# List of top-scoring protein chains for T0316.t06-w0.5 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 1korA 400 3.80e-35 c.26.2.1,d.210.1.1 72824,72825 1vl2A 421 1.77e-30 c.26.2.1,d.210.1.1 108708,108709 1gpmA 525 2.56e-24 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1ni5A 433 1.13e-22 c.26.2.5,d.229.1.1 80533,80534 1wy5A 317 5.63e-22 1k92A 455 8.49e-20 c.26.2.1,d.210.1.1 68325,68326 1xngA 268 1.30e-15 1zunA 325 3.22e-15 2c5sA 413 3.60e-15 1kqpA 271 7.35e-12 c.26.2.1 72883 1ct9A 553 9.38e-11 1ct9A c.26.2.1,d.153.1.1 31616,41834 1wxiA 275 3.26e-09 2d13A 227 1.88e-06 1ru8A 232 2.42e-06 c.26.2.1 97849 1sur 215 9.65e-06 1sur c.26.2.2 31620 1m1zA 513 2.01e-05 c.26.2.1,d.153.1.1 78457,78458 1q15A 503 3.83e-05 c.26.2.1,d.153.1.1 95538,95539 1jmvA 141 9.64e-02 c.26.2.4 66897 1z2iA 358 1.52e-01 1zczA 464 3.66e-01 1ulzA 451 4.15e-01 b.84.2.1,c.30.1.1,d.142.1.2 99575,99576,99577 1e0rB 159 4.35e-01 1a6dA c.8.5.2 30824 1zp6A 191 9.03e-01 1yrwA 302 1.01e+00 2blnA 305 1.10e+00 1tufA 434 1.49e+00 b.49.2.3,c.1.6.1 107335,107336 1twiA 434 1.50e+00 b.49.2.3,c.1.6.1 107399,107400 1o7bT 98 1.60e+00 d.169.1.4 92620 1qczA 169 1.84e+00 1qczA c.23.8.1 31276 1zvwA 378 1.92e+00 1v6tA 255 1.94e+00 2bpqA 373 1.95e+00 1qx3A 257 2.17e+00 c.17.1.1 96515 1d7aA 161 2.28e+00 1qczA c.23.8.1 31277 1uarA 285 2.50e+00 c.46.1.2,c.46.1.2 107762,107763 1nmsA 249 2.58e+00 c.17.1.1 85879 1zzmA 259 2.81e+00 1dv2A 452 3.69e+00 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28238,31645,41490 1bgxT 832 3.71e+00 1taq a.60.7.1,c.120.1.2,c.55.3.5,e.8.1.1 18083,33353,33699,42992 1dv1A 449 3.78e+00 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 1taq 832 3.95e+00 1taq a.60.7.1,c.120.1.2,c.55.3.5,e.8.1.1 18082,33352,33698,42991 1r89A 437 4.52e+00 a.160.1.3,d.218.1.7,d.58.16.2 97221,97222,97223 1gx3A 284 4.81e+00 d.3.1.5 70678 1yhfA 115 4.82e+00 1w6fA 278 5.07e+00 1d6nA 214 5.08e+00 1qk3A c.61.1.1 34077 1irxA 523 5.65e+00 a.97.1.2,c.26.1.1 71378,71379 2cf2E 226 5.85e+00 1ej6A 1289 7.26e+00 i.7.1.1 45967 1jud 232 7.29e+00 1qq5A c.108.1.1 43325 1rhjA 147 7.41e+00 c.17.1.1 97481 1zrn 232 7.50e+00 1qq5A c.108.1.1 43323 1nmeA 146 7.57e+00 c.17.1.1 85874 1pvvA 315 8.40e+00 c.78.1.1,c.78.1.1 95190,95191 1a1s 314 8.45e+00 1othA c.78.1.1,c.78.1.1 35258,35259 1idm 343 8.72e+00 1cnzA c.77.1.1 35035 1u11A 182 8.78e+00 c.23.8.1 107576 1zccA 248 8.85e+00 1hv9A 456 8.89e+00 1fwyA b.81.1.4,c.68.1.5 28060,34518 2ffhA 425 9.34e+00 1ng1 