# List of top-scoring protein chains for t2k-100-30-dssp-ehl2-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 2bh9A 489 4.42e-01 1b8zA 90 7.23e-01 1huuA a.55.1.1 17902 1tffA 234 8.49e-01 d.3.1.11 106854 1qs1A 462 8.97e-01 1qs1A d.166.1.1,d.166.1.1 42260,42261 1qs2A 401 9.38e-01 1qs1A d.166.1.1,d.166.1.1 42268,42269 1spgB 147 1.14e+00 1cg5B a.1.1.2 15588 1a16 440 1.51e+00 1az9 c.55.2.1,d.127.1.1 33548,41165 2fbwC 141 1.54e+00 1wgzA 510 1.66e+00 1wl9A 440 1.66e+00 2bwvA 440 1.67e+00 1az9 457 1.67e+00 1az9 c.55.2.1,d.127.1.1 33547,41164 1csn 298 2.29e+00 1csn d.144.1.7 41664 1sheA 103 2.43e+00 d.274.1.1 105551 1q3eA 207 2.59e+00 b.82.3.2 95669 1am4A 199 2.84e+00 1tx4A a.116.1.1 19100 1g291 372 2.97e+00 1g291 1yz7A 188 3.14e+00 2ahrA 259 3.92e+00 1gvhA 396 3.99e+00 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1tx4A 198 4.23e+00 1tx4A a.116.1.1 19098 1rwtA 232 4.31e+00 f.43.1.1 97992 1c9bA 207 4.87e+00 1tfb a.74.1.2,a.74.1.2 18372,18373 1mojA 182 5.61e+00 a.25.1.1 91367 1tjoA 182 5.61e+00 1v4xA 144 5.79e+00 a.1.1.2 108363 1nd6A 354 5.81e+00 c.60.1.2 80407 2hpaA 342 5.85e+00 1cviA c.60.1.2 33985 1cviA 342 6.02e+00 1cviA c.60.1.2 33989 2aaoA 166 6.12e+00 2fvhA 120 6.22e+00 1qy5A 269 6.66e+00 d.122.1.1 96573 1uor 585 6.81e+00 1bj5 a.126.1.1,a.126.1.1,a.126.1.1 19396,19397,19398 1volA 204 6.86e+00 1tfb a.74.1.2,a.74.1.2 18370,18371 1tc6A 236 6.96e+00 d.122.1.1 106756 1kz7A 353 7.06e+00 a.87.1.1,b.55.1.1 73333,73334 1bc5A 269 7.34e+00 1af7 a.58.1.1,c.66.1.8 17929,34204 1af7 274 7.51e+00 1af7 a.58.1.1,c.66.1.8 17928,34203 1qc7A 101 7.96e+00 1qc7A a.118.14.1 18456 1a41 234 8.25e+00 1a41 d.163.1.2 42174 1lj2A 110 8.57e+00 h.1.13.2 73926 1av1A 201 9.31e+00 1av1A h.5.1.1 45796 1jli 112 9.38e+00 1jli a.26.1.2 16884 2aelA 374 9.41e+00 2mgg 154 9.62e+00 1a6m a.1.1.2 15069 1nw2A 105 9.90e+00 c.47.1.1 92215 2scpA 174 1.00e+01 2scpA a.39.1.5 17256 102m 154 1.01e+01 1a6m a.1.1.2 15073 1urvA 190 1.07e+01 1ut0A 190 1.07e+01 a.1.1.2 108012 1a6m 151 1.09e+01 1a6m a.1.1.2 15018 2fflA 756 1.10e+01 1mbd 153 1.12e+01 1a6m a.1.1.2 15033 1r1hA 696 1.14e+01 d.92.1.4 104756 1bzpA 153 1.16e+01 1a6m a.1.1.2 15020 1a6g 151 1.19e+01 1a6m a.1.1.2 15021 103m 154 1.19e+01 1a6m a.1.1.2 15124 2spo 154 1.20e+01 1a6m a.1.1.2 15053 1mlg 154 1.26e+01 1a6m a.1.1.2 15104 