# 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.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 1m6yA 301 1.83e-42 a.60.13.1 78716 c.66.1.23 78717 1sqgA 429 4.02e-04 1l3iA 192 1.43e-03 c.66.1.22 77676 1ixkA 315 1.92e-03 unknown_sccs -8099 1inlA 296 2.58e-02 c.66.1.17 66220 1i9gA 280 2.67e-02 c.66.1.13 62090 1uirA 314 3.49e-02 c.66.1.17 -8114 1jq3A 296 3.71e-02 c.66.1.17 67079 1dl5A 317 5.76e-02 1dl5A c.66.1.7 64720 d.197.1.1 64721 1vid 221 6.46e-02 1vid c.66.1.1 34178 1h1dA 221 7.48e-02 c.66.1.1 83452 1uwvA 433 9.37e-02 unknown_sccs -3950 unknown_sccs -8107 1ej0A 180 9.41e-02 1ej0A c.66.1.2 34179 1o54A 277 1.08e-01 c.66.1.13 -8095 1n8kA 374 1.16e-01 b.35.1.2 80298 c.2.1.1 80299 1ne2A 200 1.30e-01 c.66.1.32 85586 1f8fA 371 1.56e-01 b.35.1.2 83246 c.2.1.1 83247 1qyrA 252 1.63e-01 1g38A 393 1.70e-01 2admA c.66.1.27 60235 3mhtA 327 1.74e-01 6mhtA c.66.1.26 34234 2ohxA 374 1.99e-01 2ohxA b.35.1.2 24669 c.2.1.1 29685 1ee2A 373 2.01e-01 2ohxA b.35.1.2 24663 c.2.1.1 29679 1dusA 194 2.19e-01 1dusA c.66.1.4 34182 1qamA 244 2.73e-01 2ercA c.66.1.24 34220 1fjxA 327 3.10e-01 6mhtA c.66.1.26 34228 1hetA 374 3.33e-01 2ohxA b.35.1.2 60975 c.2.1.1 60976 1heuA 374 3.33e-01 2ohxA b.35.1.2 60979 c.2.1.1 60980 1bdb 277 3.46e-01 1bdb c.2.1.2 29874 8adh 374 3.47e-01 2ohxA b.35.1.2 24690 c.2.1.1 29706 2admA 421 3.48e-01 2admA c.66.1.27 34238 6mhtA 327 3.64e-01 6mhtA c.66.1.26 34226 1hmy 327 4.16e-01 6mhtA c.66.1.26 34229 1jvbA 347 4.42e-01 b.35.1.2 77181 c.2.1.1 77182 1aqjA 421 4.52e-01 2admA c.66.1.27 34242 1f3lA 321 5.12e-01 1g6q2 c.66.1.6 59630 1jg1A 235 5.23e-01 c.66.1.7 66661 1ufkA 254 7.01e-01 unknown_sccs -8103 1clqA 903 7.42e-01 1clqA c.55.3.5 33717 e.8.1.1 43006 1h2bA 359 8.73e-01 b.35.1.2 -3679 c.2.1.1 -5703 1p1cA 199 1.07e+00 c.66.1.16 87669 1khhA 198 1.11e+00 c.66.1.16 68615 1agnA 373 1.13e+00 2ohxA b.35.1.2 24737 c.2.1.1 29753 1mjfA 281 1.32e+00 c.66.1.17 79198 1dqpA 230 1.37e+00 1dqnA c.61.1.1 34069 1dqnA 230 1.42e+00 1dqnA c.61.1.1 34067 1qo7A 394 1.45e+00 1qo7A c.69.1.11 34697 1ri5A 298 1.71e+00 unknown_sccs -8063 1l1eA 287 1.94e+00 c.66.1.18 73454 1e9rA 437 2.11e+00 c.37.1.11 64827 1i5rA 327 2.24e+00 c.2.1.2 83668 1qzzA 374 2.37e+00 a.4.5.29 -277 c.66.1.12 -8045 1n5uA 585 2.58e+00 a.126.1.1 85339 a.126.1.1 85340 a.126.1.1 85341 1fdt 327 2.83e+00 1fds c.2.1.2 29841 1nv8A 284 2.90e+00 c.66.1.30 86224 1nw3A 416 3.16e+00 c.66.1.31 