# List of top-scoring protein chains for t04-100-30-dssp-ebghstl-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 1w61A 414 1.40e-03 1u1wA 298 1.53e-03 1tm0A 350 1.87e-03 d.21.1.3 107147 1xubA 298 1.90e-03 2gkeA 274 7.62e-03 1gqzA 274 1.11e-02 d.21.1.1,d.21.1.1 83311,83312 1t6kA 278 3.20e-02 1bwzA 274 3.31e-02 1bwzA d.21.1.1,d.21.1.1 38337,38338 1ym5A 300 1.86e-01 2b3nA 159 3.11e-01 1ixlA 131 3.86e-01 d.38.1.5 90717 1dkmA 410 4.54e-01 1dklA c.60.1.2 34000 1o0pA 104 5.32e-01 d.58.7.1 86535 1dkqA 410 7.24e-01 1dklA c.60.1.2 33998 1sr8A 298 1.25e+00 e.54.1.1 105959 1ycoA 279 1.36e+00 1d0iA 156 1.87e+00 2dhqA c.23.13.1 31383 1vdkA 466 2.23e+00 a.127.1.1 100561 1o17A 345 2.51e+00 a.46.2.1,c.27.1.1 80765,80766 1oe4A 247 2.53e+00 c.18.1.3 86895 1gtzA 156 2.78e+00 c.23.13.1 70539 1z54A 132 4.06e+00 1umkA 275 4.17e+00 1azsB 212 4.18e+00 1azsA d.58.29.1 39423 1yqfA 203 4.21e+00 1wc3A 219 4.50e+00 1bupA 386 4.80e+00 1ba1 c.55.1.1,c.55.1.1 33377,33378 1qstA 160 4.81e+00 1yghA d.108.1.1 40804 1kay 381 4.86e+00 1ba1 c.55.1.1,c.55.1.1 33385,33386 1vquA 374 5.06e+00 1y791 680 5.45e+00 1ryiA 382 5.49e+00 2azpA 318 5.52e+00 1xttA 216 5.79e+00 1i7pA 274 5.93e+00 b.43.4.2,c.25.1.1 66048,66049 1o8bA 219 6.22e+00 c.124.1.4,d.58.40.1 81180,81181 1kkcA 221 6.54e+00 a.2.11.1,d.44.1.1 68660,68661 1ogsA 497 6.82e+00 b.71.1.2,c.1.8.3 86997,86998 1u9yA 284 7.06e+00 1hzdA 272 7.15e+00 c.14.1.3 65969 1p3dA 475 7.18e+00 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1dazC 99 7.86e+00 1hvc b.50.1.1 26501 1ng4A 390 8.10e+00 c.3.1.2,d.16.1.3 85666,85667 1khdA 345 8.56e+00 a.46.2.1,c.27.1.1 77400,77401 1dp4A 435 8.72e+00 1dp4A c.93.1.1 35710 1qx4A 274 8.82e+00 b.43.4.2,c.25.1.1 104624,104625 1giqA 413 9.60e+00 d.166.1.1,d.166.1.1 76224,76225 1bvqA 141 9.85e+00 1bvqA d.38.1.1 38542 1od3A 168 9.99e+00 b.18.1.10 86825 1q3iA 214 1.04e+01 d.220.1.1 104524 1y9wA 140 1.05e+01 1gv3A 248 1.06e+01 a.2.11.1,d.44.1.1 70585,70586 1nnsA 326 1.08e+01 c.88.1.1 85910 2aliA 158 1.08e+01 1mqvA 125 1.10e+01 a.24.3.2 79415 1mngA 203 1.14e+01 1avmA a.2.11.1,d.44.1.1 15776,38701 3tdt 274 1.16e+01 3tdt b.81.1.2 28053 1tdtA 259 1.19e+01 3tdt b.81.1.2 28055 1g5cA 170 1.21e+01 1g5cA c.53.2.1 60264 2b5wA 357 1.23e+01 1ab8A 220 1.34e+01 1azsA d.58.29.1 39414 1ymmB 198 1.39e+01 1uurA 473 1.41e+01 a.47.1.1,b.2.5.5,d.93.1.1 100016,100017,100018 2ghpA 292 1.42e+01 2bvyA 475 1.42e+01 1j5pA 253 1.44e+01 d.81.1.3,c.2.1.3 71577,83092 2b6eA 146 1.50e+01 1rl0A 255 1.54e+01 1vh5A 148 1.55e+01 d.38.1.5 100642 1o0iA 138 1.55e+01 d.38.1.5 86532 1wab 232 1.56e+01 1wab c.23.10.3 31341 