# List of top-scoring protein chains for t2k-100-30-stride-ebghtl-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 1u6zA 513 9.11e-01 1fl1A 230 2.54e+00 1at3A b.57.1.1 27023 1kopA 223 2.72e+00 2cba b.74.1.1 27966 1mugA 168 3.11e+00 1mugA c.18.1.2 31030 1fx3B 169 3.15e+00 1fx3B d.33.1.1 38525 1j93A 353 3.56e+00 c.1.22.1 66454 1g0sA 209 4.43e+00 1g0sA d.113.1.1 60187 1e69B 322 4.52e+00 1e69B c.37.1.12 32377 1vjpA 394 5.85e+00 c.2.1.3,d.81.1.3 100828,100829 1kfd 605 6.31e+00 1xwl c.55.3.5,e.8.1.1 33694,42987 1qynA 153 6.62e+00 d.33.1.1 96597 1dytA 133 7.49e+00 7rsa d.5.1.1 37288 1qmtA 134 7.81e+00 7rsa d.5.1.1 37290 1h1hA 134 8.63e+00 d.5.1.1 76468 1oshA 232 9.81e+00 a.123.1.1 93496 2kfnA 605 1.02e+01 1xwl c.55.3.5,e.8.1.1 33682,42975 1g33A 73 1.07e+01 a.39.1.4 65121 1qqcA 773 1.07e+01 1tgoA c.55.3.5,e.8.1.1 33724,43013 1bh9A 45 1.12e+01 1bh9A a.22.1.3 16483 1klnA 605 1.19e+01 1xwl c.55.3.5,e.8.1.1 33693,42986 1vq0A 302 1.33e+01 1xvjA 109 1.34e+01 1bdmA 327 1.35e+01 1bmdA c.2.1.5,d.162.1.1 30137,42104 1bdmB 327 1.35e+01 1bmdA c.2.1.5,d.162.1.1 30138,42105 1snzA 344 1.36e+01 b.30.5.4 98930 1rwyA 109 1.37e+01 a.39.1.4 98002 1bmdA 327 1.37e+01 1bmdA c.2.1.5,d.162.1.1 30139,42106 1b3bA 415 1.37e+01 1hwyA c.2.1.7,c.58.1.1 30244,33892 1y7tA 327 1.37e+01 1i39A 225 1.40e+01 1ekeA c.55.3.1 61585 1iruK 201 1.45e+01 d.153.1.4 71362 1fcyA 236 1.59e+01 2lbd a.123.1.1 19282 4lbd 267 1.60e+01 2lbd a.123.1.1 19289 2lbd 267 1.60e+01 2lbd a.123.1.1 19287 1x13A 401 1.73e+01 1d8yA 605 1.75e+01 1xwl c.55.3.5,e.8.1.1 33684,42977 1zxq 192 1.79e+01 1zxq b.1.1.3,b.1.1.4 21657,21693 1d8iA 311 1.81e+01 1d8iA d.63.1.1 39541 1d8hA 311 1.95e+01 1d8iA d.63.1.1 39544 1s1hM 132 1.98e+01 i.1.1.1 105165 1ht9A 76 2.06e+01 4icb a.39.1.1 61252 1wvcA 259 2.08e+01 1lssA 140 2.27e+01 c.2.1.9 74246 1m9sA 605 2.32e+01 b.1.18.15,b.34.11.1,b.34.11.1,b.34.11.1,c.10.2.1 78874,78875,78876,78877,78878 1am9A 82 2.35e+01 1am9A a.38.1.1 17140 1zpyA 95 2.44e+01 2g09A 297 2.50e+01 1n1jA 93 2.51e+01 a.22.1.3 79813 2cba 260 2.54e+01 2cba b.74.1.1 27821 2bduA 297 2.56e+01 1b26A 416 2.62e+01 1hwyA c.2.1.7,c.58.1.1 30232,33880 1fx3A 169 2.67e+01 1fx3B d.33.1.1 38524 1ybvA 283 2.70e+01 1ybvA c.2.1.2 29948 1yo1A 260 2.74e+01 1g0oA 283 2.78e+01 1ybvA c.2.1.2 60181 2cevA 299 2.78e+01 1d3vA c.42.1.1 32576 1uujA 88 2.88e+01 a.221.1.1 108046 1yqtA 538 2.99e+01 1dowA 205 3.00e+01 1dovA a.24.9.1 16626 1oakA 196 3.13e+01 1auq c.62.1.1 34138 1htwA 158 3.13e+01 c.37.1.18 71083 1auq 208 3.26e+01 