# 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 1kafA 108 3.96e-01 d.199.1.1 68372 1emsA 440 4.85e-01 1emsA d.13.1.1 37520 d.160.1.1 42086 1s3iA 310 7.05e-01 b.46.1.1 -4111 c.65.1.1 -8042 1ut7A 171 1.26e+00 unknown_sccs -4724 1ggxA 223 1.30e+00 1ggxA d.22.1.1 38367 1dar 691 1.47e+00 1dar b.43.3.1 25707 c.37.1.8 32142 d.14.1.1 37547 d.58.11.1 39300 1fgp 70 1.80e+00 1g3p b.37.1.1 24795 1ndbA 596 2.29e+00 c.43.1.3 80411 c.43.1.3 80412 1vjzA 341 2.33e+00 c.1.8.3 -5318 1fnmA 691 2.70e+00 1dar b.43.3.1 25709 c.37.1.8 32144 d.14.1.1 37546 d.58.11.1 39302 d.58.11.1 39303 1kxrA 339 2.84e+00 d.3.1.3 73175 1frvB 536 2.97e+00 1h2rL e.18.1.1 43296 1nulA 152 3.34e+00 1nulA c.61.1.1 34011 1oltA 457 3.83e+00 unknown_sccs -5688 1azpA 66 3.97e+00 1azpA b.34.13.1 37467 1dcuA 357 4.23e+00 1frpA e.7.1.1 42943 1g61A 228 4.51e+00 1g61A d.126.1.1 41126 1mrj 247 4.56e+00 1mrj d.165.1.1 42177 1iawA 317 5.28e+00 c.52.1.9 62126 1bqyA 234 5.53e+00 5ptp b.47.1.2 26332 1ev7B 317 5.64e+00 1ev7B c.52.1.9 33316 1ts3A 194 5.69e+00 1aw7A b.40.2.2 25168 d.15.6.1 37757 1xgsA 295 5.94e+00 1bn5 a.4.5.25 16216 d.127.1.1 41153 1ei1A 391 5.98e+00 1aj6 d.14.1.3 37570 d.122.1.2 41104 1r2zA 274 7.37e+00 a.156.1.2 -370 b.113.1.1 -5094 g.39.1.8 -12748 1l1zA 274 7.40e+00 a.156.1.2 75911 b.113.1.1 75912 g.39.1.8 75913 1kanA 253 7.43e+00 1knyA a.24.16.1 75878 d.218.1.1 75879 1azqA 66 7.50e+00 1azpA b.34.13.1 37469 1rvkA 382 7.98e+00 c.1.11.2 -5568 d.54.1.1 -9826 1te5A 257 8.27e+00 1udmA 149 8.96e+00 1f35A 162 9.27e+00 1f35A b.94.1.1 59628 1eqcA 394 9.70e+00 1cz1A c.1.8.3 28811 1ev7A 317 9.90e+00 1ev7B c.52.1.9 33315 1jq3A 296 9.96e+00 c.66.1.17 67079 1r4pB 70 9.99e+00 b.40.2.1 -3887 1cz1A 394 1.01e+01 1cz1A c.1.8.3 28839 1iakA 199 1.02e+01 1iakA b.1.1.2 21625 d.19.1.1 38199 1v84A 253 1.03e+01 1inlA 296 1.03e+01 c.66.1.17 66220 1i9aA 182 1.10e+01 1i9aA d.113.1.2 62082 1nm8A 616 1.11e+01 c.43.1.3 85872 c.43.1.3 85873 1sap 66 1.15e+01 1azpA b.34.13.1 37472 1deuA 277 1.16e+01 1theB d.3.1.1 37085 1iakB 185 1.18e+01 1iakB b.1.1.2 21626 d.19.1.1 38200 1g0oA 283 1.26e+01 1ybvA c.2.1.2 60181 1enp 312 1.26e+01 1enp c.2.1.2 29906 1ybvA 283 1.28e+01 1ybvA c.2.1.2 29948 1kn0A 212 1.28e+01 d.50.1.3 77444 1kjqA 391 1.29e+01 b.84.2.1 72616 c.30.1.1 72617 d.142.1.2 72618 1o97D 320 1.32e+01 c.26.2.3 81233 c.31.1.2 81234 1lxnA 99 1.32e+01 d.58.48.1 84737 1fmk 452 1.36e+01 1fmk b.34.2.1 24511 d.93.1.1 40436 d.144.1.7 41690 1ua4A 455 1.38e+01 c.72.1.3 -8416 1ghpA 258 1.40e+01 1btl e.3.1.1 60520 2frvB 536 1.40e+01 1h2rL e.18.1.1 43291 1eno 312 1.44e+01 1enp c.2.1.2 29905 1q5qA 259 1.45e+01 d.153.1.4 -11433 1q1rA 431 1.50e+01 c.3.1.5 -6048 c.3.1.5 -6049 d.87.1.1 -10502 1f3iA 481 1.52e+01 1b7eA 1ur5A 309 1.56e+01 c.2.1.5 -5910 d.162.1.1 -11477 1nvmB 312 1.70e+01 c.2.1.3 86251 d.81.1.1 86252 1jobA 162 1.75e+01 1f35A b.94.1.1 63207 1fa3A 96 1.76e+01 1molA d.17.1.1 37996 1ci0A 228 1.80e+01 1ci0A b.45.1.1 25750 1n6zA 105 1.89e+01 unknown_sccs 85369 1guzA 310 1.89e+01 c.2.1.5 65586 d.162.1.1 65587 1hzdA 272 