# List of top-scoring protein chains for t2k-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 2f22A 144 4.12e-10 1rxqA 178 6.70e-02 a.213.1.1 105118 1nw3A 416 1.64e+00 c.66.1.31 86288 1l3pA 102 2.24e+00 a.24.17.1 84520 2b0tA 738 3.29e+00 2bzlA 325 3.30e+00 1r71A 178 3.54e+00 a.4.14.1 104823 1exzA 141 4.60e+00 1exzA a.26.1.2 16877 1yarO 237 5.25e+00 1z0xA 220 5.33e+00 1kl7A 514 5.75e+00 c.79.1.1 72678 5eat 548 5.96e+00 5eat a.102.4.1,a.128.1.3 18853,19445 1iw7C 1119 7.39e+00 e.29.1.1 71474 1on2A 142 7.48e+00 a.4.5.24,a.76.1.1 87103,87104 2a6hC 1119 7.77e+00 1kiyA 374 7.91e+00 a.128.1.5 72555 1jfaA 374 8.52e+00 a.128.1.5 66622 3ladA 476 8.64e+00 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30573,30574,40208 1jj7A 260 9.04e+00 c.37.1.12 63114 2axtE 84 9.17e+00 1a7m 180 1.00e+01 1lki a.26.1.1 16830 1p1xA 260 1.03e+01 c.1.10.1 104060 1yyqA 374 1.03e+01 5eau 548 1.07e+01 5eat a.102.4.1,a.128.1.3 18851,19443 1kmiZ 214 1.09e+01 h.4.11.1 72752 1mioA 534 1.11e+01 1qguA c.92.2.3 35601 1fp3A 402 1.13e+01 1fp3A a.102.1.3 18842 1o17A 345 1.13e+01 a.46.2.1,c.27.1.1 80765,80766 1jfgA 374 1.14e+01 a.128.1.5 66636 1jx4A 352 1.15e+01 d.240.1.1,e.8.1.7 90378,90379 1o5hA 214 1.15e+01 a.191.1.1 92497 2bg9A 370 1.16e+01 1afrA 345 1.21e+01 1afrA a.25.1.2 16805 1gx3A 284 1.23e+01 d.3.1.5 70678 1jclA 260 1.24e+01 c.1.10.1 66501 1oq9A 363 1.25e+01 a.25.1.2 87257 1wv2A 265 1.26e+01 1yge 839 1.26e+01 1yge a.119.1.1,b.12.1.1 19234,23634 1f8nA 839 1.26e+01 1yge a.119.1.1,b.12.1.1 59703,59704 1s5lE 84 1.33e+01 1f2eA 201 1.35e+01 1a0fA a.45.1.1,c.47.1.5 17745,33039 2g7sA 194 1.38e+01 1fgqA 839 1.40e+01 1yge a.119.1.1,b.12.1.1 59826,59827 1s4kA 120 1.52e+01 a.35.1.6 105254 1ej1A 190 1.55e+01 1ejhA d.86.1.1 40144 1qqtA 551 1.57e+01 1qqtA a.27.1.1,c.26.1.1,g.41.1.1 16923,31590,45175 1vd5A 377 1.61e+01 a.102.1.7 108518 2fv1A 377 1.65e+01 1ef8A 261 1.69e+01 1ef8A c.14.1.3 30921 1mngA 203 1.70e+01 1avmA a.2.11.1,d.44.1.1 15776,38701 1adjA 421 1.70e+01 1adjA c.51.1.1,d.104.1.1 33188,40737 1ui5A 215 1.75e+01 a.4.1.9,a.121.1.1 107856,107857 1w5rA 278 1.76e+01 1ljrA 244 1.77e+01 1ljrA a.45.1.1,c.47.1.5 17707,33001 1jweA 114 1.77e+01 1b79A a.81.1.1 18455 1ayl 541 1.78e+01 1ayl c.91.1.1,c.109.1.1 64718,64719 1wkyA 464 1.82e+01 1ipcA 217 1.83e+01 d.86.1.1 71257 1mwmA 320 1.94e+01 c.55.1.1,c.55.1.1 79580,79581 1xm3A 264 2.04e+01 1mtpA 323 2.06e+01 e.1.1.1 85107 1syyA 346 2.10e+01 a.25.1.2 106126 1yucA 255 2.10e+01 1r2rA 248 2.15e+01 c.1.1.1 96875 1z6oM 191 2.17e+01 2aelA 374 2.22e+01 