# List of top-scoring protein chains for t06-100-30-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 1dq3A 454 6.94e-03 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1xngA 268 2.69e-01 1zvnA 99 3.71e-01 1kk1A 410 3.88e-01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1yhfA 115 6.04e-01 1hfuA 503 6.06e-01 b.6.1.3,b.6.1.3,b.6.1.3 65827,65828,65829 1zxkA 98 6.20e-01 2bwrA 401 6.71e-01 1eylA 186 7.96e-01 1wba b.42.4.1 25593 1ok0A 74 9.54e-01 b.5.1.1 93191 1gmyA 261 1.24e+00 d.3.1.1 76236 1z6bA 154 1.50e+00 1tlyA 278 1.89e+00 f.4.6.1 107143 1el5A 389 1.91e+00 1b3mA c.3.1.2,d.16.1.3 30369,37937 1gg4A 452 1.96e+00 1gg4A c.59.1.1,c.98.1.1,c.72.2.1 33957,58985,58986 1pmzA 86 2.01e+00 a.39.1.10 104195 1qmeA 702 2.16e+00 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37487,37488,42560,42769 2cokA 113 2.40e+00 1j83A 180 2.55e+00 b.18.1.12 66430 1khoA 370 3.07e+00 a.124.1.1,b.12.1.3 72489,72490 1umhA 184 3.10e+00 b.18.1.21 99605 1ca1 370 3.13e+00 1ca1 a.124.1.1,b.12.1.3 19340,23648 1qwrA 319 3.32e+00 b.82.1.3 96491 1lkdA 297 3.45e+00 d.32.1.3,d.32.1.3 78059,78060 2brcA 214 3.46e+00 1jmcA 246 3.88e+00 1jmcA b.40.4.3,b.40.4.3 25300,25301 1rzfL 213 3.89e+00 b.1.1.1,b.1.1.2 98152,98153 2gpzA 111 3.98e+00 1widA 130 4.32e+00 1wh0A 134 4.39e+00 1tzyD 103 4.55e+00 a.22.1.1 107533 1gt1A 159 4.59e+00 b.60.1.1 90515 1t9fA 187 4.60e+00 b.42.6.1 106710 1io1A 398 4.72e+00 1io1A e.32.1.1 62611 2fhxA 246 4.88e+00 2fs2A 151 4.90e+00 1tul 108 5.31e+00 1tul b.85.5.1 28373 1yhpA 212 5.61e+00 1ut1A 148 5.68e+00 b.2.3.6 108014 1s3cA 141 5.83e+00 1ofdA 1520 6.01e+00 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 1iloA 77 6.20e+00 c.47.1.1 66205 1n4xH 120 6.51e+00 b.1.1.1 85324 1ifrA 121 6.52e+00 b.1.16.1 71203 1wckA 220 6.73e+00 1gpmA 525 6.79e+00 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1f3lA 321 6.79e+00 1g6q2 c.66.1.6 59630 1sznA 417 6.92e+00 b.71.1.1,c.1.8.1 106162,106163 1h09A 338 6.96e+00 b.109.1.1,c.1.8.8 83420,83421 1xe1A 116 7.14e+00 b.43.3.1 109571 1dg6A 191 7.37e+00 1d4vB b.22.1.1 23883 1g1kA 143 7.60e+00 1aohA b.2.2.2 22404 1rsy 152 7.73e+00 1rsy b.7.1.2 23192 2fimA 276 7.81e+00 1m6yA 301 8.22e+00 a.60.13.1,c.66.1.23 78716,78717 1x8hA 228 8.87e+00 1zxfA 155 8.93e+00 1o6sB 105 8.99e+00 b.1.6.1 81096 1v04A 355 9.16e+00 b.68.6.2 100240 1bb8 71 