# List of top-scoring protein chains for t04-100-40-40-str2+CB_burial_14_7-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 1v4vA 376 4.73e-01 c.87.1.3 -8583 1g8yA 279 7.04e-01 1g8yA c.37.1.11 32302 1mdl 359 1.05e+00 2mnr c.1.11.2 29247 d.54.1.1 38891 1nlfA 279 1.10e+00 c.37.1.11 85850 1khiA 176 1.15e+00 b.34.5.2 77408 b.40.4.5 77409 1e2wA 251 1.18e+00 1hcz b.2.6.1 22466 b.84.2.2 28252 1k38A 254 1.23e+00 e.3.1.1 84303 1i6aA 219 1.44e+00 c.94.1.1 61827 1v58A 241 1.46e+00 1i52A 236 2.73e+00 1i52A c.68.1.13 61767 1r31A 428 2.75e+00 d.58.20.1 -10108 d.179.1.1 -11716 1uc7A 125 3.15e+00 c.47.1.1 -7414 1q9jA 422 4.75e+00 2ng1 293 4.78e+00 1ng1 a.24.13.1 16962 c.37.1.10 32273 1k55A 246 4.85e+00 e.3.1.1 68156 1sek 378 5.03e+00 1sek e.1.1.1 42675 2mnr 357 5.10e+00 2mnr c.1.11.2 29245 d.54.1.1 38889 1oe1A 336 5.16e+00 b.6.1.3 86891 b.6.1.3 86892 1mucA 373 5.20e+00 1mucA c.1.11.2 29236 d.54.1.1 38880 1p0hA 318 5.28e+00 d.108.1.1 -10802 1j7dA 145 5.41e+00 1jatB d.20.1.1 62680 1musA 477 5.47e+00 c.55.3.4 79494 1f3iA 481 5.52e+00 1b7eA 1e42A 258 6.04e+00 1e42A b.1.10.1 22316 d.105.1.1 40792 1bsg 266 6.05e+00 1btl e.3.1.1 42729 1nrwA 288 6.29e+00 c.108.1.10 86128 1ktjA 129 6.36e+00 b.1.18.7 72974 1b35A 260 6.41e+00 1b35A b.121.4.1 23333 1jztA 246 6.47e+00 c.104.1.1 63319 1q33A 292 6.47e+00 d.113.1.1 -10901 1inlA 296 7.14e+00 c.66.1.17 66220 1rcf 169 7.17e+00 1rcf c.23.5.1 31170 1fxlA 167 7.22e+00 1b7fA d.58.7.1 39183 d.58.7.1 39184 1h8mA 140 7.88e+00 1h8mA d.110.4.1 60782 1n3hA 207 7.94e+00 b.55.1.2 -4350 1or0B 528 7.99e+00 1nls 237 8.46e+00 1nls b.29.1.1 23928 1euoA 180 8.85e+00 1np1A b.60.1.1 27163 1l3kA 196 8.90e+00 d.58.7.1 73539 d.58.7.1 73540 1egaA 301 9.77e+00 1egaA c.37.1.8 32150 d.52.3.1 38836 1peeA 180 9.97e+00 1cqxA 403 1.02e+01 1cqxA a.1.1.2 15635 b.43.4.2 25667 c.25.1.5 31562 1h1yA 228 1.03e+01 c.1.2.2 76506 1a79A 171 1.03e+01 1a79A c.52.2.1 33340 d.75.1.1 39739 1sy3A 184 1.05e+01 1e3uA 246 1.08e+01 1fofA e.3.1.1 42755 1ls1A 295 1.10e+01 a.24.13.1 78170 c.37.1.10 78171 1lv7A 257 1.11e+01 c.37.1.20 78232 1shyB 551 1.18e+01 1eejA 216 1.19e+01 1eejA c.47.1.9 33057 d.17.3.1 38071 2cpl 165 