# List of top-scoring protein chains for t2k-100-30-str2-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 7.32e-11 1rxqA 178 4.06e-02 a.213.1.1 105118 1l3pA 102 9.37e-01 a.24.17.1 84520 1nw3A 416 1.16e+00 c.66.1.31 86288 1r71A 178 1.69e+00 a.4.14.1 104823 2bzlA 325 2.71e+00 1z0xA 220 3.06e+00 2b0tA 738 3.81e+00 1exzA 141 4.50e+00 1exzA a.26.1.2 16877 1fp3A 402 4.54e+00 1fp3A a.102.1.3 18842 1o17A 345 5.58e+00 a.46.2.1,c.27.1.1 80765,80766 1jj7A 260 5.79e+00 c.37.1.12 63114 1s5lE 84 5.99e+00 2axtE 84 6.15e+00 1yarO 237 6.63e+00 5eat 548 6.83e+00 5eat a.102.4.1,a.128.1.3 18853,19445 2bg9A 370 7.21e+00 1f8nA 839 7.47e+00 1yge a.119.1.1,b.12.1.1 59703,59704 1iw7C 1119 7.72e+00 e.29.1.1 71474 1fgqA 839 7.97e+00 1yge a.119.1.1,b.12.1.1 59826,59827 1yge 839 8.00e+00 1yge a.119.1.1,b.12.1.1 19234,23634 2a6hC 1119 8.13e+00 1r2rA 248 8.68e+00 c.1.1.1 96875 1a7m 180 9.09e+00 1lki a.26.1.1 16830 1ui5A 215 9.37e+00 a.4.1.9,a.121.1.1 107856,107857 1afrA 345 9.53e+00 1afrA a.25.1.2 16805 1oq9A 363 9.56e+00 a.25.1.2 87257 1mngA 203 1.05e+01 1avmA a.2.11.1,d.44.1.1 15776,38701 2g7sA 194 1.06e+01 3ladA 476 1.07e+01 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30573,30574,40208 1qqtA 551 1.09e+01 1qqtA a.27.1.1,c.26.1.1,g.41.1.1 16923,31590,45175 1jx4A 352 1.18e+01 d.240.1.1,e.8.1.7 90378,90379 2czlA 272 1.19e+01 1xg1A 67 1.22e+01 5eau 548 1.23e+01 5eat a.102.4.1,a.128.1.3 18851,19443 2fh5A 185 1.26e+01 1xahA 354 1.28e+01 1le6A 123 1.39e+01 a.133.1.2 73862 1ljrA 244 1.42e+01 1ljrA a.45.1.1,c.47.1.5 17707,33001 1jweA 114 1.42e+01 1b79A a.81.1.1 18455 1biqA 375 1.46e+01 1xikA a.25.1.2 16786 1on2A 142 1.47e+01 a.4.5.24,a.76.1.1 87103,87104 1f7lA 121 1.50e+01 1f7lA d.150.1.2 59666 3ertA 261 1.56e+01 3erdA a.123.1.1 19292 1q6cA 495 1.57e+01 c.1.8.1 95970 1aw2A 256 1.58e+01 1amk c.1.1.1 28523 1ahxA 396 1.61e+01 1ajsA c.67.1.1 34293 1fmcA 255 1.66e+01 1cydA c.2.1.2 29856 1aw1A 256 1.71e+01 1amk c.1.1.1 28515 1gx3A 284 1.71e+01 d.3.1.5 70678 1ariA 396 1.79e+01 1ajsA c.67.1.1 34331 1ayl 541 1.81e+01 1ayl c.91.1.1,c.109.1.1 64718,64719 1f4tA 368 1.81e+01 1f4tA a.104.1.1 18973 1wdpA 495 1.82e+01 1pi1A 185 1.84e+01 a.29.7.1 94699 1syyA 346 1.86e+01 a.25.1.2 106126 1o5hA 214 1.86e+01 a.191.1.1 92497 1kmiZ 214 1.89e+01 h.4.11.1 72752 1f7tA 122 1.93e+01 1f7lA d.150.1.2 59667 1w0uA 55 1.94e+01 1lrrA 131 1.96e+01 d.228.1.1 78165 1hiwA 133 1.96e+01 1hiwA a.61.1.1 18122 2fv1A 377 1.97e+01 1wv2A 