9.84e+00 2bb8 d.10.1.1 37478 1sacA 204 1.00e+01 1sacA b.29.1.5 24237 1epwA 1290 1.03e+01 b.29.1.6,b.42.4.2,d.92.1.7,h.4.2.1 24269,25614,40305,45785 1sh0A 510 1.04e+01 e.8.1.4 98876 1p5dX 463 1.04e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1zljA 78 1.04e+01 1suwA 249 1.05e+01 e.52.1.1 106027 1kqpA 271 1.10e+01 c.26.2.1 72883 1jpyA 137 1.10e+01 g.17.1.6 67065 1m2xA 223 1.12e+01 d.157.1.1 84764 1uebA 184 1.15e+01 b.34.5.2,b.40.4.5,b.40.4.5 107782,107783,107784 2a2pA 129 1.17e+01 1bkb 136 1.20e+01 1bkb b.34.5.2,b.40.4.5 24609,25341 1nezG 128 1.20e+01 b.1.1.1 85592 1zkiA 133 1.26e+01 2cw8A 537 1.36e+01 1q7hA 153 1.39e+01 b.122.1.1,d.17.6.2 96042,96043 1wdcC 156 1.42e+01 1wdcC a.39.1.5 17317 1avwB 171 1.42e+01 1wba b.42.4.1 25599 2d4qA 257 1.46e+01 1exrA 148 1.47e+01 1cll a.39.1.5 17299 2eifA 136 1.52e+01 1bkb b.34.5.2,b.40.4.5 24607,25339 1vr8A 142 1.53e+01 1jnyA 435 1.54e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1iq6A 134 1.55e+01 d.38.1.4 76755 1ylnA 252 1.58e+01 2cyeA 133 1.60e+01 1tif 78 1.62e+01 1tif d.15.8.1 37836 1yb3A 175 1.66e+01 1wy5A 317 1.70e+01 1z4vA 532 1.70e+01 1gppA 237 1.73e+01 b.86.1.2 76262 1mpp 361 1.74e+01 2rmpA b.50.1.2 26856 1v8hA 107 1.75e+01 2fcbA 173 1.76e+01 2fcbA b.1.1.4,b.1.1.4 21781,21782 1z0sA 278 1.77e+01 1vk3A 615 1.77e+01 d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 100846,100847,100848,100849 1uylA 236 1.80e+01 d.122.1.1 108147 2bl0C 142 1.81e+01 1r6vA 671 1.81e+01 2aioA 269 1.82e+01 1v6tA 255 1.88e+01 2g76A 335 1.90e+01 1q79A 514 1.95e+01 a.160.1.1,d.218.1.3,d.58.16.1 104548,104549,104550 2f3yA 148 2.07e+01 2b3nA 159 2.10e+01 1yrtA 364 2.18e+01 2crvA 120 2.18e+01 1kb0A 677 2.21e+01 a.3.1.6,b.70.1.1 68378,68379 2ew2A 316 2.27e+01 1n26A 325 2.30e+01 b.1.1.4,b.1.2.1,b.1.2.1 79850,79851,79852 1ebfA 358 2.31e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 1dyoA 160 2.33e+01 1dyoA b.18.1.7 23771 2g1lA 104 2.34e+01 1oaqL 120 2.37e+01 b.1.1.1 92708 2axwA 134 2.37e+01 1ayoA 130 2.37e+01 1ayoA b.2.4.1 22431 2d13A 227 2.38e+01 1vqoE 178 2.47e+01 2al6A 375 2.57e+01 1uaiA 224 2.57e+01 b.29.1.18 107761 1xnkA 196 2.57e+01 1lucB 324 2.74e+01 1lucA c.1.16.1 29548 2asuB 234 2.78e+01 2fytA 340 2.81e+01 1nlqA 108 2.81e+01 b.121.3.1 85853 1cv8 174 2.86e+01 1cv8 d.3.1.1 37089 1faoA 126 2.86e+01 1faoA b.55.1.1 26974 