# List of top-scoring protein chains for T0379.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 1jud 232 1.55e-22 1qq5A c.108.1.1 43325 2fdrA 229 1.63e-22 1zrn 232 1.97e-22 1qq5A c.108.1.1 43323 1te2A 226 4.03e-22 c.108.1.6 106792 1o08A 221 5.40e-22 c.108.1.6 86525 2gfhA 260 3.39e-21 1x42A 232 4.13e-21 2ah5A 210 5.45e-21 1qq5A 253 1.98e-19 1qq5A c.108.1.1 43327 1aq6A 253 2.97e-19 1qq5A c.108.1.1 43331 1qq7A 253 8.52e-19 1qq5A c.108.1.1 43329 1rqlA 267 1.24e-18 c.108.1.3 97750 2go7A 207 1.38e-18 1fezA 256 3.28e-18 1fezA c.108.1.3 43343 1rdfA 267 4.16e-18 c.108.1.3 104884 1swvA 267 5.14e-18 2b0cA 206 7.55e-18 2fi1A 190 1.78e-16 1cr6A 554 1.53e-13 1cr6B c.69.1.11,c.108.1.2 34687,43337 1zd3A 555 2.05e-13 1l7mA 211 1.46e-11 c.108.1.4 73664 1qyiA 384 5.85e-11 c.108.1.13 96595 1j97A 211 7.36e-11 1f5sA c.108.1.4 62753 1l7pA 211 7.65e-11 c.108.1.4 73670 2c4nA 250 2.43e-09 1yv9A 264 5.01e-09 1ys9A 254 1.29e-08 1ydfA 257 1.45e-08 1pw5A 253 1.99e-08 c.108.1.14 95199 1wviA 257 2.43e-08 1vjrA 271 2.85e-08 c.108.1.14 100832 1zjjA 263 4.53e-08 1u7pA 164 3.27e-07 1nnlA 225 4.51e-07 c.108.1.4 85906 1l8lA 225 5.72e-07 c.108.1.4 84562 2g80A 253 2.58e-06 1zs9A 261 1.20e-05 1wr8A 231 6.24e-05 2b8eA 273 4.07e-04 1yj5A 383 5.59e-04 2bdeA 470 9.27e-04 1nf2A 268 9.91e-04 c.108.1.10 91849 1ymqA 261 1.07e-03 2feaA 236 1.07e-03 1rkuA 206 1.18e-03 c.108.1.11 97627 1q92A 197 1.94e-03 c.108.1.8 96250 1z5gA 214 4.44e-03 1z88A 214 4.69e-03 1z4mA 197 1.05e-02 1nrwA 288 1.16e-02 c.108.1.10 86128 2b82A 211 2.07e-02 1rmtA 212 2.08e-02 1rkqA 282 2.13e-02 c.108.1.10 97621 2b30A 301 2.46e-02 2g09A 297 6.21e-02 2g07A 297 6.64e-02 1k1eA 180 6.79e-02 c.108.1.5 67995 1rlmA 271 7.93e-02 2cn1A 292 1.22e-01 2amyA 246 1.52e-01 1pz1A 333 2.93e-01 c.1.7.1 95390 1wv2A 265 3.22e-01 1hg3A 225 4.29e-01 1hg3A c.1.1.1 61025 1oc2A 348 4.32e-01 c.2.1.2 92765 1l6rA 227 5.95e-01 c.108.1.10 77768 1vctA 205 6.30e-01 1rloA 271 6.65e-01 1wzcA 249 9.08e-01 1xviA 275 1.10e+00 1s2oA 244 1.26e+00 1pyfA 312 1.74e+00 c.1.7.1 95334 1ltqA 301 2.12e+00 c.108.1.9,c.37.1.1 78208,78209 1wpgA 994 2.44e+00 1vbjA 281 3.48e+00 1px5A 349 3.82e+00 a.160.1.2,d.218.1.6 95277,95278 1rp3A 239 5.66e+00 a.4.13.1,a.4.13.2,a.177.1.1 97678,97679,97680 1i10A 331 5.79e+00 3ldh c.2.1.5,d.162.1.1 61499,61500 1xpjA 126 6.25e+00 1ynpA 317 6.52e+00 1smqA 399 6.60e+00 a.25.1.2 105766 1jk0A 419 6.64e+00 a.25.1.2 63142 1j5wA 298 6.82e+00 d.104.1.1 71589 1ta0A 197 6.94e+00 c.108.1.16 106729 1q6uA 245 7.57e+00 d.26.1.1 95998 2fueA 262 8.07e+00 1ogqA 313 8.27e+00 c.10.2.8 86996 1p2fA 220 9.32e+00 a.4.6.1,c.23.1.1 87720,87721 1e3oC 