# List of top-scoring protein chains for t04-100-30-dssp-ehl2-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 1v7lA 163 1.68e-01 1qmeA 702 1.20e+00 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37487,37488,42560,42769 1hf2A 210 1.96e+00 1hf2A b.80.3.1,c.102.1.1 60992,60993 1nbwA 607 2.41e+00 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 1vbkA 307 4.48e+00 1q1gA 276 5.02e+00 c.56.2.1 95574 2bsxA 253 6.10e+00 1rqpA 299 6.64e+00 b.141.1.1,c.132.1.1 97754,97755 1xfoA 357 6.69e+00 1y0yA 353 6.73e+00 1wraA 308 7.06e+00 1pmd 675 7.58e+00 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37491,37492,42562,42771 1q0rA 298 8.50e+00 c.69.1.28 95508 1yavA 159 9.26e+00 1rliA 184 1.03e+01 c.23.5.6 97647 2gjgA 248 1.04e+01 1zc1A 208 1.10e+01 1cjbA 231 1.15e+01 1qk3A c.61.1.1 34079 2ganA 190 1.15e+01 1bpoA 494 1.21e+01 1bpoA a.118.1.4,b.69.6.1 19143,27670 2g76A 335 1.30e+01 2fb1A 226 1.32e+01 1mx3A 347 1.35e+01 c.2.1.4,c.23.12.1 79638,79639 2d13A 227 1.37e+01 1d2oA 187 1.41e+01 1d2oA b.3.5.1,b.3.5.1 22625,22626 1rxyA 253 1.41e+01 c.56.2.1 98065 1j8mF 297 1.46e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1uxtA 501 1.49e+01 c.82.1.1 108125 1jztA 246 1.50e+01 c.104.1.1 63319 2bibA 547 1.51e+01 2evaA 307 1.71e+01 1o88A 353 1.72e+01 b.80.1.1 81178 2c46A 241 1.73e+01 1iz5A 249 1.73e+01 d.131.1.2,d.131.1.2 83834,83835 2gs5A 198 1.74e+01 1gheA 177 1.74e+01 d.108.1.1 76222 1air 353 1.75e+01 1air b.80.1.1 28018 1lx7A 253 1.77e+01 c.56.2.1 74329 1w15A 153 1.88e+01 b.7.1.2 109041 1rtfB 252 1.94e+01 5ptp 1h6zA 913 2.06e+01 c.1.12.2,c.8.1.1,d.142.1.5 70906,70907,70908 1z85A 234 2.13e+01 1vddA 228 2.21e+01 e.49.1.1 108519 1fc6A 388 2.22e+01 1fc6A b.36.1.3,c.14.1.2 64738,64739 1yovA 537 2.30e+01 1ek9A 428 2.30e+01 1ek9A f.5.1.1 43809 1zbmA 280 2.31e+01 1fmb 104 2.48e+01 1fmb b.50.1.1 26777 1ln1A 214 2.51e+01 d.129.3.2 74038 1cm5A 759 2.54e+01 1cm5A c.7.1.1 30671 1h16A 759 2.58e+01 c.7.1.1 76462 1utcA 363 2.63e+01 a.118.1.4,b.69.6.1 99914,99915 2coeA 120 2.63e+01 1qqp2 218 2.66e+01 1qqp2 1c3gA 170 2.67e+01 1c3gA b.4.1.1,b.4.1.1 22831,22832 1bg6 359 2.68e+01 1bg6 a.100.1.5,c.2.1.6 18810,30214 1yrvA 169 2.73e+01 1qlmA 316 2.78e+01 1qlmA d.147.1.1 41765 1l3yA 41 2.89e+01 g.3.11.6 73558 1p42A 270 