# List of top-scoring protein chains for t2k.100-30-stride-ebghtl 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.soe.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 1jwqA 179 4.43e-33 c.56.5.6 90921 1xovA 326 4.98e-14 b.34.11.4 122206 c.56.5.6 122207 2oo3A 283 1.83e-01 1zr6A 503 1.92e-01 1p3wA 404 3.48e-01 c.67.1.3 87752 1qapA 296 4.00e-01 1qpoA c.1.17.1 29559 d.41.2.1 38595 2ywxA 157 4.20e-01 1h5wA 309 6.08e-01 e.27.1.1 65635 2bkhA 814 6.53e-01 1k2yX 463 6.93e-01 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 d.129.2.1 68066 1bia 321 7.44e-01 1bia 1biaA 321 7.44e-01 a.4.5.1 16083 b.34.1.1 24447 d.104.1.2 40787 2pmwA 126 7.69e-01 1p5dX 463 8.31e-01 c.84.1.1 94138 c.84.1.1 94139 c.84.1.1 94140 d.129.2.1 94141 2qtwA 124 1.26e+00 2p41A 305 1.46e+00 1ehiA 377 1.49e+00 1iow c.30.1.2 31716 d.142.1.1 41484 2a3nA 355 1.53e+00 1hp4A 512 1.70e+00 1hp4A c.1.8.6 61111 d.92.2.1 61112 1jakA 512 1.70e+00 c.1.8.6 66472 d.92.2.1 66473 1o7jA 327 1.77e+00 c.88.1.1 81140 2v26A 784 1.82e+00 1t5iA 172 2.02e+00 c.37.1.19 106450 2p0sA 143 2.05e+00 1fnoA 417 2.10e+00 c.56.5.4 75841 d.58.19.1 70145 1uuqA 440 2.20e+00 c.1.8.3 100015 1iow 306 2.33e+00 1iow 1iowA 306 2.33e+00 c.30.1.2 31713 d.142.1.1 41481 2aj6A 159 2.35e+00 d.108.1.1 126841 2yw2A 424 2.40e+00 2hbtA 247 2.43e+00 1eg5A 384 2.49e+00 1ecxA c.67.1.3 34429 1o97C 264 2.60e+00 c.26.2.3 81232 2nadA 393 2.66e+00 2nadA c.2.1.4 30090 c.23.12.1 31350 2ay1A 394 2.83e+00 1ajsA c.67.1.1 34357 2rjoA 332 2.83e+00 2p6wA 213 2.91e+00 2bifA 469 2.92e+00 1bif c.37.1.7 31963 c.60.1.4 34009 2nacA 393 3.13e+00 2nadA c.2.1.4 30088 c.23.12.1 31348 1aua 296 3.14e+00 1aua 1auaA 296 3.14e+00 a.5.3.1 16290 c.13.1.1 30882 1ecxA 384 3.14e+00 1ecxA c.67.1.3 34431 2aefA 234 3.18e+00 1bif 469 3.42e+00 1bif 1bifA 469 3.42e+00 c.37.1.7 31961 c.60.1.4 34003 2qgqA 304 3.85e+00 2g19A 244 3.87e+00 1vajA 214 4.04e+00 d.309.1.1 119907 2vgnA 386 4.06e+00 1vixA 420 4.37e+00 c.56.5.4 100777 d.58.19.1 100778 2a84A 300 4.37e+00 c.26.1.4 126389 1bcsB 160 4.46e+00 1whtB 1yqeA 282 4.70e+00 c.56.7.1 123879 1lehA 364 4.83e+00 1bw9A c.2.1.7 30268 c.58.1.1 33916 1whsB 153 5.16e+00 1whtB 2hjgA 436 5.31e+00 1lnqA 336 5.92e+00 c.2.1.9 111576 d.286.1.1 111577 f.14.1.1 74050 1pnoA 180 6.07e+00 c.31.1.4 94953 2f1rA 171 6.13e+00 1te5A 257 6.16e+00 d.153.1.1 106795 1whtB 153 6.24e+00 1whtB 2pqpA 421 6.65e+00 1zz1A 369 7.02e+00 1w2xA 758 7.18e+00 c.14.1.4 109134 c.14.1.4 109135 2akaA 776 7.63e+00 3bifA 468 7.64e+00 1bif c.37.1.7 31962 c.60.1.4 34008 1yhtA 367 7.71e+00 c.1.8.6 123213 1nvmA 345 7.82e+00 a.5.7.1 86249 c.1.10.5 86250 1iybA 208 7.98e+00 d.124.1.1 90720 1t9kA 347 8.28e+00 c.124.1.5 106721 2i71A 400 8.42e+00 1zetA 388 8.46e+00 