# List of top-scoring protein chains for t04-100-30-bys-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 1debA 54 4.98e-01 1debA h.1.18.1 45660 1yg2A 179 1.30e+00 1kxu 333 1.72e+00 1jkw a.74.1.1,a.74.1.1 18358,18359 1pb6A 212 2.18e+00 a.4.1.9,a.121.1.1 88017,88018 1nh1A 330 2.50e+00 e.45.1.1 91871 1sesA 421 2.80e+00 1sesA a.2.7.1,d.104.1.1 15710,40710 1fmhA 33 3.45e+00 1fmhB k.6.1.1 46409 1l8dA 112 5.52e+00 h.4.12.1 73687 1p9iA 31 5.87e+00 h.1.10.1 94390 2aucA 126 6.39e+00 2cw9A 194 7.01e+00 1o6zA 303 7.79e+00 c.2.1.5,d.162.1.1 81107,81108 1p65A 73 7.93e+00 d.254.1.1 94156 1tmzA 32 8.24e+00 1tmzA k.1.1.1 46376 2az4A 429 8.38e+00 1ykhB 132 8.53e+00 1dc1A 323 8.65e+00 1dc1A c.52.1.11 33321 2cb5A 453 9.80e+00 3gcb d.3.1.1 37035 1zw0A 66 1.02e+01 1gotB 340 1.08e+01 1tbgA b.69.4.1 27648 1dofA 403 1.09e+01 1c3cA a.127.1.1 19429 1ns5A 155 1.10e+01 c.116.1.3 80705 1vjxA 157 1.12e+01 a.25.1.1 100837 2aaxA 275 1.19e+01 1f83A 425 1.19e+01 1f82A d.92.1.7 40306 1ybxA 143 1.23e+01 2occF 98 1.24e+01 2occF g.41.5.3 45256 1mtyB 384 1.29e+01 1mtyB a.25.1.2 16740 1e5pA 151 1.30e+01 1bj7 b.60.1.1 59272 1fmhB 33 1.33e+01 1fmhB k.6.1.1 46410 2a3qA 170 1.34e+01 2fvhA 120 1.38e+01 2bduA 297 1.39e+01 2ztaA 34 1.39e+01 2ztaA h.1.3.1 45474 2g09A 297 1.39e+01 1ny6A 267 1.40e+01 c.37.1.20 92321 1qkkA 155 1.40e+01 1dbwA c.23.1.1 31104 1wmiB 67 1.42e+01 1lj2A 110 1.43e+01 h.1.13.2 73926 1qgtA 149 1.46e+01 1qgtA a.62.1.1 18135 1mwmA 320 1.48e+01 c.55.1.1,c.55.1.1 79580,79581 1xvxA 312 1.51e+01 1hl9A 449 1.52e+01 b.71.1.3,c.1.8.11 90650,90651 1lml 478 1.59e+01 1lml d.92.1.3 40295 1f5vA 240 1.59e+01 1bkjA d.90.1.1 40255 1jmtB 28 1.68e+01 2cybA 323 1.76e+01 1q1gA 276 1.85e+01 c.56.2.1 95574 1iw0A 215 1.91e+01 a.132.1.1 83720 1wzdA 215 1.92e+01 1scfA 273 1.97e+01 1exzA a.26.1.2 16873 1oqcA 125 1.98e+01 a.24.15.1 87264 1xkqA 280 2.01e+01 1ku1A 230 2.08e+01 a.118.3.1 72996 1wn0A 145 2.12e+01 1jmuB 666 2.16e+01 1syyA 346 2.18e+01 a.25.1.2 106126 2adoA 196 2.28e+01 1gotG 73 2.28e+01 1tbgE a.137.3.1 19629 2fcwA 109 2.29e+01 1h99A 224 2.30e+01 a.142.1.1,a.142.1.1 60814,60815 1v9dA 340 2.31e+01 a.207.1.1 100535 2a6cA 83 2.31e+01 1gwiA 411 2.34e+01 a.104.1.1 76364 2gq1A 332 2.34e+01 1tp4A 97 2.35e+01 a.189.1.1 107183 1oqyA 368 2.37e+01 a.5.2.1,a.5.2.1,a.189.1.1,d.15.1.1 93439,93440,93441,93442 1h8lA 380 2.41e+01 b.3.2.1,c.56.5.1 65737,65738 2cwlA 302 2.41e+01 1bjaA 95 2.42e+01 1bjaA a.4.5.9 16122 1xesA 413 