1mod 154 1.26e+01 1a6m a.1.1.2 15107 1v1rA 400 1.26e+01 c.36.1.11 108272 1mym 154 1.28e+01 1a6m a.1.1.2 15054 1dbhA 354 1.29e+01 1awe a.87.1.1,b.55.1.1 18514,26967 1dwtA 153 1.31e+01 1a6m a.1.1.2 15190 2mgb 154 1.31e+01 1a6m a.1.1.2 15102 1mlo 154 1.31e+01 1a6m a.1.1.2 15085 1u8vA 490 1.32e+01 1myf 153 1.32e+01 1a6m a.1.1.2 15147 1gjnA 153 1.32e+01 a.1.1.2 70191 1mll 154 1.33e+01 1a6m a.1.1.2 15057 1or4A 178 1.33e+01 a.1.1.2 93447 1ab7 89 1.34e+01 1ay7B c.9.1.1 30835 1fxxA 482 1.36e+01 1fxxA c.55.3.5 33726 1xewX 182 1.37e+01 2spl 154 1.37e+01 1a6m a.1.1.2 15047 1nswA 105 1.39e+01 c.47.1.1 92097 2f94F 350 1.40e+01 1mgn 154 1.43e+01 1a6m a.1.1.2 15097 1hi0P 664 1.52e+01 1hi0P e.8.1.6 61051 1ev7B 317 1.53e+01 1ev7B c.52.1.9 33316 1iawA 317 1.53e+01 c.52.1.9 62126 1hhsA 664 1.53e+01 1hi0P e.8.1.6 61045 1vgmA 378 1.54e+01 1dmtA 696 1.54e+01 1dmtA d.92.1.4 40296 2anuA 255 1.56e+01 1uvjA 664 1.67e+01 e.8.1.6 100045 1iq8A 582 1.81e+01 c.1.20.1,b.122.1.1,d.17.6.1 71270,83074,83075 1rw6A 210 1.82e+01 a.47.4.1 105113 1jfgA 374 1.82e+01 a.128.1.5 66636 1wmuA 141 1.86e+01 a.1.1.2 109416 1xl7A 612 1.91e+01 1gpmA 525 1.92e+01 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1dh3A 55 1.95e+01 1a02J h.1.3.1 45546 1rcwA 231 2.02e+01 a.132.1.4 97299 1ab4 477 2.09e+01 1ab4 e.11.1.1 43251 1x7yA 400 2.11e+01 1y14A 187 2.19e+01 1b27D 90 2.20e+01 1ay7B c.9.1.1 30840 1pnkA 209 2.26e+01 1ajqA d.153.1.2 41839 2g7lA 243 2.26e+01 1pii 452 2.29e+01 1pii c.1.2.4,c.1.2.4 28559,28563 1khoA 370 2.30e+01 a.124.1.1,b.12.1.3 72489,72490 1yv5A 374 2.35e+01 1gm7A 209 2.35e+01 d.153.1.2 65302 1yyqA 374 2.36e+01 1q8dA 108 2.36e+01 a.228.1.1 104554 1z4eA 153 2.40e+01 1rcsA 105 2.45e+01 1jhgA a.4.12.1 19025 1wnfA 328 2.47e+01 1e3aA 260 2.49e+01 1ajqA d.153.1.2 41838 1bob 320 2.50e+01 1bob d.108.1.1 40816 1vpmA 169 2.52e+01 1fmhB 33 2.56e+01 1fmhB k.6.1.1 46410 1yq7A 374 2.57e+01 1ev7A 317 2.70e+01 1ev7B c.52.1.9 33315 1ajqA 209 2.79e+01 1ajqA d.153.1.2 41840 1tia 279 2.83e+01 3tgl c.69.1.17 34737 1jhgA 101 2.84e+01 1jhgA a.4.12.1 19009 1gk9A 260 2.89e+01 d.153.1.2 65246 1j34A 129 2.90e+01 d.169.1.1 84048 1tq8A 163 2.92e+01 c.26.2.4 107204 1r2zA 274 2.97e+01 a.156.1.2,b.113.1.1,g.39.1.8 96892,96893,96894 1s2xA 206 3.05e+01 a.47.3.1 105229 1k8kA 418 3.05e+01 c.55.1.1,c.55.1.1 