# List of top-scoring protein chains for T0418.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.soe.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 2hszA 243 7.56e-30 c.108.1.6 136726 2nyvA 222 1.23e-29 2yy6A 213 3.42e-29 2pibA 216 4.10e-27 2hi0A 240 9.29e-26 2hoqA 241 9.02e-25 2ah5A 210 5.83e-24 c.108.1.6 126742 1te2A 226 5.62e-23 c.108.1.6 106792 2no4A 240 7.36e-22 1o08A 221 8.18e-22 c.108.1.6 86525 2fdrA 229 1.36e-21 c.108.1.6 133319 1x42A 232 1.74e-21 c.108.1.1 121677 2hdoA 209 2.10e-21 c.108.1.6 136345 2gfhA 260 2.43e-21 c.108.1.6 135096 2no5A 240 2.80e-21 1judA 232 1.70e-20 c.108.1.1 43325 1zrnA 232 1.81e-20 c.108.1.1 43323 2go7A 207 9.71e-20 c.108.1.6 135434 2qltA 275 2.64e-18 1aq6A 253 7.45e-18 1qq5A c.108.1.1 43331 1qq5A 253 7.68e-18 1qq5A c.108.1.1 43327 2iofK 267 2.35e-17 2iohA 267 2.41e-17 2iofA 267 2.83e-17 1qq7A 253 3.19e-17 1qq5A c.108.1.1 43329 2om6A 235 3.61e-17 1rqlA 267 1.33e-16 c.108.1.3 97750 2fi1A 190 1.37e-16 c.108.1.3 133508 1rdfA 267 2.99e-16 c.108.1.3 104884 1fezA 256 4.68e-16 1fezA c.108.1.3 43343 1swvA 267 5.46e-16 c.108.1.3 112134 3cnhA 200 7.86e-16 1zd3A 555 4.02e-15 c.108.1.2,c.69.1.11 124930,124931 2hcfA 234 8.42e-15 c.108.1.6 136333 1cr6A 554 5.35e-14 1cr6B c.69.1.11,c.108.1.2 34687,43337 2b0cA 206 1.09e-13 c.108.1.2 127633 1qyiA 384 2.78e-12 c.108.1.13 96595 1l7mA 211 2.89e-12 c.108.1.4 73664 1j97A 211 1.42e-11 1f5sA c.108.1.4 62753 1l7pA 211 1.50e-11 c.108.1.4 73670 2i6xA 211 1.68e-11 2gmwA 211 1.44e-10 2pkeA 251 3.29e-10 1vjrA 271 1.20e-09 c.108.1.14 100832 2pr7A 137 1.76e-09 2c4nA 250 4.56e-09 c.108.1.14 129837 1pw5A 253 6.15e-09 c.108.1.14 95199 1yv9A 264 6.83e-09 c.108.1.14 124089 1wviA 257 7.88e-09 c.108.1.14 114915 2o2xA 218 7.90e-09 2hx1A 284 9.29e-09 2oycA 306 9.49e-09 2cftA 298 1.12e-08 1zjjA 263 1.15e-08 1ys9A 254 2.40e-08 c.108.1.14 123965 2iyeA 263 2.51e-08 1ydfA 257 2.94e-08 c.108.1.14 122996 2ho4A 259 4.14e-08 2p11A 231 7.55e-08 1nnlA 225 1.39e-07 c.108.1.4 85906 1l8lA 225 1.81e-07 c.108.1.4 84562 1u7pA 164 3.55e-07 c.108.1.17 113095 1zs9A 261 7.17e-06 c.108.1.22 125600 2fprA 176 7.67e-06 c.108.1.19 133919 1wr8A 231 1.18e-05 c.108.1.10 114836 2p9jA 162 1.28e-05 2b8eA 273 4.39e-05 c.108.1.7,d.220.1.1 128068,128069 1yj5A 383 1.31e-04 c.108.1.9,c.37.1.1 123380,123381 1nf2A 268 2.34e-04 c.108.1.10 91849 2odaA 196 