# List of top-scoring protein chains for t04-100-30-o_sep-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 1l2tA 235 1.47e-01 c.37.1.12 73514 1jf8A 131 2.07e-01 c.44.1.1 66621 2ct8A 497 2.56e-01 2b99A 156 2.70e-01 1z47A 355 2.99e-01 1mb3A 124 4.02e-01 c.23.1.1 78907 1q7zA 566 4.97e-01 c.1.21.2,c.1.26.1 96090,96091 2awaA 390 5.15e-01 1jmvA 141 5.98e-01 c.26.2.4 66897 1ush 550 7.65e-01 1ush d.114.1.1,d.159.1.2 40923,42079 1hp1A 516 8.73e-01 d.114.1.1,d.159.1.2 70976,70977 1woqA 267 9.39e-01 c.55.1.10,c.55.1.10 109462,109463 2reb 352 9.83e-01 2reb c.37.1.11,d.48.1.1 32282,38767 1m6iA 493 9.93e-01 c.3.1.5,c.3.1.5,d.87.1.1 74533,74534,74535 1h61A 364 9.94e-01 1oyc c.1.4.1 60657 1fobA 334 1.05e+00 c.1.8.3 83255 1gvoA 364 1.09e+00 c.1.4.1 76357 1ek0A 170 1.17e+00 1ctqA c.37.1.8 32076 1c9kA 180 1.17e+00 1c9kB c.37.1.11 32363 1vp8A 201 1.17e+00 1a04A 215 1.24e+00 1a04A a.4.6.2,c.23.1.1 16234,31089 1lt8A 406 1.28e+00 c.1.26.1 78186 1tmy 120 1.28e+00 1dbwA c.23.1.1 31083 1h6zA 913 1.29e+00 c.1.12.2,c.8.1.1,d.142.1.5 70906,70907,70908 1vyrA 364 1.33e+00 c.1.4.1 108906 1k77A 260 1.37e+00 c.1.15.5 72096 1cnzA 363 1.38e+00 1cnzA c.77.1.1 35061 1vypX 364 1.40e+00 c.1.4.1 108905 1yuwA 554 1.55e+00 1bupA 386 1.57e+00 1ba1 c.55.1.1,c.55.1.1 33377,33378 1kay 381 1.61e+00 1ba1 c.55.1.1,c.55.1.1 33385,33386 2c31A 568 1.61e+00 1f9zA 135 1.66e+00 1qipA d.32.1.1 38484 1b0uA 262 1.67e+00 1b0uA c.37.1.12 32370 1v04A 355 1.71e+00 b.68.6.2 100240 2abbA 364 1.72e+00 1i39A 225 1.74e+00 1ekeA c.55.3.1 61585 1pea 385 1.77e+00 1pea c.93.1.1 35662 1mzjA 339 1.78e+00 c.95.1.2,c.95.1.2 79700,79701 1u94A 356 1.81e+00 c.37.1.11,d.48.1.1 107743,107744 2gqrA 237 1.85e+00 1h3fA 432 1.89e+00 c.26.1.1,d.66.1.4 76631,76632 1pm3A 78 2.05e+00 b.41.1.2 94889 1h8gA 95 2.06e+00 b.109.1.1 65735 1u0sY 118 2.13e+00 c.23.1.1 107566 2cqnA 77 2.36e+00 1xx4A 261 2.37e+00 1ekeA 230 2.38e+00 1ekeA c.55.3.1 33572 1mvoA 136 2.38e+00 c.23.1.1 79513 1e19A 314 2.41e+00 1b7bA c.73.1.1 34967 1qhdA 398 2.41e+00 1qhdA a.115.1.2,b.19.1.1 63324,63325 1fa8A 135 2.42e+00 1qipA d.32.1.1 38486 1io2A 213 2.46e+00 1ekeA c.55.3.1 62612 1pvdA 537 2.49e+00 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31737,31777,31778 7odcA 424 2.61e+00 7odcA b.49.2.3,c.1.6.1 26488,28650 1obdA 306 2.68e+00 d.143.1.1 86767 1wlsA 328 2.72e+00 2ftxB 64 2.79e+00 1yvkA 163 2.88e+00 1vr3A 191 2.92e+00 1gegA 256 2.93e+00 1ybvA c.2.1.2 29888 1u1wA 298 2.99e+00 1sg4A 260 