# List of top-scoring protein chains for t04-100-30-stride-ebghtl-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 1wdjA 187 1.73e-01 1m4zA 238 2.38e-01 b.34.12.1 78630 1yk4A 52 4.62e-01 2f4mA 295 2.76e+00 1b7yB 785 3.19e+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 2aa1B 146 3.20e+00 1iro 54 3.34e+00 1rb9 g.41.5.1 45223 1vphA 149 3.86e+00 1mz4A 137 4.55e+00 a.3.1.1 91496 1weoA 93 4.65e+00 1q7lB 88 5.12e+00 1rlyA 60 5.40e+00 g.41.3.1 104988 1dl6A 58 5.71e+00 1dl6A g.41.3.1 45207 2evrA 246 5.72e+00 1v87A 114 5.94e+00 g.44.1.1 108422 1vq0A 302 6.14e+00 1uz3A 102 6.60e+00 1w4xA 542 7.34e+00 c.3.1.5,c.3.1.5 109171,109172 1x1rA 178 7.47e+00 1vqqA 646 7.54e+00 2av5A 120 7.88e+00 1adoA 363 8.09e+00 1fbaA c.1.10.1 29124 1zip 217 8.55e+00 1zin c.37.1.1,g.41.2.1 31916,45179 1utuA 108 8.57e+00 1zin 217 9.02e+00 1zin c.37.1.1,g.41.2.1 31915,45178 1u6tA 121 9.68e+00 1vkmA 297 9.78e+00 c.138.1.1 108670 1ut9A 609 1.01e+01 a.102.1.2,b.1.18.2 99912,99913 1x1fA 149 1.10e+01 1lv7A 257 1.11e+01 c.37.1.20 78232 3pvaA 335 1.14e+01 3pvaA d.153.1.3 41854 2fztA 79 1.15e+01 1v5wA 343 1.16e+01 c.37.1.11 108387 1bq9A 54 1.17e+01 1rb9 g.41.5.1 45238 1rb9 53 1.20e+01 1rb9 g.41.5.1 45214 1brfA 53 1.22e+01 1rb9 g.41.5.1 45236 2gsaA 432 1.24e+01 2gsaA c.67.1.4 34446 1yhvA 297 1.28e+01 1vhtA 218 1.30e+01 c.37.1.1 100700 2fe5A 94 1.30e+01 1i0aA 466 1.30e+01 1auwA a.127.1.1 61479 1vp6A 138 1.32e+01 1aszB 490 1.37e+01 1b8aA b.40.4.1,d.104.1.1 25241,40762 1ltqA 301 1.40e+01 c.108.1.9,c.37.1.1 78208,78209 2g42A 79 1.45e+01 1psrA 100 1.47e+01 1psrA a.39.1.2 17180 2bkkA 264 1.49e+01 1rw1A 114 1.52e+01 2b8wA 328 1.53e+01 2d00A 109 1.56e+01 2pvaA 345 1.56e+01 3pvaA d.153.1.3 41850 1g2fC 90 1.59e+01 k.12.1.1 60222 1zaiA 363 1.59e+01 1gsa 316 1.59e+01 1gsa c.30.1.3,d.142.1.1 31718,41477 1x38A 602 1.60e+01 1fp1D 372 1.64e+01 1fpqA a.4.5.29,c.66.1.12 59939,59940 1yua 122 1.66e+01 1yua g.41.3.3,g.41.3.3 45210,45211 1cjwA 166 1.69e+01 1cjwA d.108.1.1 40818 1dv1A 449 1.72e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 2cc0A 195 1.75e+01 1rdg 53 1.75e+01 1rb9 g.41.5.1 45221 1uu1A 335 1.77e+01 c.67.1.1 99993 1woyA 500 1.82e+01 1ro2A 216 1.83e+01 d.264.1.2 97665 1u5kA 244 1.88e+01 1z0sA 278 1.89e+01 1ykhA 108 1.92e+01 2cb5A 453 1.95e+01 3gcb d.3.1.1 37035 1yf3A 259 1.98e+01 1p3jA 217 2.02e+01 c.37.1.1,g.41.2.1 94022,94023 2afgA 140 2.06e+01 1bfg b.42.1.1 25514 1u7eB 154 2.06e+01 1tv9A 335 2.06e+01 2axwA 134 2.15e+01 1p4xA 250 2.18e+01 a.4.5.28,a.4.5.28 87784,87785 1gz6A 319 2.19e+01 c.2.1.2 76410 1nd7A 374 2.38e+01 d.148.1.1 91817 1ujmA 342 2.39e+01 2a14A 263 2.42e+01 1q0sA 259 2.52e+01 c.66.1.28 95509 1kzfA 230 2.54e+01 d.108.1.3 73354 2f6lA 166 2.56e+01 