# List of top-scoring protein chains for t2k-100-30-str2 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 1pd21 199 1.24e-04 1pd21 1iyhA 198 1.64e-04 a.45.1.1 83790 c.47.1.5 83791 1gumA 222 2.01e-04 1pgtA a.45.1.1 17683 c.47.1.5 32977 1gulA 222 3.87e-04 1pgtA a.45.1.1 17675 c.47.1.5 32969 1oktA 211 8.77e-04 a.45.1.1 -942 c.47.1.5 -7467 6gsvA 217 9.88e-03 1b8xA a.45.1.1 17633 c.47.1.5 32925 2gsq 202 1.32e-02 1pd21 a.45.1.1 17715 c.47.1.5 33009 1oe8A 211 1.54e-02 a.45.1.1 86905 c.47.1.5 86906 1pgtA 210 1.83e-02 1pgtA a.45.1.1 17515 c.47.1.5 32809 1f3aA 222 2.56e-02 1pgtA a.45.1.1 17701 c.47.1.5 32995 1k3lA 221 3.22e-02 a.45.1.1 77229 c.47.1.5 77230 1k3yA 221 3.90e-02 a.45.1.1 77245 c.47.1.5 77246 1gseA 221 5.16e-02 1pgtA a.45.1.1 17667 c.47.1.5 32961 1l2lA 457 1.04e-01 c.72.1.3 77656 1b4pA 217 1.26e-01 a.45.1.1 83158 c.47.1.5 83159 1b8xA 280 4.24e-01 1b8xA a.45.1.1 17739 c.47.1.5 33033 1ky9A 448 6.36e-01 b.36.1.4 73198 b.47.1.1 73199 1dugA 234 6.40e-01 1b8xA a.45.1.1 17718 c.47.1.5 33012 1o6zA 303 7.43e-01 c.2.1.5 81107 d.162.1.1 81108 1cot 129 9.66e-01 1ycc a.3.1.1 15899 1bo1A 416 1.00e+00 1bo1A d.143.1.2 41591 1ezfA 340 1.03e+00 1ezfA a.128.1.2 19440 1augA 215 1.23e+00 1a2zA c.56.4.1 33798 1fpxA 352 1.28e+00 1fpxA a.4.5.29 59950 c.66.1.12 59951 1ky9B 448 1.43e+00 b.36.1.4 73200 b.36.1.4 73201 b.47.1.1 73202 1fp2A 352 1.48e+00 1fpxA a.4.5.29 59941 c.66.1.12 59942 1f46A 140 1.50e+00 1f46A d.129.4.1 59643 1eu8A 409 1.65e+00 1eu8A c.94.1.1 59502 1f47B 144 1.96e+00 1f46A d.129.4.1 59645 1qq2A 199 2.07e+00 1qq2A c.47.1.10 33064 1m0uA 249 2.16e+00 a.45.1.1 78359 c.47.1.5 78360 1qmvA 197 2.33e+00 1qq2A c.47.1.10 33066 1ozhA 566 2.68e+00 c.31.1.3 -6737 c.36.1.5 -6895 c.36.1.9 -6935 1f7wA 144 2.96e+00 1f46A d.129.4.1 59679 1aw9 216 3.25e+00 1gnwA a.45.1.1 17736 c.47.1.5 33030 1jlvA 209 3.32e+00 a.45.1.1 71729 c.47.1.5 71730 1e6bA 221 3.61e+00 1e6bA a.45.1.1 59294 c.47.1.5 59295 1q9iA 571 3.78e+00 a.138.1.3 -2051 c.3.1.4 -6041 d.168.1.1 -11607 1kssA 571 3.82e+00 a.138.1.3 72928 c.3.1.4 72929 d.168.1.1 72930 1c0aA 585 4.25e+00 1c0aA b.40.4.1 25246 d.74.4.1 39731 d.104.1.1 40767 1nhyA 219 4.79e+00 a.45.1.1 80520 c.47.1.5 80521 1m64A 571 5.73e+00 a.138.1.3 78683 c.3.1.4 78684 d.168.1.1 78685 1qjdA 571 5.84e+00 1qjdA a.138.1.3 19695 c.3.1.4 30432 d.168.1.1 42315 1e39A 571 5.91e+00 1qjdA a.138.1.3 19694 c.3.1.4 30431 d.168.1.1 42314 