160 9.53e+00 1au7A a.4.1.1,a.35.1.1 59197,59198 1t9zA 197 1.04e+01 c.108.1.16 106728 1bw0A 416 1.10e+01 1bw0A c.67.1.1 34385 1x0lA 333 1.12e+01 1l1jA 239 1.13e+01 b.47.1.1 84516 1ou5A 448 1.14e+01 a.173.1.1,d.218.1.4 87445,87446 2ldxA 331 1.15e+01 2ctwA 109 1.19e+01 1hjqA 332 1.20e+01 c.1.8.3 83491 1we5A 772 1.27e+01 2f2hA 773 1.27e+01 1xsjA 778 1.27e+01 1ihiA 323 1.31e+01 c.1.7.1 66142 1j96A 323 1.31e+01 c.1.7.1 71616 1xjbA 325 1.31e+01 1mrqA 323 1.35e+01 c.1.7.1 91445 1dekA 241 1.37e+01 1dekA c.37.1.1 31842 1v6aA 332 1.50e+01 2gsfA 373 1.62e+01 1yr2A 741 1.71e+01 2g40A 224 1.72e+01 1uasA 362 1.74e+01 b.71.1.1,c.1.8.1 88388,88389 1vrbA 342 1.99e+01 1tj7A 457 2.02e+01 1ry8A 323 2.07e+01 1gs5A 258 2.10e+01 c.73.1.2 70395 1s1pA 331 2.11e+01 c.1.7.1 98350 1tqjA 230 2.12e+01 c.1.2.2 107228 1gzkA 315 2.14e+01 d.144.1.7 83406 1e32A 458 2.20e+01 1e32A b.52.2.3,c.37.1.20,d.31.1.1 59183,59184,59185 1gznA 335 2.27e+01 d.144.1.7 83407 1mryA 339 2.28e+01 d.144.1.7 91451 1zb7A 455 2.33e+01 1a5z 319 2.37e+01 1ceqA c.2.1.5,d.162.1.1 30181,42148 1z0sA 278 2.38e+01 1bcw 319 2.39e+01 1avc a.65.1.1 18176 1fawB 146 2.39e+01 a.1.1.2 65003 1o6kA 336 2.41e+01 d.144.1.7 81091 9ldtA 332 2.43e+01 3ldh c.2.1.5,d.162.1.1 30154,42121 1q5mA 322 2.44e+01 c.1.7.1 104539 1og6A 298 2.44e+01 c.1.7.1 86984 1t2fA 333 2.47e+01 c.2.1.5,d.162.1.1 99088,99089 1q13A 323 2.47e+01 5ldhA 334 2.48e+01 1bcy 319 2.49e+01 1avc a.65.1.1 18172 1i0zA 333 2.49e+01 3ldh c.2.1.5,d.162.1.1 61495,61496 2gwrA 238 2.50e+01 1b35A 260 2.54e+01 1b35A b.121.4.1 23333 1bf2 750 2.55e+01 1bf2 b.1.18.2,b.71.1.1,c.1.8.1 21860,27787,28774 1lhpA 312 2.59e+01 c.72.1.5 77960 1bc3 319 2.59e+01 1avc a.65.1.1 18175 1o6lA 337 2.63e+01 d.144.1.7 81092 1o1zA 234 2.63e+01 c.1.18.3 86555 1ly1A 181 2.64e+01 c.37.1.1 74334 1bc1 319 2.65e+01 1avc a.65.1.1 18173 1ur3M 319 2.65e+01 c.1.7.1 99806 1d3yA 301 2.71e+01 1d3yA e.12.1.1 43252 2gf2A 296 2.76e+01 1n42A 319 2.77e+01 a.65.1.1 79979 1iooA 196 2.78e+01 d.124.1.1 71250 1a4fB 146 2.82e+01 1abwA a.1.1.2 15573 1yoeA 322 2.84e+01 1k30A 368 2.86e+01 c.112.1.1 68067 1iuqA 367 2.95e+01 c.112.1.1 90703 1p88A 216 2.98e+01 1suwA 249 3.02e+01 e.52.1.1 106027 1n44A 319 3.04e+01 a.65.1.1 79980 1im5A 180 3.16e+01 c.33.1.3 66211 1qmrA 159 3.18e+01 1bv1 d.129.3.1 41314 1tdwA 308 3.24e+01 1bcz 319 3.29e+01 1avc a.65.1.1 18177 2ran 316 3.35e+01 1avc a.65.1.1 18170 1a8b 318 3.37e+01 1avc a.65.1.1 18171 1f8fA 371 3.43e+01 b.35.1.2,c.2.1.1 83246,83247 1bc0 319 3.47e+01 1avc a.65.1.1 18174 2gd9A 189 3.57e+01 1tb5A 381 3.57e+01 a.211.1.2 106735 1xm6A 398 3.57e+01 1n41A 319 3.60e+01 