# 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 1fvgA 199 6.41e-02 1fvaA d.58.28.1 39408 1fvaA 217 1.27e-01 1fvaA d.58.28.1 39409 1dabA 539 4.19e-01 1dabA b.80.1.7 28049 1broA 277 1.28e+00 1brt c.69.1.12 34700 1nbwB 117 1.39e+00 c.51.3.2 80396 1brt 277 1.60e+00 1brt c.69.1.12 34699 1agi 125 2.10e+00 7rsa d.5.1.1 37303 1gio 125 2.22e+00 7rsa d.5.1.1 37304 1b8jA 449 2.35e+00 1b8jA c.76.1.1 34992 2anhA 446 2.50e+00 1b8jA c.76.1.1 35004 1sspE 223 2.62e+00 3eugA c.18.1.1 31009 1j27A 102 2.64e+00 unknown_sccs -10116 1alkA 449 2.90e+00 1b8jA c.76.1.1 34994 1ed8A 449 2.97e+00 1b8jA c.76.1.1 34988 1kh5A 449 3.02e+00 c.76.1.1 72475 1jj2L 194 3.28e+00 1ffkI d.12.1.2 63097 1elyA 449 3.76e+00 1b8jA c.76.1.1 35028 1iz7A 295 4.39e+00 c.69.1.8 76982 1oakA 196 4.53e+00 1auq c.62.1.1 34138 1g8lA 411 4.65e+00 1g8lA b.85.6.1 60365 b.103.1.1 60366 c.57.1.2 60367 1fnsA 196 4.79e+00 1auq c.62.1.1 34136 1qumA 285 5.78e+00 1qumA c.1.15.1 29393 1ijbA 202 6.05e+00 c.62.1.1 71229 1sxjE 354 6.53e+00 1uf3A 228 6.73e+00 unknown_sccs -11463 1j6oA 268 6.73e+00 c.1.9.12 77088 1auq 208 6.92e+00 1auq c.62.1.1 34137 1iy8A 267 6.92e+00 c.2.1.2 83774 1mj5A 302 7.15e+00 c.69.1.8 -8326 1cv2A 296 7.40e+00 1bn6A c.69.1.8 34680 1vjw 60 7.76e+00 1fxd d.58.1.4 38991 1rboC 123 7.99e+00 1rboC d.73.1.1 39634 8rucI 123 8.26e+00 1rboC d.73.1.1 39629 2prf 125 8.60e+00 3nul d.110.1.1 40887 1hkhA 279 8.66e+00 c.69.1.12 -8342 1nv8A 284 9.28e+00 c.66.1.30 86224 1bg6 359 9.73e+00 1bg6 a.100.1.5 18810 c.2.1.6 30214 7taa 478 9.99e+00 7taa b.71.1.1 27778 c.1.8.1 28765 1s72M 194 1.06e+01 1hwyA 501 1.12e+01 1hwyA c.2.1.7 30262 c.58.1.1 33910 1r72A 211 1.23e+01 unknown_sccs -215 unknown_sccs -5981 1qtwA 285 1.29e+01 1qumA c.1.15.1 29392 1iae 200 1.35e+01 1iae d.92.1.8 40311 1ny6A 267 1.38e+01 c.37.1.20 -7221 1deuA 277 1.41e+01 1theB d.3.1.1 37085 1o5oA 221 1.43e+01 c.61.1.1 -7954 2aaiB 262 1.48e+01 1abrB b.42.2.1 25561 b.42.2.1 25562 4eugA 229 1.53e+01 3eugA c.18.1.1 31019 1f8vA 355 1.55e+01 2bbvA b.121.4.4 23329 1twdA 256 1.58e+01 1m6dA 214 1.62e+01 d.3.1.1 84849 1vizA 240 1.63e+01 c.1.4.1 -5212 1souA 194 1.64e+01 1ast 200 1.67e+01 1iae d.92.1.8 40310 1iab 200 1.67e+01 1iae