# List of top-scoring protein chains for t06-100-30-n_notor2-scores 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 1kutA 230 1.97e-01 d.143.1.1 73017 1y7wA 291 2.74e-01 2giyA 191 4.38e-01 1qtqA 553 6.18e-01 1gtrA b.53.1.2,c.26.1.1 26940,31579 1zy9A 564 6.40e-01 1pg4A 652 6.71e-01 e.23.1.1 88067 1vkhA 273 6.93e-01 c.69.1.32 108662 1rypL 212 9.11e-01 d.153.1.4 41880 2b8nA 429 1.02e+00 1p4kA 295 1.47e+00 d.153.1.5 87772 1o0yA 260 1.54e+00 c.1.10.1 80756 1d7uA 433 1.65e+00 2dkb c.67.1.4 34439 1nbwA 607 1.80e+00 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 2a2kA 175 1.83e+00 1rqwA 207 1.94e+00 b.25.1.1 97781 1dqpA 230 2.05e+00 1dqnA c.61.1.1 34069 1yhtA 367 2.12e+00 1dnlA 199 2.15e+00 1ci0A b.45.1.1 25753 1gc0A 398 2.17e+00 c.67.1.3 70168 1w5qA 337 2.29e+00 1qwzA 235 2.38e+00 b.100.1.1 96510 2bjfA 329 2.60e+00 1qhoA 686 2.62e+00 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21844,22513,27751,28738 1p32A 209 2.62e+00 1p32A d.25.1.1 38379 1q8rA 120 2.77e+00 d.79.6.1 96225 1p1mA 406 2.81e+00 b.92.1.4,c.1.9.9 87696,87697 1odzA 386 2.88e+00 c.1.8.3 86889 2cvzA 289 3.05e+00 1ogiA 303 3.35e+00 b.43.4.2,c.25.1.1 92914,92915 1flcA 432 3.35e+00 1flcA b.19.1.3,c.23.10.2 23837,31337 1lldA 319 3.50e+00 3ldh c.2.1.5,d.162.1.1 30177,42144 1oc2A 348 3.56e+00 c.2.1.2 92765 1on3A 523 3.59e+00 c.14.1.4,c.14.1.4 87107,87108 1kfwA 435 3.63e+00 c.1.8.5,d.26.3.1 77376,77377 2bvfA 459 4.06e+00 2gnqA 336 4.13e+00 1yf3A 259 4.24e+00 1qysA 106 4.29e+00 k.41.1.1 96603 1y791 680 4.36e+00 2as0A 396 4.43e+00 1div 149 4.45e+00 1div d.99.1.1,d.100.1.1 40692,40693 2gx9A 129 4.49e+00 1tt0A 623 4.53e+00 2bjbA 462 4.80e+00 1o66A 275 4.81e+00 c.1.12.8 92547 2agkA 260 4.85e+00 1zc6A 305 5.12e+00 1tuoA 464 5.38e+00 1xhcA 367 5.50e+00 1n62C 288 5.52e+00 d.87.2.1,d.145.1.3 80094,80095 1hyoA 421 5.62e+00 1qcnA b.34.8.1,d.177.1.1 59001,59002 3pcgA 200 5.69e+00 3pchA b.3.6.1 22647 1wz9A 375 5.70e+00 1qhtA 775 5.74e+00 1tgoA c.55.3.5,e.8.1.1 33722,43011 2ganA 190 5.79e+00 2b6nA 278 6.02e+00 1ppjA 446 6.09e+00 d.185.1.1,d.185.1.1 104252,104253 2gfoA 396 6.25e+00 1h6dA 433 6.25e+00 c.2.1.3,d.81.1.5 65656,65657 1nynA 131 6.30e+00 d.235.1.1 86410 1f1uA 323 6.32e+00 d.32.1.3,d.32.1.3 83200,83201 1qv9A 283 6.39e+00 c.127.1.1 96356 1zczA 464 6.61e+00 1x9dA 538 6.64e+00 1m3sA 186 6.65e+00 c.80.1.3 78573 1vkmA 297 6.89e+00 c.138.1.1 108670 1x8qA 184 6.95e+00 1ftrA 296 7.35e+00 1ftrA d.58.33.1,d.58.33.1 39485,39486 1u8vA 