1auq c.62.1.1 34137 1mooA 260 3.27e+01 b.74.1.1 79359 1ukfA 188 3.29e+01 d.3.1.10 99488 1y7wA 291 3.36e+01 1wywA 230 3.37e+01 1fnsA 196 3.43e+01 1auq c.62.1.1 34136 1caj 260 3.46e+01 2cba b.74.1.1 27841 1r8mE 203 3.50e+01 a.118.3.1 97242 2c31A 568 3.56e+01 1mua 256 3.61e+01 2cba b.74.1.1 27831 1lugA 259 3.69e+01 b.74.1.1 91127 1gtmA 419 3.75e+01 1hwyA c.2.1.7,c.58.1.1 30223,33871 1dovA 181 3.79e+01 1dovA a.24.9.1 16627 1mkmA 249 3.85e+01 a.4.5.33,d.110.2.2 79242,79243 1oj4A 283 3.86e+01 d.14.1.5,d.58.26.5 93083,93084 1uq5A 263 3.86e+01 d.165.1.1 99778 1xkrA 206 3.89e+01 2gx9A 129 3.92e+01 1uluA 261 3.94e+01 1wgeA 83 3.99e+01 1n46A 258 4.05e+01 a.123.1.1 85315 1hq3B 126 4.06e+01 1aoiD a.22.1.1 16444 1tzyB 126 4.06e+01 a.22.1.1 107531 1vs0A 310 4.11e+01 2gpiA 91 4.13e+01 1koqA 253 4.23e+01 2cba b.74.1.1 27964 1souA 194 4.26e+01 c.124.1.6 105858 12ca 260 4.30e+01 2cba b.74.1.1 27942 1u35D 126 4.32e+01 1ee8A 266 4.54e+01 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 1pbv 195 4.60e+01 1pbv a.118.3.1 19179 1obs 267 4.63e+01 1mrj d.165.1.1 42213 1r8sE 203 4.63e+01 a.118.3.1 97248 1a9cA 221 4.68e+01 1a8rA d.96.1.1 40602 1dt6A 473 4.70e+01 1dt6A a.104.1.1 18977 1rro 108 4.71e+01 1a75A a.39.1.4 17195 1qh7A 207 4.75e+01 1axkA b.29.1.11 24317 1y7bA 542 4.78e+01 1lshA 1056 4.95e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1g7dA 106 4.95e+01 1g7dA a.71.1.1 18318 1uklC 61 4.96e+01 a.38.1.1 99495 1o04A 500 5.02e+01 c.82.1.1 86508 1widA 130 5.02e+01 1e8cA 498 5.03e+01 c.98.1.1,c.59.1.1,c.72.2.1 59377,59378,59379 1zy4A 303 5.03e+01 1a8rA 221 5.05e+01 1a8rA d.96.1.1 40587 1ift 263 5.09e+01 1mrj d.165.1.1 42211 1fi8A 228 5.09e+01 5ptp b.47.1.2 26374 4icb 76 5.21e+01 4icb a.39.1.1 17145 2a0iA 330 5.26e+01 1bx1A 314 5.30e+01 1fnc b.43.4.2,c.25.1.1 25629,31519 1qysA 106 5.33e+01 k.41.1.1 96603 1kobA 387 5.39e+01 1tkiA d.144.1.7 41640 1h4gA 207 5.42e+01 b.29.1.11 70863 1hyeA 313 5.43e+01 2cmd c.2.1.5,d.162.1.1 61400,61401 1bdb 277 5.43e+01 1bdb c.2.1.2 29874 2ggcA 263 5.46e+01 1umgA 362 5.54e+01 d.280.1.1 107956 1w4tA 299 5.54e+01 1hw7A 255 5.56e+01 1i7fA d.193.1.1 61297 1w6uA 302 5.60e+01 1o0xA 262 5.62e+01 d.127.1.1 80755 1ovlA 271 5.71e+01 a.123.1.1 87455 3icb 75 5.74e+01 4icb a.39.1.1 17147 1gz6A 319 5.80e+01 c.2.1.2 76410 1fjmA 330 5.80e+01 1auiA d.159.1.3 42082 1e6oL 212 5.81e+01 32c2A b.1.1.1,b.1.1.2 20494,21452 1mat 264 5.87e+01 1c24A d.127.1.1 41152 1c24A 263 5.95e+01 1c24A d.127.1.1 41148 2matA 264 5.95e+01 1c24A