1vi6A 208 1.58e+01 c.23.15.1 100736 1s7jA 262 1.59e+01 d.21.1.2 98647 1yuwA 554 1.60e+01 1qi7A 253 1.64e+01 1qi7A d.165.1.1 42210 2b0tA 738 1.70e+01 2an1A 292 1.70e+01 1tafB 70 1.73e+01 1tafB a.22.1.3 16482 1zkiA 133 1.73e+01 1psuA 140 1.79e+01 d.38.1.5 88285 1lp8A 254 1.81e+01 d.165.1.1 91082 2fs2A 151 1.87e+01 1q1rA 431 1.98e+01 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 1jb7A 495 2.00e+01 1otcA b.40.4.3,b.40.4.3,b.40.4.3 62836,62837,62838 1l0wA 580 2.02e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 1lo7A 141 2.03e+01 d.38.1.1 74144 1f2rI 100 2.05e+01 1c9fA d.15.2.1 37641 1sdjA 310 2.07e+01 d.21.1.2,d.21.1.2 98807,98808 1q15A 503 2.08e+01 c.26.2.1,d.153.1.1 95538,95539 1prxA 224 2.10e+01 1prxA c.47.1.10 33076 1o7nA 449 2.12e+01 b.33.1.2,d.129.3.3 81162,81163 2aioA 269 2.16e+01 1mxmA 254 2.32e+01 b.38.1.3,d.58.43.1,f.34.1.1 79647,79648,79649 1hbnC 248 2.36e+01 1mroC d.58.31.1 60902 2aneA 125 2.38e+01 1pyoA 167 2.43e+01 c.17.1.1 95370 1wekA 217 2.44e+01 1qjtA 99 2.48e+01 1eh2 a.39.1.6 17335 2cxcA 144 2.50e+01 1rsy 152 2.60e+01 1rsy b.7.1.2 23192 1vm7A 311 2.60e+01 c.72.1.1 108884 1h8eA 510 2.61e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 1eg9A 449 2.63e+01 1ndoA b.33.1.2,d.129.3.3 24443,41322 1smlA 269 2.69e+01 1smlA d.157.1.1 42053 1itwA 741 2.70e+01 c.77.1.2 76793 1lm6A 215 2.74e+01 d.167.1.1 84628 1es9A 232 2.74e+01 1wab c.23.10.3 31340 1pzsA 208 2.75e+01 b.1.8.1 104397 1kq3A 376 2.76e+01 e.22.1.2 68790 1g7sA 594 2.77e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 1sk4A 163 2.85e+01 d.118.1.1 105664 1wtaA 275 2.88e+01 1srqA 341 2.94e+01 e.55.1.1 105967 1mjc 69 2.96e+01 1mjc b.40.4.5 25319 1fnnA 389 3.00e+01 1fnnA a.4.5.11,c.37.1.20 16129,32426 2bs3A 656 3.03e+01 1k1xA 659 3.03e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 1ewqA 765 3.10e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 1ug1A 92 3.14e+01 b.34.2.1 99360 1josA 128 3.14e+01 d.52.7.1 84191 2acfA 182 3.19e+01 1ndh 272 3.20e+01 1ndh b.43.4.2,c.25.1.1 25662,31552 1w96A 554 3.23e+01 1jc9A 269 3.29e+01 d.171.1.1 66490 1xtqA 177 3.33e+01 1nbwA 607 3.37e+01 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 1m2oA 768 3.45e+01 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 78480,78481,78482,78483,78484 1yghA 164 3.52e+01 1yghA d.108.1.1 40802 2c8mA 262 3.53e+01 2etvA 346 3.54e+01 2arsA 262 3.56e+01 2b61A 377 3.56e+01 1qlaA 656 3.56e+01 1qlaA a.7.3.1,c.3.1.4,d.168.1.1 16328,30427,42310 1vliA 385 3.59e+01 b.85.1.1,c.1.10.6 108830,108831 1on3A 523 3.59e+01 c.14.1.4,c.14.1.4 87107,87108 2f8mA 244 3.59e+01 1evhA 