86288 1fds 327 3.47e+00 1fds c.2.1.2 29838 1jtvA 327 3.81e+00 c.2.1.2 84230 1yub 245 3.83e+00 2ercA c.66.1.24 34219 1of8A 370 4.07e+00 c.1.10.4 -5508 1hdcA 253 4.12e+00 1e6wA c.2.1.2 29862 1ionA 243 4.84e+00 c.37.1.10 62633 2ercA 244 5.08e+00 2ercA c.66.1.24 34224 1g6q2 328 5.58e+00 1g6q2 2hsdA 253 5.65e+00 1e6wA c.2.1.2 29866 1d2gA 292 5.87e+00 1xvaA c.66.1.5 34187 1g55A 343 5.93e+00 1g55A c.66.1.26 34247 1booA 323 5.95e+00 1booA c.66.1.11 34248 1hxhA 253 5.96e+00 c.2.1.2 76725 1kr5A 226 6.16e+00 c.66.1.7 68847 1i1nA 226 6.46e+00 c.66.1.7 71102 1sw6A 327 7.04e+00 1sw6A d.211.1.1 19176 1kxpD 458 7.41e+00 a.126.1.1 73160 a.126.1.1 73161 a.126.1.1 73162 1g3qA 237 7.56e+00 1hyqA c.37.1.10 60237 1bj5 585 7.95e+00 1bj5 a.126.1.1 19369 a.126.1.1 19370 a.126.1.1 19371 1qv9A 283 8.05e+00 unknown_sccs -6888 1a27 289 8.21e+00 1fds c.2.1.2 29839 1ha2A 585 8.23e+00 1bj5 a.126.1.1 60866 a.126.1.1 60867 a.126.1.1 60868 1dctA 324 8.36e+00 6mhtA c.66.1.26 34244 1ih7A 903 8.74e+00 1clqA c.55.3.5 62375 e.8.1.1 62376 1pedA 351 9.24e+00 1pedA b.35.1.2 24753 c.2.1.1 29769 1lnsA 763 9.30e+00 a.40.2.1 78101 b.18.1.13 78102 c.69.1.21 78103 1lrzA 426 9.47e+00 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1hfbA 370 9.65e+00 c.1.10.4 76706 1g60A 260 1.04e+01 c.66.1.11 70151 1tof 112 1.05e+01 1erv c.47.1.1 32733 1jqbA 351 1.15e+01 b.35.1.2 77151 c.2.1.1 77152 1bhjA 292 1.19e+01 1xvaA c.66.1.5 34189 1g8sA 230 1.25e+01 c.66.1.3 -8047 1fbnA 230 1.33e+01 1fbnA c.66.1.3 34181 1fpxA 352 1.36e+01 1fpxA a.4.5.29 59950 c.66.1.12 59951 1xvaA 292 1.37e+01 1xvaA c.66.1.5 34183 1r5jA 337 1.42e+01 unknown_sccs -8471 1ao6A 585 1.42e+01 1bj5 a.126.1.1 19354 a.126.1.1 19355 a.126.1.1 19356 1fp2A 352 1.44e+01 1fpxA a.4.5.29 59941 c.66.1.12 59942 1mkmA 249 1.46e+01 a.4.5.33 79242 d.110.2.2 79243 1e7aA 585 1.53e+01 1bj5 a.126.1.1 19360 a.126.1.1 19361 a.126.1.1 19362 1iy8A 267 1.58e+01 c.2.1.2 83774 1jsxA 207 1.64e+01 c.66.1.20 71846 1tqnA 486 1.69e+01 1ahjB 212 1.70e+01 2ahjB b.34.4.4 24601 1h5qA 265 1.74e+01 1cydA c.2.1.2 60643 2ahjB 212 1.82e+01 2ahjB b.34.4.4 24599 1bg6 359 1.89e+01 1bg6 a.100.1.5 18810 c.2.1.6 30214 1r1dA 247 1.96e+01 unknown_sccs -8335 1r0kA 388 1.98e+01 1uhvA 500 2.00e+01 b.71.1.2 -4683 c.1.8.3 -5354 1uor 585 2.01e+01 1bj5 a.126.1.1 19396 a.126.1.1 19397 a.126.1.1 19398 1uohA 226 2.13e+01 d.211.1.1 -9572 1yagA 375 2.13e+01 1yagA c.55.1.1 33449 c.55.1.1 