2.58e-04 2g80A 253 4.01e-04 c.108.1.22 134741 2feaA 236 6.03e-04 c.108.1.20 133327 2pq0A 258 7.82e-04 1z5gA 214 2.25e-03 c.108.1.12 124476 1z88A 214 2.28e-03 c.108.1.12 124691 2autA 214 2.37e-03 1rkuA 206 2.71e-03 c.108.1.11 97627 2rbkA 261 3.44e-03 1k1eA 180 3.58e-03 c.108.1.5 67995 2bdeA 470 8.86e-03 c.108.1.23 128335 1hg3A 225 9.25e-03 1hg3A c.1.1.1 61025 1q92A 197 1.02e-02 c.108.1.8 96250 3bwvA 180 1.30e-02 2i7dA 193 1.60e-02 2b82A 211 2.09e-02 c.108.1.12 128057 1rmtA 212 2.09e-02 c.108.1.12 111888 2z2uA 311 3.27e-02 2h6rA 219 3.55e-02 2g09A 297 3.61e-02 2g07A 297 3.77e-02 1rkqA 282 4.49e-02 c.108.1.10 97621 2ravA 261 4.97e-02 2yx0A 342 5.14e-02 2hhlA 195 5.31e-02 2jarA 200 5.50e-02 1z4mA 197 6.65e-02 c.108.1.8 124437 1ltqA 301 7.93e-02 c.108.1.9,c.37.1.1 78208,78209 1rlmA 271 8.45e-02 c.108.1.10 111860 2hegA 211 8.68e-02 2jgaA 292 9.91e-02 2vkqA 292 1.04e-01 2hf2A 283 1.51e-01 1nrwA 288 1.54e-01 c.108.1.10 86128 2b30A 301 1.91e-01 c.108.1.10 127759 2i33A 258 2.20e-01 1rloA 271 2.26e-01 c.108.1.10 111864 1pz1A 333 2.95e-01 c.1.7.1 95390 1pyfA 312 3.24e-01 c.1.7.1 95334 1xviA 275 3.31e-01 c.108.1.10 116088 1ly1A 181 3.40e-01 c.37.1.1 74334 2i54A 247 6.34e-01 1l6rA 227 1.05e+00 c.108.1.10 77768 1o1zA 234 1.18e+00 c.1.18.3 86555 1rjwA 339 1.68e+00 b.35.1.2,c.2.1.1 97582,97583 1oc2A 348 1.74e+00 c.2.1.2 92765 2amyA 246 1.77e+00 c.108.1.10 127026 2e5fA 325 1.93e+00 3b8eA 998 2.02e+00 2jc9A 555 2.39e+00 1ta0A 197 2.77e+00 c.108.1.16 106729 1wv2A 265 2.86e+00 c.1.31.1 114910 2ghtA 181 2.91e+00 1s2oA 244 3.11e+00 c.108.1.10 118846 1t9zA 197 3.32e+00 c.108.1.16 106728 1wpgA 994 3.50e+00 b.82.7.1,c.108.1.7,d.220.1.1,f.33.1.1 114806,114807,114808,114809 2nv9A 372 4.00e+00 2nvaA 372 4.16e+00 3ch0A 272 4.87e+00 2jcmA 555 4.88e+00 1vctA 205 5.12e+00 a.7.12.1,d.286.1.1 119986,119987 1gs5A 258 5.13e+00 c.73.1.2 70395 2q5eA 187 5.13e+00 2fueA 262 5.23e+00 c.108.1.10 134119 1ynpA 317 5.54e+00 1ek6A 348 5.68e+00 1xel c.2.1.2 29800 1hzjA 348 5.75e+00 1xel c.2.1.2 61450 1csjA 531 5.78e+00 1quvA e.8.1.4 43120 1gx6A 531 5.79e+00 e.8.1.4 70683 1gx5A 536 5.80e+00 e.8.1.4 70682 2dxsA 552 5.82e+00 2giqA 568 5.84e+00 2d3zA 570 5.87e+00 e.8.1.4 131234 3cj2A 576 5.87e+00 2nocA 99 5.87e+00 1nhuA 578 5.87e+00 e.8.1.4 85723 2gc8A 578 5.90e+00 e.8.1.4 134970 2ax0A 580 5.90e+00 2haiA 576 5.91e+00 1i3kA 