d.127.1.1 41146 1xnzA 264 5.95e+01 1ijbA 202 5.96e+01 c.62.1.1 71229 1o57A 291 5.97e+01 a.4.5.40,c.61.1.1 92483,92484 1xuvA 178 5.98e+01 1r0wA 286 6.09e+01 c.37.1.12 96754 1egdA 396 6.11e+01 3mdeA a.29.3.1,e.6.1.1 16596,42857 1cyi 90 6.21e+01 1ctj a.3.1.1 15804 1yueA 427 6.28e+01 2plc 274 6.29e+01 2plc c.1.18.2 29614 1vp4A 425 6.35e+01 1cyj 90 6.50e+01 1ctj a.3.1.1 15805 1pytC 253 6.56e+01 5ptp b.47.1.2 26233 1pvaA 110 6.56e+01 1a75A a.39.1.4 17207 4matA 278 6.66e+01 1c24A d.127.1.1 41150 2gi3A 476 6.74e+01 1b6q 63 6.77e+01 1nkd a.30.1.1 16977 1u32A 293 6.81e+01 d.159.1.3 107631 2a3qA 170 6.86e+01 1jk7A 323 6.90e+01 1auiA d.159.1.3 63144 2fbjL 213 7.14e+01 8fabA b.1.1.1,b.1.1.2 19850,20954 1vaxA 287 7.20e+01 1xhbA 472 7.22e+01 1phm 310 7.26e+01 1phm b.121.1.2,b.121.1.2 59015,59016 1fnb 314 7.32e+01 1fnc b.43.4.2,c.25.1.1 25628,31518 1v8dA 235 7.32e+01 c.140.1.1 108425 1r2zA 274 7.35e+01 a.156.1.2,b.113.1.1,g.39.1.8 96892,96893,96894 1atiB 505 7.37e+01 1atiA c.51.1.1,d.104.1.1 33197,40746 1l1zA 274 7.44e+01 a.156.1.2,b.113.1.1,g.39.1.8 75911,75912,75913 1qf5A 431 7.55e+01 1adeA c.37.1.10 32212 1tg0A 68 7.57e+01 1aoiD 99 7.68e+01 1aoiD a.22.1.1 16452 1p4dA 330 7.69e+01 d.89.1.5 94101 1yhvA 297 7.74e+01 1dqnA 230 7.76e+01 1dqnA c.61.1.1 34067 1ag8A 499 7.78e+01 1bpwA c.82.1.1 35341 1agrE 205 7.82e+01 1agrE a.91.1.1 18538 1drmA 131 7.86e+01 1drmA d.110.3.2 40908 1yasA 257 7.89e+01 1qj4A c.69.1.20 34801 1z5hA 780 7.91e+01 1kx5D 125 7.93e+01 a.22.1.1 77596 1ps1A 337 7.98e+01 1ps1A a.128.1.4 19450 1wdxA 69 8.03e+01 1jenB 67 8.06e+01 1jenB d.156.1.1 42029 1qj4A 257 8.06e+01 1qj4A c.69.1.20 34796 1azpA 66 8.07e+01 1azpA b.34.13.1 37467 1q5yA 85 8.11e+01 d.58.18.4 95950 2ccvA 101 8.18e+01 15c8L 213 8.20e+01 8fabA b.1.1.1,b.1.1.2 20300,21292 3fisA 98 8.23e+01 1fipA a.4.1.12 18994 1drqA 131 8.30e+01 1drmA 1tzfA 259 8.40e+01 c.68.1.13 107476 1lswA 131 8.42e+01 d.110.3.2 78181 1ovnA 248 8.44e+01 a.71.1.1,c.47.1.7 93602,93603 1ro2A 216 8.44e+01 d.264.1.2 97665 1dqpA 230 8.44e+01 1dqnA c.61.1.1 34069 2a19B 284 8.45e+01 1ron 37 8.53e+01 1ron j.6.1.1 46090 1fnc 314 8.60e+01 1fnc b.43.4.2,c.25.1.1 25627,31517 1dguA 183 8.68e+01 1dguA a.39.1.5 17333 1ehiA 377 8.73e+01 1iow c.30.1.2,d.142.1.1 31716,41484 1xkyA 301 8.74e+01 1yzfA 195 8.75e+01 1phk 298 8.76e+01 1cdkA d.144.1.7 41635 1squA 155 8.78e+01 d.252.1.1 98971 1ohzB 60 8.89e+01 a.139.1.1 93044 1ozhA 566 8.91e+01 c.31.1.3,c.36.1.5,c.36.1.9 93833,93834,93835 1agx 331 8.92e+01 4pgaA c.88.1.1 35564