# List of top-scoring protein chains for t2k-100-30-alpha-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 1k8kA 418 1.43e+00 c.55.1.1,c.55.1.1 68305,68306 1wsrA 375 3.95e+00 2c4nA 250 8.17e+00 1l7vC 249 8.44e+00 c.37.1.12 73674 2bkaA 242 9.87e+00 1xmkA 79 1.06e+01 1gv4A 528 1.12e+01 c.3.1.5,c.3.1.5,d.87.1.1 70589,70590,70591 1quvA 578 1.22e+01 1quvA e.8.1.4 43119 1apq 53 1.22e+01 1apq g.3.11.1 44324 1gm9B 557 1.29e+01 1gk9B 557 1.40e+01 1gm7B 557 1.42e+01 1gkfB 557 1.45e+01 1m6iA 493 1.47e+01 c.3.1.5,c.3.1.5,d.87.1.1 74533,74534,74535 1sqjA 789 1.49e+01 b.69.13.1,b.69.13.1 105918,105919 1csjA 531 1.51e+01 1quvA e.8.1.4 43120 1tca 317 1.53e+01 1tca c.69.1.17 34726 1m4uA 206 1.59e+01 g.17.1.7 78625 1bpb 248 1.64e+01 1bpyA a.60.12.1,d.218.1.2 75811,75812 1rpl 251 1.78e+01 1bpyA a.60.12.1,d.218.1.2 75933,75934 1b59A 370 1.81e+01 1bn5 a.4.5.25,d.127.1.1 16225,41162 2fdsA 352 1.88e+01 1l2tA 235 1.90e+01 c.37.1.12 73514 1gx5A 536 2.06e+01 e.8.1.4 70682 1u2fA 90 2.06e+01 1u2fA d.58.7.1 39168 1e3aB 560 2.09e+01 1ajqB 2aqwA 332 2.10e+01 1p5hA 428 2.17e+01 c.123.1.1 87802 1uacH 114 2.31e+01 b.1.1.1 99132 1ic7H 114 2.34e+01 1f3rB b.1.1.1 62258 1bpyA 335 2.38e+01 1bpyA a.60.6.1,a.60.12.1,d.218.1.2 17980,75819,75820 2fy6A 143 2.39e+01 2a0iA 330 2.40e+01 1sur 215 2.43e+01 1sur c.26.2.2 31620 1pnkB 557 2.46e+01 1ajqB 1ajqB 557 2.55e+01 1ajqB 1u3oA 82 2.59e+01 1bn5 478 2.63e+01 1bn5 a.4.5.25,d.127.1.1 16224,41161 1nom 248 2.64e+01 1bpyA a.60.12.1,d.218.1.2 75929,75930 1b6a 478 2.69e+01 1bn5 a.4.5.25,d.127.1.1 16223,41160 1unqA 125 2.74e+01 b.55.1.1 107968 1h10A 125 2.75e+01 b.55.1.1 83446 1ldfA 281 2.85e+01 f.19.1.1 73845 1sdwA 314 2.88e+01 b.121.1.2,b.121.1.2 98810,98811 1fx8A 281 2.91e+01 f.19.1.1 43651 1dmwA 307 2.91e+01 4pah d.178.1.1 42580 1a8p 258 3.03e+01 1fdr b.43.4.2,c.25.1.1 25654,31544 1k4nA 192 3.05e+01 d.32.1.5 72059 1kn6A 90 3.10e+01 d.58.3.3 72770 4pah 308 3.19e+01 4pah d.178.1.1 42576 1j1xH 114 3.20e+01 b.1.1.1 77063 1poiB 260 3.30e+01 1poiB c.124.1.3 34155 2a74A 643 3.34e+01 1pah 308 3.35e+01 4pah d.178.1.1 42578 1ireB 228 3.35e+01 b.34.4.4 76770 1gxrA 337 3.39e+01 b.69.4.1 70722 1jjzA 29 3.50e+01 g.3.3.1 71699 1h09A 338 3.66e+01 b.109.1.1,c.1.8.8 83420,83421 1k8cA 322 3.75e+01 c.1.7.1 72172 2fmpA 335 3.83e+01 1ov3A 138 3.87e+01 b.34.2.1,b.34.2.1 87451,87452 1wlpB 138 3.89e+01 1tv9A 335 4.01e+01 