d.240.1.1 124997 e.8.1.7 124998 1fc6A 388 8.63e+00 1fc6A b.36.1.3 64738 c.14.1.2 64739 2yxzA 311 8.85e+00 2eayA 233 8.90e+00 1rtqA 299 9.08e+00 c.56.5.4 97819 3b9oA 440 9.20e+00 2fuvA 549 9.23e+00 1tcoA 375 9.24e+00 1auiA d.159.1.3 42084 1od2A 805 9.27e+00 c.14.1.4 86821 c.14.1.4 86822 2anpA 291 9.57e+00 c.56.5.4 127056 1agqA 135 9.66e+00 1agqA g.17.1.2 44789 2dr1A 386 9.70e+00 2vg2A 284 9.75e+00 1xv5A 401 9.96e+00 1ew3A 159 1.05e+01 1mup b.60.1.1 27114 7aatA 401 1.06e+01 1ajsA c.67.1.1 34250 1c3pA 375 1.06e+01 1c3pA c.42.1.2 32606 1sjdA 368 1.07e+01 c.1.11.2 105632 d.54.1.1 105633 2px2A 269 1.10e+01 1vsd 152 1.12e+01 1cxqA 3c10A 423 1.14e+01 2vefA 314 1.15e+01 1z2iA 358 1.17e+01 1hyhA 309 1.18e+01 1hyhA c.2.1.5 30150 d.162.1.1 42117 2qbuA 232 1.18e+01 2ehhA 294 1.20e+01 2nvrA 423 1.21e+01 1np7A 489 1.21e+01 a.99.1.1 80677 c.28.1.1 80678 2qg3A 208 1.21e+01 1cs1A 386 1.21e+01 1ibjA c.67.1.3 34399 1unqA 125 1.22e+01 b.55.1.1 107968 1imvA 398 1.23e+01 e.1.1.1 62591 1mnaA 298 1.24e+01 c.69.1.22 79322 1u0mA 382 1.26e+01 c.95.1.2 107557 c.95.1.2 107558 2fhqA 141 1.27e+01 b.45.1.1 133497 1yxmA 303 1.27e+01 c.2.1.2 124192 1nslA 184 1.27e+01 d.108.1.1 86137 2dpoA 319 1.30e+01 1e7wA 291 1.36e+01 c.2.1.2 59373 1e5dA 402 1.36e+01 1e5dA c.23.5.1 31208 d.157.1.3 42061 1y76A 62 1.39e+01 a.194.1.1 122683 1o9gA 250 1.39e+01 c.66.1.29 86692 2cghA 268 1.40e+01 1o6dA 163 1.44e+01 c.116.1.3 92567 2hnhA 910 1.51e+01 1kqpA 271 1.53e+01 c.26.2.1 72883 2i02A 148 1.53e+01 b.45.1.1 136936 2nsyA 271 1.53e+01 2nsyA c.26.2.1 31612 1nt0A 286 1.57e+01 b.23.1.1 86143 b.23.1.1 86144 g.3.11.1 86145 1ej1A 190 1.57e+01 1ejhA d.86.1.1 40144 2ef5A 290 1.60e+01 1kzyC 259 1.63e+01 c.15.1.4 73383 c.15.1.4 73384 2hdhA 293 1.66e+01 2hdhA a.100.1.3 18795 c.2.1.6 30199 1psdA 409 1.66e+01 1psdA c.2.1.4 30097 c.23.12.1 31357 d.58.18.1 39354 1om1A 332 1.68e+01 d.144.1.7 93347 1m6nA 802 1.70e+01 a.162.1.1 78697 a.172.1.1 78698 c.37.1.19 78699 c.37.1.19 78700 1akaA 401 1.71e+01 1ajsA c.67.1.1 34258 1l8bA 190 1.72e+01 d.86.1.1 73683 2f6kA 307 1.73e+01 c.1.9.15 133047 8rucI 123 1.73e+01 1rboC d.73.1.1 39629 2hq4A 161 1.74e+01 1ydxA 406 1.74e+01 d.287.1.2 123004 d.287.1.2 123005 2oauA 306 1.75e+01 b.38.1.3 138978 d.58.43.1 138979 f.34.1.1 138980 1nktA 922 1.75e+01 a.162.1.1 85830 a.172.1.1 85831 c.37.1.19 85832 c.37.1.19 85833 2bklA 695 1.77e+01 1zq7A 207 1.92e+01 d.309.1.1 125501 2amjA 204 1.97e+01 1u5rA 348 1.97e+01 d.144.1.7 113050 2bvfA 459 1.98e+01 2ig6A 150 1.98e+01 2dy0A 190 2.05e+01 1z3eA 132 2.06e+01 c.47.1.12 124400 1yj7A 171 2.09e+01 1cfyA 143 2.10e+01 1cof d.109.1.2 40858 3ctpA 330 2.12e+01 2yvuA 186 2.13e+01 2b0mA 393 2.16e+01 c.1.4.1 127644 2o4cA 380 2.18e+01 1uz5A 