# List of top-scoring protein chains for t04-100-30-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 1m4zA 238 3.34e-01 b.34.12.1 78630 1wdjA 187 3.66e-01 1vphA 149 6.98e-01 1v87A 114 7.43e-01 g.44.1.1 108422 1weoA 93 1.03e+00 1iro 54 1.22e+00 1rb9 g.41.5.1 45223 1yk4A 52 1.22e+00 1zaiA 363 1.37e+00 1adoA 363 1.40e+00 1fbaA c.1.10.1 29124 1rlyA 60 1.43e+00 g.41.3.1 104988 1rb9 53 1.50e+00 1rb9 g.41.5.1 45214 1bq9A 54 1.61e+00 1rb9 g.41.5.1 45238 1brfA 53 1.65e+00 1rb9 g.41.5.1 45236 1rdg 53 1.72e+00 1rb9 g.41.5.1 45221 1dl6A 58 1.75e+00 1dl6A g.41.3.1 45207 1zin 217 1.87e+00 1zin c.37.1.1,g.41.2.1 31915,45178 1zip 217 1.95e+00 1zin c.37.1.1,g.41.2.1 31916,45179 2f4mA 295 2.01e+00 1u5kA 244 2.06e+00 1vq0A 302 2.40e+00 1x1fA 149 2.89e+00 2cb5A 453 4.17e+00 3gcb d.3.1.1 37035 1j7xA 302 4.30e+00 c.14.1.2 66425 1ykhA 108 4.40e+00 1g2fC 90 4.48e+00 k.12.1.1 60222 1b7yB 785 4.53e+00 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,d.138.1.1 16301,16302,25312,39311,40780,41456 2gsaA 432 4.65e+00 2gsaA c.67.1.4 34446 1gz6A 319 5.04e+00 c.2.1.2 76410 1q0sA 259 5.34e+00 c.66.1.28 95509 1a8q 274 5.52e+00 1brt c.69.1.12 34702 3pvaA 335 5.98e+00 3pvaA d.153.1.3 41854 1w4xA 542 6.01e+00 c.3.1.5,c.3.1.5 109171,109172 1vmfA 145 6.24e+00 2awiA 317 6.56e+00 2av5A 120 7.00e+00 2pvaA 345 7.28e+00 3pvaA d.153.1.3 41850 1ufbA 127 7.67e+00 a.24.16.3 99331 1a1iA 90 8.41e+00 1aayA g.37.1.1,g.37.1.1,g.37.1.1 44998,44999,45000 2aa1B 146 8.57e+00 2ccyA 128 8.59e+00 2ccyA a.24.3.2 16544 1mldA 314 8.90e+00 2cmd c.2.1.5,d.162.1.1 30122,42089 1zaaC 87 8.96e+00 1aayA g.37.1.1,g.37.1.1,g.37.1.1 45013,45014,45015 1hx1B 114 9.00e+00 1hx1B a.7.7.1 61350 1aayA 90 9.01e+00 1aayA g.37.1.1,g.37.1.1,g.37.1.1 45001,45002,45003 1zgmA 248 9.77e+00 2fnoA 248 9.77e+00 2afgA 140 9.77e+00 1bfg b.42.1.1 25514 1fp0A 88 9.94e+00 1fp0A g.50.1.2 45361 1u24A 337 1.02e+01 4fgf 146 1.02e+01 1bfg b.42.1.1 25486 2a14A 263 1.03e+01 1qsoA 149 1.03e+01 1qsmA d.108.1.1 40812 1uz3A 102 1.05e+01 1ut9A 609 1.06e+01 a.102.1.2,b.1.18.2 99912,99913 1m0wA 491 1.07e+01 c.30.1.4,d.142.1.6 78363,78364 1p3jA 217 1.07e+01 c.37.1.1,g.41.2.1 94022,94023 1zbqA 327 1.10e+01 1nthA 458 1.10e+01 c.1.25.1 80730 1v54F 98 1.15e+01 g.41.5.3 100327 1yf3A 259 1.15e+01 1vqqA 646 1.16e+01 1oqcA 125 1.19e+01 a.24.15.1 87264 2occF 98 1.19e+01 2occF g.41.5.3 45256 1eudB 396 1.19e+01 2scuB c.23.4.1,d.142.1.4 31150,41571 1x1rA 178 1.20e+01 1ebfA 358 1.20e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 1mxmA 254 1.20e+01 