# List of top-scoring protein chains for t2k-100-30-str2 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 1nt4A 391 4.67e-01 c.60.1.2 92102 1t7pA 698 5.92e-01 1t7pA c.55.3.5 33712 e.8.1.1 43005 1x9mA 698 6.01e-01 1eni 138 1.60e+00 2end a.18.1.1 16403 1enk 138 1.75e+00 2end a.18.1.1 16402 1vasA 137 1.90e+00 2end a.18.1.1 16404 1xc0A 33 2.03e+00 j.6.1.1 109542 1yaxA 153 2.10e+00 2end 138 2.21e+00 2end a.18.1.1 16400 1enj 138 2.35e+00 2end a.18.1.1 16401 1ovnA 248 2.64e+00 a.71.1.1 93602 c.47.1.7 93603 1ctn 540 3.07e+00 1ctn b.1.18.2 21876 c.1.8.5 29005 d.26.3.1 38439 1wpgA 994 3.08e+00 1xkwA 665 3.42e+00 1r5zA 323 3.46e+00 f.40.1.1 97135 1m6dA 214 3.57e+00 d.3.1.1 84849 1su4A 994 3.86e+00 b.82.7.1 98993 c.108.1.7 98994 d.220.1.1 98995 f.33.1.1 98996 1m2eA 135 3.87e+00 c.23.1.5 78478 1f07A 321 3.90e+00 1ezwA c.1.16.3 59560 1f88A 348 4.56e+00 1f88A f.13.1.2 43429 1k9tA 540 4.99e+00 b.1.18.2 77298 c.1.8.5 77299 d.26.3.1 77300 1ebbA 202 5.00e+00 c.60.1.1 64900 1edqA 540 5.10e+00 1ctn b.1.18.2 21873 c.1.8.5 29002 d.26.3.1 38436 1s5lX 50 5.47e+00 1zvdA 380 5.47e+00 1zsxA 347 5.48e+00 1exbA 332 5.60e+00 1qrqA c.1.7.1 28666 2aefA 234 6.31e+00 1mn1 357 7.16e+00 1arv a.93.1.1 18667 1pgs 314 7.17e+00 1pgs b.121.1.1 23653 b.121.1.1 23654 1yydA 357 7.22e+00 1vk9A 151 7.22e+00 c.139.1.1 108640 1mnp 357 7.29e+00 1arv a.93.1.1 18668 1to6A 371 7.88e+00 c.141.1.1 107170 1h2eA 207 8.11e+00 c.60.1.1 70857 2c3vA 102 8.33e+00 2bwvA 440 9.35e+00 1a3aC 148 9.39e+00 1a3aA d.112.1.1 40919 1bx4A 345 9.65e+00 1bx4A c.72.1.1 34935 1qw9A 502 9.84e+00 b.71.1.2 96466 c.1.8.3 96467 1r12A 258 9.90e+00 e.4.1.1 96780 1n2sA 299 1.06e+01 c.2.1.2 79857 2aamA 309 1.09e+01 1k3kA 158 1.09e+01 f.1.4.1 72017 1az9 457 1.10e+01 1az9 c.55.2.1 33547 d.127.1.1 41164 1iv8A 720 1.12e+01 b.71.1.1 76842 c.1.8.1 76843 1bif 469 1.12e+01 1bif c.37.1.7 31961 c.60.1.4 34003 1wl9A 440 1.13e+01 1h6hA 143 1.13e+01 d.189.1.1 65681 1urqA 63 1.14e+01 h.1.15.1 107994 1dv1A 449 1.17e+01 1bncA b.84.2.1 28234 c.30.1.1 31641 d.142.1.2 41486 1zsyA 357 1.21e+01 1a3aA 148 1.23e+01 1a3aA d.112.1.1 40917 1gen 218 1.28e+01 1gen b.66.1.1 27536 1rwtA 232 1.29e+01 f.43.1.1 97992 1jeyB 565 1.29e+01 1jeqB b.131.1.2 90372 c.62.1.4 90373 2bifA 469 1.30e+01 1bif c.37.1.7 31963 c.60.1.4 34009 1a16 440 1.32e+01 1az9 c.55.2.1 33548 d.127.1.1 41165 1o51A 114 1.33e+01 d.58.5.4 92480 1dv2A 452 1.37e+01 1bncA b.84.2.1 28238 c.30.1.1 31645 d.142.1.2 41490 1l9hA 349 1.38e+01 f.13.1.2 73720 1qrqA 325 1.38e+01 1qrqA c.1.7.1 28667 2afwA 329 1.43e+01 1k8mA 93 1.44e+01 b.84.1.1 68314 1jeqB 565 1.51e+01 1jeqB b.131.1.2 