1ahxA 396 2.24e+01 1ajsA c.67.1.1 34293 2amlA 373 2.24e+01 1biqA 375 2.26e+01 1xikA a.25.1.2 16786 1xahA 354 2.28e+01 1d2fA 390 2.30e+01 1d2fA c.67.1.3 34411 1ariA 396 2.36e+01 1ajsA c.67.1.1 34331 1lrrA 131 2.55e+01 d.228.1.1 78165 1b47A 304 2.60e+01 2cblA a.39.1.7,a.48.1.1,d.93.1.1 17381,17775,40529 1fpxA 352 2.67e+01 1fpxA a.4.5.29,c.66.1.12 59950,59951 1ylhA 560 2.72e+01 1reqD 637 2.76e+01 1reqB c.1.19.1,c.23.6.1 29623,31250 1fp2A 352 2.80e+01 1fpxA a.4.5.29,c.66.1.12 59941,59942 1br2A 791 2.81e+01 1lvk b.34.3.1,c.37.1.9 24558,32155 1av6A 289 2.82e+01 3mag c.66.1.25 34218 2czlA 272 2.87e+01 3nodB 423 2.88e+01 1nseA d.174.1.1 42513 1bouB 302 2.94e+01 1bouB c.56.6.1 33859 1ars 396 3.00e+01 1ajsA c.67.1.1 34287 1aiaA 396 3.04e+01 1ajsA c.67.1.1 34306 1xikA 375 3.06e+01 1xikA a.25.1.2 16784 1f7tA 122 3.10e+01 1f7lA d.150.1.2 59667 1zk7A 467 3.10e+01 2esnA 310 3.15e+01 1rovA 857 3.16e+01 a.119.1.1,b.12.1.1 97674,97675 1spa 396 3.18e+01 1ajsA c.67.1.1 34291 1v39 322 3.22e+01 3mag c.66.1.25 34206 1vp9 322 3.22e+01 3mag c.66.1.25 34210 1arhA 396 3.24e+01 1ajsA c.67.1.1 34321 1art 396 3.25e+01 1ajsA c.67.1.1 34285 1b79A 119 3.27e+01 1b79A a.81.1.1 18451 3mag 307 3.33e+01 3mag c.66.1.25 34205 1f4tA 368 3.34e+01 1f4tA a.104.1.1 18973 1asg 396 3.42e+01 1ajsA c.67.1.1 34335 1pi1A 185 3.43e+01 a.29.7.1 94699 1gd8A 118 3.46e+01 d.188.1.1 60445 1hiwA 133 3.51e+01 1hiwA a.61.1.1 18122 1i6pA 220 3.55e+01 1ddzA c.53.2.1 61848 1ykjA 394 3.60e+01 1f7lA 121 3.65e+01 1f7lA d.150.1.2 59666 1b4uB 302 3.66e+01 1bouB c.56.6.1 33861 1dl2A 511 3.68e+01 1dl2A a.102.2.1 18844 1zhxA 438 3.72e+01 1vpt 348 3.73e+01 3mag c.66.1.25 34207 1w5cE 84 3.82e+01 1k8kA 418 3.82e+01 c.55.1.1,c.55.1.1 68305,68306 2breA 219 3.90e+01 2fh5A 185 3.90e+01 1xrjA 261 3.93e+01 2phh 394 4.00e+01 1pbe c.3.1.2,d.16.1.2 30353,37884 2abk 211 4.01e+01 2abk a.96.1.1 18743 1inzA 148 4.01e+01 1eduA a.118.9.1 62610 1jogA 146 4.10e+01 a.24.16.2 77142 1l8cA 95 4.14e+01 g.53.1.1 73685 3ertA 261 4.16e+01 3erdA a.123.1.1 19292 1bgj 394 4.23e+01 1pbe c.3.1.2,d.16.1.2 30352,37883 1ux5A 411 4.23e+01 a.207.1.1 100144 1ku2A 241 4.26e+01 a.4.13.1,a.177.1.1 83096,83097 1qisA 396 4.31e+01 1ajsA c.67.1.1 34284 1ekeA 230 4.31e+01 1ekeA c.55.3.1 33572 1h4vB 421 4.36e+01 1adjA c.51.1.1,d.104.1.1 60624,60625 1dgjA 907 4.43e+01 1alo a.56.1.1,d.15.4.2,d.41.1.1,d.133.1.1 17909,37694,38585,41415 1hmvB 440 4.43e+01 1rthA e.8.1.2 43047 1j8yF 297 4.44e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1gosA 520 4.45e+01 c.3.1.2,d.16.1.5 