2.42e+01 2etxA 209 2.43e+01 2au5A 139 2.46e+01 1msk 331 2.46e+01 1msk d.173.1.1 42495 1k28A 584 2.50e+01 b.40.8.1,b.108.1.2,d.2.1.3 68049,68050,68051 1a6jA 163 2.51e+01 1a6jA d.112.1.1 40915 1f45B 197 2.55e+01 1f45B a.26.1.1 59642 1l6xB 34 2.57e+01 k.13.1.1 73644 1yviA 149 2.58e+01 1v54F 98 2.60e+01 g.41.5.3 100327 1k32A 1045 2.60e+01 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 68068,68069,68070,68071 1nfkA 325 2.66e+01 1a3qA b.1.18.1,b.2.5.3 21929,22444 2bcjB 340 2.68e+01 1zdc 35 2.70e+01 1fc2C k.13.1.1 46434 1a48 306 2.70e+01 1a48 d.143.1.1 41590 2pvbA 107 2.73e+01 1a75A a.39.1.4 17205 2fpqA 444 2.74e+01 1cq3A 233 2.76e+01 1cq3A b.27.1.1 23923 2ts1 419 2.76e+01 2ts1 c.26.1.1 31564 2bzsA 236 2.76e+01 2a0jA 149 2.80e+01 1jj2U 70 2.81e+01 1ffkS a.2.2.1 63106 1s72V 71 2.81e+01 a.2.2.1 105341 2eulA 156 2.83e+01 1go4E 100 2.87e+01 h.1.22.1 70296 1ummA 172 2.90e+01 a.3.1.1 107958 2c8sA 172 2.92e+01 1y10A 407 3.01e+01 1q6cA 495 3.03e+01 c.1.8.1 95970 2c1iA 431 3.04e+01 1sg0A 230 3.04e+01 1zx1A 231 3.05e+01 1bgc 174 3.20e+01 1bgc a.26.1.1 16822 1sh0A 510 3.22e+01 e.8.1.4 98876 3lynA 136 3.22e+01 1lis a.19.1.1 16413 1p4wA 99 3.24e+01 a.4.6.2 87783 1reqB 637 3.25e+01 1reqB c.1.19.1,c.23.6.1 29621,31248 1qkmA 255 3.26e+01 3erdA a.123.1.1 19309 1xlyA 234 3.39e+01 1vqoV 71 3.40e+01 1ehyA 294 3.40e+01 1ehyA c.69.1.11 34693 1wdpA 495 3.49e+01 1xl7A 612 3.49e+01 2bjfA 329 3.50e+01 1obdA 306 3.51e+01 d.143.1.1 86767 1h5oA 42 3.55e+01 g.9.1.2 83484 1fnuA 221 3.55e+01 3seb b.40.2.2,d.15.6.1 25212,37801 1tikA 213 3.61e+01 c.23.5.3 107003 1is1A 185 3.61e+01 d.67.3.1 83704 1pmi 440 3.67e+01 1pmi b.82.1.3 28114 2c1gA 431 3.69e+01 351c 82 3.71e+01 451c a.3.1.1 15905 451c 82 3.73e+01 451c a.3.1.1 15904 1o4sA 389 3.80e+01 c.67.1.1 86620 1t6sA 162 3.88e+01 2b43A 526 3.89e+01 1f1eA 154 3.95e+01 a.22.1.2 64927 1byb 495 3.96e+01 1byb c.1.8.1 28790 1x4tA 92 3.96e+01 1h2sA 225 3.97e+01 f.13.1.1 76578 1lis 136 3.98e+01 1lis a.19.1.1 16406 2lisA 136 3.98e+01 1lis a.19.1.1 16405 1bl3A 160 4.00e+01 1b9dA c.55.3.2 33655 1guuA 52 4.00e+01 a.4.1.3 83332 1t6fA 37 4.06e+01 h.1.28.1 106565 1uuqA 440 4.08e+01 c.1.8.3 100015 1v3hA 495 4.12e+01 c.1.8.1 108303 1yz1A 174 4.15e+01 1vkeA 133 4.16e+01 a.152.1.2 108650 1kd8A 36 4.17e+01 h.1.3.1 68460 1txjA 171 4.17e+01 b.88.1.2 107424 1q8cA 151 4.19e+01 a.79.1.2 96202 1i19A 561 4.24e+01 1i19A d.58.32.3,d.145.1.1 61522,61523 2f4mB 61 4.27e+01 1y0uA 96 4.29e+01 