490 7.50e+00 1k3xA 262 7.67e+00 a.156.1.2,b.113.1.1,g.39.1.8 77242,77243,77244 1ijbA 202 7.71e+00 c.62.1.1 71229 2g30A 258 7.73e+00 1rz2A 254 7.73e+00 b.100.1.1 105130 1gox 370 7.88e+00 1gox c.1.4.1 28607 1ys4A 354 8.17e+00 1w9pA 433 8.37e+00 1ttuA 477 8.38e+00 b.1.18.1,b.2.5.8,b.42.7.1 107305,107306,107307 1zvkA 358 8.45e+00 1kqfB 294 8.59e+00 d.58.1.5,f.23.22.1 75900,75901 1f6yA 262 8.64e+00 1f6yA c.1.21.2 29673 1ukfA 188 8.75e+00 d.3.1.10 99488 1hbnB 442 9.08e+00 1mroB a.89.1.1,d.58.31.2 60900,60901 1a0cA 438 9.14e+00 1a0cA c.1.15.3 29529 1bw0A 416 9.15e+00 1bw0A c.67.1.1 34385 3cox 507 9.23e+00 1b8sA c.3.1.2,d.16.1.1 30332,37863 1cqxA 403 9.25e+00 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 1ujnA 348 9.70e+00 e.22.1.1 99460 1wdcC 156 1.01e+01 1wdcC a.39.1.5 17317 1vhxA 150 1.01e+01 c.55.3.8 100712 1zfjA 491 1.04e+01 1ak5 c.1.5.1,d.37.1.1,d.37.1.1 28638,38540,38541 1ktbA 405 1.07e+01 b.71.1.1,c.1.8.1 72960,72961 2af6A 258 1.08e+01 1wrvA 308 1.09e+01 1wr8A 231 1.09e+01 1r6uA 437 1.10e+01 c.26.1.1 97163 1f8rA 498 1.11e+01 1f8rA c.3.1.2,d.16.1.5 30410,37974 1qpaA 345 1.14e+01 1arv a.93.1.1 18585 1e4mM 501 1.15e+01 1e70M c.1.8.4 59226 1zklA 353 1.18e+01 2bhuA 602 1.22e+01 1u3dA 509 1.23e+01 a.99.1.1,c.28.1.1 107638,107639 1ub3A 220 1.25e+01 c.1.10.1 88395 1tzlA 622 1.26e+01 1xesA 413 1.28e+01 1k2xB 143 1.29e+01 1i0dA 332 1.33e+01 1pscA c.1.9.3 61487 2f4eA 180 1.35e+01 1hleA 345 1.40e+01 1ovaA e.1.1.1 42618 1j79A 347 1.42e+01 1j79A c.1.9.4 62675 1vheA 373 1.42e+01 b.49.3.1,c.56.5.4 100669,100670 1oshA 232 1.43e+01 a.123.1.1 93496 1uasA 362 1.44e+01 b.71.1.1,c.1.8.1 88388,88389 1vjpA 394 1.44e+01 c.2.1.3,d.81.1.3 100828,100829 2ab0A 205 1.45e+01 1xfkA 336 1.48e+01 1i6aA 219 1.48e+01 c.94.1.1 61827 1ixh 321 1.48e+01 1ixh c.94.1.1 35761 2c1xA 456 1.51e+01 1sra 151 1.53e+01 1sra a.39.1.3 17190 1xknA 355 1.54e+01 1n4kA 381 1.54e+01 a.118.22.1,b.42.6.1 79992,79993 1jetA 517 1.54e+01 1jevA c.94.1.1 35718 1qynA 153 1.56e+01 d.33.1.1 96597 1h1nA 305 1.58e+01 c.1.8.3 70855 1vlyA 338 1.58e+01 b.44.2.1,d.250.1.1 108871,108872 1sznA 417 1.58e+01 b.71.1.1,c.1.8.1 106162,106163 2bmwA 304 1.59e+01 1u07A 90 1.62e+01 1fl1A 230 1.63e+01 1at3A b.57.1.1 27023 1woqA 267 1.63e+01 c.55.1.10,c.55.1.10 109462,109463 1cvrA 435 1.64e+01 1cvrA b.1.18.12,c.17.1.2 21949,31006 1xdwA 331 1.64e+01 1j09A 468 1.64e+01 a.97.1.1,c.26.1.1 77025,77026 1ea7A 310 1.67e+01 c.41.1.1 70086 2gnoA 305 1.70e+01 2cqsA 