65425,65426 1ghpA 258 4.49e+01 1btl e.3.1.1 60520 1le6A 123 4.51e+01 a.133.1.2 73862 2fq4A 192 4.53e+01 1ehkA 562 4.53e+01 1ehkA f.24.1.1 43624 1q7sA 117 4.59e+01 c.131.1.1 96055 1cj3A 392 4.62e+01 1pbe c.3.1.2,d.16.1.2 30347,37878 1ez3A 127 4.64e+01 1dn1B a.47.2.1 17768 2b61A 377 4.73e+01 2gnxA 365 4.79e+01 1t4bA 367 4.86e+01 c.2.1.3,d.81.1.1 106406,106407 1eemA 241 4.87e+01 1eemA a.45.1.1,c.47.1.5 17717,33011 1xdpA 687 4.94e+01 1mba 147 4.95e+01 2fal a.1.1.2 15149 1tazA 365 4.95e+01 a.211.1.2 106734 2cblA 305 4.97e+01 2cblA a.39.1.7,a.48.1.1,d.93.1.1 17380,17774,40528 1pmt 203 5.05e+01 1a0fA a.45.1.1,c.47.1.5 17740,33034 1lrv 244 5.06e+01 1lrv a.118.1.5 19146 1qdbA 473 5.07e+01 1qdbA a.138.1.3 19688 1sw6A 327 5.07e+01 1sw6A d.211.1.1 19176 1ppjH 78 5.13e+01 f.28.1.1 104264 2d29A 387 5.18e+01 1q6cA 495 5.20e+01 c.1.8.1 95970 1jqcA 375 5.20e+01 1xikA a.25.1.2 63229 1aw1A 256 5.27e+01 1amk c.1.1.1 28515 1nhyA 219 5.28e+01 a.45.1.1,c.47.1.5 80520,80521 1lkxA 697 5.30e+01 c.37.1.9 73981 1tph1 247 5.33e+01 1amk 1ikpA 613 5.33e+01 b.29.1.7,d.166.1.1,f.1.5.1 66182,66183,66184 1xg1A 67 5.34e+01 1pbe 394 5.39e+01 1pbe c.3.1.2,d.16.1.2 30338,37869 1k0iA 394 5.39e+01 c.3.1.2,d.16.1.2 67942,67943 1ribA 375 5.40e+01 1xikA a.25.1.2 16788 1tt7A 330 5.41e+01 1wdpA 495 5.41e+01 2aat 396 5.52e+01 1ajsA c.67.1.1 34348 1w5cF 44 5.53e+01 1pioA 257 5.57e+01 1btl e.3.1.1 42719 1oyzA 280 5.57e+01 a.118.1.16 93775 1ezfA 340 5.57e+01 1ezfA a.128.1.2 19440 1a6q 382 5.62e+01 1a6q a.159.1.1,d.219.1.1 75801,75802 1mxrA 375 5.65e+01 a.25.1.2 85197 1z8oA 404 5.66e+01 1go4E 100 5.67e+01 h.1.22.1 70296 1pea 385 5.73e+01 1pea c.93.1.1 35662 2afaA 425 5.73e+01 1sjwA 144 5.74e+01 d.17.4.9 98899 1qhtA 775 5.74e+01 1tgoA c.55.3.5,e.8.1.1 33722,43011 1ejhA 190 5.79e+01 1ejhA d.86.1.1 40147 1ve1A 304 5.81e+01 1fmcA 255 5.82e+01 1cydA c.2.1.2 29856 1z8uA 102 5.85e+01 2cx9A 387 6.05e+01 2axtB 510 6.06e+01 1aw2A 256 6.14e+01 1amk c.1.1.1 28523 1uohA 226 6.18e+01 d.211.1.1 99690 1ytc 112 6.18e+01 1ycc a.3.1.1 15835 1zx4A 192 6.18e+01 1hlrA 907 6.19e+01 1uj2A 252 6.20e+01 c.37.1.6 99452 1ahr 146 6.26e+01 1cll a.39.1.5 17287 1vlbA 907 6.27e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.133.1.1 108739,108740,108741,108742 1byb 495 6.29e+01 1byb c.1.8.1 28790 1lki 180 6.30e+01 1lki a.26.1.1 16829 1av8A 340 6.31e+01 1xikA a.25.1.2 16796 1o26A 232 6.32e+01 d.207.1.1 86566 1w0uA 55 6.33e+01 1ug1A 92 6.40e+01 b.34.2.1 99360 1m55A 197 6.46e+01 d.89.1.3 74469 1cpcL 172 6.51e+01 1qgwC a.1.1.3 