348 5.95e+00 1xel c.2.1.2 61595 1nb4A 570 5.97e+00 e.8.1.4 85509 2jc1A 570 6.06e+00 2fvcA 563 6.12e+00 1c2pA 576 6.17e+00 1quvA e.8.1.4 43117 2ctwA 109 6.22e+00 1smqA 399 6.73e+00 a.25.1.2 105766 1jk0A 419 6.81e+00 a.25.1.2 63142 2qocA 344 7.67e+00 2qobA 344 7.67e+00 1we5A 772 7.83e+00 b.150.1.1,b.30.5.11,b.71.1.4,c.1.8.13 120941,120942,120943,120944 2f2hA 773 7.85e+00 b.150.1.1,b.30.5.11,b.71.1.4,c.1.8.13 132818,132819,132820,132821 1xsjA 778 7.87e+00 b.150.1.1,b.30.5.11,b.71.1.4,c.1.8.13 115951,115952,115953,115954 2iyjA 75 7.88e+00 2qonA 373 7.90e+00 2qooA 373 8.14e+00 2qo9A 373 8.16e+00 2qodA 373 8.17e+00 2qofA 373 8.17e+00 2qo7A 373 8.17e+00 2qoiA 373 8.17e+00 2yyrA 67 8.29e+00 2qolA 373 8.29e+00 1iq8A 582 8.57e+00 c.1.20.1,b.122.1.1,d.17.6.1 71270,83074,83075 1tj7A 457 8.58e+00 a.127.1.1 112438 2qokA 373 8.69e+00 2dzdA 461 9.11e+00 2nt2A 145 9.32e+00 1xpjA 126 9.62e+00 c.108.1.18 115739 1uufA 369 1.04e+01 b.35.1.2,c.2.1.1 100006,100007 1b74A 254 1.06e+01 1b74A c.78.2.1,c.78.2.1 35264,35265 2j4dA 525 1.06e+01 2ijgX 526 1.07e+01 2qmjA 870 1.09e+01 1uasA 362 1.13e+01 b.71.1.1,c.1.8.1 88388,88389 1s05A 129 1.16e+01 a.24.3.2 98254 1uokA 558 1.24e+01 b.71.1.1,c.1.8.1 27801,28788 2a6hC 1119 1.30e+01 e.29.1.1 126264 1sjpA 504 1.30e+01 a.129.1.1,c.8.5.1,d.56.1.1 112092,112093,112094 1j5wA 298 1.35e+01 d.104.1.1 71589 2vhvA 377 1.39e+01 2vojA 371 1.39e+01 2vhxA 377 1.39e+01 2q99A 381 1.40e+01 1ynjC 1119 1.41e+01 2qrlA 394 1.41e+01 2ctqA 112 1.41e+01 1hqmC 1119 1.41e+01 i.8.1.1 45974 1l9uC 1118 1.41e+01 i.8.1.1 73750 1i6vC 1118 1.42e+01 e.29.1.1 61856 1urhA 280 1.48e+01 c.46.1.2,c.46.1.2 99829,99830 2i5bA 271 1.53e+01 1qpwA 141 1.57e+01 1abwA a.1.1.2 15390 1px5A 349 1.62e+01 a.160.1.2,d.218.1.6 95277,95278 2d86A 143 1.63e+01 1ogqA 313 1.69e+01 c.10.2.8 86996 2goyA 275 1.84e+01 2e3uA 219 1.85e+01 2vgzA 427 1.86e+01 2r2nA 425 1.88e+01 2r7aA 256 1.90e+01 1e3oC 160 1.92e+01 1au7A a.4.1.1,a.35.1.1 59197,59198 1c9wA 315 2.05e+01 1frb c.1.7.1 28699 1d6iA 388 2.06e+01 1bi5A c.95.1.2,c.95.1.2 36001,36002 2cffA 241 2.07e+01 2qt3A 403 2.07e+01 1wxsA 90 2.10e+01 d.15.1.6 121408 1j0gA 92 2.16e+01 d.15.1.6 90740 1wzcA 249 2.19e+01 c.108.1.10 121491 1yvfA 577 2.20e+01 3bs3A 76 2.25e+01 1dekA 241 2.31e+01 1dekA c.37.1.1 31842 1frbA 315 2.32e+01 c.1.7.1 28665 2e9fA 462 2.39e+01 2q1sA 377 