ae2A 260 8.98e+00 1bdb c.2.1.2 29945 2fukA 220 9.14e+00 1oxxK 353 9.20e+00 b.40.6.3,c.37.1.12 93715,93716 2a1xA 308 9.35e+00 2cqnA 77 9.45e+00 1g0cA 364 1.02e+01 7a3hA c.1.8.3 60165 1eq2A 310 1.04e+01 1eq2A c.2.1.2 29814 1u4gA 301 1.04e+01 d.92.1.2 107670 1bupA 386 1.06e+01 1ba1 c.55.1.1,c.55.1.1 33377,33378 1y1oA 203 1.07e+01 1h3fA 432 1.10e+01 c.26.1.1,d.66.1.4 76631,76632 1zhvA 134 1.11e+01 7a3hA 303 1.15e+01 7a3hA c.1.8.3 28817 1m7gA 211 1.15e+01 c.37.1.4 78724 1me8A 503 1.18e+01 c.1.5.1 79028 1w2xA 758 1.19e+01 c.14.1.4,c.14.1.4 109134,109135 1o0iA 138 1.19e+01 d.38.1.5 86532 1ef8A 261 1.20e+01 1ef8A c.14.1.3 30921 1zuhA 168 1.23e+01 1rjoA 646 1.23e+01 1uyrA 737 1.25e+01 c.14.1.4,c.14.1.4 100188,100189 1xp8A 366 1.26e+01 1ebfA 358 1.31e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 1ryiA 382 1.35e+01 1jbkA 195 1.35e+01 c.37.1.20 71631 1t71A 281 1.39e+01 1w5fA 353 1.41e+01 1vjoA 393 1.41e+01 c.67.1.3 100827 1t8tA 271 1.42e+01 c.37.1.5 106685 1iktA 120 1.46e+01 d.106.1.1 66188 1j8mF 297 1.46e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1vp8A 201 1.48e+01 1nar 290 1.49e+01 1nar c.1.8.5 28988 2czdA 208 1.49e+01 2bo4A 397 1.53e+01 1w5qA 337 1.61e+01 1hp1A 516 1.62e+01 d.114.1.1,d.159.1.2 70976,70977 1orrA 347 1.66e+01 c.2.1.2 93460 1eiwA 111 1.67e+01 1eiwA c.23.3.1 31130 1z3eA 132 1.68e+01 1hjsA 332 1.68e+01 c.1.8.3 83492 1lnsA 763 1.70e+01 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 1fmcA 255 1.71e+01 1cydA c.2.1.2 29856 1repC 251 1.71e+01 1repC a.4.5.10,a.4.5.10 16125,16126 1ltzA 297 1.76e+01 d.178.1.1 74254 2gasA 307 1.78e+01 1pwxA 254 1.83e+01 c.2.1.2 95262 1mvoA 136 1.83e+01 c.23.1.1 79513 1nu0A 138 1.87e+01 c.55.3.8 92165 1fzqA 181 1.89e+01 1hurA c.37.1.8 32060 7odcA 424 1.91e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 1vetA 124 1.98e+01 d.110.7.1 108553 1m0wA 491 2.01e+01 c.30.1.4,d.142.1.6 78363,78364 1wb4A 297 2.03e+01 1hziA 129 2.05e+01 1rcb a.26.1.2 61449 1wddA 477 2.05e+01 1o98A 511 2.05e+01 c.105.1.1,c.76.1.3 86684,86685 1n13B 113 2.05e+01 2fyxA 143 2.06e+01 2bllA 345 2.06e+01 2axyA 73 2.08e+01 2b5dX 528 2.09e+01 1dozA 309 2.10e+01 1ak1 c.92.1.1 35592 1ne9A 335 2.10e+01 d.108.1.4,d.108.1.4 91839,91840 1qtwA 285 2.14e+01 1qumA c.1.15.1 29392 1h54A 754 2.14e+01 a.102.1.4,b.30.5.3 60634,60635 1zmtA 254 2.14e+01 2aa4A 289 2.17e+01 2f5gA 133 2.17e+01 2dri 271 2.18e+01 2dri c.93.1.1 35637 1w78A 422 2.18e+01 2b61A 377 2.20e+01 1ursA 402 2.21e+01 c.94.1.1 