2fp1A 166 2.56e+01 1iznB 277 2.60e+01 e.43.1.2 83848 2occF 98 2.62e+01 2occF g.41.5.3 45256 1ex1A 605 2.66e+01 1ex1A c.1.8.7,c.23.11.1 29013,31347 1vmfA 145 2.69e+01 4fgf 146 2.71e+01 1bfg b.42.1.1 25486 1v54F 98 2.72e+01 g.41.5.3 100327 1bfg 146 2.73e+01 1bfg b.42.1.1 25485 1a1iA 90 2.74e+01 1aayA g.37.1.1,g.37.1.1,g.37.1.1 44998,44999,45000 1yz4A 160 2.75e+01 1y1pA 342 2.78e+01 1p63A 144 2.79e+01 b.42.1.1 94153 1rg8A 146 2.80e+01 1bpyA 335 2.82e+01 1bpyA a.60.6.1,a.60.12.1,d.218.1.2 17980,75819,75820 1aua 296 2.86e+01 1aua a.5.3.1,c.13.1.1 16290,30882 1nthA 458 2.88e+01 c.1.25.1 80730 1zaaC 87 2.95e+01 1aayA g.37.1.1,g.37.1.1,g.37.1.1 45013,45014,45015 2a8eA 220 2.96e+01 1aayA 90 2.96e+01 1aayA g.37.1.1,g.37.1.1,g.37.1.1 45001,45002,45003 1q74A 303 2.97e+01 c.134.1.1 96019 1aa6 715 2.98e+01 2napA b.52.2.2,c.81.1.1 26916,35324 1hyeA 313 3.03e+01 2cmd c.2.1.5,d.162.1.1 61400,61401 1fp0A 88 3.10e+01 1fp0A g.50.1.2 45361 1zbqA 327 3.13e+01 1w3oA 216 3.27e+01 1a8h 500 3.35e+01 1a8h a.27.1.1,c.26.1.1 16922,31589 1ucrA 78 3.43e+01 a.4.5.45 99188 1bjwA 382 3.45e+01 1bjwA c.67.1.1 34349 1wgxA 73 3.48e+01 1oaoC 729 3.54e+01 e.26.1.3 86746 1oqcA 125 3.58e+01 a.24.15.1 87264 1j4nA 271 3.60e+01 f.19.1.1 71510 1ebfA 358 3.62e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 1j7xA 302 3.66e+01 c.14.1.2 66425 1epxA 370 3.79e+01 1fbaA c.1.10.1 29150 2basA 431 3.79e+01 1wryA 121 3.80e+01 2etxA 209 3.96e+01 1kbhA 47 3.98e+01 a.153.1.1 68382 1ro0A 216 4.07e+01 d.264.1.2 97664 1qxfA 66 4.08e+01 g.41.8.4 96527 2fokA 579 4.11e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16131,16132,16133,33323 1msk 331 4.13e+01 1msk d.173.1.1 42495 1b5pA 385 4.22e+01 c.67.1.1 90403 1otkA 249 4.25e+01 a.25.1.2 93521 1y8qA 346 4.28e+01 1rdqE 350 4.28e+01 d.144.1.7 97314 2ex3B 264 4.31e+01 1t3yA 141 4.32e+01 1ppjF 110 4.33e+01 f.27.1.1 104262 1c75A 71 4.36e+01 451c a.3.1.1 15796 1vfqA 143 4.39e+01 1yxmA 303 4.42e+01 1hy0A 466 4.43e+01 1auwA a.127.1.1 61392 1xreA 217 4.54e+01 1np6A 174 4.57e+01 c.37.1.10 85954 1udmA 149 4.61e+01 d.109.1.2 107780 1o97D 320 4.61e+01 c.26.2.3,c.31.1.2 81233,81234 2az0A 73 4.71e+01 2c2hA 192 4.82e+01 1viaA 175 4.84e+01 c.37.1.2 100754 1wwtA 88 5.04e+01 1g4yB 101 5.11e+01 1g4yB f.15.1.1 60251 1ia8A 289 5.16e+01 1ia8A d.144.1.7 62112 1pzgA 331 5.19e+01 c.2.1.5,d.162.1.1 95425,95426 1tl9A 339 5.19e+01 2cybA 323 5.19e+01 1suwA 249 5.21e+01 e.52.1.1 106027 1k7wA 468 5.29e+01 a.127.1.1 72130 1ufbA 127 5.29e+01 a.24.16.3 99331 1oj5A 132 5.34e+01 d.110.3.8 93087 1nh1A 330 5.40e+01 e.45.1.1 91871 1i0hA 205 5.40e+01 1avmA a.2.11.1,d.44.1.1 15760,38685 1ix9A 205 5.40e+01 a.2.11.1,d.44.1.1 76899,76900 1i1rB 181 5.47e+01 1i1rB