2.42e+01 2r6oA 294 2.43e+01 2hlkA 255 2.51e+01 1j99A 293 2.55e+01 c.37.1.5 71618 1efhA 292 2.57e+01 1aquA c.37.1.5 31948 1ov4A 293 2.68e+01 c.37.1.5 93581 2c7bA 311 2.75e+01 1dmsA 781 2.75e+01 b.52.2.2,c.81.1.1 26906,35314 2vj4A 294 2.79e+01 3b8bA 292 2.80e+01 3bl8A 580 2.83e+01 1oxyA 628 3.00e+01 a.85.1.1,a.86.1.1,b.1.18.3 18486,18497,21862 1ll1A 628 3.08e+01 a.85.1.1,a.86.1.1,b.1.18.3 18488,18499,21864 1llaA 628 3.08e+01 a.85.1.1,a.86.1.1,b.1.18.3 18485,18496,21861 1l7yA 94 3.08e+01 d.15.1.6 73676 1i86A 389 3.16e+01 c.95.1.2,c.95.1.2 66068,66069 2obnA 349 3.23e+01 1d6hA 387 3.24e+01 1bi5A c.95.1.2,c.95.1.2 36005,36006 1bq6A 388 3.27e+01 1bi5A c.95.1.2,c.95.1.2 35987,35988 1bi5A 389 3.27e+01 1bi5A c.95.1.2,c.95.1.2 35985,35986 1chwA 389 3.29e+01 1bi5A c.95.1.2,c.95.1.2 35997,35998 1cmlA 389 3.30e+01 1bi5A c.95.1.2,c.95.1.2 35989,35990 3crjA 199 3.32e+01 2fliA 220 3.33e+01 c.1.2.2 133714 1dmrA 823 3.37e+01 b.52.2.2,c.81.1.1 26904,35312 1e61A 823 3.39e+01 1dmr b.52.2.2,c.81.1.1 26908,35316 4dmrA 823 3.40e+01 b.52.2.2,c.81.1.1 26905,35313 1i8bA 389 3.41e+01 c.95.1.2,c.95.1.2 66078,66079 2ob1A 319 3.44e+01 2ob2A 327 3.47e+01 c.66.1.37 139001 1jzdA 220 3.49e+01 c.47.1.9,d.17.3.1 84257,84258 1i88A 389 3.49e+01 c.95.1.2,c.95.1.2 66070,66071 2cw1A 65 3.49e+01 k.46.1.1 130918 1e18A 823 3.50e+01 1dmr b.52.2.2,c.81.1.1 26907,35315 2o35A 105 3.51e+01 1bw0A 416 3.53e+01 1bw0A c.67.1.1 34385 1rjdA 334 3.55e+01 c.66.1.37 97558 1jzoA 216 3.58e+01 c.47.1.9,d.17.3.1 84267,84268 2cbfA 234 3.59e+01 c.90.1.1 35588 3c8yA 574 3.64e+01 1i89A 389 3.65e+01 c.95.1.2,c.95.1.2 66074,66075 1eejA 216 3.77e+01 1eejA c.47.1.9,d.17.3.1 33057,38071 1e3jA 352 4.01e+01 1e3jA b.35.1.2,c.2.1.1 24765,29781 1id1A 153 4.11e+01 1id1A c.2.1.9 62286 1cbfA 285 4.14e+01 c.90.1.1 35587 1u02A 239 4.14e+01 c.108.1.15 107538 2fgeA 995 4.15e+01 d.185.1.1,d.185.1.1,d.185.1.1,d.185.1.1 133430,133431,133432,133433 1y8aA 332 4.22e+01 1ac5A 483 4.25e+01 c.69.1.5 34653 2j87A 177 4.32e+01 3cu5A 141 4.40e+01 1wyuA 438 4.42e+01 c.67.1.7 121452 2hu9A 130 4.57e+01 2jg4A 990 4.68e+01 2g47A 990 4.71e+01 1zuaX 317 4.76e+01 2oodA 475 4.77e+01 1adwA 123 4.79e+01 1bqk b.6.1.1 22893 1jwxA 389 4.88e+01 c.95.1.2,c.95.1.2 71920,71921 1xnfA 275 4.90e+01 a.118.8.1 115580 1gsoA 431 5.06e+01 1gsoA b.84.2.1,c.30.1.1,d.142.1.2 28240,31647,41492 1rreA 