1jhgA 101 4.33e+01 1jhgA a.4.12.1 19009 2g7uA 257 4.36e+01 1jdlA 121 4.39e+01 a.3.1.1 66557 1q8bA 105 4.42e+01 d.58.4.6 96201 4tmkA 213 4.45e+01 5tmpA c.37.1.1 31930 1t3iA 420 4.46e+01 c.67.1.3 106354 1t6jA 714 4.50e+01 1pveA 72 4.51e+01 a.189.1.1 104322 1m12A 84 4.54e+01 a.64.1.1 84745 2fbqA 235 4.58e+01 1s5lX 50 4.63e+01 1bouA 139 4.65e+01 1bouA a.88.1.1 18521 1iseA 185 4.70e+01 d.67.3.1 90691 1yhnB 65 4.76e+01 1ihoA 283 4.79e+01 1ihoA c.26.1.4 62390 1n2eA 300 4.86e+01 c.26.1.4 85268 1p80A 753 4.86e+01 c.23.16.3,e.5.1.1 94337,94338 1wt4A 73 4.92e+01 2akaA 776 4.94e+01 1wddS 128 4.95e+01 1ek8A 185 4.96e+01 1ek8A d.67.3.1 59444 1slqA 278 4.99e+01 f.47.1.1 105719 2ftuA 118 5.01e+01 1i37A 260 5.09e+01 1a28A a.123.1.1 61583 1jgsA 138 5.13e+01 a.4.5.28 66683 1otjA 283 5.15e+01 b.82.2.5 93517 1vom 762 5.15e+01 1lvk b.34.3.1,c.37.1.9 24577,32174 2f6kA 307 5.23e+01 2au3A 407 5.25e+01 1euhA 475 5.26e+01 1euhA c.82.1.1 35369 2b1fA 34 5.31e+01 1cxqA 162 5.39e+01 1cxqA c.55.3.2 33621 1r4gA 53 5.40e+01 a.8.5.1 96996 2coiA 386 5.41e+01 1cf9A 753 5.44e+01 1cf9A c.23.16.3,e.5.1.1 31441,42815 1w9iA 770 5.45e+01 1mhyB 395 5.46e+01 1mtyB a.25.1.2 16781 1qghA 156 5.48e+01 1qghA a.25.1.1 16728 1a93B 34 5.49e+01 1a93B h.1.3.1 45545 1uedA 406 5.53e+01 a.104.1.1 99256 2f6hX 419 5.57e+01 1td6A 306 5.58e+01 1xkyA 301 5.58e+01 1f5aA 513 5.59e+01 1fa0B d.58.16.1,a.160.1.1,d.218.1.3 39337,75835,75836 1h2vC 771 5.59e+01 a.118.1.14,a.118.1.14,a.118.1.14 76592,76593,76594 1yspA 181 5.71e+01 1bf6A 291 5.80e+01 1pscA c.1.9.3 29065 1sedA 117 5.81e+01 a.219.1.1 105449 1sknP 92 5.88e+01 1sknP a.37.1.1 17127 1lvk 762 5.91e+01 1lvk b.34.3.1,c.37.1.9 24576,32173 1h4lD 147 5.91e+01 a.74.1.1 70873 1nd9A 49 5.97e+01 a.6.1.6 85575 1d0yA 761 6.01e+01 1lvk b.34.3.1,c.37.1.9 24581,32178 1s4nA 348 6.01e+01 c.68.1.16 98501 2a84A 300 6.02e+01 1gakA 141 6.11e+01 1gakA a.19.1.1 16415 1foeA 377 6.29e+01 1foeA a.87.1.1,b.55.1.1 18517,26969 2fk8A 318 6.30e+01 2sas 185 6.31e+01 2sas a.39.1.5 17258 2vsgA 358 6.32e+01 2vsgA h.4.1.1 45780 1qsdA 106 6.35e+01 1qsdA a.7.5.1 16335 1a3aA 148 6.35e+01 1a3aA d.112.1.1 40917 2basA 431 6.40e+01 1ah6 220 6.41e+01 1yer d.122.1.1 41094 2bykB 128 6.44e+01 2g62A 325 6.45e+01 1ydiA 263 6.46e+01 1vsd 152 6.50e+01 1cxqA c.55.3.2 33625 2fgeA 995 6.60e+01 1nlwA 80 6.61e+01 a.38.1.1 80633 1dowA 205 6.65e+01 1dovA a.24.9.1 16626 2ar0A 541 6.65e+01 1ihjA 98 6.68e+01 1pdr b.36.1.1 62382 1ixkA 315 