1t82A 155 2.86e+01 d.38.1.5 106639 1xer 103 2.88e+01 1xer d.58.1.3 38990 2ag4A 164 2.89e+01 1wbiA 129 2.94e+01 2blnA 305 2.97e+01 1ts9A 102 3.00e+01 1vj2A 126 3.00e+01 b.82.1.10 100796 2bgoA 140 3.05e+01 1q8iA 783 3.07e+01 c.55.3.5,e.8.1.1 96208,96209 1avsA 90 3.09e+01 1cll a.39.1.5 17226 2a7mA 250 3.20e+01 1wosA 364 3.23e+01 b.44.2.1,d.250.1.1 109468,109469 2f4lA 297 3.29e+01 1zkkA 167 3.31e+01 1t7lA 766 3.31e+01 1yhtA 367 3.32e+01 1ixlA 131 3.33e+01 d.38.1.5 90717 1bxoA 323 3.35e+01 2er7E b.50.1.2 26805 1fr3A 67 3.35e+01 1fr3A b.40.6.1 25436 2c78A 405 3.36e+01 1b8kA 119 3.37e+01 1bndA g.17.1.3 44795 1xl3C 92 3.40e+01 1pne 140 3.41e+01 1pne d.110.1.1 40866 1m07A 111 3.42e+01 d.5.1.1 78328 1lktA 104 3.44e+01 1lktA b.90.1.1 28398 1l0wA 580 3.47e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 2bkdN 134 3.47e+01 1pguA 615 3.47e+01 b.69.4.1,b.69.4.1 88069,88070 1cid 177 3.51e+01 1cid b.1.1.1,b.1.1.3 19740,21679 1m2tB 263 3.52e+01 b.42.2.1,b.42.2.1 84762,84763 1fvuB 125 3.55e+01 1ixxB d.169.1.1 42346 1khbA 625 3.57e+01 c.91.1.1,c.109.1.1 68606,68607 1ojjA 402 3.62e+01 b.29.1.10 93130 1shwB 181 3.67e+01 b.18.1.4 105563 1zn8A 180 3.68e+01 1wpnA 188 3.69e+01 1tw7A 99 3.69e+01 2ck3D 482 3.77e+01 2g6fX 59 3.79e+01 1wdcB 156 3.92e+01 1wdcB a.39.1.5 17302 2d7nA 93 3.97e+01 2bbkH 355 4.02e+01 2bbkH b.69.2.1 27634 1mspA 126 4.04e+01 1mspA b.1.11.2 22333 1mdaH 368 4.04e+01 2bbkH b.69.2.1 27637 1wruA 379 4.07e+01 1xzoA 174 4.08e+01 1yu0A 381 4.13e+01 1k9uA 78 4.14e+01 a.39.1.10 84348 1ws0A 156 4.16e+01 1ygaA 342 4.19e+01 1viaA 175 4.26e+01 c.37.1.2 100754 1rkqA 282 4.29e+01 c.108.1.10 97621 1vhoA 346 4.33e+01 b.49.3.1,c.56.5.4 100694,100695 1ogsA 497 4.33e+01 b.71.1.2,c.1.8.3 86997,86998 2c5qA 240 4.33e+01 1b8oA 284 4.34e+01 1b8oA c.56.2.1 33762 1nr0A 611 4.37e+01 b.69.4.1,b.69.4.1 86078,86079 1yt5A 258 4.38e+01 1jalA 363 4.42e+01 c.37.1.8,d.15.10.2 84138,84139 1w85I 49 4.48e+01 1n2eA 300 4.48e+01 c.26.1.4 85268 2bynA 227 4.49e+01 8fabA 212 4.50e+01 8fabA b.1.1.1,b.1.1.2 19772,20882 2cuaA 135 4.51e+01 2cuaA b.6.1.2 23039 1k07A 263 4.52e+01 d.157.1.1 77218 1q87A 221 4.52e+01 e.47.1.1 96192 1zkpA 268 4.53e+01 1nw3A 416 4.53e+01 c.66.1.31 86288 1qlpA 394 4.56e+01 1ovaA e.1.1.1 42628 2gjgA 248 4.57e+01 1lbvA 252 4.60e+01 e.7.1.1 73813 1neu 124 4.64e+01 1neu b.1.1.1 19704 