99833 2av4A 162 2.21e+01 1lv7A 257 2.22e+01 c.37.1.20 78232 1zkpA 268 2.23e+01 1z4eA 153 2.24e+01 2fexA 188 2.25e+01 2d48A 129 2.25e+01 1q74A 303 2.26e+01 c.134.1.1 96019 1w6gA 646 2.27e+01 2cvhA 220 2.33e+01 1geeA 261 2.33e+01 c.2.1.2 90509 2ethA 154 2.33e+01 1rvgA 305 2.37e+01 c.1.10.2 97920 1dysA 348 2.39e+01 1bvwA c.6.1.1 30669 1nffA 260 2.41e+01 c.2.1.2 80457 1ma3A 253 2.45e+01 c.31.1.5 78883 1yh3A 256 2.45e+01 1qsmA 152 2.46e+01 1qsmA d.108.1.1 40808 1ei6A 406 2.47e+01 c.76.1.4 90443 1s8nA 205 2.48e+01 c.23.1.1 105374 1bg4 302 2.49e+01 1taxA c.1.8.3 28806 1nzjA 298 2.51e+01 c.26.1.1 92377 1dkiA 371 2.53e+01 1dkiA d.3.1.1 37090 1ayoA 130 2.57e+01 1ayoA b.2.4.1 22431 1xqwA 293 2.64e+01 1nu7D 282 2.70e+01 a.8.6.1,a.8.6.1 92191,92192 1vc1A 110 2.71e+01 c.13.2.1 108493 1mtzA 293 2.72e+01 c.69.1.7 79467 1hl9A 449 2.74e+01 b.71.1.3,c.1.8.11 90650,90651 2azpA 318 2.75e+01 1n0wA 243 2.79e+01 c.37.1.11 79772 7taa 478 2.80e+01 7taa b.71.1.1,c.1.8.1 27778,28765 1j5sA 463 2.83e+01 c.1.9.8 71580 1gvnB 287 2.84e+01 c.37.1.21 76354 1zmoA 244 2.86e+01 1xb4A 202 2.87e+01 2b0vA 153 2.91e+01 1a0cA 438 2.93e+01 1a0cA c.1.15.3 29529 2c07A 285 2.95e+01 1vdmA 153 2.99e+01 1q45A 391 3.00e+01 c.1.4.1 95780 1ivnA 190 3.03e+01 c.23.10.5 83719 2akaB 299 3.04e+01 1sgwA 214 3.08e+01 c.37.1.12 105541 1z5yE 149 3.14e+01 1svfB 38 3.17e+01 1svfB h.3.2.1 45764 2bw4A 340 3.30e+01 1svdA 473 3.31e+01 1vfvA 366 3.33e+01 c.37.1.9 108592 1tfr 305 3.33e+01 1tfr a.60.7.1,c.120.1.2 18081,33351 1thm 279 3.34e+01 1gci c.41.1.1 32544 1vp2A 208 3.40e+01 1meoA 209 3.41e+01 c.65.1.1 79035 1s57A 153 3.45e+01 1n2eA 300 3.46e+01 c.26.1.4 85268 2fo1D 85 3.47e+01 1gmlA 178 3.48e+01 c.8.5.2 70273 1n2sA 299 3.49e+01 c.2.1.2 79857 1ufwA 95 3.50e+01 d.58.7.1 99358 1rd5A 262 3.54e+01 1vh5A 148 3.55e+01 d.38.1.5 100642 1zp4A 304 3.59e+01 1g5aA 628 3.62e+01 b.71.1.1,c.1.8.1 65152,65153 1hdoA 206 3.70e+01 1he2A c.2.1.2 60965 1xq6A 253 3.70e+01 2gkeA 274 3.73e+01 1fh9A 312 3.74e+01 1taxA c.1.8.3 28913 1qsgA 265 3.80e+01 1eny c.2.1.2 29935 2af4C 333 3.81e+01 2gm5A 139 3.94e+01 1r2qA 170 3.96e+01 c.37.1.8 96874 1r0rE 274 3.98e+01 c.41.1.1 96735 2ge3A 170 4.04e+01 1ig3A 263 4.12e+01 1ig3A b.82.6.1,c.100.1.1 62358,62359 1s2dA 167 4.14e+01 c.23.14.1 98377 1mrj 247 4.19e+01 1mrj d.165.1.1 42177 1pvdA 537 4.19e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31737,31777,31778 1v9nA 360 4.21e+01 1dbiA 280 4.25e+01 1gci c.41.1.1 32543 1hzdA 272 4.27e+01 