a.24.13.1,a.36.1.1,c.37.1.10 16965,17122,32276 1vheA 373 1.16e+01 b.49.3.1,c.56.5.4 100669,100670 1af7 274 1.17e+01 1af7 a.58.1.1,c.66.1.8 17928,34203 1bc5A 269 1.20e+01 1af7 a.58.1.1,c.66.1.8 17929,34204 1td9A 329 1.23e+01 1iirA 415 1.27e+01 1iirA c.87.1.5 62453 1l0bA 229 1.31e+01 c.15.1.3,c.15.1.3 73391,73392 1wr2A 238 1.39e+01 1cp3A 277 1.41e+01 1pauA c.17.1.1 30992 1o5wA 534 1.43e+01 c.3.1.2,d.16.1.5 92520,92521 1wjgA 137 1.47e+01 1gpwA 253 1.49e+01 c.1.2.1 65460 1rj9B 300 1.55e+01 a.24.13.1,c.37.1.10 97555,97556 1rzmA 338 1.68e+01 c.1.10.4 105137 2ng1 293 1.76e+01 1ng1 a.24.13.1,c.37.1.10 16962,32273 1thfD 253 1.76e+01 1thfD c.1.2.1 28535 1ffh 294 1.77e+01 1ng1 a.24.13.1,c.37.1.10 16960,32271 1uc9A 280 1.80e+01 c.30.1.6,d.142.1.7 99169,99170 1vh7A 265 1.81e+01 c.1.2.1 100646 1uc8A 280 1.82e+01 c.30.1.6,d.142.1.7 99165,99166 1q7bA 244 1.83e+01 c.2.1.2 96026 1ass 159 1.86e+01 1a6dA c.8.5.2 30818 1q7cA 244 1.88e+01 c.2.1.2 96030 1snnA 227 1.90e+01 d.115.1.2 105821 1oxxK 353 1.95e+01 b.40.6.3,c.37.1.12 93715,93716 1vp8A 201 1.97e+01 1o87A 297 2.03e+01 a.24.13.1,c.37.1.10 92640,92641 1lucB 324 2.09e+01 1lucA c.1.16.1 29548 1jpnA 296 2.09e+01 a.24.13.1,c.37.1.10 67039,67040 1ng1 294 2.17e+01 1ng1 a.24.13.1,c.37.1.10 16961,32272 1oxsC 353 2.18e+01 b.40.6.3,c.37.1.12 87519,87520 2a0nA 265 2.18e+01 1ls1A 295 2.18e+01 a.24.13.1,c.37.1.10 78170,78171 1y4jA 284 2.20e+01 1tjoA 182 2.22e+01 1vr6A 350 2.24e+01 1n4mA 345 2.31e+01 a.74.1.3,a.74.1.3 79994,79995 1pvwA 227 2.33e+01 d.115.1.2 95192 2fq1A 287 2.36e+01 1uj2A 252 2.54e+01 c.37.1.6 99452 1vg0A 650 2.65e+01 c.3.1.3,d.16.1.6 108596,108597 1ltxR 650 2.65e+01 c.3.1.3,d.16.1.6 84715,84716 2bbwA 246 2.68e+01 1ekqA 272 2.69e+01 1c3qA c.72.1.2 34941 2a2pA 129 2.80e+01 2f5gA 133 2.81e+01 1b04A 318 2.83e+01 1b04A d.142.2.2 41579 1ig0A 319 2.96e+01 1ig0A b.82.6.1,c.100.1.1 62354,62355 1iov 306 2.96e+01 1iow c.30.1.2,d.142.1.1 31714,41482 1xrjA 261 2.99e+01 1znnA 325 3.01e+01 1esjA 284 3.07e+01 1c3qA c.72.1.2 34943 1i3cA 149 3.11e+01 c.23.1.1 71112 1s8nA 205 3.13e+01 c.23.1.1 105374 2b30A 301 3.17e+01 1jlkA 147 3.18e+01 c.23.1.1 71727 1shsA 147 3.18e+01 1shsA b.15.1.1 23675 1yqrA 319 3.28e+01 1yhuA 145 3.33e+01 1xmpA 170 3.33e+01 1dofA 403 3.33e+01 1c3cA a.127.1.1 19429 1eljA 381 3.35e+01 4mbp c.94.1.1 35791 1ktq 543 3.35e+01 1taq c.55.3.5,e.8.1.1 33703,42996 1yqkA 319 3.36e+01 1z7eA 660 3.42e+01 1iow 306 3.45e+01 1iow c.30.1.2,d.142.1.1 31713,41481 1uf3A 228 