842 1.70e+01 1xkpC 143 1.72e+01 1oyjA 231 1.72e+01 a.45.1.1,c.47.1.5 87597,87598 1wywA 230 1.79e+01 1vcoA 550 1.80e+01 c.23.16.1,c.37.1.10 108508,108509 1bd0A 388 1.83e+01 1bd0A b.49.2.2,c.1.6.1 26480,28642 1z5yE 149 1.85e+01 1th0A 226 1.87e+01 d.3.1.7 106903 2sli 679 1.89e+01 2sli b.29.1.9,b.68.1.1 24274,27611 1ex2A 189 1.89e+01 1ex2A c.51.4.2 33225 1wzoA 246 1.92e+01 1qw9A 502 1.93e+01 b.71.1.2,c.1.8.3 96466,96467 1gjjA 168 1.94e+01 a.140.1.1,a.140.1.1 83291,83292 1qf5A 431 1.98e+01 1adeA c.37.1.10 32212 1xksA 450 2.06e+01 1t13A 158 2.07e+01 1sjiA 350 2.08e+01 2asbA 251 2.09e+01 1hzdA 272 2.10e+01 c.14.1.3 65969 1je0A 236 2.11e+01 c.56.2.1 66581 1onwA 390 2.11e+01 b.92.1.7,c.1.9.13 87172,87173 1evlA 401 2.18e+01 1qf6A c.51.1.1,d.104.1.1 33202,40751 1rwhA 757 2.19e+01 a.102.3.2,b.24.1.1,b.30.5.2 97984,97985,97986 1mkaA 171 2.21e+01 1mkaA d.38.1.2 38543 1tzfA 259 2.26e+01 c.68.1.13 107476 1wdyA 285 2.27e+01 1whsA 255 2.28e+01 1ivyA c.69.1.5 34649 2dkaA 544 2.28e+01 1azo 232 2.29e+01 1azo c.52.1.14 33329 1d3vA 323 2.30e+01 1d3vA c.42.1.1 32559 1ia9A 280 2.31e+01 1ia9A d.144.1.5 62113 1jr7A 311 2.42e+01 b.82.2.3 63255 1m2kA 249 2.43e+01 c.31.1.5 84754 2acvA 463 2.44e+01 1nthA 458 2.47e+01 c.1.25.1 80730 1sat 471 2.48e+01 1sat b.80.7.1,d.92.1.6 28014,40300 1xd8A 289 2.49e+01 1jhdA 396 2.53e+01 b.122.1.3,c.26.1.5 66712,66713 2gk4A 232 2.58e+01 1eceA 358 2.59e+01 1eceA c.1.8.3 28813 1wf3A 301 2.62e+01 1l6rA 227 2.68e+01 c.108.1.10 77768 1w07A 659 2.69e+01 1v10A 521 2.74e+01 b.6.1.3,b.6.1.3,b.6.1.3 108224,108225,108226 1a5t 334 2.80e+01 1a5t a.80.1.1,c.37.1.20 18450,32423 1i1jA 108 2.84e+01 1i1jA b.34.2.1 61531 1zvtA 256 2.86e+01 1qhfA 240 2.91e+01 1qhfA c.60.1.1 33960 1xv5A 401 2.94e+01 1fxlA 167 2.94e+01 1b7fA d.58.7.1,d.58.7.1 39183,39184 1pzxA 289 2.95e+01 c.119.1.1 95484 1l8nA 679 2.98e+01 c.1.8.10,d.92.2.2 84564,84565 1oi7A 288 3.03e+01 c.2.1.8,c.23.4.1 87049,87050 1mdbA 539 3.07e+01 e.23.1.1 79008 1p0kA 349 3.08e+01 c.1.4.1 87648 1a8d 452 3.12e+01 1a8d b.29.1.6,b.42.4.2 24262,25607 2b7kA 200 3.15e+01 1k77A 260 3.22e+01 c.1.15.5 72096 1mo9A 523 3.25e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 2a5hA 416 3.29e+01 1xqwA 293 3.32e+01 1eu8A 409 3.33e+01 1eu8A c.94.1.1 59502 1tr9A 341 3.35e+01 1nd4A 264 3.48e+01 d.144.1.6 91815 1wcgA 464 3.51e+01 1acc 735 3.59e+01 1acc f.11.1.1 43828 1h4vB 421 3.60e+01 1adjA c.51.1.1,d.104.1.1 60624,60625 1ht6A 405 3.64e+01 b.71.1.1,c.1.8.1 