200 5.14e+01 d.14.1.10 97791 1dgwY 93 5.16e+01 1caxB 1izmA 184 5.17e+01 a.199.1.1 90725 2ig6A 150 5.21e+01 2e0cA 409 5.21e+01 1yemA 179 5.25e+01 d.63.1.2 116646 2yrnA 129 5.25e+01 2pwpA 282 5.26e+01 2i7cA 283 5.27e+01 2j4jA 226 5.39e+01 1z0sA 278 5.43e+01 e.52.1.1 124328 1ktbA 405 5.44e+01 b.71.1.1,c.1.8.1 72960,72961 1wy9A 147 5.45e+01 2b8nA 429 5.47e+01 c.118.1.1 128093 2pt6A 321 5.49e+01 1im5A 180 5.59e+01 c.33.1.3 66211 3cgbA 480 5.67e+01 2odrB 648 5.69e+01 2ipjA 321 5.69e+01 2hdjA 323 5.72e+01 c.1.7.1 136343 1j96A 323 5.73e+01 c.1.7.1 71616 2va8A 715 5.73e+01 1xjbA 325 5.75e+01 c.1.7.1 122032 2r2aA 199 5.77e+01 2i76A 276 5.80e+01 1lhpA 312 5.89e+01 c.72.1.5 77960 1z0bA 207 5.90e+01 2yv4A 105 5.96e+01 2odrA 665 5.98e+01 1mrqA 323 5.98e+01 c.1.7.1 91445 1vbjA 281 5.99e+01 1z0cA 207 6.01e+01 2gciA 360 6.03e+01 c.123.1.1 134983 2g29A 417 6.12e+01 2avnA 260 6.13e+01 c.66.1.41 127380 2ev0A 142 6.14e+01 a.4.5.24,a.76.1.1 132413,132414 1z0eA 205 6.17e+01 1l9aA 87 6.23e+01 d.201.1.1 73710 1z0wA 207 6.25e+01 2g3mA 693 6.37e+01 2yvwA 425 6.38e+01 2odrD 685 6.39e+01 1on2A 142 6.42e+01 a.4.5.24,a.76.1.1 87103,87104 2dj5A 133 6.42e+01 c.92.1.3 131536 2h7oA 303 6.54e+01 1lngA 87 6.70e+01 d.201.1.1 74045 2e6kA 651 6.71e+01 1xbtA 193 6.73e+01 c.37.1.24,g.39.1.14 115080,115081 2ja1A 197 6.76e+01 1miwA 404 6.78e+01 a.173.1.1,d.218.1.4 79162,79163 2odrC 701 6.87e+01 2re7A 134 6.89e+01 1xzuA 141 6.96e+01 a.1.1.2 116262 1tjnA 156 7.00e+01 c.92.1.3 107048 2fn9A 290 7.09e+01 1w4rA 195 7.30e+01 2rgxA 206 7.33e+01 1lwiA 322 7.34e+01 1frb c.1.7.1 28696 1afsA 323 7.37e+01 1frb c.1.7.1 28694 2fiqA 420 7.38e+01 c.1.10.7 133527 1vzwA 244 7.43e+01 c.1.2.1 120553 2yxdA 183 7.54e+01 2fn8A 303 7.55e+01 1ehaA 558 7.58e+01 1ehaA b.1.18.2,b.71.1.1,c.1.8.1 21859,27786,28773 1dv2A 452 7.58e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28238,31645,41490 1dv1A 449 7.63e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 1yvuA 706 7.64e+01 b.34.14.1,c.55.3.10 124120,124121 2ggoA 401 7.74e+01 3cg0A 140 7.76e+01 2gpwA 469 7.77e+01 b.84.2.1,c.30.1.1,d.142.1.2 135497,135498,135499 2gpsA 469 7.84e+01 b.84.2.1,c.30.1.1,d.142.1.2 135487,135488,135489 1u0vA 393 7.86e+01 c.95.1.2,c.95.1.2 112934,112935 1eh9A 558 7.91e+01 1ehaA b.1.18.2,b.71.1.1,c.1.8.1 21858,27785,28772 1xhkA 187 7.94e+01 d.14.1.10 115299