b.38.1.3,d.58.43.1,f.34.1.1 79647,79648,79649 2adoA 196 1.21e+01 1dv1A 449 1.24e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 1ovlA 271 1.27e+01 a.123.1.1 87455 1y8qA 346 1.28e+01 1hyeA 313 1.30e+01 2cmd c.2.1.5,d.162.1.1 61400,61401 1cjwA 166 1.30e+01 1cjwA d.108.1.1 40818 1yhvA 297 1.30e+01 1utuA 108 1.36e+01 1rg8A 146 1.37e+01 1p63A 144 1.41e+01 b.42.1.1 94153 1otkA 249 1.41e+01 a.25.1.2 93521 1vp6A 138 1.43e+01 1bfg 146 1.46e+01 1bfg b.42.1.1 25485 1woyA 500 1.49e+01 1ef8A 261 1.54e+01 1ef8A c.14.1.3 30921 1a8h 500 1.58e+01 1a8h a.27.1.1,c.26.1.1 16922,31589 1nh1A 330 1.58e+01 e.45.1.1 91871 2fp4B 395 1.59e+01 2fokA 579 1.62e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16131,16132,16133,33323 1wwtA 88 1.65e+01 1ujmA 342 1.69e+01 1nc5A 373 1.73e+01 a.102.1.6 85548 2cybA 323 1.74e+01 2g42A 79 1.79e+01 1i0aA 466 1.80e+01 1auwA a.127.1.1 61479 1tqjA 230 1.81e+01 c.1.2.2 107228 1w9yA 319 1.81e+01 1aa6 715 1.82e+01 2napA b.52.2.2,c.81.1.1 26916,35324 2axwA 134 1.84e+01 1i4wA 353 1.87e+01 c.66.1.24 66028 1ohlA 342 1.88e+01 c.1.10.3 87035 1ornA 226 1.90e+01 a.96.1.1 87342 1dkqA 410 1.92e+01 1dklA c.60.1.2 33998 2ctdA 96 1.95e+01 1pl4A 198 1.95e+01 a.2.11.1,d.44.1.1 94854,94855 2czcA 334 1.97e+01 1v5wA 343 1.98e+01 c.37.1.11 108387 1k3xA 262 1.99e+01 a.156.1.2,b.113.1.1,g.39.1.8 77242,77243,77244 1wmqA 147 2.02e+01 1wpuA 147 2.03e+01 1xreA 217 2.03e+01 2etxA 209 2.05e+01 1qzzA 374 2.07e+01 a.4.5.29,c.66.1.12 96719,96720 1gg3A 279 2.08e+01 1ef1A a.11.2.1,b.55.1.5,d.15.1.4 16372,27007,37615 1vzlA 34 2.12e+01 1gsa 316 2.16e+01 1gsa c.30.1.3,d.142.1.1 31718,41477 1pzgA 331 2.16e+01 c.2.1.5,d.162.1.1 95425,95426 1ap6A 198 2.16e+01 1avmA a.2.11.1,d.44.1.1 15746,38705 1bea 127 2.26e+01 1bea a.52.1.2 17826 1i60A 278 2.26e+01 c.1.15.4 71118 1e9gA 286 2.28e+01 1wgjA b.40.5.1 59393 1h7nA 342 2.33e+01 1b4kA c.1.10.3 60726 1ro0A 216 2.34e+01 d.264.1.2 97664 1wa5C 960 2.35e+01 2fdrA 229 2.36e+01 1hl2A 297 2.37e+01 c.1.10.1 83581 1dkmA 410 2.40e+01 1dklA c.60.1.2 34000 1w2wB 191 2.42e+01 1epxA 370 2.42e+01 1fbaA c.1.10.1 29150 1q5dA 419 2.45e+01 a.104.1.1 95891 1n0nA 199 2.45e+01 a.2.11.1,d.44.1.1 79750,79751 1kbhA 47 2.45e+01 a.153.1.1 68382 1xphA 150 2.48e+01 1fp1D 372 2.49e+01 1fpqA a.4.5.29,c.66.1.12 59939,59940 1y1pA 342 2.52e+01 2evrA 246 2.52e+01 1ryt 190 2.55e+01 1ryt a.25.1.1,g.41.5.1 16646,45245 1yua 122 2.56e+01 1yua g.41.3.3,g.41.3.3 45210,45211 1srvA 145 2.57e+01 1derA c.8.5.1 30817 1ry9A 145 2.59e+01 d.198.1.1 98094 1qsmA 152 