1ekfA 365 5.99e+00 1ekfA e.17.1.1 59445 1d5tA 433 6.11e+00 1gnd c.3.1.3 30422 d.16.1.6 37986 1r2rA 248 6.19e+00 c.1.1.1 -5147 1i50B 1224 6.62e+00 e.29.1.1 61755 1izoA 417 6.71e+00 a.104.1.1 83851 1uf2A 1019 6.84e+00 unknown_sccs -12036 1nofA 383 6.98e+00 b.71.1.2 -4668 c.1.8.3 -5339 1vaoA 560 7.14e+00 1qltA d.58.32.1 39461 d.145.1.1 41724 1gnd 447 7.28e+00 1gnd c.3.1.3 30423 d.16.1.6 37987 1amk 251 7.53e+00 1amk c.1.1.1 28503 1n55A 251 8.14e+00 c.1.1.1 80007 1lj1A 571 8.89e+00 a.138.1.3 78023 c.3.1.4 78024 d.168.1.1 78025 1ktaA 365 9.00e+00 e.17.1.1 77533 1jdlA 121 9.03e+00 a.3.1.1 66557 1ql3A 99 9.42e+00 1ycc a.3.1.1 15822 1bp3A 191 9.43e+00 1huw a.26.1.1 16838 1ksfX 758 9.60e+00 a.174.1.1 77522 c.37.1.20 77523 c.37.1.20 77524 1kt8A 365 9.86e+00 e.17.1.1 77531 1v7zA 260 1.08e+01 unknown_sccs -6353 1kzhA 555 1.08e+01 c.89.1.1 73361 1wdcC 156 1.14e+01 1wdcC a.39.1.5 17317 1qltA 560 1.16e+01 1qltA d.58.32.1 39457 d.145.1.1 41720 1ppa 121 1.21e+01 1poa a.133.1.2 19550 1i19A 561 1.25e+01 1i19A d.58.32.3 61522 d.145.1.1 61523 1gikA 261 1.28e+01 d.165.1.1 -11545 1qz9A 416 1.28e+01 c.67.1.3 -8180 8prkA 287 1.31e+01 1wgjA b.40.5.1 25395 1uocA 289 1.32e+01 unknown_sccs -7671 1gc5A 467 1.33e+01 1gc5A c.72.1.3 60429 1ihfA 99 1.33e+01 1huuA a.55.1.1 17893 1e8gA 560 1.34e+01 1qltA d.58.32.1 39455 d.145.1.1 41718 1owfA 99 1.35e+01 a.55.1.1 87487 1j1qA 261 1.40e+01 d.165.1.1 -11546 1ua4A 455 1.41e+01 c.72.1.3 -8416 1g3jA 532 1.42e+01 3bct a.118.1.1 19114 1im5A 180 1.46e+01 unknown_sccs 66211 1u2fA 90 1.46e+01 1u2fA d.58.7.1 39168 1s8iA 121 1.46e+01 a.133.1.2 -1968 1dq3A 454 1.56e+01 1dq3A b.86.1.2 28380 d.50.3.1 38798 d.95.2.2 40585 d.95.2.2 40586 1ii7A 333 1.61e+01 1ii7A d.159.1.4 62415 1p65A 73 1.63e+01 unknown_sccs -10331 1qjbA 245 1.72e+01 1qjaA a.118.7.1 19202 1ofcX 304 1.73e+01 a.4.1.3 -195 unknown_sccs -199 unknown_sccs -978 1e9gB 286 1.73e+01 1wgjA b.40.5.1 59394 1e9gA 286 1.74e+01 1wgjA b.40.5.1 59393 1f0jA 377 1.76e+01 1f0jA a.125.1.1 19346 1h6hA 143 1.79e+01 d.189.1.1 65681 1iknD 236 1.79e+01 1iknD d.211.1.1 19171 1rzhL 281 1.83e+01 f.26.1.1 -12215 1wgjA 286 1.87e+01 1wgjA b.40.5.1 25397 1qciA 262 1.89e+01 1qi7A d.165.1.1 42201 1aijL 281 1.91e+01 6prcL f.26.1.1 43461 1jkmB 361 1.92e+01 1jkmA c.69.1.2 34634 1j58A 385 1.95e+01 b.82.1.2 71531 1dm5A 315 1.99e+01 1avc a.65.1.1 18186 8prkB 287 2.04e+01 1wgjA b.40.5.1 25396 1kv8A 