a.65.1.1 79978 1fjgH 138 3.63e+01 1seiA d.140.1.1 41468 1wxsA 90 3.64e+01 1an7A 136 3.64e+01 1seiA d.140.1.1 41465 1wcwA 261 3.66e+01 1wcxA 261 3.77e+01 2ctqA 112 3.78e+01 4pah 308 3.81e+01 4pah d.178.1.1 42576 1dmwA 307 3.81e+01 4pah d.178.1.1 42580 1j8uA 325 3.83e+01 d.178.1.1 71611 2bwkA 121 3.87e+01 1l7yA 94 3.88e+01 d.15.1.6 73676 1j0gA 92 3.92e+01 d.15.1.6 90740 1j7nA 776 3.92e+01 d.92.1.14,d.92.1.14,d.166.1.1 66409,66410,66411 1rtrA 301 3.94e+01 a.128.1.1 97820 2au1A 292 3.95e+01 1y08A 323 3.95e+01 2aak 152 4.09e+01 1u9aA d.20.1.1 38325 2greA 349 4.12e+01 1cs6A 382 4.15e+01 1cs6A b.1.1.4,b.1.1.4,b.1.1.4,b.1.1.4 21760,21761,21762,21763 1pnuC 197 4.20e+01 i.1.1.1 88200 1vorF 198 4.20e+01 1bdfA 235 4.23e+01 1bdfA d.74.3.1,d.181.1.1 39727,42602 1fehA 574 4.26e+01 1fehA c.96.1.1,d.15.4.2,d.58.1.5 36015,37690,38998 1eyxB 177 4.26e+01 1qgwC a.1.1.3 15670 1nwyC 204 4.28e+01 i.1.1.2 86347 1nkwC 205 4.28e+01 i.1.1.2 80588 2pahA 335 4.42e+01 4pah d.178.1.1 42581 2avwA 311 4.57e+01 1nn6A 228 4.60e+01 b.47.1.2 85893 1njgA 250 4.66e+01 c.37.1.20 85785 1m3gA 145 4.66e+01 c.45.1.1 84783 1klt 226 4.72e+01 5ptp b.47.1.2 26300 1uz5A 402 4.74e+01 b.85.6.1,b.103.1.1,c.57.1.2 100217,100218,100219 1q36A 427 4.75e+01 d.68.2.2 95662 1jjfA 268 4.77e+01 c.69.1.2 66765 1pwuA 776 4.83e+01 d.92.1.14,d.92.1.14,d.166.1.1 95244,95245,95246 1e08A 371 4.86e+01 i.4.1.1 45914 1g6sA 427 4.92e+01 1eps d.68.2.2 39584 1y1pA 342 4.93e+01 1q47A 495 4.97e+01 b.69.12.1 104532 1gro 416 4.99e+01 1iso c.77.1.1 35079 2cw1A 65 5.00e+01 1bv1 159 5.00e+01 1bv1 d.129.3.1 41313 1x13A 401 5.03e+01 1lltA 159 5.13e+01 d.129.3.1 91063 1fzrA 138 5.14e+01 1fzrA c.52.1.17 33336 1qpwA 141 5.14e+01 1abwA a.1.1.2 15390 1eps 427 5.16e+01 1eps d.68.2.2 39586 1dms 781 5.32e+01 1dmr b.52.2.2,c.81.1.1 26906,35314 1r38A 322 5.34e+01 2avyB 240 5.36e+01 1jt2A 268 5.41e+01 c.69.1.2 71858 3tatA 397 5.41e+01 1ajsA c.67.1.1 34379 2a92A 321 5.42e+01 1losA 224 5.47e+01 c.1.2.3 74157 1uc2A 481 5.49e+01 d.261.1.1 99161 1wyuA 438 5.51e+01 2bszA 278 5.55e+01 1m0dA 138 5.72e+01 c.52.1.17 74354 1hbrB 146 5.74e+01 1cg5B a.1.1.2 15571 1hkhA 279 5.85e+01 c.69.1.12 90628 1e18A 823 6.01e+01 1dmr b.52.2.2,c.81.1.1 26907,35315 2fliA 220 6.04e+01 1v2aA 210 6.14e+01 a.45.1.1,c.47.1.5 100263,100264 1t31A 226 6.20e+01 1pn3A 404 6.20e+01 c.87.1.5 94938 1zh2A 121 6.23e+01 1urhA 280 6.23e+01 c.46.1.2,c.46.1.2 99829,99830 1b74A 254 6.26e+01 1b74A c.78.2.1,c.78.2.1 35264,35265 1xxiB 368 6.27e+01 1sznA 417 6.29e+01 b.71.1.1,c.1.8.1 106162,106163 1u02A 239 6.35e+01 c.108.1.15 107538 2f7kA 327 6.38e+01 1mi4A 427 6.39e+01 d.68.2.2 