265 2.01e+01 1ekeA 230 2.02e+01 1ekeA c.55.3.1 33572 2d29A 387 2.03e+01 1vd5A 377 2.03e+01 a.102.1.7 108518 2esnA 310 2.07e+01 1wkyA 464 2.10e+01 1v3hA 495 2.12e+01 c.1.8.1 108303 1d2fA 390 2.15e+01 1d2fA c.67.1.3 34411 2cx9A 387 2.16e+01 1jchA 551 2.17e+01 b.101.1.1,b.110.1.1,h.4.9.1 66491,66492,66493 1jchC 551 2.17e+01 b.101.1.1,b.110.1.1,h.4.9.1 66495,66496,66497 1wmuB 146 2.18e+01 a.1.1.2 109417 1f2eA 201 2.18e+01 1a0fA a.45.1.1,c.47.1.5 17745,33039 1br2A 791 2.20e+01 1lvk b.34.3.1,c.37.1.9 24558,32155 1t4bA 367 2.22e+01 c.2.1.3,d.81.1.1 106406,106407 1p1xA 260 2.22e+01 c.1.10.1 104060 1kiyA 374 2.26e+01 a.128.1.5 72555 1sl8A 191 2.27e+01 1byb 495 2.27e+01 1byb c.1.8.1 28790 1b79A 119 2.34e+01 1b79A a.81.1.1 18451 1w5rA 278 2.35e+01 2fal 147 2.36e+01 2fal a.1.1.2 15150 1adjA 421 2.40e+01 1adjA c.51.1.1,d.104.1.1 33188,40737 2b61A 377 2.41e+01 1ehkA 562 2.43e+01 1ehkA f.24.1.1 43624 1s1eA 224 2.43e+01 1asg 396 2.44e+01 1ajsA c.67.1.1 34335 1ef8A 261 2.47e+01 1ef8A c.14.1.3 30921 1z6oM 191 2.49e+01 1kl7A 514 2.50e+01 c.79.1.1 72678 1mba 147 2.50e+01 2fal a.1.1.2 15149 1qisA 396 2.50e+01 1ajsA c.67.1.1 34284 1jclA 260 2.53e+01 c.1.10.1 66501 1mioA 534 2.56e+01 1qguA c.92.2.3 35601 1art 396 2.57e+01 1ajsA c.67.1.1 34285 1ws9A 387 2.58e+01 1aiaA 396 2.64e+01 1ajsA c.67.1.1 34306 2bb6A 414 2.72e+01 1arhA 396 2.74e+01 1ajsA c.67.1.1 34321 1gd8A 118 2.92e+01 d.188.1.1 60445 1qdbA 473 2.93e+01 1qdbA a.138.1.3 19688 1jfaA 374 2.93e+01 a.128.1.5 66622 1ghpA 258 2.94e+01 1btl e.3.1.1 60520 2afaA 425 2.95e+01 1jfgA 374 2.95e+01 a.128.1.5 66636 1dm1A 146 3.02e+01 2fal a.1.1.2 15153 1yyqA 374 3.04e+01 1w5cE 84 3.05e+01 1ej3A 191 3.07e+01 1ej3A a.39.1.5 17259 1tph1 247 3.09e+01 1amk 1ux5A 411 3.09e+01 a.207.1.1 100144 1xmeA 568 3.12e+01 1s4kA 120 3.13e+01 a.35.1.6 105254 1xikA 375 3.14e+01 1xikA a.25.1.2 16784 1ezfA 340 3.26e+01 1ezfA a.128.1.2 19440 1ykjA 394 3.31e+01 1zhxA 438 3.34e+01 1yucA 255 3.35e+01 3erdA 261 3.50e+01 3erdA a.123.1.1 19293 1zk7A 467 3.53e+01 1xpcA 248 3.53e+01 1uhkA 191 3.53e+01 1hmvB 440 3.56e+01 1rthA e.8.1.2 43047 1l8cA 95 3.64e+01 g.53.1.1 73685 1kw4A 89 3.76e+01 a.60.1.2 73077 1ku2A 241 3.78e+01 a.4.13.1,a.177.1.1 83096,83097 1mh3A 421 3.80e+01 a.4.1.1,c.94.1.1 79112,79113 1gosA 520 3.81e+01 c.3.1.2,d.16.1.5 65425,65426 3nodB 423 3.87e+01 1nseA d.174.1.1 42513 2genA 197 3.88e+01 1sw6A 327 3.97e+01 1sw6A d.211.1.1 19176 1jb1A 205 3.97e+01 1jb1A c.91.1.2 