c.14.1.3 65969 1o66A 275 4.29e+01 c.1.12.8 92547 2cw5A 255 4.30e+01 1uf5A 303 4.31e+01 d.160.1.2 107808 1w8iA 156 4.32e+01 2ai4A 119 4.37e+01 1e4mM 501 4.38e+01 1e70M c.1.8.4 59226 1yd9A 193 4.41e+01 1g7sA 594 4.43e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 1wywA 230 4.44e+01 1xrsA 516 4.48e+01 1es9A 232 4.49e+01 1wab c.23.10.3 31340 1ekeA 230 4.49e+01 1ekeA c.55.3.1 33572 1px5A 349 4.49e+01 a.160.1.2,d.218.1.6 95277,95278 1itxA 419 4.49e+01 c.1.8.5,d.26.3.1 71425,71426 1wt4A 73 4.51e+01 1ta3B 303 4.54e+01 c.1.8.3 106732 2gzxA 265 4.55e+01 1ye8A 178 4.56e+01 1hyeA 313 4.59e+01 2cmd c.2.1.5,d.162.1.1 61400,61401 2a84A 300 4.62e+01 1pg4A 652 4.64e+01 e.23.1.1 88067 1yqvL 211 4.71e+01 1qv9A 283 4.71e+01 c.127.1.1 96356 1nhkL 144 4.73e+01 1npk d.58.6.1 39142 1ve3A 227 4.75e+01 2d69A 430 4.77e+01 2cwxA 430 4.78e+01 2feaA 236 4.79e+01 1g8sA 230 4.84e+01 c.66.1.3 90507 1wvhA 134 4.84e+01 1lehA 364 4.84e+01 1bw9A c.2.1.7,c.58.1.1 30268,33916 2fbiA 142 4.85e+01 1qc7A 101 4.90e+01 1qc7A a.118.14.1 18456 1zz1A 369 4.90e+01 2ftxB 64 4.90e+01 1xttA 216 4.94e+01 1vrtA 560 5.01e+01 1rthA c.55.3.1,e.8.1.2 33574,43023 1u2eA 289 5.09e+01 1yrbA 262 5.13e+01 1izcA 339 5.15e+01 c.1.12.5 83838 1ydwA 362 5.17e+01 1v60A 123 5.17e+01 1sznA 417 5.21e+01 b.71.1.1,c.1.8.1 106162,106163 1w32A 348 5.21e+01 1xk7A 408 5.21e+01 2fnaA 357 5.30e+01 1hh1A 143 5.33e+01 1gefA c.52.1.18 61036 1sqsA 242 5.33e+01 c.23.5.5 98968 1w9pA 433 5.41e+01 1gtmA 419 5.46e+01 1hwyA c.2.1.7,c.58.1.1 30223,33871 1s95A 333 5.46e+01 d.159.1.3 105375 1zanL 214 5.53e+01 1m3qA 317 5.55e+01 a.96.1.3,d.129.1.2 91184,91185 2fi9A 128 5.60e+01 1m8jA 181 5.66e+01 c.26.1.3 84875 1r8gA 372 5.66e+01 d.128.1.3 104845 1xknA 355 5.75e+01 1ur1A 378 5.79e+01 c.1.8.3 99804 2h1nA 567 5.79e+01 1t0fA 276 5.83e+01 1d3vA 323 5.85e+01 1d3vA c.42.1.1 32559 2gnpA 266 5.88e+01 1zx1A 231 5.89e+01 1fxxA 482 5.92e+01 1fxxA c.55.3.5 33726 2amjA 204 5.94e+01 2carA 196 5.94e+01 1auk 489 5.95e+01 1auk c.76.1.2 35030 1gvfA 286 5.95e+01 c.1.10.2 70599 2a67A 167 6.03e+01 1qhdA 398 6.09e+01 1qhdA a.115.1.2,b.19.1.1 63324,63325 1nm2A 317 6.11e+01 c.19.1.1,d.58.23.1 80654,80655 1uqtA 482 6.11e+01 c.87.1.6 99794 1ybdA 239 6.21e+01 1vkhA 273 6.21e+01 c.69.1.32 108662 1jjfA 268 6.21e+01 c.69.1.2 66765 1wyzA 242 6.24e+01 2b69A 343 6.35e+01 1jndA 420 6.37e+01 c.1.8.5,d.26.3.1 71757,71758 1gqnA 252 6.42e+01 c.1.10.1 90514 1amf 233 6.51e+01 1wod c.94.1.1 35833 1xfiA 367 6.57e+01 e.50.1.1 