2.99e+01 d.14.1.7,d.14.1.7 87754,87755 1je0A 236 3.02e+01 c.56.2.1 66581 1jx2B 315 3.12e+01 c.37.1.8 67404 2aa4A 289 3.16e+01 2gp4A 628 3.22e+01 1woqA 267 3.28e+01 c.55.1.10,c.55.1.10 109462,109463 1k0rA 366 3.35e+01 b.40.4.5,d.52.3.1,d.52.3.1,d.202.1.1 67961,67962,67963,67964 1vllA 334 3.44e+01 c.2.1.13 108834 2bsaA 303 3.46e+01 1q67A 231 3.67e+01 b.55.1.7 95960 1ha1 184 3.70e+01 1ha1 d.58.7.1,d.58.7.1 39147,39148 1r6xA 395 3.77e+01 b.122.1.3,c.26.1.5 97167,97168 1l3kA 196 3.77e+01 d.58.7.1,d.58.7.1 73539,73540 1z5vA 474 3.82e+01 1nhp 447 3.84e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 2ex4A 241 3.91e+01 2mspA 126 3.91e+01 1mspA b.1.11.2 22335 1qgdA 662 4.07e+01 c.36.1.6,c.36.1.10,c.48.1.1 88367,88368,88369 1x3lA 440 4.07e+01 1i9sA 210 4.08e+01 1i9sA c.45.1.1 62099 1u3eM 174 4.11e+01 d.4.1.3,d.285.1.1 107640,107641 2beiA 170 4.19e+01 1odkA 235 4.22e+01 c.56.2.1 86863 1n8yC 608 4.25e+01 c.10.2.5,c.10.2.5,g.3.9.1,g.3.9.1 80314,80315,80316,80317 1vjpA 394 4.25e+01 c.2.1.3,d.81.1.3 100828,100829 1qauA 112 4.25e+01 1qauA b.36.1.1 24779 2bu3A 254 4.26e+01 1mrzA 293 4.31e+01 b.43.5.1,c.26.1.3 91452,91453 1neu 124 4.36e+01 1neu b.1.1.1 19704 1i12A 160 4.41e+01 1i21A d.108.1.1 61515 1skoA 143 4.46e+01 d.110.7.1 105676 1w34A 304 4.49e+01 1gz6A 319 4.59e+01 c.2.1.2 76410 1cs1A 386 4.61e+01 1ibjA c.67.1.3 34399 2b0vA 153 4.67e+01 1ne9A 335 4.71e+01 d.108.1.4,d.108.1.4 91839,91840 2gujA 155 4.71e+01 2ffjA 300 4.76e+01 2fe7A 166 4.85e+01 1b0uA 262 4.86e+01 1b0uA c.37.1.12 32370 1omoA 322 4.90e+01 c.2.1.13 104017 1i1dA 161 4.94e+01 1i21A d.108.1.1 61526 1z1dA 103 4.96e+01 1vi4A 174 4.98e+01 c.8.7.1 100731 1que 303 5.03e+01 1fnc b.43.4.2,c.25.1.1 25647,31537 1k3bB 164 5.05e+01 d.3.1.1 72015 1nhs 447 5.09e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1fjhA 257 5.16e+01 1fjhB c.2.1.2 29870 1fx2A 235 5.17e+01 1fx2A d.58.29.1 39430 1tr9A 341 5.31e+01 1so7A 382 5.34e+01 1go2A 304 5.39e+01 b.43.4.2,c.25.1.1 76243,76244 1vziA 126 5.40e+01 b.1.13.1,g.41.5.2 108967,108968 2g8lA 299 5.54e+01 1vi2A 300 5.68e+01 c.2.1.7,c.58.1.5 100726,100727 1ogiA 303 5.71e+01 b.43.4.2,c.25.1.1 92914,92915 1fjrA 195 5.79e+01 1fjrA b.102.1.1 59855 1yloA 348 5.86e+01 2bmwA 304 5.90e+01 2c1gA 431 5.95e+01 1a9xB 379 5.98e+01 