62832 2hbtA 247 3.98e+01 1tt7A 330 4.00e+01 1dtoA 221 4.12e+01 1dtoA b.91.1.1 28405 2abk 211 4.12e+01 2abk a.96.1.1 18743 1k8kA 418 4.12e+01 c.55.1.1,c.55.1.1 68305,68306 1spa 396 4.13e+01 1ajsA c.67.1.1 34291 2g19A 244 4.14e+01 1lrv 244 4.15e+01 1lrv a.118.1.5 19146 1jqcA 375 4.20e+01 1xikA a.25.1.2 63229 1dl2A 511 4.28e+01 1dl2A a.102.2.1 18844 1a52A 258 4.34e+01 3erdA a.123.1.1 19296 1go4A 205 4.39e+01 d.135.1.1 70292 1pioA 257 4.39e+01 1btl e.3.1.1 42719 2phh 394 4.47e+01 1pbe c.3.1.2,d.16.1.2 30353,37884 1bolA 222 4.50e+01 1bolA d.124.1.1 41120 1xm3A 264 4.56e+01 1oyzA 280 4.60e+01 a.118.1.16 93775 1reqD 637 4.61e+01 1reqB c.1.19.1,c.23.6.1 29623,31250 1ylhA 560 4.61e+01 1ikpA 613 4.69e+01 b.29.1.7,d.166.1.1,f.1.5.1 66182,66183,66184 1xdpA 687 4.70e+01 1zavA 180 4.70e+01 1ktpB 172 4.73e+01 a.1.1.3 72991 1b47A 304 4.73e+01 2cblA a.39.1.7,a.48.1.1,d.93.1.1 17381,17775,40529 1mxrA 375 4.77e+01 a.25.1.2 85197 2a65A 519 4.79e+01 1ppjH 78 4.81e+01 f.28.1.1 104264 2afdA 88 4.85e+01 1br0A 120 4.86e+01 a.47.2.1 17772 1rovA 857 4.88e+01 a.119.1.1,b.12.1.1 97674,97675 1ars 396 4.89e+01 1ajsA c.67.1.1 34287 1ahr 146 4.89e+01 1cll a.39.1.5 17287 1i6pA 220 4.90e+01 1ddzA c.53.2.1 61848 1eemA 241 4.93e+01 1eemA a.45.1.1,c.47.1.5 17717,33011 1ribA 375 4.93e+01 1xikA a.25.1.2 16788 1y8oA 419 4.94e+01 2fjbA 643 4.96e+01 1cj3A 392 5.02e+01 1pbe c.3.1.2,d.16.1.2 30347,37878 1jboB 172 5.12e+01 a.1.1.3 84151 1z8uA 102 5.12e+01 1uohA 226 5.14e+01 d.211.1.1 99690 1xuuA 349 5.15e+01 2c43A 323 5.18e+01 1cpcB 172 5.28e+01 1qgwC a.1.1.3 15644 1v4aA 440 5.30e+01 a.24.16.4,d.218.1.9 108350,108351 1rlkA 117 5.32e+01 c.131.1.1 97651 1bgj 394 5.33e+01 1pbe c.3.1.2,d.16.1.2 30352,37883 1cpcL 172 5.35e+01 1qgwC a.1.1.3 15646 1xrjA 261 5.49e+01 1k0iA 394 5.50e+01 c.3.1.2,d.16.1.2 67942,67943 1inzA 148 5.63e+01 1eduA a.118.9.1 62610 1z8oA 404 5.65e+01 1fs7A 485 5.66e+01 1qdbA a.138.1.3 19691 1bmtA 246 5.73e+01 1bmtA a.46.1.1,c.23.6.1 17757,31235 1l2iA 261 5.77e+01 a.123.1.1 73503 1lki 180 5.88e+01 1lki a.26.1.1 16829 1dgjA 907 6.01e+01 1alo a.56.1.1,d.15.4.2,d.41.1.1,d.133.1.1 17909,37694,38585,41415 1j8yF 297 6.08e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1s9rA 410 6.21e+01 d.126.1.4 98758 2fwtA 125 6.25e+01 1h4vB 421 6.25e+01 1adjA c.51.1.1,d.104.1.1 60624,60625 1mtpA 323 6.41e+01 e.1.1.1 85107 1s5lF 45 6.42e+01 1pbe 394 6.56e+01 1pbe c.3.1.2,d.16.1.2 30338,37869 1hlvA 131 6.56e+01 