3.13e+00 1rvgA 305 3.14e+00 c.1.10.2 97920 1p5jA 372 3.22e+00 c.79.1.1 104067 1k66A 149 3.40e+00 c.23.1.1 90941 1w78A 422 3.49e+00 1lfkA 398 3.51e+00 a.104.1.1 77926 2f5tX 233 3.62e+00 1pfkA 320 3.62e+00 3pfk c.89.1.1 35575 1ig3A 263 3.64e+00 1ig3A b.82.6.1,c.100.1.1 62358,62359 1u4gA 301 3.65e+00 d.92.1.2 107670 1tqzA 133 3.66e+00 1ko7A 314 3.66e+00 c.98.2.1,c.91.1.2 72797,72798 1a48 306 3.67e+00 1a48 d.143.1.1 41590 1qv9A 283 3.67e+00 c.127.1.1 96356 1srrA 124 3.89e+00 1dz3A c.23.1.1 31110 1qipA 183 3.90e+00 1qipA d.32.1.1 38470 1z2lA 423 3.99e+00 1xubA 298 4.02e+00 1qvbA 481 4.03e+00 1qvbA c.1.8.4 28983 2axyA 73 4.09e+00 1b25A 619 4.15e+00 1b25A a.110.1.1,d.152.1.1 19044,41796 1f1zA 273 4.23e+00 1f1zA a.4.5.27,c.52.1.16 16081,33334 1t6kA 278 4.24e+00 1y10A 407 4.25e+00 1f28A 297 4.27e+00 1bkpA d.117.1.1 59608 2cdcA 366 4.34e+00 2cnqA 306 4.40e+00 2h4vA 320 4.65e+00 1wleA 501 4.73e+00 1qoiA 177 4.80e+00 2cpl b.62.1.1 27490 1y9kA 157 4.88e+00 1gheA 177 4.95e+00 d.108.1.1 76222 1e9lA 377 4.96e+00 1e9lA c.1.8.5,d.26.3.1 59395,59396 2b61A 377 5.02e+00 1ezm 301 5.10e+00 1hyt d.92.1.2 58980 1qc7A 101 5.12e+00 1qc7A a.118.14.1 18456 3ladA 476 5.21e+00 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30573,30574,40208 1mzhA 225 5.25e+00 c.1.10.1 79698 1r2qA 170 5.32e+00 c.37.1.8 96874 1yavA 159 5.46e+00 2b7oA 464 5.55e+00 1yd7A 395 5.60e+00 1qwgA 251 5.73e+00 c.1.27.1 96473 2czdA 208 5.82e+00 1ifc 132 5.86e+00 b.60.1.2 27173 1bg4 302 5.89e+00 1taxA c.1.8.3 28806 1huqA 164 6.20e+00 1byuA c.37.1.8 32020 1xttA 216 6.26e+00 1g6hA 257 6.28e+00 1gajA c.37.1.12 60318 1g71A 347 6.35e+00 1g71A d.264.1.1 43268 1ltzA 297 6.47e+00 d.178.1.1 74254 1efvB 255 6.70e+00 1efvB c.26.2.3 31634 1u6dX 308 6.71e+00 1vf8A 377 6.85e+00 1e55A 512 6.93e+00 1e70M c.1.8.4 28934 1h49A 512 7.13e+00 c.1.8.4 83477 1dbiA 280 7.13e+00 1gci c.41.1.1 32543 1c4rA 182 7.14e+00 1c4rA b.29.1.4 24229 1kutA 230 7.15e+00 d.143.1.1 73017 1zr6A 503 7.15e+00 2gzxA 265 7.16e+00 1oxxK 353 7.28e+00 b.40.6.3,c.37.1.12 93715,93716 1b6g 310 7.31e+00 1b6g c.69.1.8 34661 1ede 310 7.32e+00 1b6g c.69.1.8 34662 1ac5 483 7.36e+00 1ac5 c.69.1.5 34653 1qxyA 252 7.57e+00 d.127.1.1 96565 1ih8A 271 7.59e+00 2nsyA c.26.2.1 62377 2g76A 335 7.67e+00 1acf 125 7.76e+00 3nul d.110.1.1 40882 2btzA 394 7.77e+00 1xhcA 367 7.78e+00 2cvjA 180 7.78e+00 2fp8A 322 7.92e+00 2ffjA 300 7.94e+00 1wnfA 328 8.06e+00 1jtdB 273 8.16e+00 b.69.5.2 67265 1h5qA 265 8.17e+00 