# List of top-scoring protein chains for T0324.t04-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 2gfhA 260 1.04e-23 1te2A 226 1.83e-23 c.108.1.6 106792 1jud 232 4.58e-23 1qq5A c.108.1.1 43325 2fdrA 229 5.54e-23 1zrn 232 5.76e-23 1qq5A c.108.1.1 43323 1x42A 232 6.03e-23 2ah5A 210 1.04e-22 1o08A 221 9.53e-22 c.108.1.6 86525 2go7A 207 1.22e-19 1rqlA 267 1.71e-19 c.108.1.3 97750 1rdfA 267 5.22e-19 c.108.1.3 104884 1fezA 256 5.72e-19 1fezA c.108.1.3 43343 1swvA 267 8.96e-19 1qq5A 253 1.56e-18 1qq5A c.108.1.1 43327 1aq6A 253 1.61e-18 1qq5A c.108.1.1 43331 1qq7A 253 7.66e-18 1qq5A c.108.1.1 43329 2fi1A 190 2.60e-17 2b0cA 206 1.46e-15 1l7mA 211 5.38e-13 c.108.1.4 73664 1qyiA 384 9.67e-13 c.108.1.13 96595 1cr6A 554 1.16e-12 1cr6B c.69.1.11,c.108.1.2 34687,43337 1zd3A 555 1.62e-12 1l7pA 211 2.67e-12 c.108.1.4 73670 1j97A 211 2.82e-12 1f5sA c.108.1.4 62753 1vjrA 271 5.36e-11 c.108.1.14 100832 2c4nA 250 1.04e-10 1zjjA 263 1.28e-10 1pw5A 253 2.41e-10 c.108.1.14 95199 1yv9A 264 6.99e-10 1ys9A 254 1.50e-09 1wviA 257 3.60e-09 1ydfA 257 4.15e-09 1u7pA 164 2.30e-07 1nnlA 225 3.37e-07 c.108.1.4 85906 1l8lA 225 4.15e-07 c.108.1.4 84562 1zs9A 261 1.43e-06 1wr8A 231 1.03e-05 2g80A 253 1.03e-05 1yj5A 383 8.41e-05 2bdeA 470 2.32e-04 1rkuA 206 4.44e-04 c.108.1.11 97627 2b8eA 273 4.82e-04 1ymqA 261 1.34e-03 2feaA 236 1.48e-03 1nf2A 268 2.30e-03 c.108.1.10 91849 1z5gA 214 2.74e-03 1z88A 214 2.75e-03 1q92A 197 3.43e-03 c.108.1.8 96250 1rlmA 271 9.30e-03 2b82A 211 1.19e-02 1rmtA 212 1.20e-02 1k1eA 180 1.77e-02 c.108.1.5 67995 1z4mA 197 1.99e-02 2b30A 301 3.26e-02 2g09A 297 4.09e-02 2g07A 297 4.47e-02 1rloA 271 7.30e-02 2amyA 246 1.37e-01 1nrwA 288 1.53e-01 c.108.1.10 86128 1hg3A 225 1.88e-01 1hg3A c.1.1.1 61025 1rkqA 282 2.59e-01 c.108.1.10 97621 1ltqA 301 4.17e-01 c.108.1.9,c.37.1.1 78208,78209 1wv2A 265 4.82e-01 1t9zA 197 5.54e-01 c.108.1.16 106728 1i10A 331 5.97e-01 3ldh c.2.1.5,d.162.1.1 61499,61500 1vctA 205 6.00e-01 1ta0A 197 8.74e-01 c.108.1.16 106729 1oc2A 348 9.46e-01 c.2.1.2 92765 1s2oA 244 1.08e+00 1dekA 241 1.32e+00 1dekA c.37.1.1 31842 1u02A 239 1.32e+00 c.108.1.15 107538 1wzcA 249 1.41e+00 1l6rA 227 1.41e+00 c.108.1.10 77768 1xviA 275 1.72e+00 1pyfA 312 1.88e+00 c.1.7.1 95334 1pz1A 333 2.74e+00 c.1.7.1 95390 1vbjA 281 3.03e+00 1t33A 224 3.43e+00 a.4.1.9,a.121.1.1 106295,106296 1tj7A 457 3.84e+00 1x0lA 333 4.30e+00 1jqeA 292 4.50e+00 c.66.1.19 71789 1rtrA 301 5.06e+00 a.128.1.1 97820 1v6aA 332 5.79e+00 9ldtA 332 5.82e+00 3ldh c.2.1.5,d.162.1.1 30154,42121 1wpgA 994 5.88e+00 1tb5A 381 6.35e+00 a.211.1.2 