# 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 1v7lA 163 2.68e-03 2gp4A 628 4.60e-03 1kqfA 1015 3.62e-01 b.52.2.2,c.81.1.1 72871,72872 1q7hA 153 1.11e+00 b.122.1.1,d.17.6.2 96042,96043 1ivyA 452 1.41e+00 1ivyA c.69.1.5 34654 1amx 180 1.71e+00 1amx b.2.3.1 22410 1zxfA 155 1.96e+00 1jztA 246 2.38e+00 c.104.1.1 63319 1fivA 113 4.05e+00 1fmb b.50.1.1 26764 1i1dA 161 4.69e+00 1i21A d.108.1.1 61526 1i21A 159 4.70e+00 1i21A d.108.1.1 61549 1i12A 160 4.82e+00 1i21A d.108.1.1 61515 1kl9A 182 5.15e+00 b.40.4.5 72681 1k28A 584 5.37e+00 b.40.8.1,b.108.1.2,d.2.1.3 68049,68050,68051 1w4xA 542 5.47e+00 c.3.1.5,c.3.1.5 109171,109172 1fx2A 235 5.56e+00 1fx2A d.58.29.1 39430 1fx4A 231 5.89e+00 1fx2A d.58.29.1 39431 1yavA 159 6.48e+00 1zoyA 622 6.99e+00 1r6xA 395 7.07e+00 b.122.1.3,c.26.1.5 97167,97168 1uv4A 293 7.16e+00 2bnfB 241 7.37e+00 1v8bA 479 7.61e+00 1h59B 54 7.64e+00 g.3.9.1 70881 1mjgM 729 7.65e+00 e.26.1.3 79204 1qsvA 101 7.78e+00 1fltX b.1.1.4 21771 2gjgA 248 8.12e+00 1zx8A 136 8.70e+00 1lucB 324 8.92e+00 1lucA c.1.16.1 29548 1uebA 184 9.45e+00 b.34.5.2,b.40.4.5,b.40.4.5 107782,107783,107784 1wocA 103 9.86e+00 1te7A 103 1.08e+01 1rkxA 357 1.08e+01 c.2.1.2 97631 1nbwA 607 1.10e+01 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 2bikB 313 1.14e+01 2napA 723 1.20e+01 2napA b.52.2.2,c.81.1.1 26926,35334 1fltX 95 1.21e+01 1fltX b.1.1.4 21765 1kblA 873 1.24e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1qtyT 101 1.24e+01 1fltX b.1.1.4 21769 1nfp 228 1.27e+01 1nfp c.1.16.2 29555 1luzA 88 1.27e+01 b.40.4.5 74271 1p8xA 344 1.29e+01 d.109.1.1,d.109.1.1,d.109.1.1 94365,94366,94367 1xmbA 418 1.32e+01 2ffeA 311 1.39e+01 1xwsA 313 1.39e+01 1fltY 95 1.40e+01 1fltX b.1.1.4 21766 1yz4A 160 1.41e+01 1ynpA 317 1.43e+01 1lgpA 116 1.48e+01 b.26.1.2 73890 1oaoC 729 1.56e+01 e.26.1.3 86746 2fivA 116 1.57e+01 1fmb b.50.1.1 26766 1ws0A 156 1.60e+01 1kcqA 104 1.66e+01 d.109.1.1 68449 1brlB 324 1.66e+01 1lucA c.1.16.1 29554 1b7bA 310 1.68e+01 1b7bA c.73.1.1 34963 1wvgA 359 1.71e+01 1sro 76 1.74e+01 1sro b.40.4.5 25327 4fiv 113 1.75e+01 1fmb b.50.1.1 26762 2bneA 241 1.77e+01 1tx2A 297 1.78e+01 c.1.21.1 107420 2fh1A 344 1.81e+01 2go3A 267 1.82e+01 1p42A 270 1.82e+01 d.14.1.7,d.14.1.7 87754,87755 2bokA 241 1.83e+01 1h0hA 977 1.85e+01 b.52.2.2,c.81.1.1 76435,76436 1ru3A 732 1.92e+01 