1cydA c.2.1.2 60643 1vl8A 267 8.17e+00 c.2.1.2 108733 1zhhB 242 8.20e+00 2a1dD 329 8.36e+00 1nu7D 282 8.41e+00 a.8.6.1,a.8.6.1 92191,92192 2azpA 318 8.44e+00 1qo2A 241 8.44e+00 1qo2A c.1.2.1 28533 2avtA 378 8.44e+00 1g8lA 411 8.47e+00 1g8lA b.85.6.1,b.103.1.1,c.57.1.2 60365,60366,60367 1pwhA 327 8.65e+00 c.79.1.1 95224 1v33A 366 8.67e+00 d.264.1.1 100278 2ethA 154 8.74e+00 1eiwA 111 8.80e+00 1eiwA c.23.3.1 31130 1kqpA 271 8.82e+00 c.26.2.1 72883 1umdA 367 8.83e+00 c.36.1.11 99599 1cr1A 296 8.85e+00 1cr1A c.37.1.11 32286 1kblA 873 8.89e+00 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1nxmA 197 8.94e+00 b.82.1.1 86385 1twfH 146 9.13e+00 1eur 365 9.25e+00 1eut b.68.1.1 27607 1qmyA 167 9.32e+00 1qmyA d.3.1.2 37094 1i50H 146 9.32e+00 b.40.4.8 61761 1vrmA 325 9.35e+00 2frnA 278 9.37e+00 1ak5 503 9.40e+00 1ak5 c.1.5.1 28639 1gmlA 178 9.44e+00 c.8.5.2 70273 2pfkA 320 9.48e+00 3pfk c.89.1.1 35577 1zn6A 227 9.56e+00 1rypD 241 9.66e+00 1rypD d.153.1.4 41935 1wab 232 9.72e+00 1wab c.23.10.3 31341 1lv7A 257 9.76e+00 c.37.1.20 78232 1ej2A 181 9.94e+00 1f9aA c.26.1.3 59414 1jjiA 311 9.96e+00 c.69.1.2 66766 1qrrA 394 1.00e+01 1qrrA c.2.1.2 29824 1shsA 147 1.01e+01 1shsA b.15.1.1 23675 1zy9A 564 1.01e+01 1es9A 232 1.02e+01 1wab c.23.10.3 31340 1e2tA 284 1.02e+01 1e2tA d.3.1.5 37121 1hc7A 477 1.03e+01 1hc7A c.51.1.1,d.104.1.1,d.68.5.1 60938,60939,60940 1r0rE 274 1.03e+01 c.41.1.1 96735 1gadO 330 1.03e+01 1dssG c.2.1.3,d.81.1.1 29950,39865 1o69A 394 1.03e+01 c.67.1.4 92560 1npeA 267 1.04e+01 b.68.5.1 92032 1vk9A 151 1.05e+01 c.139.1.1 108640 1han 297 1.06e+01 1han d.32.1.3,d.32.1.3 38506,38507 2f4nA 273 1.07e+01 1t8tA 271 1.08e+01 c.37.1.5 106685 1sqjA 789 1.10e+01 b.69.13.1,b.69.13.1 105918,105919 2gclA 261 1.10e+01 1phk 298 1.11e+01 1cdkA d.144.1.7 41635 1hkkA 364 1.13e+01 c.1.8.5,d.26.3.1 90634,90635 1q6oA 216 1.15e+01 c.1.2.3 95986 2ge3A 170 1.16e+01 1ka2A 499 1.16e+01 d.92.1.5 77305 2c2aA 258 1.17e+01 1vkdA 338 1.17e+01 b.67.2.4 108644 1wzzA 334 1.17e+01 2fuvA 549 1.17e+01 1w8iA 156 1.17e+01 1xfsA 178 1.18e+01 d.129.3.5 109589 1nzjA 298 1.18e+01 c.26.1.1 92377 2bt9A 90 1.18e+01 1yu6A 275 1.19e+01 1qpoA 284 1.19e+01 1qpoA c.1.17.1,d.41.2.1 29561,38597 3pmgA 561 1.20e+01 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 1lkdA 297 1.20e+01 d.32.1.3,d.32.1.3 78059,78060 1t0fA 276 1.23e+01 1z41A 338 1.24e+01 2czrA 226 1.25e+01 2bpqA 373 1.26e+01 1y8tA 324 1.27e+01 1jj2E 177 1.29e+01 1ffk1 