109584 2fhxA 246 6.63e+01 1n7kA 234 6.64e+01 c.1.10.1 85374 1qqqA 264 6.64e+01 1bkpA d.117.1.1 40931 1v5eA 590 6.69e+01 2gjgA 248 6.70e+01 1q6oA 216 6.72e+01 c.1.2.3 95986 1n57A 291 6.74e+01 c.23.16.2 85328 1s2wA 295 6.74e+01 c.1.12.7 98407 2ffcA 353 6.76e+01 2ajuL 216 6.85e+01 2au3A 407 6.85e+01 1qo2A 241 6.88e+01 1qo2A c.1.2.1 28533 2c7pA 327 6.93e+01 2gshA 414 6.93e+01 1yvrA 538 6.93e+01 1snrA 341 7.00e+01 b.6.1.3,b.6.1.3 105823,105824 1v7lA 163 7.03e+01 2b20A 403 7.03e+01 1y9uA 323 7.06e+01 1vk9A 151 7.08e+01 c.139.1.1 108640 1rxdA 159 7.09e+01 1b35B 255 7.13e+01 1b35B b.121.4.1 23334 1amuA 563 7.14e+01 1amuA e.23.1.1 43351 1hd7A 318 7.18e+01 1bix d.151.1.1 41780 2frnA 278 7.22e+01 1nnwA 252 7.25e+01 d.159.1.5 80674 2gr8A 99 7.30e+01 2fl4A 149 7.31e+01 1j5pA 253 7.31e+01 d.81.1.3,c.2.1.3 71577,83092 1d8wA 426 7.35e+01 1de5A c.1.15.2 29394 1q9rA 219 7.36e+01 b.1.1.1,b.1.1.2 96305,96306 1d7oA 297 7.36e+01 1enp c.2.1.2 29907 1hqkA 154 7.43e+01 c.16.1.1 65902 1icpA 376 7.47e+01 1oyc c.1.4.1 62270 1gk8A 475 7.48e+01 c.1.14.1,d.58.9.1 65234,65235 1qj4A 257 7.53e+01 1qj4A c.69.1.20 34796 1o8xA 146 7.55e+01 c.47.1.10 86681 1nni1 174 7.55e+01 1sg0A 230 7.55e+01 1q7zA 566 7.59e+01 c.1.21.2,c.1.26.1 96090,96091 1u5tA 233 7.66e+01 a.4.5.54,a.4.5.54 107684,107685 1pjhA 280 7.70e+01 c.14.1.3 94761 2az4A 429 7.71e+01 1q32A 544 7.75e+01 d.136.1.3,d.136.1.3 104507,104508 1j0hA 588 7.78e+01 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 1lam 484 7.79e+01 1lam c.50.1.1,c.56.5.3 33166,33829 1vc3B 97 7.88e+01 1wg8A 285 7.89e+01 1id0A 152 7.89e+01 d.122.1.3 66111 1jqnA 883 8.03e+01 c.1.12.3 77159 1ls1A 295 8.12e+01 a.24.13.1,c.37.1.10 78170,78171 1sjwA 144 8.15e+01 d.17.4.9 98899 1l7aA 318 8.17e+01 c.69.1.25 77772 1qvzA 237 8.20e+01 c.23.16.2 96453 1wqaA 455 8.25e+01 1ekqA 272 8.28e+01 1c3qA c.72.1.2 34941 1qe5A 266 8.30e+01 1b8oA c.56.2.1 33784 2cc6A 68 8.33e+01 1t5bA 201 8.37e+01 c.23.5.3 106433 1obdA 306 8.40e+01 d.143.1.1 86767 1q52A 314 8.41e+01 c.14.1.3 95846 1f2tA 149 8.42e+01 1f2tA c.37.1.12 32373 1xebA 150 8.43e+01 1y9wA 140 8.46e+01 2ajrA 331 8.47e+01 1geqA 248 8.54e+01 2tysA c.1.2.4 28589 2c6cA 707 8.60e+01 1j31A 262 8.62e+01 d.160.1.2 90808 1f2tB 148 8.64e+01 1f2tB 1r6xA 395 8.72e+01 b.122.1.3,c.26.1.5 97167,97168 1yn9A 169 8.72e+01 1im8A 244 8.82e+01 c.66.1.14 66212 2gptA 523 8.83e+01 1l9kA 305 8.86e+01 c.66.1.25 84569 1josA 128 8.93e+01 d.52.7.1 84191 2c0nA 203 8.95e+01 2cbzA 237 8.95e+01