# 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 1gefA 123 5.14e-02 1gefA c.52.1.18 60465 1vh5A 148 1.84e-01 d.38.1.5 -9677 1b77A 228 2.59e-01 1b77A d.131.1.2 41362 d.131.1.2 41363 1a79A 171 2.86e-01 1a79A c.52.2.1 33340 d.75.1.1 39739 1hh1A 143 3.07e-01 1gefA c.52.1.18 61036 1pbuA 162 3.24e-01 d.58.46.1 88030 1ujxA 119 3.87e-01 b.26.1.2 -3325 1g0hA 252 4.55e-01 1dk4A e.7.1.1 60171 1sx5A 244 4.95e-01 c.52.1.2 -7551 1ax0 239 5.11e-01 1led b.29.1.1 24042 1eonA 245 6.11e-01 1rvaA c.52.1.2 33238 1vheA 373 6.91e-01 unknown_sccs -4280 c.56.5.4 -7890 1k0eA 453 7.76e-01 d.161.1.1 67938 1kutA 230 7.99e-01 d.143.1.1 73017 1rvaA 244 1.23e+00 1rvaA c.52.1.2 33240 1e44B 96 1.23e+00 1e44B b.101.1.1 59220 1o50A 157 1.51e+00 d.37.1.1 -9604 d.37.1.1 -9605 1b78A 193 1.51e+00 1b78A c.51.4.1 33221 1jcfA 344 1.81e+00 c.55.1.1 62878 c.55.1.1 62879 1r62A 160 1.84e+00 1vimA 200 2.13e+00 c.80.1.3 -8532 1gzcA 239 2.23e+00 b.29.1.1 70803 1rxxA 421 2.41e+00 unknown_sccs -10982 1pqzA 238 2.54e+00 1vdwA 254 3.25e+00 e.7.1.1 -11868 1rlhA 173 3.27e+00 unknown_sccs -10786 1qhxA 178 3.75e+00 1qhsA c.37.1.3 31936 1hc7A 477 3.77e+00 1hc7A c.51.1.1 60938 d.68.5.1 60940 d.104.1.1 60939 1riqA 465 3.93e+00 unknown_sccs -1295 d.104.1.1 -10769 1gxrA 337 4.12e+00 b.69.4.1 70722 1iznA 286 4.29e+00 e.43.1.1 83847 1skoA 143 4.39e+00 1qstA 160 4.44e+00 1yghA d.108.1.1 40804 1umgA 362 4.78e+00 1t82A 155 4.83e+00 1han 297 5.22e+00 1han d.32.1.3 38506 d.32.1.3 38507 1lkdA 297 5.46e+00 d.32.1.3 78059 d.32.1.3 78060 1es9A 232 5.48e+00 1wab c.23.10.3 31340 1gtkA 313 5.51e+00 c.94.1.1 76346 d.50.2.1 76347 1f86A 115 5.63e+00 1etb1 b.3.4.1 59689 1q7fA 286 5.87e+00 unknown_sccs -4599 1uwzA 136 5.93e+00 1pvtA 238 5.97e+00 c.74.1.1 -8444 1pvmA 184 6.12e+00 d.37.1.1 -9612 d.37.1.1 -9613 unknown_sccs -12799 1nox 205 6.41e+00 1nox d.90.1.1 40242 1wab 232 6.46e+00 1wab c.23.10.3 31341 1uwvA 433 6.46e+00 unknown_sccs -3950 unknown_sccs -8107 1r0vA 305 6.54e+00 c.52.2.1 -7572 c.52.2.1 -7573 d.75.1.1 -10344 1ri6A 343 6.62e+00 unknown_sccs -4621 1iznB 277 6.66e+00 e.43.1.2 83848 1rg9A 383 6.79e+00 d.130.1.1 -11057 d.130.1.1 -11058 d.130.1.1 -11059 1j31A 262 6.82e+00 d.160.1.2 -11473 1g8pA 350 7.44e+00 1g8pA