# List of top-scoring protein chains for t2k-100-30-dssp-ehl2 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 1nb8A 353 5.03e-53 d.3.1.9 80385 5nseA 444 8.10e-02 d.174.1.1 74644 1hleA 345 9.20e-02 1ovaA e.1.1.1 42618 1d1vA 444 1.28e-01 1nseA d.174.1.1 59101 1d0cA 444 1.71e-01 d.174.1.1 64769 1nseA 444 2.04e-01 1nseA d.174.1.1 42534 1ed5A 444 2.57e-01 1nseA d.174.1.1 42530 1mdaH 368 3.01e-01 2bbkH b.69.2.1 27637 1fnnA 389 4.13e-01 1fnnA a.4.5.11 16129 c.37.1.20 32426 1fiy 883 4.61e-01 1fiy c.1.12.3 29307 1qb4A 883 5.25e-01 c.1.12.3 74640 1jqnA 883 5.63e-01 c.1.12.3 77159 1gnc 178 6.82e-01 1bgc a.26.1.1 16821 1ogwA 76 7.65e-01 d.15.1.1 87001 1ubi 76 7.65e-01 1ubi d.15.1.1 37584 1ubq 76 8.21e-01 1ubi d.15.1.1 37585 1d3zA 76 9.39e-01 1ubi d.15.1.1 37592 1lla 628 1.23e+00 1lla a.85.1.1 18485 a.86.1.1 18496 b.1.18.3 21861 1osa 148 1.24e+00 1cll a.39.1.5 17300 1exrA 148 1.39e+00 1cll a.39.1.5 17299 1ts3A 194 1.48e+00 1aw7A b.40.2.2 25168 d.15.6.1 37757 1hc7A 477 1.52e+00 1hc7A c.51.1.1 60938 d.68.5.1 60940 d.104.1.1 60939 1ksfX 758 1.58e+00 a.174.1.1 77522 c.37.1.20 77523 c.37.1.20 77524 1gm5A 780 1.82e+00 unknown_sccs 65298 b.40.4.9 65299 c.37.1.19 65300 c.37.1.19 65301 1as4A 341 2.26e+00 1sek e.1.1.1 42623 1vcbA 118 2.69e+00 1vcbA d.15.1.1 37603 1b9rA 105 2.90e+00 1ayfA d.15.4.1 37683 1cd9C 175 3.04e+00 1bgc a.26.1.1 16816 1f82A 424 3.09e+00 1f82A d.92.1.7 40307 1c8gA 548 3.19e+00 2cas b.121.5.2 23380 2cas 548 3.20e+00 2cas b.121.5.2 23376 1dlc 584 3.21e+00 1ciy b.18.1.3 23719 b.77.2.1 27976 f.1.3.1 43391 1clqA 903 4.04e+00 1clqA c.55.3.5 33717 e.8.1.1 43006 1nzjA 298 4.15e+00 c.26.1.1 -6600 1ih7A 903 4.38e+00 1clqA c.55.3.5 62375 e.8.1.1 62376 1hkfA 122 4.47e+00 b.1.1.1 83553 1lm8B 118 4.51e+00 d.15.1.1 74033 1k6kA 143 4.55e+00 a.174.1.1 77274 1ovaA 386 5.02e+00 1ovaA e.1.1.1 42619 1ng7A 60 5.21e+00 a.178.1.1 85671 1a81A 254 5.93e+00 1a81A d.93.1.1 40507 d.93.1.1 40508 1uhgA 385 5.95e+00 e.1.1.1 88491 1aw7A 194 6.28e+00 1aw7A b.40.2.2 25164 d.15.6.1 37753 1sva1 361 7.86e+00 1vpsA 1f83A 425 9.20e+00 1f82A d.92.1.7 40306 1ki1B 352 9.23e+00 a.87.1.1 72497 b.55.1.1 72498 1ll1 590 9.75e+00 1lla a.85.1.1 18488 a.86.1.1 18499 b.1.18.3 21864 1jjoC 261 1.04e+01 1zac 90 1.06e+01 1ncx a.39.1.5 17236 1g87A 614 1.09e+01 a.102.1.2 83275 b.2.2.2 83276 1hjp 203 1.15e+01 1hjp a.5.1.1 16274 a.60.2.1 17947 b.40.4.2 25266 1mtpA 323 1.22e+01 e.1.1.1 85107 4dpvZ 584 1.22e+01 2cas b.121.5.2 23377 1rdg 53 1.23e+01 1rb9 g.41.5.1 45221 1foeA 377 1.28e+01 1foeA a.87.1.1 18517 b.55.1.1 26969 1vh4A 435 1.31e+01 unknown_sccs -4794 1ipiA 123 1.35e+01 c.52.1.18 66255 1eg3A 261 1.36e+01 1eg3A a.39.1.7 17376 a.39.1.7 17377 b.72.1.1 27805 1b5pA 385 1.39e+01 c.67.1.1 -8133 1gvhA 396 1.45e+01 a.1.1.2 70601 b.43.4.2 70602 c.25.1.5 70603 1avsA 90 1.46e+01 1cll a.39.1.5 17226 2dvh 79 1.48e+01 