2.59e+01 1qsmA d.108.1.1 40808 2d2mD 145 2.62e+01 2ex3B 264 2.65e+01 1ni5A 433 2.67e+01 c.26.2.5,d.229.1.1 80533,80534 1cxzB 86 2.71e+01 1cxzB a.2.6.1 15705 6rxn 46 2.76e+01 1rb9 g.41.5.1 45222 2es9A 115 2.77e+01 2hgsA 474 2.82e+01 2hgsA c.30.1.4,d.142.1.6 31722,75997 1e6pA 499 2.83e+01 1e15A b.72.2.1,c.1.8.5,d.26.3.1 59314,59315,59316 2d27A 149 2.86e+01 1o5kA 306 2.88e+01 c.1.10.1 92504 2f6sA 201 2.92e+01 1mz4A 137 2.93e+01 a.3.1.1 91496 1goiA 499 2.98e+01 b.72.2.1,c.1.8.5,d.26.3.1 65413,65414,65415 1ukuA 102 2.99e+01 d.58.5.2 99533 1wy6A 172 2.99e+01 1b71A 191 3.02e+01 1ryt a.25.1.1,g.41.5.1 16647,45246 1psrA 100 3.03e+01 1psrA a.39.1.2 17180 1nal1 297 3.04e+01 1nal3 2f6mB 109 3.05e+01 1wolA 122 3.12e+01 1f3mC 297 3.14e+01 1hcl d.144.1.7 41677 1dvpA 220 3.14e+01 1dvpA a.118.9.2,g.50.1.1 19216,45358 1sa3A 262 3.18e+01 c.52.1.23 105400 2cc0A 195 3.20e+01 2f96A 224 3.21e+01 1v6zA 228 3.22e+01 1gp6A 356 3.23e+01 b.82.2.1 65441 1t0aA 159 3.26e+01 1thtA 305 3.26e+01 1thtA c.69.1.13 34711 1ee8A 266 3.26e+01 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 1zkeA 83 3.27e+01 1wgxA 73 3.30e+01 1vfyA 73 3.38e+01 1vfyA g.50.1.1 45357 1ltqA 301 3.39e+01 c.108.1.9,c.37.1.1 78208,78209 1aszB 490 3.42e+01 1b8aA b.40.4.1,d.104.1.1 25241,40762 1l1zA 274 3.42e+01 a.156.1.2,b.113.1.1,g.39.1.8 75911,75912,75913 1eaxA 241 3.48e+01 b.47.1.2 64889 1xw2A 405 3.53e+01 1j4nA 271 3.54e+01 f.19.1.1 71510 1ed1A 135 3.55e+01 1hiwA a.61.1.1 18130 1p3qQ 54 3.58e+01 a.5.2.4 87748 1qxfA 66 3.63e+01 g.41.8.4 96527 1r2zA 274 3.69e+01 a.156.1.2,b.113.1.1,g.39.1.8 96892,96893,96894 1llmC 88 3.69e+01 g.37.1.1,g.37.1.1 91059,91060 1jm1A 204 3.74e+01 b.33.1.1 71745 1j3mA 129 3.78e+01 d.129.7.1 103836 1lvaA 258 3.79e+01 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 1q9uA 130 3.81e+01 d.129.7.1 96314 1sv0C 82 3.90e+01 a.60.1.1 106037 1dsqA 21 3.92e+01 g.40.1.1 45173 1xwtA 405 3.93e+01 2b3yA 888 3.94e+01 1ezwA 349 3.98e+01 1ezwA c.1.16.3 29558 1vhtA 218 4.00e+01 c.37.1.1 100700 1mk4A 157 4.00e+01 d.108.1.1 84979 1uxy 340 4.01e+01 2mbr d.145.1.2,d.146.1.1 41748,41761 1e8gA 560 4.03e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1ls9A 91 4.04e+01 a.3.1.1 78177 1rdqE 350 4.09e+01 d.144.1.7 97314 5csmA 256 4.09e+01 5csmA a.130.1.2 19494 2a6hD 1524 4.10e+01 1ppjF 110 4.12e+01 f.27.1.1 104262 1ucrA 78 4.12e+01 a.4.5.45 99188 1sviA 195 4.15e+01 c.37.1.8 106048 2b8wA 328 4.15e+01 2fp1A 166 4.18e+01 2f6lA 166 4.18e+01 1k77A 260 4.20e+01 c.1.15.5 72096 1yz4A 160 4.21e+01 