c.37.1.20 60376 1jxhA 288 7.82e+00 c.72.1.2 67415 1sdwA 314 7.91e+00 b.121.1.2 -3024 b.121.1.2 -3025 1o0iA 138 8.02e+00 d.38.1.5 86532 1r6xA 395 8.24e+00 b.122.1.3 -5125 c.26.1.5 -6620 1jtkA 136 8.29e+00 c.97.1.1 71862 1su4A 994 8.41e+00 b.82.7.1 -4927 c.108.1.7 -6854 d.220.1.1 -11668 f.33.1.1 -12333 1pj5A 830 8.41e+00 unknown_sccs -4066 c.3.1.2 -6031 d.16.1.5 -9251 unknown_sccs -10171 1cf2O 337 8.55e+00 1b7gO c.2.1.3 29994 d.81.1.1 39909 1gk8I 140 8.83e+00 d.73.1.1 65242 1szoA 257 8.88e+00 1gs5A 258 9.08e+00 c.73.1.2 70395 1auiA 521 9.24e+00 1auiA d.159.1.3 42085 1oapA 109 9.27e+00 unknown_sccs -10428 1s9rA 410 9.37e+00 unknown_sccs -10989 1vavA 222 9.81e+00 1lxjA 104 1.01e+01 d.58.48.1 84736 1iyeA 309 1.03e+01 e.17.1.1 83786 1ez0A 510 1.04e+01 1eyyA c.82.1.1 35385 1pda 315 1.09e+01 1pda c.94.1.1 35751 d.50.2.1 38794 1rwiA 270 1.10e+01 unknown_sccs -4603 1tc1A 220 1.14e+01 1tc1A c.61.1.1 34083 1i1nA 226 1.15e+01 c.66.1.7 71102 1kssA 571 1.15e+01 a.138.1.3 72928 c.3.1.4 72929 d.168.1.1 72930 1sqzA 121 1.17e+01 a.133.1.2 -1971 1tk4A 121 1.19e+01 1mxgA 435 1.21e+01 b.71.1.1 85193 c.1.8.1 85194 1e39A 571 1.21e+01 1qjdA a.138.1.3 19694 c.3.1.4 30431 d.168.1.1 42314 1liiA 363 1.22e+01 c.72.1.1 73921 1czyA 168 1.23e+01 1d0aB b.8.1.1 23220 h.1.2.1 45427 1uumA 372 1.24e+01 c.1.4.1 -5193 1cby 259 1.24e+01 1cby d.103.1.1 40705 1g24A 211 1.27e+01 1g24A d.166.1.1 42270 1eulA 994 1.28e+01 1eulA 1a0rP 245 1.29e+01 1b9yC c.47.1.6 33054 1tj9A 121 1.30e+01 1ig3A 263 1.30e+01 1ig3A b.82.6.1 62358 c.100.1.1 62359 1e19A 314 1.31e+01 1b7bA c.73.1.1 34967 1vk6A 269 1.32e+01 unknown_sccs -10923 unknown_sccs -10924 1go4A 205 1.33e+01 d.135.1.1 70292 1uuhA 159 1.41e+01 d.169.1.4 -11651 1f1uA 323 1.42e+01 d.32.1.3 83200 d.32.1.3 83201 1nuyA 337 1.43e+01 e.7.1.1 86213 1rypG 244 1.46e+01 d.153.1.4 41938 1dgyA 363 1.47e+01 1bx4A 1ud9A 245 1.51e+01 1lb6A 160 1.52e+01 b.8.1.1 73798 1jw9B 249 1.54e+01 c.111.1.1 67377 1g99A 408 1.56e+01 1g99A c.55.1.2 33457 c.55.1.2 33458 1o20A 427 1.62e+01 c.82.1.1 86556 1nhp 447 1.68e+01 1nhp c.3.1.5 30549 c.3.1.5 30550 d.87.1.1 40196 1a62 130 1.68e+01 1a62 a.140.3.1 64708 b.40.4.5 64709 1vrtA 560 1.69e+01 1rthA c.55.3.1 33574 e.8.1.2 43023 1khdA 345 