1c53 a.3.1.1 15803 1uor 585 1.48e+01 1bj5 a.126.1.1 19396 a.126.1.1 19397 a.126.1.1 19398 9apiA 347 1.51e+01 1ovaA e.1.1.1 42630 1np7A 489 1.52e+01 a.99.1.1 80677 c.28.1.1 80678 1dg3A 592 1.60e+01 1dg3A a.114.1.1 19078 c.37.1.8 32153 1kfuS 184 1.64e+01 a.39.1.8 68574 1cmiA 85 1.67e+01 1cmiA d.39.1.1 38551 1sjwA 144 1.69e+01 unknown_sccs -9296 1bq8A 54 1.71e+01 1rb9 g.41.5.1 45237 1bq9A 54 1.71e+01 1rb9 g.41.5.1 45238 1op0A 234 1.76e+01 1ba1 386 1.78e+01 1ba1 c.55.1.1 33387 c.55.1.1 33388 1brfA 53 1.80e+01 1rb9 g.41.5.1 45236 1bjwA 382 1.81e+01 1bjwA c.67.1.1 34349 1mugA 168 1.87e+01 1mugA c.18.1.2 31030 1sqgA 429 1.90e+01 1ngvA 534 1.91e+01 c.111.1.2 85698 1mijA 152 1.94e+01 a.4.1.1 79150 1ysc 421 1.95e+01 1ivyA c.69.1.5 34652 1mjhA 162 1.97e+01 1mjhA c.26.2.4 31639 1jwhC 215 2.01e+01 g.41.4.1 71915 1gc1H 229 2.17e+01 1gc1H b.1.1.1 20265 b.1.1.2 21265 1jrrA 382 2.27e+01 e.1.1.1 63256 1cuk 203 2.28e+01 1hjp a.5.1.1 16273 a.60.2.1 17946 b.40.4.2 25265 1pa7A 130 2.30e+01 a.40.1.1 -896 1b4cA 92 2.31e+01 1b4cA a.39.1.2 17169 1qxyA 252 2.33e+01 d.127.1.1 -10993 1q1aA 289 2.37e+01 c.31.1.5 -6781 1dbhA 354 2.40e+01 1awe a.87.1.1 18514 b.55.1.1 26967 1e1oA 504 2.42e+01 1lylA b.40.4.1 25258 d.104.1.1 40714 1kmiZ 214 2.52e+01 h.4.11.1 72752 1mjhB 162 2.59e+01 1mjhA c.26.2.4 31640 1mi1A 414 2.61e+01 a.169.1.1 79137 b.55.1.6 79138 1izcA 339 2.63e+01 c.1.12.5 83838 1cqxA 403 2.71e+01 1cqxA a.1.1.2 15635 b.43.4.2 25667 c.25.1.5 31562 1jeyB 565 2.81e+01 1jeqB unknown_sccs -4431 unknown_sccs -7995 1ash 150 2.83e+01 1ash a.1.1.2 15622 2masA 314 2.90e+01 2masA c.70.1.1 34810 1o5zA 442 2.98e+01 c.59.1.2 -7939 c.72.2.2 -8418 1bgeB 175 3.01e+01 1bgc a.26.1.1 16824 1et9A 204 3.13e+01 1an8 b.40.2.2 25204 d.15.6.1 37793 1r9dA 787 3.19e+01 1uq5A 263 3.23e+01 d.165.1.1 -11555 1ljrA 244 3.27e+01 1ljrA a.45.1.1 17707 c.47.1.5 33001 1ktaA 365 3.30e+01 e.17.1.1 77533 1f5nA 592 3.37e+01 1dg3A a.114.1.1 19077 c.37.1.8 32152 3tss 194 3.45e+01 1aw7A b.40.2.2 25160 d.15.6.1 37749 1pb6A 212 3.53e+01 a.4.1.9 88017 a.121.1.1 88018 1ncx 162 3.55e+01 1ncx a.39.1.5 17222 1top 162 3.55e+01 1ncx a.39.1.5 17223 1alvA 173 3.55e+01 1alvA a.39.1.8 17370 1vk6A 269 3.59e+01 unknown_sccs -10923 unknown_sccs -10924 1bupA 386 3.59e+01 1ba1 c.55.1.1 33377 c.55.1.1 33378 1ekfA 365 3.65e+01 1ekfA e.17.1.1 59445 1nvhA 66 3.65e+01 1mlvA 444 3.71e+01 a.166.1.1 79283 b.85.7.3 79284 1dt6A 473 3.75e+01 1dt6A a.104.1.1 18977 1qxfA 66 3.76e+01 g.41.8.4 -12822 1nr6A 473 3.80e+01 a.104.1.1 -1464 1lylA 504 3.87e+01 1lylA b.40.4.1 25261 d.104.1.1 40717 1i50I 122 3.89e+01 g.41.3.1 61762 g.41.3.1 61763 1qwyA 291 3.91e+01 unknown_sccs -5023 1gg1A 350 3.92e+01 1qr7A c.1.10.4 29187 1hkbA 917 3.99e+01 1qhaA c.55.1.3 33479 c.55.1.3 33480 c.55.1.3 33481 c.55.1.3 33482 1uurA 473 4.00e+01 a.47.1.1 -968 b.2.5.5 -2904 d.93.1.1 -10632