68305,68306 1rprA 63 3.06e+01 1nkd a.30.1.1 16989 1f75A 249 3.08e+01 1f75A c.101.1.1 59662 1colA 204 3.09e+01 1a87 f.1.1.1 43378 1z47A 355 3.09e+01 1q1aA 289 3.18e+01 c.31.1.5 95561 1bxnA 485 3.24e+01 1burA c.1.14.1,d.58.9.1 29376,39282 1or0A 160 3.28e+01 d.153.1.2 93445 1brsD 89 3.40e+01 1ay7B c.9.1.1 30825 1chrA 370 3.51e+01 1mucA c.1.11.2,d.54.1.1 29252,38896 1fiuA 286 3.55e+01 1fiuA c.52.1.10 33317 1jfaA 374 3.65e+01 a.128.1.5 66622 1fm2A 169 3.67e+01 1fm2A d.153.1.2 59877 1kiyA 374 3.68e+01 a.128.1.5 72555 1qddA 144 3.78e+01 1qddA d.169.1.1 42324 1xqwA 293 3.82e+01 1xo1A 291 3.83e+01 1exnA a.60.7.1,c.120.1.2 18086,33356 1n1cA 217 3.90e+01 a.184.1.1 85254 1ew6B 137 3.95e+01 1ewaA a.1.1.2 15638 1kshA 186 3.96e+01 c.37.1.8 72914 1abwA 283 3.96e+01 1abwA a.1.1.2,a.1.1.2 15288,15289 1nox 205 4.04e+01 1nox d.90.1.1 40242 1l1zA 274 4.06e+01 a.156.1.2,b.113.1.1,g.39.1.8 75911,75912,75913 1o5zA 442 4.07e+01 c.59.1.2,c.72.2.2 92530,92531 1wlsA 328 4.08e+01 1mtzA 293 4.16e+01 c.69.1.7 79467 1t98A 287 4.16e+01 1vpqA 273 4.19e+01 1t9kA 347 4.19e+01 c.124.1.5 106721 1zoyC 140 4.22e+01 1ai7A 209 4.23e+01 1ajqA d.153.1.2 41845 1l2lA 457 4.32e+01 c.72.1.3 77656 1a19A 90 4.35e+01 1ay7B c.9.1.1 30831 1b3sD 90 4.37e+01 1ay7B c.9.1.1 30846 1l9hA 349 4.37e+01 f.13.1.2 73720 1u19A 349 4.45e+01 1lit 144 4.48e+01 1qddA d.169.1.1 42325 2fbmA 291 4.51e+01 2sas 185 4.53e+01 2sas a.39.1.5 17258 1vz6A 393 4.59e+01 d.154.1.2 108949 2eboA 74 4.62e+01 2eboA h.3.2.1 45754 1wu9A 80 4.62e+01 1gqeA 365 4.69e+01 e.38.1.1 70351 1babA 143 4.73e+01 1abwA a.1.1.2 15235 1olsA 400 4.74e+01 c.36.1.11 93331 1zowA 313 4.76e+01 1mr8A 93 4.86e+01 1b4cA a.39.1.2 17186 1qgrA 876 4.88e+01 1qgrA a.118.1.1 19119 1yagA 375 4.90e+01 1yagA c.55.1.1,c.55.1.1 33449,33450 1lq7A 67 4.97e+01 k.9.1.1 74183 1v9dA 340 5.03e+01 a.207.1.1 100535 1qh8B 519 5.05e+01 1qguB c.92.2.3 35634 1eluB 390 5.08e+01 1elqA c.67.1.3 34435 1fx8A 281 5.08e+01 f.19.1.1 43651 1ki1B 352 5.09e+01 a.87.1.1,b.55.1.1 72497,72498 1elqA 390 5.09e+01 1elqA c.67.1.3 34436 1eluA 390 5.09e+01 1elqA c.67.1.3 34434 1ds4A 292 5.11e+01 1ryc a.93.1.1 59129 1dseA 292 5.14e+01 1ryc a.93.1.1 59130 1qguB 519 5.15e+01 1qguB c.92.2.3 35626 1f88A 348 5.16e+01 1f88A f.13.1.2 43429 1jqjC 343 5.16e+01 a.80.1.1,c.37.1.20 67097,67098 1clc 