1.73e+01 a.46.2.1 77400 c.27.1.1 77401 1lqvA 193 1.76e+01 d.19.1.1 74206 1q9iA 571 1.76e+01 a.138.1.3 -2051 c.3.1.4 -6041 d.168.1.1 -11607 1pfvA 551 1.79e+01 a.27.1.1 -727 c.26.1.1 -6603 g.41.1.1 -12765 1m3sA 186 1.81e+01 c.80.1.3 78573 1h7mA 102 1.82e+01 d.79.3.1 83485 1burS 123 1.82e+01 1rboC 1nhs 447 1.85e+01 1nhp c.3.1.5 30555 c.3.1.5 30556 d.87.1.1 40199 1w2wB 191 1.88e+01 2prd 174 1.89e+01 2prd b.40.5.1 25435 1i1qA 520 1.90e+01 1qdlA d.161.1.1 61543 1o8uA 257 1.90e+01 c.14.1.3 81194 1agi 125 1.93e+01 7rsa d.5.1.1 37303 1aky 221 1.93e+01 1zin c.37.1.1 31896 g.41.2.1 45197 1f4lA 551 1.93e+01 1qqtA a.27.1.1 59648 c.26.1.1 59649 g.41.1.1 59650 1fe7A 121 1.96e+01 1poa 1frpA 335 1.96e+01 1frpA e.7.1.1 42875 1ou8A 111 2.02e+01 unknown_sccs -3799 8rucI 123 2.03e+01 1rboC d.73.1.1 39629 1r4kA 169 2.04e+01 unknown_sccs -3625 1onrA 316 2.05e+01 1onrA c.1.10.1 29169 1dymA 402 2.08e+01 1celA b.29.1.10 24304 1hl9A 449 2.09e+01 unknown_sccs -4694 unknown_sccs -5365 1qwgA 251 2.09e+01 unknown_sccs -5678 1preA 470 2.10e+01 1preA d.169.1.2 42437 f.8.1.1 43824 9gafA 295 2.11e+01 1apyA d.153.1.5 42008 1pbjA 125 2.16e+01 d.37.1.1 -9608 d.37.1.1 -9609 1kw3B 292 2.16e+01 d.32.1.3 77549 d.32.1.3 77550 1obdA 306 2.16e+01 d.143.1.1 86767 1g4fA 86 2.17e+01 1qubA g.18.1.1 44873 1u02A 239 2.18e+01 1f5vA 240 2.20e+01 1bkjA d.90.1.1 40255 1noyA 388 2.24e+01 1clqA c.55.3.5 33713 1hdfA 102 2.25e+01 1ag4 b.11.1.1 23627 1nksA 194 2.25e+01 1nksA c.37.1.1 31886 1jg1A 235 2.33e+01 c.66.1.7 66661 1k32A 1045 2.38e+01 b.36.1.3 68068 b.68.7.1 68069 b.69.9.1 68070 c.14.1.2 68071 1nls 237 2.41e+01 1nls b.29.1.1 23928 1o2dA 371 2.41e+01 e.22.1.2 86591 1nowA 507 2.43e+01 c.1.8.6 85936 d.92.2.1 85937 1iow 306 2.48e+01 1iow c.30.1.2 31713 d.142.1.1 41481 1aisA 182 2.52e+01 1ytbA d.129.1.1 41288 d.129.1.1 41289 1led 243 2.54e+01 1led b.29.1.1 24039 1bjt 793 2.55e+01 1bjt e.11.1.1 43249 1j5wA 298 2.57e+01 d.104.1.1 71589 1gqzA 274 2.62e+01 d.21.1.1 83311 d.21.1.1 83312 3dni 260 2.64e+01 3dni d.151.1.1 41791 1f89A 291 2.64e+01 d.160.1.1 64988 1d3gA 367 2.67e+01 1d3gA c.1.4.1 28600 1i7qA 519 2.71e+01 1qdlA d.161.1.1 61901 1iyxA 432 2.73e+01 c.1.11.1 83815 d.54.1.1 83816 1rthA 560 2.83e+01 1rthA c.55.3.1 