106735 1xm6A 398 6.38e+00 2fueA 262 7.17e+00 1q6uA 245 7.36e+00 d.26.1.1 95998 1fjgH 138 7.45e+00 1seiA d.140.1.1 41468 1ly1A 181 7.64e+00 c.37.1.1 74334 1gs5A 258 7.80e+00 c.73.1.2 70395 1an7A 136 7.98e+00 1seiA d.140.1.1 41465 1e3oC 160 8.93e+00 1au7A a.4.1.1,a.35.1.1 59197,59198 1tiiA 190 9.35e+00 1lt3A d.166.1.1 42238 1pn3A 404 1.00e+01 c.87.1.5 94938 1bdfA 235 1.12e+01 1bdfA d.74.3.1,d.181.1.1 39727,42602 2a72A 146 1.19e+01 2ldxA 331 1.25e+01 1cfzA 162 1.29e+01 1cfzA c.56.1.1 33754 1uc2A 481 1.29e+01 d.261.1.1 99161 2cyjA 118 1.37e+01 1xpjA 126 1.45e+01 2bwkA 121 1.49e+01 1uasA 362 1.50e+01 b.71.1.1,c.1.8.1 88388,88389 2gf2A 296 1.55e+01 1bihA 395 1.56e+01 1bihA b.1.1.4,b.1.1.4,b.1.1.4,b.1.1.4 21752,21753,21754,21755 2gd9A 189 1.59e+01 1i3kA 348 1.60e+01 1xel c.2.1.2 61595 1r30A 369 1.60e+01 c.1.28.1 96895 1hzjA 348 1.62e+01 1xel c.2.1.2 61450 1ek6A 348 1.73e+01 1xel c.2.1.2 29800 1pnuC 197 1.79e+01 i.1.1.1 88200 2bszA 278 1.79e+01 1vorF 198 1.79e+01 1nwyC 204 1.80e+01 i.1.1.2 86347 1nkwC 205 1.80e+01 i.1.1.2 80588 1smqA 399 1.81e+01 a.25.1.2 105766 1jk0A 419 1.81e+01 a.25.1.2 63142 1ogqA 313 1.88e+01 c.10.2.8 86996 2gwrA 238 1.94e+01 1qmrA 159 2.04e+01 1bv1 d.129.3.1 41314 1y8aA 332 2.31e+01 1fehA 574 2.32e+01 1fehA c.96.1.1,d.15.4.2,d.58.1.5 36015,37690,38998 1zrhA 274 2.33e+01 1j5wA 298 2.41e+01 d.104.1.1 71589 2aotA 292 2.43e+01 1regX 122 2.48e+01 1regX d.58.27.1 39406 1rjdA 334 2.58e+01 c.66.1.37 97558 2g8lA 299 2.62e+01 2ctwA 109 2.64e+01 5ldhA 334 2.72e+01 1f0jA 377 2.82e+01 1f0jA a.211.1.2 19346 1rorA 378 2.83e+01 1lcsA 211 2.86e+01 b.20.1.1 84580 2au1A 292 2.90e+01 1sznA 417 2.93e+01 b.71.1.1,c.1.8.1 106162,106163 1y08A 323 2.96e+01 1v47A 349 3.00e+01 b.122.1.3,c.26.1.5 100292,100293 2ggmA 172 3.05e+01 2avwA 311 3.05e+01 1bw0A 416 3.05e+01 1bw0A c.67.1.1 34385 1zxjA 218 3.23e+01 2a92A 321 3.26e+01 1wyuA 438 3.29e+01 1px5A 349 3.31e+01 a.160.1.2,d.218.1.6 95277,95278 1ujqA 305 3.32e+01 c.1.12.7 99463 1ycdA 243 3.40e+01 1rz3A 201 3.47e+01 c.37.1.6 98132 1rp3A 239 3.57e+01 a.4.13.1,a.4.13.2,a.177.1.1 97678,97679,97680 2ts1 419 3.59e+01 2ts1 c.26.1.1 31564 1nn6A 228 3.60e+01 b.47.1.2 85893 1klt 226 3.63e+01 5ptp b.47.1.2 26300 1ynpA 317 3.69e+01 1i94H 138 3.72e+01 1seiA d.140.1.1 61999 1xg4A 295 3.76e+01 1rymA 212 3.79e+01 c.56.3.1 98106 1mumA 295 3.83e+01 c.1.12.7 85108 1ma3A 253 3.85e+01 c.31.1.5 78883 1vrbA 342 3.86e+01 1rreA 200 3.87e+01 d.14.1.10 97791 1wxsA 90 3.98e+01 1a0gA 282 4.12e+01 1daaA e.17.1.1 43276 1j0gA 92 4.12e+01 d.15.1.6 90740 1g2wA 282 4.14e+01 1daaA e.17.1.1 43284 3daaA 