1n9dA 199 4.21e+01 a.26.1.1 85464 1wmiA 90 4.23e+01 1uj8A 77 4.24e+01 1j7lA 264 4.24e+01 d.144.1.6 62697 1o97D 320 4.27e+01 c.26.2.3,c.31.1.2 81233,81234 1sk4A 163 4.27e+01 d.118.1.1 105664 1u7eB 154 4.31e+01 2a8eA 220 4.31e+01 1dpe 507 4.31e+01 1dpe c.94.1.1 35799 1w2lA 99 4.32e+01 1jj2Y 73 4.34e+01 1ffkW g.41.8.1 63110 1txnA 328 4.35e+01 1veaA 148 4.39e+01 d.275.1.1 108529 1s72Z 73 4.40e+01 g.41.8.1 105345 1xwoA 465 4.41e+01 1gx1A 160 4.44e+01 d.79.5.1 70675 1c75A 71 4.49e+01 451c a.3.1.1 15796 1brt 277 4.51e+01 1brt c.69.1.12 34699 1dfuP 94 4.52e+01 1dfuP b.53.1.1 26936 1vqoZ 83 4.52e+01 1ki9A 192 4.54e+01 c.37.1.1 84404 1v5tA 90 4.54e+01 d.15.1.1 108385 1w33A 181 4.59e+01 1lnsA 763 4.65e+01 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 1ws0A 156 4.78e+01 1hy0A 466 4.78e+01 1auwA a.127.1.1 61392 1iznB 277 4.79e+01 e.43.1.2 83848 1se0A 116 4.85e+01 g.52.1.1 98814 1j8rA 196 4.91e+01 1j8rA b.2.3.3 62745 2avnA 260 5.00e+01 1lucA 355 5.04e+01 1lucA c.1.16.1 29547 1fm4A 159 5.04e+01 1bv1 d.129.3.1 76186 1q45A 391 5.05e+01 c.1.4.1 95780 1aua 296 5.06e+01 1aua a.5.3.1,c.13.1.1 16290,30882 1d8bA 81 5.07e+01 1d8bA a.60.8.1 18094 2ct7A 86 5.14e+01 1uekA 275 5.16e+01 d.14.1.5,d.58.26.5 88483,88484 1e29A 135 5.19e+01 1e29A a.3.1.1 59161 1xi1A 575 5.21e+01 1uf5A 303 5.28e+01 d.160.1.2 107808 1wmmA 145 5.30e+01 1ro2A 216 5.31e+01 d.264.1.2 97665 1gcmA 34 5.32e+01 1ce0A h.1.3.1 45476 256bA 106 5.33e+01 256bA a.24.3.1 16539 3inkC 133 5.33e+01 3inkC a.26.1.2 16881 1z2nX 324 5.33e+01 2az0A 73 5.35e+01 2c2hA 192 5.36e+01 1u3eM 174 5.52e+01 d.4.1.3,d.285.1.1 107640,107641 1nd7A 374 5.52e+01 d.148.1.1 91817 1mngA 203 5.52e+01 1avmA a.2.11.1,d.44.1.1 15776,38701 1ax0 239 5.54e+01 1led b.29.1.1 24042 2fztA 79 5.55e+01 1n8yC 608 5.56e+01 c.10.2.5,c.10.2.5,g.3.9.1,g.3.9.1 80314,80315,80316,80317 1jr8A 117 5.57e+01 a.24.15.1 67115 1k7wA 468 5.57e+01 a.127.1.1 72130 1s1dA 331 5.60e+01 b.67.3.1 98344 1mb4A 370 5.64e+01 c.2.1.3,d.81.1.1 78908,78909 1qo3C 137 5.65e+01 1qo3C d.169.1.1 42350 1h2bA 359 5.67e+01 b.35.1.2,c.2.1.1 90543,90544 1b25A 619 5.70e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 1ru8A 232 5.71e+01 c.26.2.1 97849 1yxmA 303 5.80e+01 1ti6A 875 5.84e+01 b.52.2.2,c.81.1.1 106974,106975 2az2A 73 5.95e+01 1ir3A 306 6.00e+01 1fmk d.144.1.7 41702 2carA 196 6.00e+01 1c4xA 285 6.11e+01 1c4xA c.69.1.10 34684 1uu1A 335 6.16e+01 c.67.1.1 99993 1l8aA 886 6.21e+01 c.36.1.10,c.36.1.6,c.48.1.1 73677,73678,73679 1lox 662 6.24e+01 1lox a.119.1.2,b.12.1.1 