1olrA 224 4.74e+01 b.29.1.11 93330 1e8pA 46 4.75e+01 g.55.1.1 59385 1vrmA 325 4.79e+01 1wkaA 147 4.79e+01 1i9gA 280 4.79e+01 c.66.1.13 62090 1gzcA 239 4.80e+01 b.29.1.1 70803 2absA 383 4.82e+01 1d2oA 187 4.85e+01 1d2oA b.3.5.1,b.3.5.1 22625,22626 1zczA 464 4.86e+01 1gmeA 151 4.87e+01 b.15.1.1 65305 1v10A 521 4.88e+01 b.6.1.3,b.6.1.3,b.6.1.3 108224,108225,108226 1y9qA 192 4.89e+01 1qo3C 137 4.93e+01 1qo3C d.169.1.1 42350 1tjyA 316 4.97e+01 c.93.1.1 107062 1sr9A 644 4.98e+01 a.5.7.1,c.1.10.5,d.270.1.1 105960,105961,105962 1f89A 291 4.99e+01 d.160.1.1 64988 1rcwA 231 5.03e+01 a.132.1.4 97299 1g8iA 190 5.03e+01 1rec a.39.1.5 60363 2bh8A 101 5.03e+01 1m93B 245 5.06e+01 1o91A 178 5.09e+01 b.22.1.1 92656 1xrsA 516 5.09e+01 1g3kA 174 5.10e+01 1nedA d.153.1.4 41989 1i8aA 189 5.11e+01 1i82A b.1.9.2 61951 1c7qA 445 5.16e+01 2pgi c.80.1.2 35307 1vzyA 291 5.16e+01 1jl0A 334 5.17e+01 1jenA d.156.1.1 63155 1y55X 126 5.20e+01 1o4wA 147 5.25e+01 c.120.1.1 86629 1xnzA 264 5.26e+01 1p9bA 442 5.27e+01 c.37.1.10 94385 1jbeA 128 5.35e+01 3chy c.23.1.1 62845 1nn6A 228 5.35e+01 b.47.1.2 85893 1xfcA 384 5.38e+01 1n13B 113 5.42e+01 1gycA 499 5.50e+01 b.6.1.3,b.6.1.3,b.6.1.3 70748,70749,70750 1mkaA 171 5.51e+01 1mkaA d.38.1.2 38543 1zxq 192 5.56e+01 1zxq b.1.1.3,b.1.1.4 21657,21693 1mhnA 59 5.56e+01 b.34.9.1 84964 1z9lA 128 5.57e+01 2f9lA 199 5.59e+01 1e8cA 498 5.60e+01 c.98.1.1,c.59.1.1,c.72.2.1 59377,59378,59379 1r8nA 185 5.66e+01 b.42.4.1 104851 1txkA 498 5.66e+01 b.1.18.2,b.30.5.9 107425,107426 1h05A 146 5.66e+01 c.23.13.1 76433 1fs0E 138 5.70e+01 1aqt a.2.10.1,b.93.1.1 59997,59998 1tvxA 75 5.70e+01 1tvxA d.9.1.1 37441 1a12A 413 5.72e+01 1a12A b.69.5.1 27663 1jhfA 202 5.77e+01 a.4.5.2,b.87.1.1 63057,63058 1snnA 227 5.78e+01 d.115.1.2 105821 1hq0A 295 5.80e+01 1hzgA d.194.1.1 61122 1uwcA 261 5.81e+01 c.69.1.17 100101 1y8tA 324 5.83e+01 1cqyA 99 5.87e+01 1b9zA b.3.1.1 22527 1jmxB 349 5.92e+01 b.69.2.2 66906 1qs1A 462 5.93e+01 1qs1A d.166.1.1,d.166.1.1 42260,42261 1c01A 76 5.96e+01 1c01A b.11.1.5 23633 1j8mF 297 5.97e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1guiA 155 5.98e+01 b.18.1.14 76351 1fmtA 314 6.00e+01 1fmtA b.46.1.1,c.65.1.1 25758,34174 1sb2A 133 6.02e+01 1s6lA 212 6.04e+01 1j5xA 342 6.19e+01 c.80.1.1 71591 1x8gA 227 6.20e+01 1nh0A 99 6.28e+01 b.50.1.1 91869 1cd9B 