79141 1jr3A 373 6.44e+01 a.80.1.1,c.37.1.20 63245,63246 1nhs 447 6.45e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1km2A 247 6.50e+01 c.1.2.3 72738 2cvzA 289 6.51e+01 1hfeL 421 6.54e+01 1fehA c.96.1.1,d.58.1.5 36018,39001 1klyA 247 6.56e+01 c.1.2.3 72730 1tiiA 190 6.57e+01 1lt3A d.166.1.1 42238 1eqnA 321 6.66e+01 1dd9A e.13.1.1 43256 1ye6A 322 6.67e+01 1nhq 447 6.68e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30551,30552,40197 2cgeA 405 6.73e+01 2cyjA 118 6.73e+01 1mi3A 322 6.74e+01 c.1.7.1 91274 1nhr 447 6.82e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30553,30554,40198 1q6hA 224 6.83e+01 d.26.1.1 95975 1dd9A 338 6.94e+01 1dd9A e.13.1.1 43254 1dmr 823 6.96e+01 1dmr b.52.2.2,c.81.1.1 26904,35312 2ajpA 326 6.98e+01 4dmr 823 6.98e+01 1dmr b.52.2.2,c.81.1.1 26905,35313 1vpqA 273 6.99e+01 1e61A 823 7.01e+01 1dmr b.52.2.2,c.81.1.1 26908,35316 1unlA 292 7.07e+01 1sm9A 322 7.07e+01 1z9aA 321 7.08e+01 1pbuA 162 7.11e+01 d.58.46.1 88030 1x1zA 252 7.18e+01 1e6kA 130 7.21e+01 3chy c.23.1.1 59306 1lp6A 229 7.23e+01 c.1.2.3 74171 2a72A 146 7.26e+01 1dv7A 227 7.33e+01 1dvjA c.1.2.3 28550 1loqA 228 7.33e+01 c.1.2.3 74155 1i3kA 348 7.34e+01 1xel c.2.1.2 61595 1dvjA 246 7.38e+01 1dvjA c.1.2.3 28546 1cfzA 162 7.41e+01 1cfzA c.56.1.1 33754 1hzjA 348 7.45e+01 1xel c.2.1.2 61450 1npx 447 7.48e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30557,30558,40200 2bq0A 245 7.51e+01 1adwA 123 7.53e+01 1bqk b.6.1.1 22893 1ydoA 307 7.62e+01 1km0A 247 7.66e+01 c.1.2.3 72732 1l1lA 739 7.69e+01 c.7.1.4 73470 1ajsA 412 7.74e+01 1ajsA c.67.1.1 34276 2gftA 399 7.75e+01 1gtvA 214 7.78e+01 c.37.1.1 70537 1c9wA 315 7.79e+01 1frb c.1.7.1 28699 1jl5A 454 7.84e+01 c.10.2.6 66830 1nhp 447 7.87e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 1klzA 247 7.89e+01 c.1.2.3 72731 1cp3A 277 8.02e+01 1pauA c.17.1.1 30992 1noyA 388 8.02e+01 1clqA c.55.3.5 33713 2fk8A 318 8.17e+01 1zrzA 364 8.17e+01 1tzzA 392 8.20e+01 3lynA 136 8.25e+01 1lis a.19.1.1 16413 1km5A 247 8.29e+01 c.1.2.3 72741 1f8wA 447 8.31e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30561,30562,40202 2fiqA 420 8.35e+01 2cvjA 180 8.44e+01 1km3A 247 8.51e+01 c.1.2.3 72739 1t33A 224 8.54e+01 a.4.1.9,a.121.1.1 106295,106296 1ocp 67 8.56e+01 1au7A a.4.1.1 15999 1z6zA 282 8.79e+01 1dcnD 445 8.79e+01 1auwA a.127.1.1 19423 1eo1A 124 8.80e+01 1eo1A c.55.5.1 33739 1dcnA 433 8.81e+01 1auwA a.127.1.1 19420 1dcnB 446 8.82e+01 1auwA a.127.1.1 19421 1dcnC 447 8.83e+01 1auwA a.127.1.1 19422 1a99A 344 8.95e+01 1pot c.94.1.1 35812 2fkmX 462 8.96e+01 1o4xA 167 8.98e+01 a.4.1.1,a.35.1.1 92470,92471