3.59e+01 d.159.1.6 99317 1jr3D 343 3.62e+01 a.80.1.1,c.37.1.20 63251,63252 1i3oA 175 3.83e+01 1pauA c.17.1.1 61603 1qtmA 539 3.85e+01 1taq c.55.3.5,e.8.1.1 33695,42988 3ktqA 540 3.88e+01 1taq c.55.3.5,e.8.1.1 33696,42989 1c0nA 406 3.92e+01 1c0nA c.67.1.3 34433 2d83A 363 3.93e+01 1fxjA 331 3.97e+01 1fwyA b.81.1.4,c.68.1.5 28062,34520 1ax4A 467 4.00e+01 1ax4A c.67.1.2 34391 1w5rA 278 4.04e+01 4ktqA 539 4.20e+01 1taq c.55.3.5,e.8.1.1 33706,42999 1m6bA 621 4.29e+01 c.10.2.5,c.10.2.5,g.3.9.1,g.3.9.1 74521,74522,74523,74524 1tif 78 4.34e+01 1tif d.15.8.1 37836 1r66A 337 4.35e+01 c.2.1.2 97146 1jtvA 327 4.52e+01 c.2.1.2 84230 1zt2A 330 4.56e+01 1nkwD 180 4.65e+01 i.1.1.2 80589 2a1hA 365 4.66e+01 1x9iA 302 4.70e+01 1qssA 539 4.74e+01 1taq c.55.3.5,e.8.1.1 33697,42990 2ktqA 538 4.77e+01 1taq c.55.3.5,e.8.1.1 33702,42995 1vorG 178 4.85e+01 1fs0E 138 4.88e+01 1aqt a.2.10.1,b.93.1.1 59997,59998 1jhzA 289 4.89e+01 c.93.1.1 66731 2f6qA 280 4.91e+01 1fds 327 4.91e+01 1fds c.2.1.2 29838 1rqgA 722 4.97e+01 a.27.1.1,c.26.1.1,g.41.1.1 105063,105064,105065 1iol 327 4.98e+01 1fds c.2.1.2 29842 1fnnA 389 4.99e+01 1fnnA a.4.5.11,c.37.1.20 16129,32426 1aqt 138 5.00e+01 1aqt a.2.10.1,b.93.1.1 15718,28435 2b5eA 504 5.05e+01 1qyaA 307 5.07e+01 d.21.1.2,d.21.1.2 104653,104654 1npyA 271 5.11e+01 c.2.1.7,c.58.1.5 85995,85996 2fk0A 334 5.13e+01 1oywA 523 5.18e+01 a.4.5.43,c.37.1.19,c.37.1.19 93760,93761,93762 1fduA 327 5.22e+01 1fds c.2.1.2 29848 1lv0A 449 5.31e+01 c.3.1.3,d.16.1.6 91130,91131 1v29A 220 5.32e+01 1u69A 163 5.34e+01 d.32.1.7 107699 1p4sA 181 5.34e+01 c.37.1.1 94117 1nkwA 275 5.36e+01 i.1.1.2 80586 1nwyA 274 5.38e+01 i.1.1.2 86345 1fdw 327 5.38e+01 1fds c.2.1.2 29845 1sdjA 310 5.44e+01 d.21.1.2,d.21.1.2 98807,98808 1gnd 447 5.44e+01 1gnd c.3.1.3,d.16.1.6 30423,37987 1yckA 175 5.49e+01 1vorD 270 5.49e+01 1nqeA 594 5.51e+01 f.4.3.3 86027 1vbuA 328 5.51e+01 1d5tA 433 5.53e+01 1gnd c.3.1.3,d.16.1.6 30422,37986 1nc5A 373 5.54e+01 a.102.1.6 85548 1dbxA 158 5.62e+01 1dbuA d.116.1.1 40928 1cb0A 283 5.74e+01 1cb0A c.56.2.1 33790 1i84S 1184 5.74e+01 1lvk i.15.1.1 61940 1qirA 396 5.75e+01 1ajsA c.67.1.1 34290 1qisA 396 5.81e+01 1ajsA c.67.1.1 34284 1dbqA 289 5.86e+01 1qpzA c.93.1.1 35666 2g8yA 385 6.02e+01 1qitA 396 6.06e+01 1ajsA c.67.1.1 34286 2bfxA 284 6.15e+01 1aam 396 6.18e+01 1ajsA c.67.1.1 34347 1asg 396 6.22e+01 1ajsA c.67.1.1 34335 1rvgA 305 6.22e+01 c.1.10.2 97920 1g4xA 396 6.23e+01 1ajsA c.67.1.1 34313 2aat 396 6.23e+01 