d.141.1.1,d.141.1.1 63089,63090 1m8jA 181 1.30e+01 c.26.1.3 84875 1i24A 404 1.30e+01 c.2.1.2 83663 1ep3A 311 1.31e+01 2dorA c.1.4.1 28597 1zgkA 308 1.32e+01 1itwA 741 1.32e+01 c.77.1.2 76793 2al2A 436 1.32e+01 1vzwA 244 1.34e+01 1d7yA 408 1.34e+01 1d7yA c.3.1.5,c.3.1.5,d.87.1.1 30565,30566,40204 1me8A 503 1.34e+01 c.1.5.1 79028 1s8nA 205 1.35e+01 c.23.1.1 105374 1s72E 178 1.35e+01 d.141.1.1,d.141.1.1 105323,105324 1w8oA 601 1.36e+01 1g2qA 187 1.36e+01 c.61.1.1 65117 1v4vA 376 1.38e+01 c.87.1.3 100313 2ac2A 309 1.39e+01 1dq3A 454 1.40e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1ujpA 271 1.41e+01 c.1.2.4 99462 1ho1A 242 1.42e+01 1ho1A c.1.24.1 61097 1hh1A 143 1.42e+01 1gefA c.52.1.18 61036 1wvhA 134 1.43e+01 2d69A 430 1.44e+01 2pil 159 1.44e+01 2pil d.24.1.1 38376 1ne9A 335 1.46e+01 d.108.1.4,d.108.1.4 91839,91840 1f89A 291 1.46e+01 d.160.1.1 64988 1u5pA 216 1.47e+01 2cbiA 594 1.47e+01 1xd5A 112 1.49e+01 1cunA 213 1.50e+01 1cunA a.7.1.1,a.7.1.1 16313,16314 8acn 754 1.51e+01 1amj c.8.2.1,c.83.1.1 30724,35400 1iqyA 638 1.51e+01 b.30.2.1,d.17.2.1,d.17.2.1 76763,76764,76765 1tw4A 125 1.51e+01 2al1A 436 1.53e+01 1hskA 326 1.55e+01 2mbr d.145.1.2,d.146.1.1 61241,61242 1j31A 262 1.56e+01 d.160.1.2 90808 1vpkA 378 1.56e+01 1kv8A 216 1.56e+01 c.1.2.3 73054 1e7rA 321 1.57e+01 1bsvA c.2.1.2 29808 1wmhA 89 1.57e+01 1wcqA 601 1.59e+01 1uyrA 737 1.60e+01 c.14.1.4,c.14.1.4 100188,100189 1jmmA 377 1.60e+01 b.30.6.1 71749 2f9zC 159 1.61e+01 1yh6A 179 1.61e+01 1vqoE 178 1.63e+01 2fexA 188 1.64e+01 1vp2A 208 1.66e+01 1q45A 391 1.66e+01 c.1.4.1 95780 1lnsA 763 1.66e+01 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 1v8fA 276 1.66e+01 c.26.1.4 100503 1rjoA 646 1.68e+01 1juhA 350 1.69e+01 b.82.1.5 71884 1r1dA 247 1.70e+01 c.69.1.29 96813 1jmxB 349 1.71e+01 b.69.2.2 66906 4enl 436 1.72e+01 4enl c.1.11.1,d.54.1.1 29202,38846 2cwxA 430 1.73e+01 2a38A 194 1.73e+01 1yb3A 175 1.74e+01 1te0A 318 1.74e+01 1vc1A 110 1.77e+01 c.13.2.1 108493 1g291 372 1.78e+01 1g291 1in4A 334 1.80e+01 1hqcA a.4.5.11,c.37.1.20 62597,62598 2gupA 292 1.80e+01 1sjiA 350 1.80e+01 1ri6A 343 1.82e+01 b.69.11.1 97503 1oxsC 353 1.82e+01 b.40.6.3,c.37.1.12 87519,87520 1wwzA 159 1.82e+01 1e6uA 321 1.82e+01 1bsvA c.2.1.2 29805 1yvrA 538 1.82e+01 2a67A 167 1.83e+01 1o70A 324 1.84e+01 b.118.1.1,b.118.1.1 81115,81116 1q77A 138 1.84e+01 c.26.2.4 96023 1qy6A 274 1.84e+01 b.47.1.1 96574 1kw3B 292 1.85e+01 d.32.1.3,d.32.1.3 77549,77550 