a.26.1.1 61548 1it2A 146 5.51e+01 a.1.1.2 66365 2cwxA 430 5.54e+01 1hxn 219 5.56e+01 1hxn b.66.1.1 27529 1m0wA 491 5.57e+01 c.30.1.4,d.142.1.6 78363,78364 1ax0 239 5.60e+01 1led b.29.1.1 24042 1tjvA 474 5.61e+01 a.127.1.1 107054 1txnA 328 5.65e+01 1vzlA 34 5.67e+01 1q5nA 454 5.83e+01 a.127.1.1 95901 1sdoA 203 5.83e+01 c.52.1.21 98809 1ly1A 181 5.93e+01 c.37.1.1 74334 1apmE 350 5.95e+01 1cdkA d.144.1.7 41628 1sgwA 214 5.96e+01 c.37.1.12 105541 1ub4A 110 5.96e+01 b.34.6.2 88399 1hbnC 248 6.00e+01 1mroC d.58.31.1 60902 1rjdA 334 6.01e+01 c.66.1.37 97558 1ap6A 198 6.04e+01 1avmA a.2.11.1,d.44.1.1 15746,38705 1yqtA 538 6.18e+01 1bea 127 6.24e+01 1bea a.52.1.2 17826 1pl4A 198 6.27e+01 a.2.11.1,d.44.1.1 94854,94855 1mldA 314 6.30e+01 2cmd c.2.1.5,d.162.1.1 30122,42089 2ajgA 196 6.31e+01 1qzzA 374 6.32e+01 a.4.5.29,c.66.1.12 96719,96720 1d8bA 81 6.34e+01 1d8bA a.60.8.1 18094 1wijA 140 6.43e+01 1w44A 331 6.44e+01 2es9A 115 6.61e+01 1uekA 275 6.63e+01 d.14.1.5,d.58.26.5 88483,88484 1jr8A 117 6.68e+01 a.24.15.1 67115 1usyA 275 6.68e+01 1thtA 305 6.69e+01 1thtA c.69.1.13 34711 1mroC 247 6.70e+01 1mroC d.58.31.1 39437 1xl7A 612 6.73e+01 1wolA 122 6.74e+01 1wc9A 169 6.75e+01 1gp6A 356 6.76e+01 b.82.2.1 65441 1mzgA 146 6.87e+01 d.224.1.1 79696 1nal1 297 6.87e+01 1nal3 1e9gA 286 6.88e+01 1wgjA b.40.5.1 59393 1yzxA 226 6.94e+01 1pmi 440 7.02e+01 1pmi b.82.1.3 28114 1ytlA 174 7.10e+01 2adoA 196 7.14e+01 1t06A 235 7.17e+01 a.118.1.17 106194 1vykA 149 7.28e+01 3rubS 123 7.30e+01 1rboC d.73.1.1 39616 1peqA 714 7.35e+01 a.98.1.1,c.7.1.2 104131,104132 2czcA 334 7.37e+01 1t2lA 141 7.38e+01 2d69A 430 7.39e+01 1cpcA 162 7.48e+01 1cpcA a.1.1.3 15643 1ne6A 283 7.49e+01 b.82.3.2,b.82.3.2 91831,91832 2d27A 149 7.55e+01 2a6hD 1524 7.56e+01 1mxmA 254 7.58e+01 b.38.1.3,d.58.43.1,f.34.1.1 79647,79648,79649 1tk1A 260 7.68e+01 d.248.1.1 107066 1frpA 335 7.70e+01 1frpA e.7.1.1 42875 1yzfA 195 7.72e+01 1n0nA 199 7.72e+01 a.2.11.1,d.44.1.1 79750,79751 1b71A 191 7.73e+01 1ryt a.25.1.1,g.41.5.1 16647,45246 1gsoA 431 7.73e+01 1gsoA b.84.2.1,c.30.1.1,d.142.1.2 28240,31647,41492 1ezwA 349 7.75e+01 1ezwA c.1.16.3 29558 1lucA 355 7.87e+01 1lucA c.1.16.1 29547 2b3wA 168 7.90e+01 1kg0C 136 7.92e+01 d.169.1.1 72445 2az2A 73 7.98e+01 1a8q 274 8.00e+01 1brt c.69.1.12 34702 1v52A 133 8.02e+01 1r13A 148 8.05e+01 d.169.1.1,h.1.1.1 96782,96783 1llmC 88 8.15e+01 g.37.1.1,g.37.1.1 91059,91060 1yl31 118 8.24e+01 1n13A 52 8.29e+01 d.155.1.2 85248 3daaA 277 8.43e+01 1daaA e.17.1.1 43272 1xtqA 177 8.52e+01 2d2mD 145 8.70e+01 1nm2A 317 8.74e+01 c.19.1.1,d.58.23.1 80654,80655 1furA 467 8.74e+01 1furA a.127.1.1 19403 1ukuA 102 8.74e+01 d.58.5.2 99533 1r4kA 169 8.83e+01 b.34.14.1 96997