# List of top-scoring protein chains for T0375.t2k-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 1rkd 309 2.04e-39 1rkd c.72.1.1 34928 2fv7A 331 7.56e-37 1vm7A 311 2.19e-35 c.72.1.1 108884 1tyyA 339 3.29e-35 1v1aA 309 5.68e-35 c.72.1.1 100249 2afbA 351 8.42e-29 2dcnA 311 1.04e-28 1bx4A 345 5.98e-27 1bx4A c.72.1.1 34935 2abqA 306 1.37e-25 1lioA 363 1.60e-25 c.72.1.1 73924 1liiA 363 2.67e-25 c.72.1.1 73921 1dgmA 363 2.69e-25 1bx4A c.72.1.1 34936 2absA 383 2.81e-25 2f02A 323 1.71e-22 2ajrA 331 3.36e-16 1vk4A 298 7.69e-12 c.72.1.1 100850 1ub0A 258 1.65e-08 c.72.1.2 88394 1td2A 287 6.54e-06 c.72.1.5 106765 1vi9A 299 6.56e-06 c.72.1.5 100750 1jxhA 288 1.60e-05 c.72.1.2 67415 1lhpA 312 1.70e-04 c.72.1.5 77960 2ajpA 326 3.01e-04 2f7kA 327 3.01e-04 1v8aA 265 1.48e-03 c.72.1.2 100494 1kyhA 276 8.88e-03 c.72.1.4 73222 1ua4A 455 1.49e-02 c.72.1.3 99128 2ax3A 502 2.33e-01 1gc5A 467 2.63e-01 1gc5A c.72.1.3 60429 1ekqA 272 8.80e-01 1c3qA c.72.1.2 34941 1oj7A 408 1.02e+00 e.22.1.2 103971 1esjA 284 1.14e+00 1c3qA c.72.1.2 34943 1vpe 398 1.93e+00 16pk c.86.1.1 35453 1v9lA 421 2.07e+00 1f0kA 364 2.57e+00 1f0kA c.87.1.2 35465 1fyeA 229 3.65e+00 1fyeA c.23.16.4 31477 1vahA 496 4.86e+00 1wmjA 130 5.34e+00 1w5bA 364 5.34e+00 1fsz 372 5.65e+00 1fsz c.32.1.1,d.79.2.1 31750,39802 1ose 496 5.88e+00 1smd b.71.1.1,c.1.8.1 27766,28753 1jfh 496 6.11e+00 1smd b.71.1.1,c.1.8.1 27762,28749 2aqhA 269 6.38e+00 1cozA 129 6.49e+00 1cozA c.26.1.2 31598 2aqkA 269 6.52e+00 1enz 268 6.65e+00 1eny c.2.1.2 29912 1uj2A 252 6.69e+00 c.37.1.6 99452 2aq8A 269 6.90e+00 1dhkA 496 6.97e+00 1smd b.71.1.1,c.1.8.1 27761,28748 1eny 268 7.04e+00 1eny c.2.1.2 29910 1bbuA 504 7.09e+00 1lylA b.40.4.1,d.104.1.1 25254,40721 1w5eA 364 7.12e+00 2f8xC 434 7.27e+00 1xrjA 261 7.28e+00 1bvrA 268 7.31e+00 1eny c.2.1.2 29913 2aqiA 269 7.34e+00 1ppi 496 7.42e+00 1smd b.71.1.1,c.1.8.1 27763,28750 1ofuA 320 7.66e+00 c.32.1.1,d.79.2.1 86972,86973 1qo5A 363 7.75e+00 1fbaA c.1.10.1 29102 2f6uA 234 7.87e+00 1fdjA 363 7.97e+00 1fbaA c.1.10.1 59772 1kxqA 496 8.40e+00 b.71.1.1,c.1.8.1 73163,73164 1hx0A 496 8.62e+00 b.71.1.1,c.1.8.1 61346,61347 1xdmA 365 8.97e+00 1pig 496 9.84e+00 1smd b.71.1.1,c.1.8.1 27764,28751 1opkA 495 9.86e+00 b.34.2.1,d.93.1.1,d.144.1.7 