639 5.18e+01 1clc a.102.1.2,b.1.18.2 18835,21872 1ryc 294 5.18e+01 1ryc a.93.1.1 18601 1b2uD 90 5.22e+01 1ay7B c.9.1.1 30843 1a4fA 141 5.26e+01 1abwA a.1.1.2 15394 1b2sD 90 5.26e+01 1ay7B c.9.1.1 30837 2bfdA 400 5.29e+01 1xk4A 93 5.29e+01 2fd5A 180 5.40e+01 1euhA 475 5.43e+01 1euhA c.82.1.1 35369 1ew6A 137 5.44e+01 1ewaA a.1.1.2 15637 1ewaA 137 5.44e+01 1ewaA a.1.1.2 15639 1u61A 138 5.47e+01 a.149.1.1 107696 1hzxA 349 5.50e+01 1f88A f.13.1.2 61466 2fh5A 185 5.54e+01 1nwzA 125 5.55e+01 d.110.3.1 86370 3pyp 125 5.55e+01 3pyp d.110.3.1 40897 1rpa 342 5.59e+01 1cviA c.60.1.2 33983 2ex3B 264 5.60e+01 1g5aA 628 5.68e+01 b.71.1.1,c.1.8.1 65152,65153 1qghA 156 5.70e+01 1qghA a.25.1.1 16728 1aszB 490 5.72e+01 1b8aA b.40.4.1,d.104.1.1 25241,40762 1qi6A 475 5.82e+01 1euhA c.82.1.1 35373 1wc3A 219 5.82e+01 1hdsB 145 5.87e+01 1abwA a.1.1.2 15557 2b8wA 328 5.88e+01 1a2f 291 5.89e+01 1ryc a.93.1.1 18619 2eutA 294 5.90e+01 1ccg 291 5.97e+01 1ryc a.93.1.1 18627 1a2g 291 5.99e+01 1ryc a.93.1.1 18620 1eni 138 6.02e+01 2end a.18.1.1 16403 1ft1A 377 6.03e+01 1ft1A a.118.6.1 19186 1pah 308 6.04e+01 4pah d.178.1.1 42578 1htmB 138 6.06e+01 1htmB h.3.1.1 45677 1wy0A 342 6.10e+01 1j8uA 325 6.11e+01 d.178.1.1 71611 1qsdA 106 6.17e+01 1qsdA a.7.5.1 16335 1uroA 367 6.18e+01 1uroA c.1.22.1 29675 2d2yA 145 6.18e+01 1bfd 528 6.19e+01 1bfd c.31.1.3,c.36.1.5,c.36.1.9 31745,31801,31802 1ixxA 129 6.25e+01 1ixxB d.169.1.1 42335 1r3sA 367 6.26e+01 c.1.22.1 96963 1a59 378 6.27e+01 1aj8A a.103.1.1 18902 1vprA 374 6.28e+01 1z53A 294 6.28e+01 1asyA 490 6.29e+01 1b8aA b.40.4.1,d.104.1.1 25242,40763 1zbyA 294 6.29e+01 1tfb 208 6.30e+01 1tfb a.74.1.2,a.74.1.2 18382,18383 1jdrA 294 6.30e+01 1ryc a.93.1.1 62908 1j7yA 141 6.37e+01 a.1.1.2 66426 1chuA 540 6.37e+01 1chuA a.7.3.1,c.3.1.4,d.168.1.1 16325,30424,42307 1ay7B 89 6.39e+01 1ay7B c.9.1.1 30836 2cyp 294 6.42e+01 1ryc a.93.1.1 18600 2wrpR 107 6.42e+01 1jhgA a.4.12.1 19010 1ac4 294 6.48e+01 1ryc a.93.1.1 18657 1wtyA 119 6.48e+01 1yt3A 375 6.51e+01 1dmwA 307 6.56e+01 4pah d.178.1.1 42580 1jq0A 84 6.67e+01 h.3.2.1 71786 1vasA 137 6.67e+01 2end a.18.1.1 16404 4pah 308 6.69e+01 4pah d.178.1.1 42576 1lk9A 448 6.70e+01 c.67.1.1 78057 1enj 138 6.77e+01 2end a.18.1.1 16401 1q5yA 85 6.79e+01 d.58.18.4 95950 1vkmA 297 6.79e+01 c.138.1.1 