83629,83630 1tkiA 321 3.65e+01 1tkiA d.144.1.7 41638 1s3zA 165 3.66e+01 d.108.1.1 105250 1ylnA 252 3.72e+01 1pixA 587 3.77e+01 c.14.1.4 94708 1hg8A 349 3.78e+01 b.80.1.3 65830 3eipA 84 3.89e+01 3eipA d.26.2.1 38434 1mzhA 225 3.92e+01 c.1.10.1 79698 1ur4A 399 3.92e+01 1y7lA 316 3.93e+01 1fukA 165 3.94e+01 1fukA c.37.1.19 32409 1jd0A 263 3.95e+01 2cba b.74.1.1 62888 1ospO 257 4.04e+01 1ospO b.76.1.1 27971 2a67A 167 4.06e+01 2f9sA 151 4.10e+01 1fepA 724 4.20e+01 1fepA f.4.3.3 43808 1yvoA 172 4.32e+01 1eexB 224 4.32e+01 1dioB c.51.3.1 33213 1e5pA 151 4.35e+01 1bj7 b.60.1.1 59272 1f2tA 149 4.37e+01 1f2tA c.37.1.12 32373 2gjgA 248 4.37e+01 2g39A 497 4.45e+01 1ym5A 300 4.45e+01 1dkiA 371 4.47e+01 1dkiA d.3.1.1 37090 1ejxC 567 4.49e+01 b.92.1.1,c.1.9.2 83184,83185 1k6dA 220 4.55e+01 c.124.1.2 72082 1imjA 210 4.59e+01 c.69.1.23 71246 1qwgA 251 4.63e+01 c.1.27.1 96473 1x13A 401 4.63e+01 1r1hA 696 4.65e+01 d.92.1.4 104756 1kwmA 402 4.66e+01 c.56.5.1,d.58.3.1 73079,73080 1eexA 554 4.67e+01 1dioA c.1.19.3 29650 1xauA 122 4.79e+01 2cwxA 430 4.89e+01 1ivg 388 4.91e+01 2qwc b.68.1.1 27578 1o1zA 234 4.95e+01 c.1.18.3 86555 1t0bA 252 5.00e+01 c.23.16.6 106199 2d0iA 333 5.00e+01 1ojrA 274 5.01e+01 c.74.1.1 93147 2f1cX 286 5.06e+01 2fimA 276 5.13e+01 1zdrA 164 5.16e+01 1i19A 561 5.17e+01 1i19A d.58.32.3,d.145.1.1 61522,61523 1otjA 283 5.20e+01 b.82.2.5 93517 1p42A 270 5.22e+01 d.14.1.7,d.14.1.7 87754,87755 1fit 147 5.30e+01 1fit d.13.1.1 37499 1k32A 1045 5.30e+01 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 68068,68069,68070,68071 1txkA 498 5.31e+01 b.1.18.2,b.30.5.9 107425,107426 1olzA 663 5.36e+01 b.1.1.4,b.69.12.1,g.16.2.1 93341,93342,93343 1qeyA 31 5.44e+01 1qeyA h.2.1.1 45666 3pcgM 238 5.45e+01 3pchM b.3.6.1 22742 1cq3A 233 5.47e+01 1cq3A b.27.1.1 23923 1mkmA 249 5.47e+01 a.4.5.33,d.110.2.2 79242,79243 1wlgA 299 5.56e+01 1zkpA 268 5.60e+01 2ajrA 331 5.63e+01 1k07A 263 5.64e+01 d.157.1.1 77218 1lehA 364 5.68e+01 1bw9A c.2.1.7,c.58.1.1 30268,33916 1ry9A 145 5.72e+01 d.198.1.1 98094 1dzkA 157 5.74e+01 1obpA b.60.1.1 27096 9wgaA 171 5.75e+01 9wgaA g.3.1.1,g.3.1.1,g.3.1.1,g.3.1.1 44000,44001,44002,44003 1tvgA 153 5.93e+01 1mml 265 5.94e+01 1mml e.8.1.2 43015 1avbA 226 5.94e+01 1led b.29.1.1 24158 1auoA 218 5.94e+01 1auoA c.69.1.14 34716 1z5bA 469 5.99e+01 1kktA 511 6.02e+01 a.102.2.1 68687 1zh5A 195 6.05e+01 1chd 203 6.05e+01 1chd c.40.1.1 32478 1ja1A 622 6.05e+01 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 