87232,87233,87234 1bvnP 496 9.99e+00 1smd b.71.1.1,c.1.8.1 27767,28754 2iu4A 336 1.02e+01 1kbbA 496 1.14e+01 b.71.1.1,c.1.8.1 72275,72276 1ti3A 113 1.19e+01 1kbkA 496 1.21e+01 b.71.1.1,c.1.8.1 72282,72283 1kgwA 496 1.21e+01 b.71.1.1,c.1.8.1 68600,68601 2ew2A 316 1.24e+01 1kb3A 496 1.25e+01 b.71.1.1,c.1.8.1 72269,72270 1hny 496 1.26e+01 1smd b.71.1.1,c.1.8.1 27769,28756 1kgxA 496 1.26e+01 b.71.1.1,c.1.8.1 68602,68603 1z7aA 308 1.30e+01 1eexG 173 1.36e+01 1dioG a.23.2.1 16490 2fo0A 495 1.37e+01 1kguA 496 1.43e+01 b.71.1.1,c.1.8.1 68598,68599 1oplA 537 1.44e+01 b.34.2.1,d.93.1.1,d.144.1.7 87235,87236,87237 2cpuA 496 1.46e+01 1smd b.71.1.1,c.1.8.1 63334,63335 1uluA 261 1.49e+01 2d5cA 263 1.52e+01 2b7lA 132 1.52e+01 1ixcA 294 1.55e+01 a.4.5.37,c.94.1.1 83764,83765 1zjjA 263 1.56e+01 1sq6A 253 1.57e+01 c.56.2.1 98964 1rfmA 344 1.58e+01 c.122.1.1 97385 1umzA 278 1.58e+01 b.29.1.2 99639 1vi2A 300 1.66e+01 c.2.1.7,c.58.1.5 100726,100727 1j5xA 342 1.69e+01 c.80.1.1 71591 1npdA 288 1.70e+01 c.2.1.7,c.58.1.5 80681,80682 1xgzA 496 1.70e+01 1e1oA 504 1.71e+01 1lylA b.40.4.1,d.104.1.1 25258,40714 2hsdA 253 1.75e+01 1e6wA c.2.1.2 29866 1x88A 359 1.75e+01 1ii6A 368 1.75e+01 1bg2 c.37.1.9 62413 1q0bA 367 1.75e+01 c.37.1.9 95502 2iu6A 336 1.83e+01 1rifA 282 1.85e+01 c.37.1.23 97507 1xmxA 385 1.85e+01 2fw2A 260 1.86e+01 1hdcA 254 1.86e+01 1e6wA c.2.1.2 29862 2bsxA 253 1.88e+01 1o58A 303 1.88e+01 c.79.1.1 92491 2gtrA 261 1.90e+01 1sjpA 504 1.99e+01 1o50A 157 2.12e+01 d.37.1.1,d.37.1.1 92478,92479 2fbmA 291 2.15e+01 1u2xA 474 2.20e+01 c.72.1.3 107622 1php 394 2.24e+01 16pk c.86.1.1 35452 1n25A 368 2.27e+01 c.37.1.20 85264 1svmA 377 2.29e+01 1ad1A 266 2.32e+01 1aj2 c.1.21.1 29668 1q1gA 276 2.33e+01 c.56.2.1 95574 1j9bA 141 2.34e+01 c.47.1.12 66459 1mqeA 207 2.38e+01 d.113.1.1 91394 1jzwA 140 2.38e+01 c.47.1.12 67883 2ganA 190 2.52e+01 2gh1A 301 2.57e+01 1x3zA 335 2.59e+01 2brxA 244 2.64e+01 1wzaA 488 2.74e+01 2pia 321 2.80e+01 2pia b.43.4.2,c.25.1.2,d.15.4.2 25663,31553,37704 1nm9A 496 2.81e+01 b.71.1.1,c.1.8.1 91974,91975 2bmuA 226 2.86e+01 1xxlA 239 2.88e+01 2briA 225 2.89e+01 1mxiA 160 2.89e+01 c.116.1.1 79646 1who 96 2.96e+01 1who b.7.3.1 23215 1i9dA 141 3.00e+01 c.47.1.12 66098 1zroA 