215 6.31e+01 1cto b.1.2.1,b.1.2.1 22041,22042 1jjtA 228 6.32e+01 1a7tA d.157.1.1 63139 1d3cA 686 6.34e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21827,22496,27734,28721 1wluA 136 6.35e+01 1ukgA 252 6.41e+01 b.29.1.1 99489 1qw1A 121 6.43e+01 1pk6B 132 6.44e+01 b.22.1.1 94802 1z2nX 324 6.58e+01 1xppA 115 6.60e+01 1odkA 235 6.63e+01 c.56.2.1 86863 1jqlB 140 6.69e+01 c.37.1.20 63234 1w6nA 134 6.71e+01 1tbuA 118 6.72e+01 1l0qA 391 6.74e+01 b.1.3.1,b.69.2.3 77644,77645 1vpjA 192 6.77e+01 1dm5A 315 6.78e+01 1avc a.65.1.1 18186 1t0bA 252 6.80e+01 c.23.16.6 106199 1hn0A 1021 6.80e+01 a.102.3.2,b.18.1.17,b.24.1.1,b.30.5.2 83616,83617,83618,83619 1upiA 225 6.81e+01 b.82.1.1 99757 1rkd 309 6.85e+01 1rkd c.72.1.1 34928 2g5dA 422 6.87e+01 1khiA 176 6.90e+01 b.34.5.2,b.40.4.5 77408,77409 1f1eA 154 6.92e+01 a.22.1.2 64927 1q7sA 117 6.96e+01 c.131.1.1 96055 1xcbA 211 6.99e+01 a.4.5.38,c.2.1.12 109552,109553 2a6vA 226 7.02e+01 1kk8B 139 7.04e+01 a.39.1.5 77430 1w2tA 432 7.10e+01 1v3yA 192 7.17e+01 2ca6A 386 7.22e+01 1yloA 348 7.26e+01 1mbyA 88 7.27e+01 d.223.1.1 78931 1gngX 39 7.29e+01 1tmxA 293 7.44e+01 1j1yA 136 7.47e+01 d.38.1.5 90776 1yq2A 1024 7.49e+01 1f8eA 388 7.50e+01 2qwc b.68.1.1 59694 1jmtA 104 7.63e+01 d.58.7.3 63180 1z54A 132 7.64e+01 1nycA 111 7.70e+01 b.61.2.2 92336 1ggzA 148 7.94e+01 a.39.1.5 70176 1tjxA 159 7.95e+01 2bnmA 198 7.96e+01 1s55A 156 8.02e+01 1kwgA 645 8.07e+01 b.71.1.1,c.1.8.1,c.23.16.5 77561,77562,77563 1avbA 226 8.10e+01 1led b.29.1.1 24158 1iq4A 179 8.10e+01 1iq4A d.77.1.1 62641 1tgrA 52 8.12e+01 1zeqX 84 8.17e+01 2aotA 292 8.18e+01 1tafB 70 8.20e+01 1tafB a.22.1.3 16482 1v1hA 103 8.29e+01 b.83.1.1,h.1.17.1 108243,108244 1hl9A 449 8.29e+01 b.71.1.3,c.1.8.11 90650,90651 1o0iA 138 8.31e+01 d.38.1.5 86532 1x0tA 120 8.40e+01 1l1eA 287 8.44e+01 c.66.1.18 73454 1jz8A 1023 8.47e+01 b.1.4.1,b.1.4.1,b.18.1.5,b.30.5.1,c.1.8.3 67830,67831,67832,67833,67834 1x1rA 178 8.50e+01 1hjrA 158 8.51e+01 1hjrA c.55.3.6 33727 1dkzA 219 8.53e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 1mla 309 8.55e+01 1mla c.19.1.1,d.58.23.1 31031,39383 1h8eD 482 8.56e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 60747,60748,60749 1wdtA 665 8.58e+01 1s21A 206 8.60e+01 d.166.1.4 105222 1ut7A 171 8.93e+01 b.143.1.1 99906 1rq6A 62 8.95e+01 1ryiA 382 8.98e+01