112 3.62e+01 1evhA b.55.1.4 26997 1drw 273 3.67e+01 1drw c.2.1.3,d.81.1.3 30057,39972 1o70A 324 3.67e+01 b.118.1.1,b.118.1.1 81115,81116 1z5hA 780 3.72e+01 2af4C 333 3.72e+01 1u24A 337 3.78e+01 1hp1A 516 3.78e+01 d.114.1.1,d.159.1.2 70976,70977 2gjgA 248 3.80e+01 1s1qA 145 3.87e+01 d.20.1.2 98351 1g9oA 91 3.93e+01 1pdr b.36.1.1 60400 1lyqA 104 3.94e+01 b.1.18.17 78302 1wluA 136 3.95e+01 1vpbA 451 4.00e+01 1ov3A 138 4.00e+01 b.34.2.1,b.34.2.1 87451,87452 2c26A 260 4.05e+01 1tx4B 178 4.07e+01 1ctqA c.37.1.8 32045 1yphC 131 4.09e+01 2g84A 197 4.11e+01 1tq5A 242 4.11e+01 1i78A 297 4.12e+01 f.4.4.1 66046 1mroC 247 4.15e+01 1mroC d.58.31.1 39437 1onqA 283 4.16e+01 b.1.1.2,d.19.1.1 93365,93366 1pysA 350 4.18e+01 1pysA d.104.1.1 40775 1ynfA 458 4.19e+01 1e3pA 757 4.27e+01 1e3hA a.4.9.1,b.40.4.5,d.14.1.4,d.14.1.4,d.52.3.1,d.101.1.1,d.101.1.1 16258,25328,37574,37575,38811,40697,40698 2bvbA 137 4.29e+01 1izmA 184 4.38e+01 a.199.1.1 90725 1rzuA 485 4.42e+01 c.87.1.8 105140 2f4pA 147 4.50e+01 1zl0A 311 4.51e+01 1v8hA 107 4.56e+01 1j1yA 136 4.63e+01 d.38.1.5 90776 1atiA 505 4.65e+01 1atiA c.51.1.1,d.104.1.1 33196,40745 2c7pA 327 4.69e+01 1wxxA 382 4.73e+01 1lox 662 4.73e+01 1lox a.119.1.2,b.12.1.1 19238,23638 1zq1C 633 4.76e+01 1kc6A 257 4.84e+01 c.52.1.19 68419 1h2eA 207 4.93e+01 c.60.1.1 70857 1xhkA 187 4.94e+01 2bv5A 282 5.02e+01 1yoxA 250 5.06e+01 1u7nA 336 5.06e+01 c.77.1.4 107726 2fnaA 357 5.07e+01 1nt4A 391 5.07e+01 c.60.1.2 92102 1r5eA 115 5.27e+01 1ujmA 342 5.32e+01 1b56 135 5.38e+01 1hmt b.60.1.2 27183 2aaa 484 5.40e+01 7taa b.71.1.1,c.1.8.1 27777,28764 2c4xA 260 5.42e+01 1jihA 531 5.42e+01 d.240.1.1,e.8.1.7 90374,90375 1p6pA 125 5.43e+01 b.60.1.2 87839 1uf3A 228 5.50e+01 d.159.1.6 99317 1w77A 228 5.53e+01 2a2nA 176 5.54e+01 1eajA 126 5.54e+01 1f5wA b.1.1.1 59401 1a8i 842 5.56e+01 1a8i c.87.1.4 35490 1ush 550 5.57e+01 1ush d.114.1.1,d.159.1.2 40923,42079 1oj6A 151 5.58e+01 a.1.1.2 93088 1ukxA 137 5.61e+01 d.20.1.3 107919 1f3uA 118 5.65e+01 1f3uA b.65.1.1 27521 2fsjA 346 5.69e+01 2f2hA 773 5.70e+01 1ycdA 243 5.70e+01 1gz6A 319 5.71e+01 c.2.1.2 76410 1wmdA 434 5.79e+01 b.18.1.20,c.41.1.1 109408,109409 1ejeA 192 5.80e+01 1ejeA b.45.1.2 25757 1cl8A 276 5.83e+01 1ckqA c.52.1.1 33230 1dpgA 485 5.89e+01 1dpgA c.2.1.3,d.81.1.5 30074,39989 1hf2A 210 5.91e+01 1hf2A b.80.3.1,c.102.1.1 60992,60993 1k8kE 178 5.95e+01 a.148.1.1 68311 1wleA 501 6.02e+01 1qxfA 66 6.10e+01 g.41.8.4 96527 1s0yB 71 6.15e+01 d.80.1.1 98315 1v8gA 329 6.15e+01 a.46.2.1,c.27.1.1 100505,100506 1zvpA 133 6.20e+01 1t6aA 126 6.20e+01 d.129.8.1 106555 1jf9A 408 