1yi9A 309 4.06e+01 1msoA 21 4.08e+01 1xw7A 21 4.09e+01 1ah9 71 4.10e+01 1ah9 b.40.4.5 25330 2cqeA 98 4.18e+01 1mi3A 322 4.23e+01 c.1.7.1 91274 1j8uA 325 4.23e+01 d.178.1.1 71611 1phm 310 4.26e+01 1phm b.121.1.2,b.121.1.2 59015,59016 1j2aA 166 4.34e+01 b.62.1.1 90779 1jcaA 21 4.38e+01 2culA 232 4.38e+01 1q4vA 21 4.44e+01 1md6A 154 4.45e+01 b.42.1.2 91242 1rk8C 58 4.46e+01 b.72.3.1 97605 1benA 21 4.55e+01 1twyA 290 4.57e+01 1oiaA 95 4.58e+01 d.58.7.1 87051 1kmfA 21 4.63e+01 1g7aA 21 4.64e+01 1g7tA 594 4.90e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25714,25715,31033,32148 1cskA 71 4.90e+01 1ckaA b.34.2.1 24513 1lkqA 21 4.92e+01 1ugpB 226 4.97e+01 b.34.4.4 107832 1v9tA 166 4.99e+01 b.62.1.1 108451 1rweA 21 5.02e+01 1c2pA 576 5.07e+01 1quvA e.8.1.4 43117 1p4dA 330 5.12e+01 d.89.1.5 94101 1d02A 202 5.16e+01 1d02A c.52.1.8 33313 2ch4A 320 5.26e+01 1t71A 281 5.27e+01 1pidA 21 5.77e+01 1fezA 256 5.81e+01 1fezA c.108.1.3 43343 1ng2A 193 5.91e+01 b.34.2.1,b.34.2.1 85660,85661 2fbaA 492 6.12e+01 1k3mA 21 6.15e+01 1i78A 297 6.20e+01 f.4.4.1 66046 1iohA 21 6.24e+01 1mkmA 249 6.27e+01 a.4.5.33,d.110.2.2 79242,79243 1gosA 520 6.32e+01 c.3.1.2,d.16.1.5 65425,65426 2bn3A 21 6.39e+01 1xfsA 178 6.40e+01 d.129.3.5 109589 1m55A 197 6.43e+01 d.89.1.3 74469 1eaf 243 6.43e+01 1eaf c.43.1.1 32617 1fobA 334 6.51e+01 c.1.8.3 83255 2azwA 148 6.52e+01 1iogA 21 6.54e+01 1mz4A 137 6.73e+01 a.3.1.1 91496 1wtaA 275 6.80e+01 1b9wA 89 6.85e+01 1b9wA g.3.11.4,g.3.11.4 44334,44335 1i3uA 127 7.02e+01 1gc1H b.1.1.1 61636 104lA 166 7.31e+01 1l92 d.2.1.3 36969 2por 301 7.31e+01 2por f.4.3.1 43759 1lo6A 223 7.33e+01 b.47.1.2 74143 1i8nA 126 7.48e+01 1i8nA g.10.1.2 61976 1rztA 331 7.52e+01 a.60.6.1,a.60.12.1,d.218.1.2 98224,98225,98226 1urnA 97 7.60e+01 1urnA d.58.7.1 39153 1pls 113 7.81e+01 1pls b.55.1.1 26965 2bjrA 368 7.88e+01 1r4pA 297 7.93e+01 d.165.1.2 97025 1dpb 243 8.09e+01 1eaf c.43.1.1 32618 1pt7A 437 8.16e+01 c.123.1.1 95093 1ayx 492 8.36e+01 1ayx a.102.1.1 18825 1qwtA 255 8.37e+01 b.26.1.3 96501 1t6eX 381 8.44e+01 b.50.1.2 106564 1t7vA 278 8.49e+01 2g3aA 152 8.54e+01 1q7eA 428 8.55e+01 c.123.1.1 96035 2f2bA 246 8.58e+01 1p27B 106 8.62e+01 d.58.7.1 93908 1bpe 335 8.78e+01 1bpyA a.60.6.1,a.60.12.1,d.218.1.2 18076,75815,75816 1ysc 421 8.80e+01 1ivyA c.69.1.5 34652 1vhqA 232 8.86e+01 c.23.16.2 100696 2b0mA 393 8.87e+01