216 2.04e+01 c.1.2.3 73054 1ge9A 184 2.07e+01 1dd5A d.67.3.1 60463 1lycA 343 2.08e+01 a.93.1.1 74344 1q6oA 216 2.09e+01 c.1.2.3 -5162 2hgf 97 2.12e+01 1bhtA g.10.1.1 44607 1g97A 459 2.13e+01 1fwyA b.81.1.4 60394 c.68.1.5 60395 1fokA 568 2.17e+01 2fokA a.4.5.12 16137 a.4.5.12 16138 a.4.5.12 16139 c.52.1.12 33325 1j93A 353 2.18e+01 c.1.22.1 66454 1gwcA 230 2.25e+01 a.45.1.1 70660 c.47.1.5 70661 1hm9A 468 2.27e+01 b.81.1.4 65866 c.68.1.5 65867 1rt8A 513 2.32e+01 3nul 130 2.40e+01 3nul d.110.1.1 40891 1jkmA 358 2.52e+01 1jkmA c.69.1.2 34633 1g72A 573 2.59e+01 4aahA b.70.1.1 27680 1bjoA 360 2.61e+01 1bjnA c.67.1.4 34471 1kid 203 2.61e+01 1derA c.8.5.1 30771 1dttA 560 2.62e+01 1rthA c.55.3.1 33611 e.8.1.2 43088 1a0k 131 2.73e+01 3nul d.110.1.1 40892 1qumA 285 2.74e+01 1qumA c.1.15.1 29393 1brt 277 2.77e+01 1brt c.69.1.12 34699 1broA 277 2.78e+01 1brt c.69.1.12 34700 1kf6C 130 2.85e+01 f.21.2.2 72399 4aahA 571 2.96e+01 4aahA b.70.1.1 27678 1ayl 541 3.00e+01 1ayl c.91.1.1 64718 c.109.1.1 64719 2fokA 579 3.05e+01 2fokA a.4.5.12 16131 a.4.5.12 16132 a.4.5.12 16133 c.52.1.12 33323 1uruA 244 3.06e+01 unknown_sccs -13001 1jg5A 83 3.08e+01 d.205.1.1 66666 1b8dA 164 3.14e+01 1cpcA a.1.1.3 15665 1asx 159 3.16e+01 1a6dA c.8.5.2 30821 1poiB 260 3.17e+01 1poiB unknown_sccs 34155 2oatA 439 3.21e+01 2dkb c.67.1.4 34452 1j0mA 752 3.21e+01 a.102.3.2 83910 b.24.1.1 83911 b.30.5.2 83912 1n82A 331 3.22e+01 c.1.8.3 -5306 1eb7A 323 3.23e+01 1eb7A a.3.1.5 59404 a.3.1.5 59405 1d7kA 421 3.36e+01 7odcA b.49.2.3 26486 c.1.6.1 28648 1hsr 344 3.42e+01 1arv a.93.1.1 18592 1d6aB 262 3.44e+01 1qi7A d.165.1.1 42198 1bjnA 360 3.45e+01 1bjnA c.67.1.4 34469 1tml 286 3.45e+01 1tml c.6.1.1 30656 1okrA 123 3.47e+01 unknown_sccs -235 1g87A 614 3.55e+01 a.102.1.2 83275 b.2.2.2 83276 1aroP 883 3.60e+01 1cezA e.8.1.3 43112 1h38C 883 3.61e+01 e.8.1.3 76627 1h38B 883 3.61e+01 e.8.1.3 76626 1h38D 883 3.61e+01 e.8.1.3 76628 1is8K 84 3.62e+01 d.205.1.1 66331 1aru 344 3.71e+01 1arv a.93.1.1 18589 1bqv 110 3.72e+01 1bqv a.60.1.1 17932 1arv 344 3.74e+01 1arv a.93.1.1 18590 1ktpB 172 3.74e+01 a.1.1.3 72991 1h1nA 305 3.75e+01 c.1.8.3 70855 1l0lK 56 3.80e+01 f.23.15.1 84497 1php 394 3.83e+01 16pk c.86.1.1 35452 1neiA 60 3.85e+01 unknown_sccs -10324 1hu4A 288 3.85e+01 1hu4A 1n5dA 288 3.85e+01 c.2.1.2 80030 1jbkA 195 3.87e+01 c.37.1.20 71631 1ecrA 309 3.90e+01 1ecrA e.2.1.1 42678