1ajsA c.67.1.1 34348 1bbjB 212 6.23e+01 1g4vA 396 6.26e+01 1ajsA c.67.1.1 34289 5eaaA 396 6.28e+01 1ajsA c.67.1.1 34328 1aiaA 396 6.29e+01 1ajsA c.67.1.1 34306 1ariA 396 6.30e+01 1ajsA c.67.1.1 34331 1ars 396 6.30e+01 1ajsA c.67.1.1 34287 1spa 396 6.33e+01 1ajsA c.67.1.1 34291 1bqdA 396 6.34e+01 1ajsA c.67.1.1 34296 1bqaA 396 6.34e+01 1ajsA c.67.1.1 34298 1gh6B 333 6.41e+01 a.74.1.3,a.74.1.3 65192,65193 1wh5A 80 6.70e+01 2a87A 335 6.73e+01 1ruzH 328 6.97e+01 b.19.1.2 97889 1yovA 537 7.01e+01 1toiA 396 7.02e+01 1u2eA 289 7.02e+01 1nqfA 594 7.03e+01 f.4.3.3 86028 2ac2A 309 7.06e+01 2bfyA 284 7.08e+01 1ahxA 396 7.13e+01 1ajsA c.67.1.1 34293 1tt5A 531 7.16e+01 c.111.1.2 107291 1wx1A 335 7.20e+01 1h5yA 253 7.27e+01 c.1.2.1 65638 1o4vA 183 7.28e+01 c.23.8.1 86628 1kmjA 406 7.30e+01 c.67.1.3 68695 1j33A 335 7.33e+01 c.39.1.1 77069 1y3nA 490 7.33e+01 1qfcA 306 7.35e+01 1uteA d.159.1.1 42077 1jf9A 408 7.41e+01 1c0nA c.67.1.3 62931 1wn1A 356 7.41e+01 1w0mA 226 7.41e+01 c.1.1.1 109027 1r4mA 529 7.44e+01 c.111.1.2 96999 1onqA 283 7.45e+01 b.1.1.2,d.19.1.1 93365,93366 1ycjA 257 7.58e+01 1arhA 396 7.59e+01 1ajsA c.67.1.1 34321 2fm1A 355 7.63e+01 1a27 289 7.66e+01 1fds c.2.1.2 29839 1vc4A 254 7.67e+01 c.1.2.4 100557 1ps9A 671 7.68e+01 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1jfjA 134 7.69e+01 a.39.1.5 66638 1sedA 117 7.78e+01 a.219.1.1 105449 1uumA 372 7.95e+01 c.1.4.1 100010 5eat 548 7.96e+01 5eat a.102.4.1,a.128.1.3 18853,19445 1iukA 140 7.98e+01 c.2.1.8 83712 1xl3A 218 8.13e+01 1vddA 228 8.15e+01 e.49.1.1 108519 1r5jA 337 8.21e+01 c.77.1.5 97097 1bap 306 8.23e+01 8abp c.93.1.1 35654 1vcfA 332 8.26e+01 3aat 396 8.30e+01 1ajsA c.67.1.1 34346 1txfA 258 8.33e+01 2ac4A 309 8.35e+01 2f34A 258 8.36e+01 2gb3A 409 8.39e+01 1yoo 396 8.40e+01 1ajsA c.67.1.1 34295 1czeA 396 8.41e+01 1ajsA c.67.1.1 34301 1vcnA 550 8.41e+01 c.23.16.1,c.37.1.10 108506,108507 1c1hA 310 8.46e+01 1ak1 c.92.1.1 35593 1eceA 358 8.47e+01 1eceA c.1.8.3 28813 1dozA 309 8.55e+01 1ak1 c.92.1.1 35592 1ynyA 461 8.58e+01 2gm3A 175 8.61e+01 1vloA 381 8.63e+01 b.44.2.1,d.250.1.1 108838,108839 1vcoA 550 8.69e+01 c.23.16.1,c.37.1.10 108508,108509 1qy9A 297 8.75e+01 d.21.1.2,d.21.1.2 104645,104646 1m6sA 347 8.78e+01 c.67.1.1 78701 5eas 548 8.85e+01 5eat a.102.4.1,a.128.1.3 18852,19444 2an6A 191 8.87e+01 8abp 306 8.87e+01 8abp c.93.1.1 35647 1k2fA 190 8.89e+01 b.8.1.2 68054 1fx7A 230 8.93e+01 1bi0 a.4.5.24,a.76.1.1,b.34.1.2 60088,60089,60090