33576 e.8.1.2 43028 1vfrA 218 2.91e+01 1vfrA d.90.1.1 40247 1fnoA 417 2.94e+01 c.56.5.4 75841 d.58.19.1 70145 1f1xA 322 2.97e+01 d.32.1.3 83208 d.32.1.3 83209 1hxn 219 2.98e+01 1hxn b.66.1.1 27529 1tig 94 3.00e+01 1tig d.68.1.1 39566 1bzyA 217 3.06e+01 1qk3A c.61.1.1 34071 1kk1A 410 3.06e+01 b.43.3.1 72634 b.44.1.1 72635 c.37.1.8 72636 1p80A 753 3.06e+01 c.23.16.3 -6547 e.5.1.1 -11840 1ojjA 402 3.06e+01 b.29.1.10 -3473 1r13A 148 3.11e+01 d.169.1.1 -11646 h.1.1.1 -12895 1a48 306 3.11e+01 1a48 d.143.1.1 41590 1cruA 454 3.14e+01 1c9uA b.68.2.1 27617 1jxpA 186 3.15e+01 1jxpA b.47.1.3 26402 1bco 327 3.16e+01 1bco b.48.1.1 26431 c.55.3.3 33676 1j8fA 323 3.18e+01 1j8fA c.31.1.5 62738 1jk7A 323 3.22e+01 1auiA d.159.1.3 63144 1smvA 260 3.25e+01 1smvA b.121.4.7 23288 1ezwA 349 3.32e+01 1ezwA c.1.16.3 29558 1lldA 319 3.33e+01 3ldh c.2.1.5 30177 d.162.1.1 42144 2fokA 579 3.35e+01 2fokA a.4.5.12 16131 a.4.5.12 16132 a.4.5.12 16133 c.52.1.12 33323 2dnjA 260 3.37e+01 3dni d.151.1.1 41790 1erjA 393 3.40e+01 1erjA b.69.4.1 27660 1pqhA 143 3.40e+01 b.52.2.1 -4318 1cr1A 296 3.43e+01 1cr1A c.37.1.11 32286 1i2oA 316 3.46e+01 1onrA c.1.10.1 61574 1i1kA 309 3.46e+01 1daaA e.17.1.1 61533 1cf9A 753 3.53e+01 1cf9A c.23.16.3 31441 e.5.1.1 42815 1pkoA 139 3.54e+01 b.1.1.1 88147 1k8kC 372 3.59e+01 b.69.4.1 68308 1eyqA 222 3.61e+01 1eypA d.36.1.1 38534 2hhmA 276 3.65e+01 1imbA e.7.1.1 42955 1j34A 129 3.66e+01 d.169.1.1 84048 1nbwA 607 3.68e+01 c.8.6.1 80393 c.55.1.6 80394 c.55.1.6 80395 1pxvA 183 3.69e+01 d.3.1.1 -8881 1vc4A 254 3.71e+01 c.1.2.4 -5172 1m2tA 254 3.72e+01 d.165.1.1 84761 1tzbA 302 3.73e+01 1rkd 309 3.75e+01 1rkd c.72.1.1 34928 1gqeA 365 3.76e+01 e.38.1.1 70351 1hskA 326 3.78e+01 2mbr d.145.1.2 61241 d.146.1.1 61242 1p4kA 295 3.78e+01 d.153.1.5 87772 1vk4A 298 3.83e+01 c.72.1.1 -8414 1ivzA 132 3.83e+01 d.58.41.1 76863 1xbrA 184 3.83e+01 1xbrA b.2.5.4 22458 1a6jA 163 3.84e+01 1a6jA d.112.1.1 40915 1k6xA 352 3.85e+01 c.2.1.2 68238 1pmmA 466 3.86e+01 c.67.1.6 -8159 1cewI 108 3.89e+01 1cewI d.17.1.2 37999 1byrA 155 3.92e+01 1byrA d.136.1.1 41450 1har 216 3.97e+01 1rthA e.8.1.2 43025 1neu 124 3.97e+01 1neu b.1.1.1 19704 1oj4A 283 3.98e+01 d.14.1.5 -9088 d.58.26.5 -10133