6.23e+01 1c0nA c.67.1.3 62931 1zh5A 195 6.32e+01 1esc 306 6.41e+01 1esc c.23.10.1 31334 2fr2A 172 6.45e+01 1w2tA 432 6.53e+01 1xhlA 297 6.54e+01 c.2.1.2 109591 2if1 126 6.56e+01 2if1 d.64.1.1 39547 1z4rA 168 6.57e+01 1ekjA 221 6.60e+01 1ekjB c.53.2.1 33364 1vl2A 421 6.61e+01 c.26.2.1,d.210.1.1 108708,108709 1fs5A 266 6.62e+01 c.124.1.1 65044 1k0eA 453 6.67e+01 d.161.1.1 67938 2fvhA 120 6.72e+01 1hr6B 443 6.76e+01 1be3A d.185.1.1,d.185.1.1 61166,61167 1wpgA 994 6.80e+01 1wudA 89 6.81e+01 1e79A 510 6.86e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18269,26434,32314 1m4jA 142 6.87e+01 d.109.1.2 78602 1wcqA 601 6.93e+01 1xwnA 174 6.93e+01 2biqA 219 6.94e+01 1oo0A 147 6.95e+01 d.232.1.1 87182 2go8A 122 6.99e+01 1xhvA 257 7.03e+01 c.52.1.19 109597 2a8yA 270 7.04e+01 1lk5A 229 7.05e+01 c.124.1.4,d.58.40.1 73960,73961 2aieP 203 7.10e+01 1kr7A 110 7.10e+01 a.1.1.4 72890 1gy8A 397 7.11e+01 c.2.1.2 83376 1tljA 213 7.12e+01 d.282.1.1 107126 1s4bP 674 7.13e+01 d.92.1.5 105252 1iicA 422 7.32e+01 1nmtA d.108.1.2,d.108.1.2 62422,62423 1h65A 270 7.32e+01 c.37.1.8 65640 2ffsA 157 7.38e+01 4uagA 437 7.40e+01 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30651,33952,34955 1h9dB 134 7.41e+01 2jhbA b.54.1.1 60822 1ju2A 536 7.42e+01 c.3.1.2,d.16.1.1 77169,77170 1iznB 277 7.43e+01 e.43.1.2 83848 1d4tA 104 7.49e+01 1d4tA d.93.1.1 40537 1wvgA 359 7.50e+01 2b1xA 470 7.50e+01 1xsjA 778 7.51e+01 1ym0A 238 7.53e+01 2aeeA 211 7.53e+01 1rzhL 281 7.59e+01 f.26.1.1 98164 1cghA 224 7.61e+01 1a7s b.47.1.2 26290 1l5oA 356 7.61e+01 c.39.1.1 77711 1jj2P 95 7.62e+01 1ffkN b.34.5.1 63101 1gk8I 140 7.66e+01 d.73.1.1 65242 1vqoQ 96 7.68e+01 1s72Q 96 7.72e+01 b.34.5.1 105336 1i1nA 226 7.77e+01 c.66.1.7 71102 2cy2A 174 7.80e+01 2b0jA 358 7.91e+01 1to6A 371 7.99e+01 c.141.1.1 107170 1difA 99 8.14e+01 1fmb b.50.1.1 26503 1woqA 267 8.17e+01 c.55.1.10,c.55.1.10 109462,109463 6mhtA 327 8.42e+01 6mhtA c.66.1.26 34226 1q1fA 151 8.43e+01 a.1.1.2 104476 1svy 114 8.48e+01 1svy d.109.1.1 40831 1ecfA 504 8.48e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 1q87A 221 8.48e+01 e.47.1.1 96192 2lhb 149 8.51e+01 2fal a.1.1.2 15597 2aj6A 159 8.53e+01 1o0uA 429 8.54e+01 c.118.1.1 80743 2bz6H 254 8.55e+01 1sh8A 154 8.62e+01 d.38.1.5 105549 1vhzA 198 8.62e+01 d.113.1.1 100718 1pfsA 78 8.68e+01 1pfsA b.40.4.7 25391 1fc6A 388 8.80e+01 1fc6A b.36.1.3,c.14.1.2 64738,64739 1yrtA 364 8.83e+01 1uypA 432 8.85e+01 b.29.1.19,b.67.2.3 100176,100177 1j0hA 588 8.88e+01 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 1kliH 254 8.94e+01 b.47.1.2 77435 1gg6B 131 8.98e+01 5ptp