108670 1dgaA 375 6.81e+01 1yagA 1ihfB 94 6.87e+01 1huuA a.55.1.1 17894 1fo3A 460 6.88e+01 1dl2A a.102.2.1 18845 1chkA 238 6.90e+01 1chkA d.2.1.7 36999 2btfA 375 6.92e+01 1yagA c.55.1.1,c.55.1.1 33429,33430 1nm2A 317 6.96e+01 c.19.1.1,d.58.23.1 80654,80655 1yzhA 214 6.98e+01 1w9yA 319 6.99e+01 1q6zA 528 7.03e+01 1jhsA 188 7.04e+01 d.107.1.1 84172 1ca1 370 7.07e+01 1ca1 a.124.1.1,b.12.1.3 19340,23648 2dh4A 340 7.17e+01 1u35C 120 7.19e+01 2a2cA 478 7.23e+01 1qu1A 155 7.29e+01 1qu1A h.3.1.1 45670 1uz3A 102 7.31e+01 2a2dA 478 7.33e+01 1x9dA 538 7.34e+01 1twfB 1224 7.56e+01 1na3A 91 7.58e+01 k.38.1.1 85481 1ovoA 56 7.58e+01 2ovo g.68.1.1 44697 1owfB 94 7.67e+01 a.55.1.1 87488 1mkrA 294 7.69e+01 a.93.1.1 84997 1d4xA 375 7.78e+01 1yagA c.55.1.1,c.55.1.1 59107,59108 1as0 353 7.83e+01 1cipA a.66.1.1,c.37.1.8 18212,32095 1mw5A 187 7.85e+01 d.259.1.1 91477 1sgpI 51 7.85e+01 2ovo g.68.1.1 44678 1cjbA 231 7.86e+01 1qk3A c.61.1.1 34079 1r0rI 51 7.86e+01 g.68.1.1 96736 1kb9C 385 7.89e+01 f.32.1.1,f.21.1.2 77315,77316 1aj9A 141 7.89e+01 1abwA a.1.1.2 15332 1w9cA 321 7.94e+01 1atnA 373 7.96e+01 1yagA c.55.1.1,c.55.1.1 33437,33438 2bx2L 517 8.00e+01 1ezvC 385 8.00e+01 1be3C f.32.1.1,f.21.1.2 75833,75834 2phy 125 8.01e+01 3pyp d.110.3.1 40901 1jgtA 513 8.09e+01 c.26.2.1,d.153.1.1 66684,66685 1o89A 345 8.21e+01 b.35.1.2,c.2.1.1 92644,92645 1tn6A 382 8.21e+01 2ovo 56 8.21e+01 2ovo g.68.1.1 44701 1jr3E 334 8.25e+01 a.80.1.1,c.37.1.20 63253,63254 1j6zA 376 8.26e+01 1yagA c.55.1.1,c.55.1.1 62667,62668 1h1wA 289 8.28e+01 d.144.1.7 83460 2c9lY 63 8.28e+01 1wuaA 375 8.35e+01 1v4xB 146 8.37e+01 a.1.1.2 108364 1qz5A 375 8.38e+01 c.55.1.1,c.55.1.1 96614,96615 2c2aA 258 8.39e+01 1ywfA 296 8.45e+01 2fxuA 375 8.49e+01 3sgbI 56 8.50e+01 2ovo g.68.1.1 44679 1utuA 108 8.51e+01 1ldfA 281 8.55e+01 f.19.1.1 73845 1u2kA 309 8.56e+01 1emy 153 8.76e+01 1a6m a.1.1.2 15204 1aq6A 253 8.80e+01 1qq5A c.108.1.1 43331 1huuA 90 8.83e+01 1huuA a.55.1.1 17897 1ofgA 381 8.86e+01 1ofgA c.2.1.3,d.81.1.5 30064,39979 1v8cA 168 8.91e+01 d.15.3.1,d.129.5.1 100495,100496 1drw 273 8.92e+01 1drw c.2.1.3,d.81.1.3 30057,39972 1yl31 118 8.94e+01 1va4A 279 8.95e+01 c.69.1.12 108458 2ch7A 309 8.96e+01 1b6q 63 8.98e+01 1nkd a.30.1.1 16977 1uu3A 310 8.98e+01 d.144.1.7 99999 1iseA 185 8.98e+01 d.67.3.1 90691