402 2.19e+01 b.85.6.1 100217 b.103.1.1 100218 c.57.1.2 100219 1d3gA 367 2.19e+01 1d3gA c.1.4.1 28600 1tf5A 844 2.19e+01 a.162.1.1 106834 a.172.1.1 106835 c.37.1.19 106836 c.37.1.19 106837 2nx9A 464 2.20e+01 2avnA 260 2.24e+01 c.66.1.41 127380 2bo4A 397 2.27e+01 c.68.1.18 128869 1ybtA 184 2.31e+01 1amp 291 2.31e+01 1amp 1lokA 291 2.31e+01 c.56.5.4 78122 2hq1A 247 2.31e+01 2b3hA 329 2.38e+01 1o4vA 183 2.47e+01 c.23.8.1 86628 1wsrA 375 2.51e+01 1j3mA 129 2.52e+01 d.129.7.1 103836 1ie7C 570 2.56e+01 1ubpC b.92.1.1 62315 c.1.9.2 62316 1js3A 486 2.61e+01 c.67.1.6 67215 2dunA 133 2.62e+01 2pvrA 334 2.64e+01 2dqwA 294 2.64e+01 2flsA 132 2.73e+01 1ubpC 570 2.76e+01 1ubpC b.92.1.1 28432 c.1.9.2 29054 4ubpC 570 2.76e+01 1ubpC b.92.1.1 28431 c.1.9.2 29053 1hc7A 477 2.77e+01 1hc7A c.51.1.1 60938 d.68.5.1 60940 d.104.1.1 60939 1mioA 534 2.77e+01 1qguA c.92.2.3 35601 3b7nA 320 2.78e+01 2ht9A 146 2.79e+01 2g47A 990 2.81e+01 2o0bA 450 2.83e+01 1w66A 232 2.86e+01 d.104.1.3 120652 2g3fA 421 2.87e+01 2a5hA 416 2.88e+01 1fobA 334 2.90e+01 c.1.8.3 83255 3b2yA 275 2.90e+01 3bh1A 507 2.93e+01 1g0cA 364 2.95e+01 7a3hA c.1.8.3 60165 2qt3A 403 2.98e+01 1w9iA 770 2.99e+01 2ek8A 421 3.04e+01 1zejA 293 3.04e+01 1fvpA 231 3.05e+01 1nfp c.1.16.2 29556 2f62A 161 3.05e+01 c.23.14.1 133021 1vkmA 297 3.07e+01 c.138.1.1 108670 1h7eA 245 3.13e+01 c.68.1.13 60717 1mkyA 439 3.14e+01 c.37.1.8 79250 c.37.1.8 79251 d.52.5.1 79252 1i36A 264 3.14e+01 a.100.1.8 71108 c.2.1.6 71109 1wr2A 238 3.21e+01 1f0yA 302 3.25e+01 2hdhA a.100.1.3 18793 c.2.1.6 30197 2b4pA 334 3.28e+01 1914 232 3.34e+01 1914 3by3A 301 3.35e+01 1sc6A 404 3.36e+01 c.2.1.4 118932 c.23.12.1 118933 d.58.18.1 118934 2pn1A 331 3.41e+01 1wvfA 520 3.44e+01 d.58.32.1 121337 d.145.1.1 121338 1m2kA 249 3.45e+01 c.31.1.5 84754 2ehpA 126 3.47e+01 1xb2B 291 3.59e+01 a.5.2.2 115057 d.43.1.1 115058 d.43.1.1 115059 2o3aA 178 3.59e+01 3c9uA 342 3.59e+01 1xhnA 184 3.61e+01 b.45.1.1 122007 1svy 114 3.61e+01 1svy 1svyA 114 3.61e+01 d.109.1.1 40831 2is6A 680 3.62e+01 1cvjB 190 3.62e+01 1cvjB d.58.7.1 39193 d.58.7.1 39194 3bijA 285 3.67e+01 1iae 200 3.68e+01 1iae 1tw4A 125 3.71e+01 b.60.1.2 112690 1cf2O 337 3.73e+01 1b7gO c.2.1.3 29994 d.81.1.1 39909 1aw2A 256 3.74e+01 1amk c.1.1.1 28523 1cydA 244 3.81e+01 1cydA c.2.1.2 29825 1ehaA 558 3.83e+01 1ehaA b.1.18.2 21859 b.71.1.1 27786 c.1.8.1 28773 1sjyA 159 3.83e+01 d.113.1.1 98900 2p5yA 311 3.83e+01 2jcqA 154 3.86e+01 1q7zA 566 3.87e+01 c.1.21.2 96090 c.1.26.1 96091 2p67A 341 3.89e+01 1vpvA 300 3.90e+01 c.119.1.1 113975 2pv7A 298 3.94e+01 2ftbA 125 3.96e+01 b.60.1.2 134057 2f96A 224 3.97e+01 c.55.3.5 133153 4pgaA 337 3.98e+01 4pgaA c.88.1.1 35565 1wekA 217 3.98e+01 c.129.1.1 114553