602 3.03e+01 1s3cA 141 3.17e+01 1bxbA 387 3.32e+01 4xis c.1.15.3 29543 1wa5A 176 3.34e+01 1ktbA 405 3.43e+01 b.71.1.1,c.1.8.1 72960,72961 1bxcA 387 3.43e+01 4xis c.1.15.3 29539 1xcbA 211 3.54e+01 a.4.5.38,c.2.1.12 109552,109553 1q4nX 496 3.57e+01 b.71.1.1,c.1.8.1 95807,95808 2an9A 207 3.68e+01 1s96A 219 3.72e+01 c.37.1.1 98740 1m6yA 301 3.73e+01 a.60.13.1,c.66.1.23 78716,78717 1smd 496 3.76e+01 1smd b.71.1.1,c.1.8.1 27768,28755 1oj4A 283 3.76e+01 d.14.1.5,d.58.26.5 93083,93084 1jxjA 496 3.84e+01 b.71.1.1,c.1.8.1 63314,63315 1juvA 193 3.87e+01 c.71.1.1 90912 1z32X 496 3.93e+01 2h0eA 121 3.98e+01 1hjsA 332 4.01e+01 c.1.8.3 83492 1eo1A 124 4.40e+01 1eo1A c.55.5.1 33739 1te2A 226 4.41e+01 c.108.1.6 106792 1twfF 155 4.42e+01 1kqzA 273 4.43e+01 c.1.8.5 68844 1ki0A 253 4.54e+01 g.14.1.1,g.14.1.1,g.14.1.1 72493,72494,72495 1l2lA 457 4.58e+01 c.72.1.3 77656 1wyuB 474 4.59e+01 1kmjA 406 4.64e+01 c.67.1.3 68695 1jf9A 408 4.64e+01 1c0nA c.67.1.3 62931 1gpjA 404 4.67e+01 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1jvwA 167 4.69e+01 d.26.1.1 71907 1ibjA 464 4.77e+01 1ibjA c.67.1.3 62162 1kgdA 180 4.78e+01 c.37.1.1 68582 1kmkA 406 4.79e+01 c.67.1.3 68696 1z47A 355 4.79e+01 1jr1A 514 4.82e+01 c.1.5.1,d.37.1.1,d.37.1.1 63241,63242,63243 1sk1A 140 4.86e+01 1nx9A 652 4.93e+01 b.18.1.13,c.69.1.21 92285,92286 2ex1A 399 4.98e+01 1c0nA 406 5.04e+01 1c0nA c.67.1.3 34433 2cgeA 405 5.07e+01 2bkuA 177 5.18e+01 1cr6A 554 5.25e+01 1cr6B c.69.1.11,c.108.1.2 34687,43337 1usgA 346 5.30e+01 c.93.1.1 99864 2hcuA 213 5.34e+01 1m41A 380 5.37e+01 c.1.16.4 78595 1nqkA 381 5.38e+01 c.1.16.4 92050 2a9vA 212 5.39e+01 1ahxA 396 5.49e+01 1ajsA c.67.1.1 34293 1toiA 396 5.53e+01 2ex0A 399 5.56e+01 1eq2A 310 5.59e+01 1eq2A c.2.1.2 29814 1mgtA 174 5.76e+01 1mgtA a.4.2.1,c.55.7.1 16078,33753 2gsfA 373 5.82e+01 1vmcA 71 5.90e+01 2up1A 183 5.92e+01 1ha1 d.58.7.1,d.58.7.1 39151,39152 2b9vA 652 5.94e+01 1q1fA 151 5.96e+01 a.1.1.2 104476 1i2mA 216 6.03e+01 1byuA c.37.1.8 61568 1rz3A 201 6.04e+01 c.37.1.6 98132 1h0hA 977 6.05e+01 b.52.2.2,c.81.1.1 76435,76436 1pgzA 195 6.08e+01 d.58.7.1,d.58.7.1 94697,94698 1l3kA 196 6.10e+01 d.58.7.1,d.58.7.1 73539,73540 1kr0A 273 6.16e+01 c.1.8.5 68845 1sd8A 141 6.17e+01 1kr1A 273 