6.71e+01 c.66.1.38 90716 1oe8A 211 6.78e+01 a.45.1.1,c.47.1.5 86905,86906 1t01A 255 6.79e+01 a.24.9.1,a.24.9.1 106188,106189 1jihA 531 6.79e+01 d.240.1.1,e.8.1.7 90374,90375 1dpgA 485 6.80e+01 1dpgA c.2.1.3,d.81.1.5 30074,39989 1uruA 244 6.81e+01 h.4.14.1 99835 1otfA 62 6.86e+01 1otfA d.80.1.1 39820 1ru0A 105 6.97e+01 1q1vA 70 7.02e+01 a.159.4.1 104479 1zvzA 279 7.06e+01 1kc6A 257 7.10e+01 c.52.1.19 68419 1ij2A 34 7.10e+01 h.1.3.1 62474 2ajfA 597 7.12e+01 1mhqA 148 7.17e+01 a.118.9.2 84973 1q79A 514 7.18e+01 a.160.1.1,d.218.1.3,d.58.16.1 104548,104549,104550 2audA 257 7.23e+01 1aj8A 371 7.23e+01 1aj8A a.103.1.1 18900 1j8bA 112 7.24e+01 d.222.1.1 77101 1l7vA 326 7.29e+01 f.22.1.1 73672 1y2mA 716 7.33e+01 1y8aA 332 7.35e+01 1egwA 77 7.38e+01 1mnmA d.88.1.1 40234 1enh 54 7.41e+01 2hddA a.4.1.1 15973 1pea 385 7.43e+01 1pea c.93.1.1 35662 1lm4A 194 7.43e+01 d.167.1.1 84626 1wg8A 285 7.46e+01 1hyvA 166 7.46e+01 1b9dA c.55.3.2 61424 1up8A 598 7.53e+01 a.111.1.2 99710 1nzeA 149 7.55e+01 a.24.18.1 92374 1t7rA 269 7.64e+01 a.123.1.1 106635 1zmeC 70 7.68e+01 1zmeC g.38.1.1,h.1.3.1 45081,45514 1qf8A 182 7.76e+01 1qf8A g.41.4.1 45212 1pq4A 291 7.79e+01 c.92.2.2 94995 2bl0B 145 7.82e+01 1ubkL 534 7.83e+01 e.18.1.1 88422 1wuiL 534 7.86e+01 1r4vA 171 7.87e+01 a.197.1.1 97049 1enfA 212 7.93e+01 3seb b.40.2.2,d.15.6.1 25198,37787 1w6uA 302 7.94e+01 2b0tA 738 7.97e+01 1qnxA 209 8.00e+01 1qnxA d.111.1.1 40914 1h2rL 534 8.05e+01 1h2rL e.18.1.1 43298 3pvaA 335 8.06e+01 3pvaA d.153.1.3 41854 2fk4A 75 8.07e+01 1rkeA 262 8.08e+01 a.24.9.1,a.24.9.1 97608,97609 1r3dA 264 8.18e+01 1jsxA 207 8.30e+01 c.66.1.20 71846 1iqvA 218 8.38e+01 1rss a.75.1.1 62661 2hddA 61 8.39e+01 2hddA a.4.1.1 15971 1yyaA 250 8.43e+01 2bl0C 142 8.45e+01 2a8aA 439 8.55e+01 1r5yA 386 8.59e+01 c.1.20.1 97134 1yt3A 375 8.59e+01 1lvoA 302 8.59e+01 b.47.1.4 74284 2end 138 8.60e+01 2end a.18.1.1 16400 1u0fA 564 8.60e+01 1smlA 269 8.64e+01 1smlA d.157.1.1 42053 1qwgA 251 8.69e+01 c.1.27.1 96473 2bo4A 397 8.69e+01 1r0wA 286 8.72e+01 c.37.1.12 96754 1qwoA 442 8.73e+01 c.60.1.2 104620 1eijA 80 8.74e+01 1eijA a.5.6.1 16298 2brcA 214 8.74e+01 1g24A 211 8.75e+01 1g24A d.166.1.1 42270 1q3eA 207 8.76e+01 b.82.3.2 95669 2aioA 269 8.78e+01 2f46A 156 8.84e+01 2fbyA 205 8.86e+01 2b61A 377 8.88e+01 2a9kB 223 8.89e+01 1mbe 53 8.96e+01 1mbe a.4.1.3 16038 1tbfA 347 8.98e+01 a.211.1.2 106743 1hwxA 501 8.98e+01 1hwyA c.2.1.7,c.58.1.1 30250,33898