277 4.15e+01 1daaA e.17.1.1 43272 5daaA 277 4.16e+01 1daaA e.17.1.1 43282 1daaA 282 4.22e+01 1daaA e.17.1.1 43270 1vp8A 201 4.25e+01 1t2fA 333 4.25e+01 c.2.1.5,d.162.1.1 99088,99089 2cw1A 65 4.26e+01 1i0zA 333 4.30e+01 3ldh c.2.1.5,d.162.1.1 61495,61496 1o4wA 147 4.37e+01 c.120.1.1 86629 1we5A 772 4.39e+01 1t31A 226 4.39e+01 2f2hA 773 4.39e+01 1xsjA 778 4.40e+01 1o1zA 234 4.54e+01 c.1.18.3 86555 2f3oA 776 4.59e+01 1nsqA 153 4.61e+01 1npk d.58.6.1 39135 1l1jA 239 4.61e+01 b.47.1.1 84516 1ipaA 274 4.64e+01 c.116.1.1,d.79.3.3 71254,71255 1l7yA 94 4.64e+01 d.15.1.6 73676 1gviA 588 4.76e+01 b.1.18.2,b.71.1.1,c.1.8.1 70604,70605,70606 1o4xA 167 4.77e+01 a.4.1.1,a.35.1.1 92470,92471 1mrqA 323 4.88e+01 c.1.7.1 91445 1e08A 371 4.93e+01 i.4.1.1 45914 1a5z 319 5.04e+01 1ceqA c.2.1.5,d.162.1.1 30181,42148 1ujxA 119 5.05e+01 b.26.1.2 99473 1s1hH 129 5.06e+01 i.1.1.1 105160 1gt0C 159 5.08e+01 a.4.1.1,a.35.1.1 76335,76336 1njgA 250 5.11e+01 c.37.1.20 85785 1j0jA 588 5.14e+01 b.1.18.2,b.71.1.1,c.1.8.1 77039,77040,77041 1gro 416 5.15e+01 1iso c.77.1.1 35079 2ctqA 112 5.26e+01 1urhA 280 5.27e+01 c.46.1.2,c.46.1.2 99829,99830 1ou5A 448 5.28e+01 a.173.1.1,d.218.1.4 87445,87446 1cqtA 163 5.29e+01 1au7A a.4.1.1,a.35.1.1 15992,17018 1xiqA 157 5.43e+01 1dgwY 93 5.50e+01 1caxB 1xrjA 261 5.54e+01 1lltA 159 5.58e+01 d.129.3.1 91063 1yj5C 143 5.58e+01 1vqvA 306 5.66e+01 1bv1 159 5.66e+01 1bv1 d.129.3.1 41313 1nat 124 5.69e+01 1dz3A c.23.1.1 31113 1smaA 588 5.73e+01 1bvzA b.1.18.2,b.71.1.1,c.1.8.1 21854,27781,28768 1uj2A 252 5.73e+01 c.37.1.6 99452 1f8fA 371 5.81e+01 b.35.1.2,c.2.1.1 83246,83247 1srrA 124 5.89e+01 1dz3A c.23.1.1 31110 1rynA 202 5.98e+01 c.56.3.1 98107 1gtvA 214 5.99e+01 c.37.1.1 70537 1a9nA 176 5.99e+01 1a9nA c.10.2.4 30875 1xxiB 368 6.09e+01 1bjt 793 6.10e+01 1bjt e.11.1.1 43249 1jr3A 373 6.19e+01 a.80.1.1,c.37.1.20 63245,63246 1hfeL 421 6.21e+01 1fehA c.96.1.1,d.58.1.5 36018,39001 1yjmA 110 6.23e+01 1sauA 115 6.24e+01 1dgsA 667 6.26e+01 1dgsA a.60.2.2,b.40.4.6,d.142.2.2 17963,25365,41581 1ac5 483 6.26e+01 1ac5 c.69.1.5 34653 2ftsA 419 6.28e+01 1fg7A 356 6.30e+01 1gewA c.67.1.1 59819 1t3eA 421 6.31e+01 b.85.6.1,b.103.1.1,c.57.1.2 106348,106349,106350 1f51E 119 6.35e+01 1dz3A c.23.1.1 31114 2fliA 220 6.36e+01 1ocp 67 6.42e+01 1au7A a.4.1.1 15999 1fawB 146 6.43e+01 a.1.1.2 65003 1j0hA 588 6.47e+01 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 1octC 156 6.47e+01 1au7A a.4.1.1,a.35.1.1 15991,17017 1ynjC 1119 6.56e+01 1l9uC 1118 6.59e+01 i.8.1.1 73750 1s05A 129 6.61e+01 a.24.3.2 98254 1hqmC 1119 6.64e+01 