6.19e+01 c.1.8.5 68846 1up1 182 6.20e+01 1ha1 d.58.7.1,d.58.7.1 39149,39150 1ha1 184 6.24e+01 1ha1 d.58.7.1,d.58.7.1 39147,39148 2fug1 438 6.29e+01 1zelA 298 6.42e+01 1n2zA 245 6.44e+01 c.92.2.2 79865 1pvtA 238 6.51e+01 c.74.1.1 95189 1sk0A 140 6.52e+01 2lbp 346 6.54e+01 2liv c.93.1.1 35709 1xflA 124 6.64e+01 c.47.1.1 109586 2fr1A 486 6.67e+01 1ryyA 652 6.71e+01 1rrpA 204 6.72e+01 1byuA c.37.1.8 32042 1tokA 396 6.76e+01 1togA 396 6.79e+01 1n4aA 252 6.81e+01 c.92.2.2 85317 1prgA 270 6.93e+01 2prgA a.123.1.1 19314 1qg7A 67 6.98e+01 1a15A d.9.1.1 37449 1t11A 392 7.05e+01 a.223.1.1,d.241.2.1,d.26.1.1 106236,106237,106238 1wm0X 292 7.05e+01 a.123.1.1 109404 1km4A 247 7.05e+01 c.1.2.3 72740 1k74D 283 7.06e+01 a.123.1.1 68252 1rdtD 284 7.07e+01 1mr3F 181 7.08e+01 c.37.1.8 79422 3prgA 278 7.10e+01 2prgA a.123.1.1 19318 1zgyA 272 7.13e+01 1zeoA 277 7.13e+01 1knuA 274 7.13e+01 a.123.1.1 77457 2fvjA 271 7.13e+01 1nyxA 276 7.15e+01 a.123.1.1 86431 1tz7A 505 7.16e+01 1v9nA 360 7.17e+01 1o7fA 469 7.17e+01 a.4.5.31,b.82.3.2,b.82.3.2 81131,81132,81133 1t6kA 278 7.21e+01 1t3eA 421 7.27e+01 b.85.6.1,b.103.1.1,c.57.1.2 106348,106349,106350 2ftsA 419 7.27e+01 1i7iA 292 7.28e+01 a.123.1.1 71125 1f3oA 235 7.33e+01 1b0uA c.37.1.12 59631 1wduA 245 7.34e+01 d.151.1.1 109286 1jphA 388 7.40e+01 c.1.22.1 67022 1gmlA 178 7.47e+01 c.8.5.2 70273 1wvhA 134 7.52e+01 1eagA 342 7.52e+01 1eagA b.50.1.2 26826 2bhvA 246 7.59e+01 1aj6 219 7.62e+01 1aj6 d.122.1.2 41106 1wznA 252 7.68e+01 1a87 321 7.71e+01 1a87 f.1.1.1 43380 1ehaA 558 7.78e+01 1ehaA b.1.18.2,b.71.1.1,c.1.8.1 21859,27786,28773 2g09A 297 7.81e+01 1eh9A 558 7.84e+01 1ehaA b.1.18.2,b.71.1.1,c.1.8.1 21858,27785,28772 2g07A 297 7.84e+01 1cnv 299 7.98e+01 1cnv c.1.8.5 28989 1xouB 95 8.04e+01 1y10A 407 8.05e+01 1ndh 272 8.08e+01 1ndh b.43.4.2,c.25.1.1 25662,31552 1tikA 213 8.13e+01 c.23.5.3 107003 1gveB 327 8.17e+01 c.1.7.1 70598 1eqpA 394 8.31e+01 1cz1A c.1.8.3 28812 1wf0A 88 8.36e+01 1jqbA 351 8.44e+01 b.35.1.2,c.2.1.1 77151,77152 1km5A 247 8.46e+01 c.1.2.3 72741 1sk2A 140 8.56e+01 1nt2A 210 8.65e+01 c.66.1.3 86149 1v4bA 200 8.66e+01 2byvE 999 8.70e+01 1gveA 327 8.70e+01 c.1.7.1 70597 1uaaA 673 8.74e+01 1pjr c.37.1.19,c.37.1.19 32401,32402 2gwnA 452 8.95e+01