2eu9A 355 6.10e+01 2akaB 299 6.11e+01 1qwrA 319 6.12e+01 b.82.1.3 96491 1ayx 492 6.13e+01 1ayx a.102.1.1 18825 1uh5A 329 6.22e+01 c.2.1.2 107840 1g8aA 227 6.24e+01 c.66.1.3 90506 1yphC 131 6.28e+01 1htwA 158 6.30e+01 c.37.1.18 71083 1tc5A 194 6.31e+01 c.110.1.1 106752 1c93A 265 6.35e+01 2ebn c.1.8.5 28998 1u3wA 374 6.37e+01 1o8bA 219 6.38e+01 c.124.1.4,d.58.40.1 81180,81181 1puiA 210 6.39e+01 c.37.1.8 88292 1kxoA 184 6.41e+01 b.60.1.1 84475 1pm1X 180 6.42e+01 b.60.1.1 104189 1fobA 334 6.44e+01 c.1.8.3 83255 2f2hA 773 6.47e+01 1hj8A 222 6.48e+01 b.47.1.2 65844 2cohA 202 6.49e+01 1mwmA 320 6.52e+01 c.55.1.1,c.55.1.1 79580,79581 1dqiA 124 6.54e+01 1do6A b.1.13.1 22357 2al2A 436 6.54e+01 1u69A 163 6.60e+01 d.32.1.7 107699 1x31D 99 6.61e+01 1sauA 115 6.62e+01 1ceo 343 6.64e+01 1ceo c.1.8.3 28808 1txnA 328 6.66e+01 1jx4A 352 6.69e+01 d.240.1.1,e.8.1.7 90378,90379 1ofdA 1520 6.74e+01 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 2ck3A 510 6.77e+01 1kngA 156 6.83e+01 c.47.1.10 72777 1bd3A 243 6.83e+01 1bd3A c.61.1.1 34098 1q77A 138 6.86e+01 c.26.2.4 96023 1w18A 493 6.86e+01 1ud9A 245 6.89e+01 d.131.1.2,d.131.1.2 107768,107769 1hjsA 332 6.93e+01 c.1.8.3 83492 1d3cA 686 6.95e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21827,22496,27734,28721 1d7pM 159 6.95e+01 1cztA b.18.1.2 23718 2furA 209 6.98e+01 1sc3A 178 6.99e+01 c.17.1.1 105416 1t1jA 125 7.00e+01 c.137.1.1 106249 1nqkA 381 7.07e+01 c.1.16.4 92050 1v25A 541 7.12e+01 e.23.1.1 108275 1yqyA 523 7.24e+01 1j7xA 302 7.25e+01 c.14.1.2 66425 1jbwA 428 7.27e+01 c.59.1.2,c.72.2.2 62860,62861 1wvfA 520 7.35e+01 2h1tA 188 7.36e+01 1z3qA 200 7.40e+01 1v98A 140 7.43e+01 1v93A 296 7.43e+01 c.1.23.1 100532 1xfiA 367 7.50e+01 e.50.1.1 109584 2gf6A 135 7.60e+01 1a9xA 1058 7.67e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18550,31479,31657,31658,41502,41503 1wxrA 1048 7.72e+01 1icpA 376 7.74e+01 1oyc c.1.4.1 62270 1n57A 291 7.75e+01 c.23.16.2 85328 1bh9A 45 7.79e+01 1bh9A a.22.1.3 16483 1auiB 169 7.80e+01 1auiB a.39.1.5 17325 1m5wA 243 7.83e+01 c.1.24.1 84836 1pgl2 370 7.86e+01 1oe1A 336 7.87e+01 b.6.1.3,b.6.1.3 86891,86892 1lba 146 7.88e+01 1lba d.118.1.1 41062 2fi0A 81 7.88e+01 1xvwA 160 7.94e+01 1uujA 88 8.04e+01 a.221.1.1 108046 2btvA 901 8.05e+01 2btvA e.28.1.1 43376 1s4bP 674 8.08e+01 d.92.1.5 105252 1n4qB 377 8.19e+01 a.102.4.3 91636 1e8cA 498 8.26e+01 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