i.8.1.1 45974 1i6vC 1118 6.67e+01 e.29.1.1 61856 1qpwA 141 6.68e+01 1abwA a.1.1.2 15390 1dmwA 307 6.84e+01 4pah d.178.1.1 42580 1oaoA 674 6.89e+01 e.26.1.2 86744 1ys7A 233 6.90e+01 1tdwA 308 6.96e+01 1im5A 180 7.00e+01 c.33.1.3 66211 1ekeA 230 7.00e+01 1ekeA c.55.3.1 33572 4pah 308 7.06e+01 4pah d.178.1.1 42576 1yfsA 465 7.16e+01 1t2dA 322 7.21e+01 c.2.1.5,d.162.1.1 99084,99085 2a94A 321 7.21e+01 1xivA 323 7.24e+01 1d3yA 301 7.26e+01 1d3yA e.12.1.1 43252 1ceqA 316 7.27e+01 1ceqA c.2.1.5,d.162.1.1 30163,42130 2pahA 335 7.31e+01 4pah d.178.1.1 42581 9atcB 146 7.34e+01 8atcB d.58.2.1,g.41.7.1 39057,45309 1ihiA 323 7.54e+01 c.1.7.1 66142 1j96A 323 7.54e+01 c.1.7.1 71616 1xjbA 325 7.57e+01 1q6hA 224 7.69e+01 d.26.1.1 95975 1hy0A 466 7.82e+01 1auwA a.127.1.1 61392 1tv5A 443 7.86e+01 1dcnA 433 7.86e+01 1auwA a.127.1.1 19420 2cevA 299 7.87e+01 1d3vA c.42.1.1 32576 1t2eA 322 7.87e+01 c.2.1.5,d.162.1.1 99086,99087 8atcB 153 7.92e+01 8atcB d.58.2.1,g.41.7.1 39027,45279 2gsq 202 7.95e+01 1pd21 a.45.1.1,c.47.1.5 17715,33009 1ihp 438 8.08e+01 1ihp c.60.1.2 33993 2airB 153 8.09e+01 1nw9A 98 8.13e+01 g.52.1.1 86293 1te5A 257 8.24e+01 d.153.1.1 106795 1j3nA 408 8.45e+01 c.95.1.1,c.95.1.1 84074,84075 1iazA 179 8.47e+01 1iazA b.97.1.1 62131 1kd6A 179 8.47e+01 b.97.1.1 68459 1dcnD 445 8.52e+01 1auwA a.127.1.1 19423 1klgA 177 8.52e+01 b.1.1.2,d.19.1.1 72714,72715 1a6aA 176 8.56e+01 1iakA b.1.1.2,d.19.1.1 21615,38189 1j8uA 325 8.59e+01 d.178.1.1 71611 1nhs 447 8.62e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1npx 447 8.63e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30557,30558,40200 1dcnC 447 8.66e+01 1auwA a.127.1.1 19422 1efhA 292 8.69e+01 1aquA c.37.1.5 31948 1uq5A 263 8.70e+01 d.165.1.1 99778 1nhr 447 8.71e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30553,30554,40198 1nhp 447 8.72e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 1a4fB 146 8.73e+01 1abwA a.1.1.2 15573 1fv1A 181 8.73e+01 1iakA b.1.1.2,d.19.1.1 21605,38179 1t5wA 180 8.75e+01 b.1.1.2,d.19.1.1 106481,106482 1nhq 447 8.75e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30551,30552,40197 1g3fA 117 8.77e+01 1g3fA g.52.1.1 45378 1c3rA 375 8.82e+01 1c3pA c.42.1.2 32607 1f9xA 120 8.83e+01 1g3fA g.52.1.1 59748 1pywA 182 8.89e+01 b.1.1.2,d.19.1.1 95377,95378 1sjhA 180 8.90e+01 b.1.1.2,d.19.1.1 105648,105649 1t5xA 181 8.92e+01 b.1.1.2,d.19.1.1 106489,106490 1kluA 179 8.92e+01 b.1.1.2,d.19.1.1 72724,72725 1h1dA 221 8.95e+01 c.66.1.1 83452 2es0A 148 8.98e+01 1f82A 424 8.99e+01 1f82A d.92.1.7 40307 1j99A 293 8.99e+01 c.37.1.5 71618