1.19e+01 2cpl b.62.1.1 27420 1ifqA 138 1.19e+01 1ifqA d.110.4.1 62350 1qovH 260 1.20e+01 6prcH b.41.1.1 25464 f.23.10.1 43457 1a6jA 163 1.21e+01 1a6jA d.112.1.1 40915 1qyrA 252 1.23e+01 1a5t 334 1.26e+01 1a5t a.80.1.1 18450 c.37.1.20 32423 1dqaA 467 1.33e+01 1dqaA d.58.20.1 39364 d.179.1.1 42585 1a7cA 379 1.33e+01 1sek e.1.1.1 42660 1mkeA 152 1.34e+01 b.55.1.4 79231 1nhs 447 1.34e+01 1nhp c.3.1.5 30555 c.3.1.5 30556 d.87.1.1 40199 1koiA 184 1.37e+01 b.60.1.1 68725 1g5tA 196 1.37e+01 1g5rA c.37.1.11 32366 1qfjA 232 1.40e+01 1qfjA b.43.4.2 25655 c.25.1.1 31545 1erxA 184 1.42e+01 1np1A b.60.1.1 27164 1ddlA 188 1.44e+01 1auyA b.121.4.6 23317 1svb 395 1.44e+01 1svb b.1.18.4 21814 f.10.1.1 43827 1ha1 184 1.48e+01 1ha1 d.58.7.1 39147 d.58.7.1 39148 1whsA 255 1.49e+01 1ivyA c.69.1.5 34649 1whtA 256 1.51e+01 1ivyA c.69.1.5 34646 1hv9A 456 1.53e+01 1fwyA b.81.1.4 28060 c.68.1.5 34518 1nhp 447 1.55e+01 1nhp c.3.1.5 30549 c.3.1.5 30550 d.87.1.1 40196 1cznA 169 1.57e+01 1rcf c.23.5.1 31181 1im8A 244 1.59e+01 c.66.1.14 66212 2trcP 217 1.62e+01 1b9yC c.47.1.6 33051 2shpA 525 1.63e+01 2shpA c.45.1.2 32683 d.93.1.1 40533 d.93.1.1 40534 1bv1 159 1.64e+01 1bv1 d.129.3.1 41313 1od6A 160 1.65e+01 c.26.1.3 86836 1u9aA 160 1.66e+01 1u9aA d.20.1.1 38333 1ej1A 190 1.66e+01 1ejhA d.86.1.1 40144 1jbbA 153 1.68e+01 1u9aA d.20.1.1 62842 1lw3A 657 1.70e+01 unknown_sccs -4378 unknown_sccs -7358 1iicA 422 1.72e+01 1nmtA d.108.1.2 62422 d.108.1.2 62423 1gyhA 318 1.75e+01 b.67.2.1 70757 1oboA 169 1.76e+01 c.23.5.1 86776 1mh1 186 1.78e+01 1eesA c.37.1.8 32002 1rzhH 260 1.78e+01 b.41.1.1 -3979 f.23.10.1 -12092 1ollA 188 1.81e+01 b.1.1.4 -2690 b.1.1.4 -2691 1dxrH 258 1.86e+01 6prcH b.41.1.1 25456 f.23.10.1 43433 1eaf 243 1.86e+01 1eaf c.43.1.1 32617 1vmoA 163 1.88e+01 1vmoA b.77.1.1 27974 1knb 196 1.88e+01 1qhvA b.21.1.1 23841 1rztA 331 1.93e+01 a.60.6.1 -1023 a.60.12.1 -1030 d.218.1.2 -9807 1sxjE 354 1.93e+01 1dleA 298 2.02e+01 1dleA b.47.1.2 26312 1af7 274 2.05e+01 1af7 a.58.1.1 17928 c.66.1.8 34203 1mp4A 292 2.07e+01 c.68.1.6 79376 1n08A 163 2.08e+01 b.43.5.1 79730 1lylA 504 2.21e+01 1lylA b.40.4.1 25261 d.104.1.1 40717 