d.92.1.8 40312 1hwxA 501 1.70e+01 1hwyA c.2.1.7 30250 c.58.1.1 33898 2dorA 311 1.78e+01 2dorA c.1.4.1 28593 1qdlB 195 1.88e+01 1qdlB c.23.16.1 31437 1dorA 311 1.93e+01 2dorA c.1.4.1 28595 1g3gA 164 1.93e+01 1g6gA b.26.1.2 23918 1ta3B 303 2.03e+01 3eugA 229 2.03e+01 3eugA c.18.1.1 31018 1t0iA 191 2.04e+01 1gd1O 334 2.06e+01 1dssG c.2.1.3 29962 d.81.1.1 39877 1nvmA 345 2.19e+01 a.5.7.1 86249 c.1.10.5 86250 1bxdA 161 2.28e+01 1bxdA d.122.1.3 41111 1e9lA 377 2.28e+01 1e9lA c.1.8.5 59395 d.26.3.1 59396 1h6kZ 98 2.33e+01 d.58.7.1 60686 1m3kA 392 2.64e+01 c.95.1.1 78565 c.95.1.1 78566 1to6A 371 2.66e+01 1q0rA 298 2.68e+01 unknown_sccs -8330 1c4xA 285 2.76e+01 1c4xA c.69.1.10 34684 1mo9A 523 2.78e+01 c.3.1.5 79341 c.3.1.5 79342 d.87.1.1 79343 1fe8A 196 2.84e+01 1atzA c.62.1.1 59783 1qflA 389 2.89e+01 1afwA c.95.1.1 35908 c.95.1.1 35909 1m4tA 392 2.95e+01 c.95.1.1 78617 c.95.1.1 78618 1h6kX 97 2.96e+01 d.58.7.1 60684 1dqiA 124 3.03e+01 1do6A b.1.13.1 22357 1do6A 124 3.07e+01 1do6A b.1.13.1 22361 1d2fA 390 3.09e+01 1d2fA c.67.1.3 34411 1gh7A 419 3.17e+01 b.1.2.1 65194 b.1.2.1 65195 b.1.2.1 65196 b.1.2.1 65197 1dqsA 393 3.21e+01 1dqsA e.22.1.1 43347 1bjnA 360 3.29e+01 1bjnA c.67.1.4 34469 2gd1O 334 3.33e+01 1dssG c.2.1.3 29978 d.81.1.1 39893 1dctA 324 3.34e+01 6mhtA c.66.1.26 34244 1ih7A 903 3.38e+01 1clqA c.55.3.5 62375 e.8.1.1 62376 1ma3A 253 3.39e+01 c.31.1.5 78883 4pgaA 337 3.42e+01 4pgaA c.88.1.1 35565 1lgpA 116 3.42e+01 b.26.1.2 73890 1fviA 297 3.43e+01 1fviA b.40.4.6 25364 d.142.2.1 41578 1j5xA 342 3.46e+01 c.80.1.1 71591 1atzB 189 3.52e+01 1atzA c.62.1.1 34133 1bjoA 360 3.53e+01 1bjnA c.67.1.4 34471 1uz5A 402 3.54e+01 b.85.6.1 -5029 b.103.1.1 -5069 c.57.1.2 -7902 1ufoA 238 3.66e+01 unknown_sccs -8303 1lgyA 269 3.71e+01 3tgl c.69.1.17 34758 1cauB 184 3.75e+01 1caxB b.82.1.2 28103 1wkt 88 3.76e+01 1wkt b.11.1.2 23630 1hgeA 328 3.79e+01 1hgeA b.19.1.2 23816 2pia 321 3.83e+01 2pia b.43.4.2 25663 c.25.1.2 31553 d.15.4.2 37704 1nmuB 104 3.84e+01 d.79.3.1 80666 1sur 215 3.87e+01 1sur c.26.2.2 31620 1eokA 290 3.88e+01 1eokA c.1.8.5 28991 1eaxA 241 3.89e+01 b.47.1.2 64889 1jubA 311 3.97e+01 c.1.4.1 -5188 1gq6A 313 3.97e+01 c.42.1.1 70341