19238,23638 1qdeA 224 6.25e+01 1qvaA c.37.1.19 32410 1erzA 303 6.25e+01 1erzA d.160.1.2 59498 1j8bA 112 6.27e+01 d.222.1.1 77101 2fe5A 94 6.28e+01 1fiuA 286 6.32e+01 1fiuA c.52.1.10 33317 1xdzA 240 6.32e+01 1tzbA 302 6.37e+01 c.80.1.1 107470 1v5dA 386 6.38e+01 2bkkA 264 6.38e+01 1it2A 146 6.39e+01 a.1.1.2 66365 1ykdA 398 6.39e+01 1xtnA 120 6.41e+01 1in4A 334 6.43e+01 1hqcA a.4.5.11,c.37.1.20 62597,62598 1rl4A 188 6.44e+01 d.167.1.1 97636 1x9iA 302 6.44e+01 1vk6A 269 6.44e+01 d.113.1.4,d.113.1.4 100851,100852 1l1oC 181 6.48e+01 b.40.4.3 73480 2ezh 75 6.49e+01 2ezh a.4.1.2 16029 1jyoE 105 6.52e+01 d.184.1.2 67487 2genA 197 6.55e+01 1h12A 405 6.58e+01 a.102.1.2 83447 1in6A 334 6.59e+01 1hqcA a.4.5.11,c.37.1.20 62601,62602 1sek 378 6.62e+01 1sek e.1.1.1 42675 1oe4A 247 6.82e+01 c.18.1.3 86895 1j1uA 306 6.83e+01 c.26.1.1 83980 1vkmA 297 6.88e+01 c.138.1.1 108670 1eswA 500 6.88e+01 1cwyA c.1.8.1 59500 1azo 232 6.91e+01 1azo c.52.1.14 33329 1w1kA 560 6.97e+01 d.58.32.1,d.145.1.1 109059,109060 1broA 277 6.98e+01 1brt c.69.1.12 34700 2d28C 149 6.98e+01 1np6A 174 7.01e+01 c.37.1.10 85954 1lv7A 257 7.04e+01 c.37.1.20 78232 1oaoC 729 7.05e+01 e.26.1.3 86746 1z8sA 146 7.10e+01 1r8gA 372 7.11e+01 d.128.1.3 104845 1q7lB 88 7.17e+01 1wixA 164 7.24e+01 1ayfA 105 7.25e+01 1ayfA d.15.4.1 37684 1iynA 295 7.40e+01 a.93.1.1 90722 1lkoA 191 7.40e+01 a.25.1.1,g.41.5.1 78063,78064 1nc8 29 7.41e+01 g.40.1.1 45170 1nm2A 317 7.42e+01 c.19.1.1,d.58.23.1 80654,80655 2bt6A 108 7.45e+01 1ccwA 137 7.45e+01 1be1 c.23.6.1 31238 1cojA 212 7.47e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1ixh 321 7.48e+01 1ixh c.94.1.1 35761 2cokA 113 7.50e+01 2c8mA 262 7.51e+01 1s3eA 520 7.53e+01 c.3.1.2,d.16.1.5 98426,98427 1ojaA 520 7.54e+01 c.3.1.2,d.16.1.5 93096,93097 1w44A 331 7.60e+01 1vfqA 143 7.61e+01 1stzA 338 7.63e+01 a.4.5.51,d.110.2.3 106009,106010 1gv3A 248 7.66e+01 a.2.11.1,d.44.1.1 70585,70586 1q74A 303 7.68e+01 c.134.1.1 96019 1ciy 590 7.70e+01 1ciy b.18.1.3,b.77.2.1,f.1.3.1 23720,27977,43392 1zhmA 238 7.72e+01 1t1dA 100 7.72e+01 1t1dA d.42.1.2 38637 1zhrA 238 7.74e+01 1jbkA 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8.75e+01 d.234.1.1 86677 1k82A 268 8.77e+01 a.156.1.2,b.113.1.1,g.39.1.8 75866,75867,75868 1yl31 118 8.79e+01 1rvgA 305 8.81e+01 c.1.10.2 97920 1efyA 350 8.84e+01 1a26 a.41.1.1,d.166.1.2 17413,42275 1ytlA 174 8.88e+01 1e9lA 377 8.90e+01 1e9lA c.1.8.5,d.26.3.1 59395,59396 2ghjA 118 8.97e+01 1fu1A 203 9.00e+01 1fu1B b.59.1.1,h.1.11.1 27076,45630