1wad 112 2.25e+01 3cyr a.138.1.1 19658 1uctA 218 2.27e+01 b.1.1.4 88467 b.1.1.4 88468 1lrzA 426 2.28e+01 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1gw5S 142 2.31e+01 d.110.4.2 70633 1jatA 155 2.34e+01 1u9aA d.20.1.1 62818 1lvwA 295 2.35e+01 c.68.1.6 84723 1l3aA 228 2.40e+01 d.18.1.2 73531 1bkb 136 2.45e+01 1bkb b.34.5.2 24609 b.40.4.5 25341 1fh0A 221 2.51e+01 1cs8A d.3.1.1 59832 1nf3C 128 2.61e+01 b.36.1.1 85596 1eajA 126 2.61e+01 1f5wA b.1.1.1 59401 1ks9A 291 2.65e+01 a.100.1.7 68857 c.2.1.6 68858 1bd3A 243 2.73e+01 1bd3A c.61.1.1 34098 1i8dA 213 2.73e+01 b.43.4.3 61953 b.43.4.3 61954 1j98A 157 2.74e+01 1j98A d.185.1.2 62755 1kshA 186 2.78e+01 c.37.1.8 72914 1lm8V 160 2.79e+01 b.3.3.1 74035 4blmA 265 2.82e+01 1btl e.3.1.1 42721 1iwdA 215 2.85e+01 d.3.1.1 83756 1gydB 315 2.87e+01 b.67.2.1 70751 1lenA 181 2.93e+01 1led b.29.1.1 24032 1jeyA 609 2.99e+01 1jeqA unknown_sccs -4426 unknown_sccs -7990 1mgtA 174 3.03e+01 1mgtA a.4.2.1 16078 c.55.7.1 33753 1j1bA 420 3.05e+01 d.144.1.7 -11312 1v5sA 126 3.05e+01 1a0rP 245 3.11e+01 1b9yC c.47.1.6 33054 1v39 322 3.11e+01 3mag c.66.1.25 34206 1hruA 188 3.11e+01 1hruA d.115.1.1 40926 1obfO 335 3.12e+01 c.2.1.3 86768 d.81.1.1 86769 1snrA 341 3.16e+01 1jbkA 195 3.27e+01 c.37.1.20 71631 1k82A 268 3.28e+01 a.156.1.2 75866 b.113.1.1 75867 g.39.1.8 75868 2ltnA 181 3.39e+01 1led b.29.1.1 24024 1f1zA 273 3.44e+01 1f1zA a.4.5.27 16081 c.52.1.16 33334 1uxaA 194 3.46e+01 1bueA 265 3.47e+01 1btl e.3.1.1 42727 1awqA 164 3.52e+01 2cpl b.62.1.1 27461 1nd4A 264 3.55e+01 d.144.1.6 -11381 1pm1X 180 3.56e+01 1qqp3 220 3.58e+01 1qqp3 1l3lA 234 3.61e+01 a.4.6.2 73541 d.110.5.1 73542 1umwA 237 3.62e+01 unknown_sccs -9455 unknown_sccs -9456 1n6aA 259 3.64e+01 b.76.2.1 80121 b.85.7.1 80122 2eng 210 3.66e+01 2eng b.52.1.1 26895 1bbt3 220 3.67e+01 1qqp3 1ok8A 394 3.73e+01 b.1.18.4 -2737 f.10.1.1 -12384 1i1nA 226 3.75e+01 c.66.1.7 71102 1f46A 140 3.78e+01 1f46A d.129.4.1 59643 1f6bA 198 3.82e+01 c.37.1.8 64986 2ptd 298 3.83e+01 2plc c.1.18.2 29605 1jfyA 311 3.88e+01 1jr7A 311 3.88e+01 b.82.2.3 63255 1k5dB 201 3.94e+01 b.55.1.3 68169 1dywA 173 3.99e+01 2cpl b.62.1.1 27505