a.4.1.7,a.4.1.7 65854,65855 1q7sA 117 6.59e+01 c.131.1.1 96055 1yhtA 367 6.59e+01 1mwmA 320 6.65e+01 c.55.1.1,c.55.1.1 79580,79581 1l6nA 289 6.65e+01 a.61.1.1,a.73.1.1 73624,73625 1lkxA 697 6.76e+01 c.37.1.9 73981 1ithA 141 6.79e+01 1ithA a.1.1.2 15623 1n55A 251 6.81e+01 c.1.1.1 80007 1av8A 340 6.84e+01 1xikA a.25.1.2 16796 1phnB 172 6.96e+01 1qgwC a.1.1.3 15642 3blm 257 6.96e+01 1btl e.3.1.1 42709 1wusA 180 6.98e+01 2chnA 716 6.98e+01 1o5xA 248 7.06e+01 c.1.1.1 92528 2g2dA 193 7.09e+01 1lxyA 409 7.11e+01 d.126.1.4 91154 2gz4A 207 7.12e+01 1kptA 105 7.13e+01 1kptA d.70.1.1 39588 1lkvX 232 7.16e+01 a.118.14.1 73980 1yirA 408 7.17e+01 1hv2A 99 7.18e+01 d.42.1.1 61287 1idpA 172 7.22e+01 d.17.4.1 83685 2exrA 524 7.25e+01 1nkpB 83 7.33e+01 a.38.1.1 80574 1ug1A 92 7.34e+01 b.34.2.1 99360 1alq 266 7.36e+01 1btl e.3.1.1 42707 2f7fA 494 7.39e+01 1nhyA 219 7.44e+01 a.45.1.1,c.47.1.5 80520,80521 1ydgA 211 7.45e+01 1ju2A 536 7.51e+01 c.3.1.2,d.16.1.1 77169,77170 1jnrA 643 7.54e+01 a.7.3.1,c.3.1.4,d.168.1.1 66966,66967,66968 1lvl 458 7.55e+01 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30567,30568,40205 1aokA 122 7.60e+01 1poa a.133.1.2 19560 1lyxA 248 7.61e+01 c.1.1.1 78304 1b0nA 111 7.62e+01 1b0nA a.34.1.1,a.35.1.3 17001,17064 1ghr 306 7.63e+01 1aq0A c.1.8.3 28844 1b1yA 500 7.68e+01 1byb c.1.8.1 28796 1wq3A 322 7.71e+01 1sjwA 144 7.73e+01 d.17.4.9 98899 1j8mF 297 7.75e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1b8aA 438 7.81e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1hzdA 272 7.83e+01 c.14.1.3 65969 2go7A 207 7.84e+01 1ymmB 198 7.86e+01 1j99A 293 7.87e+01 c.37.1.5 71618 1tazA 365 7.91e+01 a.211.1.2 106734 1aq0A 306 7.96e+01 1aq0A c.1.8.3 28842 1t56A 216 7.99e+01 a.4.1.9,a.121.1.1 106428,106429 1klxA 138 8.02e+01 a.118.18.1 77440 1z8sA 146 8.08e+01 1xw2A 405 8.08e+01 2fq4A 192 8.09e+01 1hniB 427 8.16e+01 1rthA e.8.1.2 43045 1std 172 8.18e+01 3stdA d.17.4.1 38089 1ud0A 113 8.21e+01 a.8.4.1 99198 1amk 251 8.35e+01 1amk c.1.1.1 28503 2occI 73 8.39e+01 2occI f.23.3.1 43523 1bco 327 8.41e+01 1bco b.48.1.1,c.55.3.3 26431,33676 1tn4 159 8.41e+01 1ncx a.39.1.5 17248 1xwtA 405 8.47e+01 2choA 716 8.48e+01 2amlA 373 8.49e+01 2bydA 323 8.57e+01 1z2mA 155 8.68e+01 1ez3A 127 8.69e+01 1dn1B a.47.2.1 17768 2awiA 317 8.70e+01 1qoxN 449 8.71e+01 1qoxN c.1.8.4 28978 1a41 234 8.72e+01 1a41 d.163.1.2 42174 2aelA 374 8.76e+01 1wlxA 129 8.85e+01 1h12A 405 8.92e+01 a.102.1.2 83447