e.26.1.3 97835 1v74A 107 1.93e+01 d.243.1.1 100442 1ju3A 583 1.93e+01 b.18.1.13,c.69.1.21 67300,67301 1a6vH 120 1.94e+01 1mfa b.1.1.1 20257 1mjuH 227 1.94e+01 b.1.1.1,b.1.1.2 91302,91303 1xu9A 286 1.94e+01 1ahjB 212 1.97e+01 2ahjB b.34.4.4 24601 1ireB 228 1.99e+01 b.34.4.4 76770 1f2tB 148 1.99e+01 1f2tB 1dmr 823 1.99e+01 1dmr b.52.2.2,c.81.1.1 26904,35312 1svy 114 1.99e+01 1svy d.109.1.1 40831 1b1zA 219 2.05e+01 3seb b.40.2.2,d.15.6.1 25216,37805 1ugpB 226 2.06e+01 b.34.4.4 107832 1vajA 214 2.06e+01 1rylA 167 2.07e+01 d.276.1.1 105124 1am1 213 2.10e+01 1yer d.122.1.1 41095 1b6e 128 2.11e+01 1b6e d.169.1.1 42326 2d27A 149 2.12e+01 1tuaA 191 2.14e+01 d.51.1.1,d.51.1.1 107321,107322 1a9nA 176 2.18e+01 1a9nA c.10.2.4 30875 1ah6 220 2.19e+01 1yer d.122.1.1 41094 1b34B 118 2.21e+01 1b34B b.38.1.1 24797 2a19A 175 2.23e+01 1tap 60 2.23e+01 1kigI g.8.1.2 44569 1iz6A 138 2.27e+01 b.34.5.2,b.40.4.5 76976,76977 1f02T 66 2.36e+01 1f02T j.67.1.1 46360 1g8fA 511 2.39e+01 1g8fA b.122.1.3,c.26.1.5,c.37.1.15 60348,60349,60350 1huuA 90 2.40e+01 1huuA a.55.1.1 17897 1x7dA 350 2.43e+01 1amw 214 2.51e+01 1yer d.122.1.1 41093 3fivA 116 2.55e+01 1fmb b.50.1.1 26768 2brcA 214 2.56e+01 1a6wH 120 2.62e+01 1mfa b.1.1.1 20253 1uj6A 227 2.63e+01 c.124.1.4,d.58.40.1 107898,107899 2d28C 149 2.71e+01 1o54A 277 2.71e+01 c.66.1.13 92482 1ej6D 418 2.74e+01 i.7.1.1 45970 1ml8A 134 2.77e+01 d.227.1.2 85013 1nksA 194 2.81e+01 1nksA c.37.1.1 31886 1a4h 230 2.85e+01 1yer d.122.1.1 41099 1oaqH 121 2.94e+01 b.1.1.1 92707 1k7jA 206 2.95e+01 d.115.1.1 72103 1ky9B 448 2.96e+01 b.36.1.4,b.36.1.4,b.47.1.1 73200,73201,73202 1kk9A 221 2.98e+01 d.115.1.1 77432 2breA 219 3.02e+01 1hup 141 3.12e+01 1rtm1 d.169.1.1,h.1.1.1 42354,45422 1qhsA 178 3.14e+01 1qhsA c.37.1.3 31938 1qhxA 178 3.19e+01 1qhsA c.37.1.3 31936 1ti6A 875 3.21e+01 b.52.2.2,c.81.1.1 106974,106975 1napA 70 3.27e+01 1tvxA d.9.1.1 37445 1tjgH 237 3.28e+01 1ky9A 448 3.29e+01 b.36.1.4,b.47.1.1 73198,73199 1ckmA 330 3.32e+01 1ckmA b.40.4.6,d.142.2.3 25358,41585 2hcuA 213 3.33e+01 1tvxB 75 3.34e+01 1tvxA d.9.1.1 37442 1wmmA 145 3.37e+01 2f2eA 146 3.40e+01 1jkiA 533 3.45e+01 c.2.1.3,d.81.1.3 71704,71705 7ahlA 293 3.45e+01 7ahlA f.6.1.1 43812 1tvxA 75 3.45e+01 1tvxA d.9.1.1 37441 1bkb 136 3.49e+01 1bkb b.34.5.2,b.40.4.5 24609,25341 1vdmA 153 3.60e+01 2h88A 