1c3oB c.8.3.1,c.23.16.1 30732,31409 2gwgA 350 6.05e+01 1q40B 219 6.05e+01 d.17.4.2 95771 1w36D 608 6.15e+01 1zemA 262 6.16e+01 1geeA 261 6.18e+01 c.2.1.2 90509 1gcoA 261 6.20e+01 1ybvA c.2.1.2 29884 1m0wA 491 6.38e+01 c.30.1.4,d.142.1.6 78363,78364 1qo7A 394 6.41e+01 1qo7A c.69.1.11 34697 1g3qA 237 6.57e+01 1hyqA c.37.1.10 60237 1b7yB 785 6.60e+01 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,d.138.1.1 16301,16302,25312,39311,40780,41456 1dpuA 99 6.62e+01 1dpuA a.4.5.16 16150 1bx1A 314 6.71e+01 1fnc b.43.4.2,c.25.1.1 25629,31519 2agyA 361 6.75e+01 1g57A 217 6.84e+01 1g57A d.115.1.2 60253 1j1tA 233 6.87e+01 b.29.1.18 90771 1vctA 205 6.88e+01 1yh1A 359 6.91e+01 1ja9A 274 6.91e+01 c.2.1.2 62817 2gefA 217 6.93e+01 1uliB 187 6.97e+01 d.17.4.4 107923 1in4A 334 6.98e+01 1hqcA a.4.5.11,c.37.1.20 62597,62598 1xf1A 926 7.16e+01 1c3pA 375 7.29e+01 1c3pA c.42.1.2 32606 1fs7A 485 7.30e+01 1qdbA a.138.1.3 19691 1x84A 189 7.36e+01 1vcbC 160 7.36e+01 1vcbC b.3.3.1 22535 2f1rA 171 7.43e+01 2aynA 404 7.51e+01 1e79A 510 7.56e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18269,26434,32314 1cjcA 460 7.57e+01 1cjcA c.3.1.1,c.4.1.1 30319,30604 2gfaA 119 7.66e+01 2alaA 391 7.66e+01 2f5vA 595 7.80e+01 2d0oA 610 7.81e+01 2blnA 305 7.99e+01 1r0wA 286 8.09e+01 c.37.1.12 96754 1f0lA 535 8.10e+01 1ddt b.2.1.1,d.166.1.1,f.1.2.1 22377,42239,43382 1g8fA 511 8.18e+01 1g8fA b.122.1.3,c.26.1.5,c.37.1.15 60348,60349,60350 1r0uA 148 8.19e+01 b.60.1.5 96741 2arkA 188 8.20e+01 1pxwA 128 8.28e+01 d.79.3.1 95305 2acvA 463 8.29e+01 2c1iA 431 8.29e+01 1j6pA 418 8.33e+01 b.92.1.4,c.1.9.9 77089,77090 1h2kA 349 8.35e+01 b.82.2.6 76572 1g8lA 411 8.41e+01 1g8lA b.85.6.1,b.103.1.1,c.57.1.2 60365,60366,60367 1ahl 49 8.51e+01 1ahl g.9.1.1 44601 1vzyA 291 8.62e+01 2stv 195 8.63e+01 2stv b.121.7.1 23287 2bukA 196 8.64e+01 1a4sA 503 8.66e+01 1bpwA c.82.1.1 35361 1r7lA 110 8.67e+01 d.277.1.1 104837 1e79H 146 8.70e+01 1e79H a.2.10.1,b.93.1.1 15721,28438 1qd1A 325 8.78e+01 1qd1A d.58.34.1,d.58.34.1 39493,39494 1t9hA 307 8.81e+01 2furA 209 8.82e+01 1plq 258 8.82e+01 1plq d.131.1.2,d.131.1.2 41388,41389 1dxy 333 8.84e+01 1dxy c.2.1.4,c.23.12.1 30094,31354 1uwzA 136 8.87e+01 c.97.1.1 108081 1y0bA 197 8.94e+01 1imjA 210 8.97e+01 c.69.1.23 71246