33450 1j3vA 289 2.18e+01 a.100.1.1 -1303 c.2.1.6 -5947 1d1rA 116 2.24e+01 1d1rA d.64.1.1 39548 1khdA 345 2.26e+01 a.46.2.1 77400 c.27.1.1 77401 1o4sA 389 2.31e+01 c.67.1.1 86620 1l6wA 220 2.32e+01 c.1.10.1 73632 1bl3A 160 2.35e+01 1b9dA c.55.3.2 33655 1vzoA 355 2.37e+01 1b9dA 163 2.37e+01 1b9dA c.55.3.2 33649 1jdqA 98 2.45e+01 d.68.3.3 66559 1kevA 351 2.49e+01 1pedA b.35.1.2 24749 c.2.1.1 29765 1h77A 605 2.57e+01 1prxA 224 2.61e+01 1prxA c.47.1.10 33076 1q7bA 244 2.67e+01 c.2.1.2 -5826 1kpgA 287 2.73e+01 c.66.1.18 68735 2cmd 312 2.74e+01 2cmd c.2.1.5 30135 d.162.1.1 42102 1vp9 322 2.74e+01 3mag c.66.1.25 34210 1v39 322 2.76e+01 3mag c.66.1.25 34206 1jbaA 204 2.81e+01 1rec a.39.1.5 17330 1d4fA 431 2.85e+01 1b3rA c.2.1.4 30110 c.23.12.3 31370 1i74A 309 2.89e+01 1i74A c.107.1.1 61867 1jboA 162 2.91e+01 a.1.1.3 84150 1vpt 348 2.91e+01 3mag c.66.1.25 34207 1cwyA 500 2.97e+01 1cwyA c.1.8.1 28789 1ok7A 366 2.97e+01 1ktpA 162 2.98e+01 a.1.1.3 72990 1nw8A 319 3.04e+01 c.66.1.11 86292 1mmiA 366 3.05e+01 d.131.1.1 -11093 d.131.1.1 -11094 d.131.1.1 -11095 1j78A 458 3.07e+01 a.126.1.1 66397 a.126.1.1 66398 a.126.1.1 66399 1n93X 375 3.11e+01 unknown_sccs -1540 1ng7A 60 3.12e+01 a.178.1.1 85671 1ah2 269 3.21e+01 1gci c.41.1.1 32542 1svq 114 3.25e+01 1svy d.109.1.1 40832 1hnnA 282 3.27e+01 c.66.1.15 65895 1allA 160 3.28e+01 1qgwC a.1.1.3 15647 1kp9B 287 3.32e+01 c.66.1.18 68734 1am2 199 3.34e+01 1am2 b.86.1.2 28381 1ae1A 273 3.34e+01 1bdb c.2.1.2 29943 1o9gA 250 3.37e+01 c.66.1.29 86692 1osa 148 3.39e+01 1cll a.39.1.5 17300 1prxB 224 3.43e+01 1prxA c.47.1.10 33077 1jqeA 292 3.44e+01 c.66.1.19 71789 1oq9A 363 3.44e+01 a.25.1.2 87257 1b3rA 431 3.50e+01 1b3rA c.2.1.4 30106 c.23.12.3 31366 1itg 166 3.53e+01 1b9dA c.55.3.2 33661 1ewkA 490 3.55e+01 1ewkA c.93.1.1 35712 1fpqA 372 3.56e+01 1fpqA a.4.5.29 59947 c.66.1.12 59948 1qorA 327 3.56e+01 1qorA b.35.1.2 24766 c.2.1.1 29782 1eswA 500 3.63e+01 1cwyA c.1.8.1 59500 1gio 125 3.63e+01 7rsa d.5.1.1 37304 5ldh 334 3.65e+01 3ldh c.2.1.5 30158 d.162.1.1 42125 1gegA 256 3.70e+01 1ybvA c.2.1.2 29888 3grx 82 3.72e+01 1aba c.47.1.1 32769 1kolA 398 3.81e+01 b.35.1.2 77474 c.2.1.1 77475 1pq4A 291 3.85e+01 c.92.2.2 -8633 1m6eX 359 3.86e+01 unknown_sccs -8071 1ehiA 377 3.88e+01 1iow c.30.1.2 31716 d.142.1.1 41484 3mag 307 3.96e+01 3mag c.66.1.25 34205 2polA 366 3.96e+01 2polA d.131.1.1 41356 d.131.1.1 41357 d.131.1.1 41358