90368 c.62.1.4 90369 1ll0A 339 1.52e+01 c.68.1.14 73995 1zk7A 467 1.55e+01 1jdc 429 1.62e+01 1jdc b.71.1.1 27789 c.1.8.1 28776 1aa7A 158 1.62e+01 1aa7A a.95.1.1 18741 1ll2A 333 1.63e+01 c.68.1.14 74005 1im4A 221 1.67e+01 e.8.1.7 62581 1a17 166 1.68e+01 1a17 a.118.8.1 19206 1h8eI 50 1.68e+01 1e79I a.137.8.1 60758 3bifA 468 1.70e+01 1bif c.37.1.7 31962 c.60.1.4 34008 1dfoA 417 1.71e+01 1bj4A c.67.1.4 34480 1xfxO 149 1.74e+01 2c5uA 375 1.82e+01 1lbeA 258 1.85e+01 1lbeA e.4.1.1 42773 1kdxB 28 1.86e+01 1bncA 449 1.95e+01 1bncA b.84.2.1 28236 c.30.1.1 31643 d.142.1.2 41488 1ahr 146 2.03e+01 1cll a.39.1.5 17287 1b85A 351 2.08e+01 1arv a.93.1.1 18581 1z3xA 238 2.09e+01 1hzxA 349 2.12e+01 1f88A f.13.1.2 61466 1hcc 59 2.14e+01 1hfh g.18.1.1 44820 1b43A 340 2.17e+01 1a76 a.60.7.1 18092 c.120.1.2 33362 1b80A 351 2.28e+01 1arv a.93.1.1 18579 1gc0A 398 2.29e+01 c.67.1.3 70168 1ffkV 143 2.34e+01 1ffkV c.9.2.1 30849 9ldtA 332 2.38e+01 3ldh c.2.1.5 30154 d.162.1.1 42121 1v9mA 323 2.39e+01 f.40.1.1 100543 1vflA 356 2.47e+01 1llp 343 2.57e+01 1arv a.93.1.1 18578 1tueB 218 2.72e+01 b.91.1.1 107324 1q52A 314 2.74e+01 c.14.1.3 95846 1b4fA 82 2.79e+01 1b4fA a.60.1.2 17934 1zl8B 54 2.81e+01 1g4yR 148 2.81e+01 1cll a.39.1.5 60252 2ahjA 206 2.82e+01 2ahjA d.149.1.1 41772 1lj8A 493 2.86e+01 a.100.1.9 90392 c.2.1.6 90393 1yruB 74 2.87e+01 1wwpA 119 2.88e+01 1w9yA 319 2.89e+01 1u5kA 244 2.89e+01 1b4fG 82 2.91e+01 1b4fA a.60.1.2 17940 1kxqE 120 2.98e+01 b.1.1.1 73171 2fojA 155 3.00e+01 1f0mA 82 3.00e+01 1b4fA a.60.1.2 17942 2a3qA 170 3.00e+01 1eulA 994 3.01e+01 1eulA 2cz1A 206 3.01e+01 2cohA 202 3.01e+01 1fbtA 190 3.02e+01 1bif c.60.1.4 34004 1m3yA 413 3.03e+01 b.121.2.3 78579 b.121.2.3 78580 1yy6A 155 3.05e+01 1uelB 48 3.11e+01 j.105.1.1 99266 2f1wA 158 3.14e+01 1v8dA 235 3.20e+01 c.140.1.1 108425 1bncB 449 3.21e+01 1bncA b.84.2.1 28237 c.30.1.1 31644 d.142.1.2 41489 1ahjA 207 3.26e+01 2ahjA d.149.1.1 41774 1hqkA 154 3.26e+01 c.16.1.1 65902 2ahjC 206 3.28e+01 2ahjA d.149.1.1 41773 1r30A 369 3.34e+01 c.1.28.1 96895 2amg 415 3.41e+01 1jdc b.71.1.1 27796 c.1.8.1 28783 1yrlA 491 3.41e+01 1yw0A 276 3.43e+01 1hwxA 501 3.46e+01 1hwyA c.2.1.7 30250 c.58.1.1 33898 1c52 131 3.47e+01 1c52 a.3.1.1 15810 1j5qA 437 3.52e+01 b.121.2.3 77084 b.121.2.3 77085 1y74B 50 3.52e+01 2lbp 346 3.54e+01 2liv c.93.1.1 35709 1wyuB 474 3.61e+01 1oltA 457 3.78e+01 c.1.28.2 93334 1t0qA 498 3.80e+01 a.25.1.2 106220 1xo3A 101 3.91e+01 1e79I 50 3.93e+01 1e79I a.137.8.1 19647 1qbgA 272 3.95e+01 1d4aA c.23.5.3 31227 1kbqA 273 3.96e+01 c.23.5.3 68391 3pbgA 468 3.99e+01 1e70M c.1.8.4 28951