1.90e+01 c.14.1.3 65969 1nrlA 316 1.90e+01 a.123.1.1 -1668 1d7oA 297 2.00e+01 1enp c.2.1.2 29907 1ughI 82 2.15e+01 1ugiA d.17.5.1 38133 1a6dA 545 2.18e+01 1a6dA a.129.1.2 19488 c.8.5.2 30819 d.56.1.2 38936 1h4pA 408 2.19e+01 c.1.8.3 -5314 1el6B 219 2.28e+01 1el6B d.182.1.1 42607 1o1zA 234 2.35e+01 c.1.18.3 86555 1ihfA 99 2.41e+01 1huuA a.55.1.1 17893 1owfA 99 2.41e+01 a.55.1.1 87487 1usuA 260 2.42e+01 unknown_sccs -9045 1c0dA 358 2.42e+01 1eceA c.1.8.3 28815 1dmhA 311 2.46e+01 1dmhA b.3.6.1 22633 1ca4A 168 2.49e+01 1d0aB b.8.1.1 23238 h.1.2.1 45445 1i8fA 81 2.54e+01 1i8fA b.38.1.1 61959 3tss 194 2.55e+01 1aw7A b.40.2.2 25160 d.15.6.1 37749 1eceA 358 2.58e+01 1eceA c.1.8.3 28813 1ugiA 84 2.58e+01 1ugiA d.17.5.1 38125 1gtmA 419 2.60e+01 1hwyA c.2.1.7 30223 c.58.1.1 33871 1oejA 193 2.64e+01 unknown_sccs -4461 1aj2 282 2.73e+01 1aj2 c.1.21.1 29665 2bosA 68 2.78e+01 2bosA b.40.2.1 25025 1mdwA 328 2.80e+01 d.3.1.3 84934 1bo1A 416 2.82e+01 1bo1A d.143.1.2 41591 1914 232 2.85e+01 1914 d.49.1.1 83028 d.49.1.1 83029 1nbaA 264 2.87e+01 1nbaA unknown_sccs 31753 1pauA 147 2.87e+01 1pauA c.17.1.1 30994 1ca9A 192 2.87e+01 1d0aB b.8.1.1 23244 h.1.2.1 45451 1jssA 224 2.87e+01 d.129.3.2 71844 1uxzA 131 2.88e+01 b.18.1.10 -3110 1udiI 83 2.88e+01 1ugiA d.17.5.1 38124 1qj5A 429 2.88e+01 1dtyA c.67.1.4 34493 1op0A 234 2.89e+01 1s0aA 429 2.94e+01 c.67.1.4 -8201 3pmgA 561 2.95e+01 3pmgA c.84.1.1 35408 c.84.1.1 35409 c.84.1.1 35410 d.129.2.1 41301 1aj0 282 2.96e+01 1aj2 c.1.21.1 29667 1gg4A 452 3.04e+01 1gg4A c.98.1.1 58985 c.59.1.1 33957 c.72.2.1 58986 1dtyA 429 3.04e+01 1dtyA c.67.1.4 34495 1onqA 283 3.11e+01 b.1.1.2 -2640 d.19.1.1 -9390 1musA 477 3.12e+01 c.55.3.4 79494 1eyzA 392 3.13e+01 1ez1A b.84.2.1 28246 c.30.1.1 31653 d.142.1.2 41498 1rr9A 200 3.13e+01 unknown_sccs -9100 1s6yA 450 3.14e+01 1ez1A 392 3.17e+01 1ez1A b.84.2.1 28248 c.30.1.1 31655 d.142.1.2 41500 1q7zA 566 3.28e+01 c.1.21.2 -5638 c.1.26.1 -5666 1alq 266 3.32e+01 1btl e.3.1.1 42707 1vjqA 79 3.36e+01 unknown_sccs -13478 1czyA 168 3.36e+01 1d0aB b.8.1.1 23220 h.1.2.1 45427 1l2lA 457 3.37e+01 c.72.1.3 77656 1a98A 152 3.39e+01 1nulA c.61.1.1 34021 1lehA 364 3.39e+01 1bw9A c.2.1.7 30268 c.58.1.1 33916 1j93A 353 3.40e+01 c.1.22.1 66454 1p97A 114 3.41e+01 unknown_sccs -10844 2mbr 340 3.41e+01 2mbr d.145.1.2 41749 d.146.1.1 41762 1czyC 168 3.47e+01 1d0aB b.8.1.1 23222 h.1.2.1 45429 1lxtA 561 3.49e+01 3pmgA c.84.1.1 35432 c.84.1.1 35433 c.84.1.1 35434 d.129.2.1 41309 1cp3A 277 3.53e+01 1pauA c.17.1.1 30992 1bncA 449 3.54e+01 1bncA b.84.2.1 28236 c.30.1.1 31643 d.142.1.2 41488 1nuyA 337 3.54e+01 e.7.1.1 86213 1im8A 244 3.54e+01 c.66.1.14 66212 1h2aL 567 3.60e+01 1h2rL e.18.1.1 43299 1hwxA 501 3.62e+01 1hwyA c.2.1.7 30250 c.58.1.1 33898 1aw7A 194 3.67e+01 1aw7A b.40.2.2 25164 d.15.6.1 37753 1giqA 413 3.71e+01 d.166.1.1 76224 d.166.1.1 76225 1nbwA 607 3.78e+01 c.8.6.1 80393 c.55.1.6 80394 c.55.1.6 80395 1ex2A 189 3.79e+01 1ex2A c.51.4.2 33225 1fd9A 213 3.80e+01 1fd9A d.26.1.1 59771 1v6fA 151 3.87e+01