621 3.63e+01 1jnrB 150 3.64e+01 d.58.1.5 66969 1u4cA 349 3.64e+01 b.69.4.2 107666 1c5cH 215 3.68e+01 1igtB b.1.1.1,b.1.1.2 20475,21439 2d0oA 610 3.73e+01 2fbwA 621 3.77e+01 1ofdA 1520 3.77e+01 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 2be1A 339 3.81e+01 1qorA 327 3.94e+01 1qorA b.35.1.2,c.2.1.1 24766,29782 1yn3A 98 3.95e+01 1bev1 281 4.03e+01 1aym1 1wn5A 130 4.06e+01 1eza 259 4.07e+01 1zymA a.60.10.1,c.8.1.2 18113,30708 1pueE 89 4.16e+01 1awcA a.4.5.21 16165 1a88A 275 4.20e+01 1brt c.69.1.12 34707 2ewcA 126 4.24e+01 3ullA 132 4.25e+01 3ullA b.40.4.3 25282 1zeqX 84 4.32e+01 1g2lA 235 4.38e+01 b.47.1.2 65112 1lswA 131 4.38e+01 d.110.3.2 78181 1o9lA 481 4.46e+01 c.124.1.2,c.124.1.3 81241,81242 1ooyA 481 4.49e+01 c.124.1.3,c.124.1.2 93388,93389 1wjnA 97 4.56e+01 1tueA 212 4.63e+01 c.37.1.20 107323 1w41A 101 4.68e+01 1hcgA 241 4.75e+01 5ptp b.47.1.2 26341 1p1jA 533 4.76e+01 c.2.1.3,d.81.1.3 87687,87688 1hn2A 159 4.81e+01 b.60.1.1 65890 1gt1A 159 4.81e+01 b.60.1.1 90515 1e0tA 470 4.81e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1yfqA 342 4.86e+01 1obpA 159 4.88e+01 1obpA b.60.1.1 27092 1svr 114 4.89e+01 1svy d.109.1.1 40833 1a14H 120 4.94e+01 1mfa b.1.1.1 20061 1ihfB 94 4.95e+01 1huuA a.55.1.1 17894 1jkfA 533 5.01e+01 c.2.1.3,d.81.1.3 71700,71701 2fp8A 322 5.02e+01 1kf6B 243 5.03e+01 a.1.2.1,d.15.4.2 72397,72398 1cknA 330 5.03e+01 1ckmA b.40.4.6,d.142.2.3 25360,41587 2prd 174 5.06e+01 2prd b.40.5.1 25435 1bteA 97 5.08e+01 1bteA g.7.1.3 44463 2pec 353 5.12e+01 1air b.80.1.1 28019 1zpsA 138 5.17e+01 1pv9A 348 5.19e+01 c.55.2.1,d.127.1.1 95157,95158 2cx7A 130 5.20e+01 1v37A 177 5.20e+01 1owfB 94 5.33e+01 a.55.1.1 87488 2bdrA 175 5.33e+01 2gu2A 312 5.36e+01 1llwA 1520 5.37e+01 b.80.4.1,c.1.4.1,d.153.1.1 74017,74018,74019 1jx7A 117 5.37e+01 c.114.1.1 77195 2g6yA 217 5.48e+01 1gyhA 318 5.49e+01 b.67.2.1 70757 1ar61 302 5.62e+01 1pov1 1air 353 5.65e+01 1air b.80.1.1 28018 2a8kA 108 5.67e+01 1edhA 226 5.72e+01 1edhA b.1.6.1,b.1.6.1 22198,22199 2fhzB 108 5.73e+01 1xseA 295 5.74e+01 1al21 302 5.74e+01 1pov1 2fnjA 226 5.77e+01 2fcbA 173 5.85e+01 2fcbA b.1.1.4,b.1.1.4 21781,21782 1ad9B 219 5.90e+01 1gc1H b.1.1.1,b.1.1.2 20215,21227 1kwhA 492 5.94e+01 c.94.1.1 68876 2fhfA 1083 6.05e+01 1p99A 295 6.23e+01 c.94.1.1 94384 1fjsA 234 6.40e+01 1ucyE b.47.1.2 26336 