1wkyA 464 1.85e+01 1dozA 309 1.86e+01 1ak1 c.92.1.1 35592 1xjdA 345 1.86e+01 1xb4A 202 1.87e+01 1jx7A 117 1.87e+01 c.114.1.1 77195 1syyA 346 1.87e+01 a.25.1.2 106126 1ui8A 638 1.87e+01 b.30.2.1,d.17.2.1,d.17.2.1 99419,99420,99421 1fthA 122 1.88e+01 d.150.1.2 60028 1siiA 646 1.92e+01 b.30.2.1,d.17.2.1,d.17.2.1 105578,105579,105580 1uh5A 329 1.92e+01 c.2.1.2 107840 1yd9A 193 1.92e+01 1h0hB 214 1.94e+01 d.58.1.5 76437 1zgoA 223 1.96e+01 1w2xA 758 1.96e+01 c.14.1.4,c.14.1.4 109134,109135 1ufkA 254 1.97e+01 c.66.1.39 99340 1ggxA 223 1.97e+01 1ggxA d.22.1.1 38367 1tv8A 340 1.97e+01 c.1.28.3 107352 1ma3A 253 1.98e+01 c.31.1.5 78883 1ctn 540 1.98e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21876,29005,38439 1exqA 154 1.98e+01 1b9dA c.55.3.2 33646 2bs6A 90 1.98e+01 1u6tA 121 1.99e+01 1itg 166 1.99e+01 1b9dA c.55.3.2 33661 1k4zA 159 2.00e+01 b.80.5.1 72070 1bywA 110 2.02e+01 1bywA d.110.3.6 40912 1uqtA 482 2.04e+01 c.87.1.6 99794 1svdA 473 2.04e+01 1qmpA 130 2.05e+01 1dz3A c.23.1.1 31106 1ecsA 126 2.05e+01 1ecsA d.32.1.2 59407 1ejfA 125 2.07e+01 1ejfA b.15.1.2 23683 1zckA 154 2.07e+01 2bwnA 401 2.08e+01 2tpsA 227 2.08e+01 2tpsA c.1.3.1 28591 1ybdA 239 2.08e+01 1k1eA 180 2.08e+01 c.108.1.5 67995 1rhcA 330 2.08e+01 c.1.16.3 97468 1ru8A 232 2.08e+01 c.26.2.1 97849 1qtwA 285 2.09e+01 1qumA c.1.15.1 29392 2gpiA 91 2.09e+01 1o0yA 260 2.11e+01 c.1.10.1 80756 2dri 271 2.12e+01 2dri c.93.1.1 35637 1n2sA 299 2.12e+01 c.2.1.2 79857 1qfeA 252 2.14e+01 1qfeA c.1.10.1 29167 1nq6A 302 2.14e+01 c.1.8.3 92046 1iirA 415 2.15e+01 1iirA c.87.1.5 62453 1z4eA 153 2.17e+01 1m4jA 142 2.20e+01 d.109.1.2 78602 1m3uA 264 2.20e+01 c.1.12.8 84784 1z3eA 132 2.21e+01 1k68A 140 2.21e+01 c.23.1.1 90943 1ursA 402 2.23e+01 c.94.1.1 99833 1s0aA 429 2.24e+01 c.67.1.4 98263 2ac4A 309 2.25e+01 1on0A 158 2.26e+01 d.108.1.1 87095 1h7wA 1025 2.26e+01 1h7wA a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15683,28628,30324,30609,39007 1wt4A 73 2.27e+01 1aky 221 2.29e+01 1zin c.37.1.1,g.41.2.1 31896,45197 1a0cA 438 2.29e+01 1a0cA c.1.15.3 29529 1nf2A 268 2.31e+01 c.108.1.10 91849 1v6tA 255 2.32e+01 1cseE 274 2.32e+01 1gci c.41.1.1 32481 2exnA 136 2.32e+01 1ve4A 206 2.32e+01 1vplA 256 2.34e+01 1xhkA 187 2.34e+01 1dik 874 2.34e+01 1dik c.1.12.2,c.8.1.1,d.142.1.5 29304,30702,41572 1j8mF 297 2.37e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1nhkL 144 2.37e+01 1npk 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