15646 1ithA 141 6.57e+01 1ithA a.1.1.2 15623 1ws9A 387 6.65e+01 1xlyA 234 6.66e+01 1cpcB 172 6.66e+01 1qgwC a.1.1.3 15644 1mh3A 421 6.67e+01 a.4.1.1,c.94.1.1 79112,79113 1adt 356 6.80e+01 1anv a.54.1.1,g.51.1.1,g.51.1.1 17887,45362,45368 1aokA 122 6.84e+01 1poa a.133.1.2 19560 1xmeA 568 6.97e+01 1dm1A 146 6.99e+01 2fal a.1.1.2 15153 1j8mF 297 7.01e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1sl8A 191 7.13e+01 1gz5A 456 7.13e+01 c.87.1.6 76406 1fs7A 485 7.16e+01 1qdbA a.138.1.3 19691 3tgl 269 7.16e+01 3tgl c.69.1.17 34733 1nfiE 215 7.17e+01 1iknD d.211.1.1 19172 1dtoA 221 7.18e+01 1dtoA b.91.1.1 28405 1bhdA 118 7.18e+01 1bkrA a.40.1.1 17398 1ktpB 172 7.20e+01 a.1.1.3 72991 1v3hA 495 7.21e+01 c.1.8.1 108303 1kw4A 89 7.25e+01 a.60.1.2 73077 1j5xA 342 7.30e+01 c.80.1.1 71591 1go4A 205 7.33e+01 d.135.1.1 70292 2exrA 524 7.35e+01 1s5lF 45 7.35e+01 2a65A 519 7.40e+01 1a4iA 301 7.44e+01 1a4iA c.2.1.7,c.58.1.2 30278,33926 1jb1A 205 7.55e+01 1jb1A c.91.1.2 62832 1ohuA 175 7.58e+01 f.1.4.1 93029 1bw0A 416 7.58e+01 1bw0A c.67.1.1 34385 2fbqA 235 7.59e+01 1oc2A 348 7.67e+01 c.2.1.2 92765 1jboB 172 7.74e+01 a.1.1.3 84151 1diaA 306 7.76e+01 1a4iA c.2.1.7,c.58.1.2 30280,33928 1jchA 551 7.92e+01 b.101.1.1,b.110.1.1,h.4.9.1 66491,66492,66493 1jchC 551 7.92e+01 b.101.1.1,b.110.1.1,h.4.9.1 66495,66496,66497 1v54M 46 7.93e+01 f.23.7.1 100334 2gz4A 207 7.95e+01 1a52A 258 7.95e+01 3erdA a.123.1.1 19296 1qqcA 773 7.98e+01 1tgoA c.55.3.5,e.8.1.1 33724,43013 1qoxN 449 8.01e+01 1qoxN c.1.8.4 28978 1ju3A 583 8.02e+01 b.18.1.13,c.69.1.21 67300,67301 1w0hA 204 8.03e+01 1g7cB 94 8.09e+01 1b64 d.58.12.1 39308 1br0A 120 8.09e+01 a.47.2.1 17772 1qgrA 876 8.12e+01 1qgrA a.118.1.1 19119 1y8oA 419 8.13e+01 3tmkA 216 8.15e+01 3tmkA c.37.1.1 31920 1rlkA 117 8.18e+01 c.131.1.1 97651 1s72N 187 8.24e+01 c.55.4.1 105333 1yyhA 253 8.26e+01 1k0mA 241 8.32e+01 a.45.1.1,c.47.1.5 67949,67950 1a4iB 301 8.34e+01 1a4iA c.2.1.7,c.58.1.2 30279,33927 1w5cB 510 8.36e+01 1r0mA 375 8.45e+01 c.1.11.2,d.54.1.1 104747,104748 1uqtA 482 8.47e+01 c.87.1.6 99794 2c43A 323 8.51e+01 1sqgA 429 8.57e+01 a.79.1.3,c.66.1.38 105912,105913 2etsA 128 8.64e+01 1anv 356 8.69e+01 1anv a.54.1.1,g.51.1.1,g.51.1.1 17890,45365,45371 1t56A 216 8.71e+01 a.4.1.9,a.121.1.1 106428,106429 1miuA 738 8.79e+01 a.170.1.1,a.171.1.1,b.40.4.3,b.40.4.3,b.40.4.3 79153,79154,79155,79156,79157 1ymmB 198 8.79e+01 2afdA 88 8.83e+01 1jcjA 260 8.89e+01 c.1.10.1 66499 1hniB 427 8.94e+01 1rthA e.8.1.2 43045 1qi7A 253 8.96e+01 1qi7A d.165.1.1 42210