1h7mA 102 6.47e+01 d.79.3.1 83485 1yqyA 523 6.48e+01 1kfwA 435 6.54e+01 c.1.8.5,d.26.3.1 77376,77377 1fdr 248 6.61e+01 1fdr b.43.4.2,c.25.1.1 25653,31543 1pch 88 6.65e+01 1ptf d.94.1.1 40564 1r2jA 366 6.66e+01 a.29.3.1,e.6.1.1 96869,96870 1z9zA 60 6.69e+01 1fqtA 112 6.75e+01 1fqtA b.33.1.1 24441 1zoiA 276 6.76e+01 1gydB 315 6.82e+01 b.67.2.1 70751 1o88A 353 6.86e+01 b.80.1.1 81178 1qipA 183 6.87e+01 1qipA d.32.1.1 38470 1w96A 554 6.89e+01 1vr9A 213 6.89e+01 2bcfA 276 6.90e+01 2ahjB 212 6.94e+01 2ahjB b.34.4.4 24599 2cz1B 212 6.94e+01 1fleI 57 6.97e+01 1fleI g.3.14.1 44352 1drqA 131 7.18e+01 1drmA 1tk9A 188 7.20e+01 c.80.1.3 107082 1hxs1 302 7.26e+01 1zvyA 136 7.28e+01 1lrwA 600 7.43e+01 b.70.1.1 91111 1z8sA 146 7.58e+01 1zymA 258 7.58e+01 1zymA a.60.10.1,c.8.1.2 18110,30705 1k3sA 113 7.64e+01 d.198.1.1 68120 1lybB 241 7.64e+01 1smrA 1gnxA 479 7.65e+01 c.1.8.4 76241 1fdlH 218 7.76e+01 1igtB b.1.1.1,b.1.1.2 19961,21021 1qbiA 454 7.77e+01 1c9uA b.68.2.1 27619 1hx0A 496 7.90e+01 b.71.1.1,c.1.8.1 61346,61347 1h8uA 117 7.94e+01 1h8uA d.169.1.1 60793 1g4uS 383 7.95e+01 1g4uS a.24.11.1,c.45.1.2 16643,32691 1aalA 58 7.97e+01 1bpi g.8.1.1 44472 1d0nA 729 8.00e+01 1d0nA d.109.1.1,d.109.1.1,d.109.1.1,d.109.1.1,d.109.1.1,d.109.1.1 40834,40835,40836,40837,40838,40839 1a3wA 500 8.02e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27060,29288,33142 1ox3A 109 8.04e+01 h.1.17.1 93668 1ar71 302 8.08e+01 1pov1 1e44B 96 8.15e+01 1e44B b.101.1.1 59220 8acn 754 8.18e+01 1amj c.8.2.1,c.83.1.1 30724,35400 1ywsA 82 8.25e+01 1c30B 382 8.28e+01 c.8.3.1,c.23.16.1 30736,31413 1fnuA 221 8.35e+01 3seb b.40.2.2,d.15.6.1 25212,37801 1xtoA 311 8.36e+01 1svq 114 8.39e+01 1svy d.109.1.1 40832 1jsdA 319 8.42e+01 b.19.1.2 63258 1ghpA 258 8.50e+01 1btl e.3.1.1 60520 1wn0A 145 8.53e+01 1b8mA 119 8.67e+01 1bndA g.17.1.3 44797 1xccA 220 8.68e+01 1cruA 454 8.73e+01 1c9uA b.68.2.1 27617 1l6wA 220 8.76e+01 c.1.10.1 73632 1hywA 68 8.76e+01 1hywA d.186.1.1 61425 1fvpA 231 8.81e+01 1nfp c.1.16.2 29556 1dbyA 107 8.82e+01 1thx c.47.1.1 32734 1a9xB 379 8.84e+01 1c3oB c.8.3.1,c.23.16.1 30732,31409 2aqlA 173 8.85e+01 1eu3A 210 8.86e+01 1an8 b.40.2.2,d.15.6.1 25206,37795 1alq 266 8.91e+01 1btl e.3.1.1 42707 1e5gA 120 8.93e+01 1e5gA g.18.1.1,g.18.1.1 44843,44844 1cklA 126 8.99e+01 1cklB g.18.1.1,g.18.1.1 44851,44852