# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl-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 1w61A 414 1.84e-03 2gkeA 274 2.41e-02 1gqzA 274 3.56e-02 d.21.1.1,d.21.1.1 83311,83312 1bwzA 274 6.53e-02 1bwzA d.21.1.1,d.21.1.1 38337,38338 1tm0A 350 3.23e-01 d.21.1.3 107147 1qyaA 307 8.27e-01 d.21.1.2,d.21.1.2 104653,104654 1b0tA 106 1.08e+00 1a6l d.58.1.2 38965 1sdjA 310 1.20e+00 d.21.1.2,d.21.1.2 98807,98808 1a6l 106 1.39e+00 1a6l d.58.1.2 38966 1usyA 275 1.47e+00 1eft 405 1.77e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25688,25728,32123 1ioaA 240 2.25e+00 1led b.29.1.1 24168 7fd1A 106 2.68e+00 1a6l d.58.1.2 38953 1fdd 106 3.22e+00 1a6l d.58.1.2 38960 2g6yA 217 3.43e+00 1xubA 298 3.50e+00 1fd2 106 3.93e+00 1a6l d.58.1.2 38962 1u1wA 298 4.64e+00 1lj5A 379 5.38e+00 e.1.1.1 73928 1b0vA 106 5.46e+00 1a6l d.58.1.2 38982 1hka 158 5.95e+00 1hka d.58.30.1 39433 1z94A 147 6.35e+00 1omrA 201 7.91e+00 a.39.1.5 93349 2f6uA 234 8.63e+00 1mkeA 152 8.72e+00 b.55.1.4 79231 1exmA 405 9.22e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 1q47A 495 9.34e+00 b.69.12.1 104532 2c78A 405 9.39e+00 1yqfA 203 9.96e+00 1rec 201 1.06e+01 1rec a.39.1.5 17326 2azpA 318 1.08e+01 1ci3M 249 1.29e+01 1hcz b.2.6.1,b.84.2.2 22480,28266 1ha3A 405 1.30e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 1lshA 1056 1.46e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1ds6B 180 1.51e+01 1rhoA b.1.18.8 21898 1f9yA 158 1.51e+01 d.58.30.1 83249 1eqoA 158 1.52e+01 1hka 1e42A 258 1.53e+01 1e42A b.1.10.1,d.105.1.1 22316,40792 1a5kC 566 1.53e+01 1ubpC b.92.1.1,c.1.9.2 28425,29047 1a5lC 566 1.54e+01 1ubpC b.92.1.1,c.1.9.2 28426,29048 1oivA 191 1.55e+01 c.37.1.8 93076 1ejrC 567 1.59e+01 1ubpC b.92.1.1,c.1.9.2 28420,29042 1pyiA 96 1.61e+01 1pyiA g.38.1.1,h.1.3.1 45079,45512 1ejxC 567 1.61e+01 b.92.1.1,c.1.9.2 83184,83185 1fwcC 567 1.62e+01 1ubpC b.92.1.1,c.1.9.2 28410,29032 1a5mC 566 1.63e+01 1ubpC b.92.1.1,c.1.9.2 28423,29045 1fa8A 135 1.73e+01 1qipA d.32.1.1 38486 1s7jA 262 1.77e+01 d.21.1.2 98647 1xssA 225 1.83e+01 2av9A 147 1.83e+01 1ut9A 609 1.86e+01 a.102.1.2,b.1.18.2 99912,99913 1oixA 191 1.90e+01 1mo9A 523 1.93e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1mixA 206 1.95e+01 a.11.2.1,b.55.1.5 79166,79167 1t6kA 278 1.95e+01 2dddA 225 2.01e+01 1k12A 158 2.04e+01 b.18.1.15 71978 1f9zA 135 2.08e+01 1qipA d.32.1.1 38484 1ats 386 2.08e+01 1ba1 c.55.1.1,c.55.1.1 33423,33424 1ev7A 317 2.09e+01 1ev7B c.52.1.9 33315 1yqzA 438 2.11e+01 1mqoA 227 2.19e+01 d.157.1.1 103846 1g8iA 190 2.43e+01 1rec a.39.1.5 60363 1n3gA 113 2.50e+01 d.204.1.1 79962 1aipA 405 2.53e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25697,25737,32132 1b5pA 385 2.56e+01 c.67.1.1 90403 1x6zA 123 2.57e+01 1aipE 405 2.61e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25699,25739,32134 1iawA 317 2.65e+01 c.52.1.9 62126 1wucA 250 2.68e+01 1bjwA 382 2.72e+01 1bjwA c.67.1.1 34349 1lm4A 194 2.74e+01 d.167.1.1 84626 1qupA 222 2.74e+01 1qupA b.1.8.1,d.58.17.1 22301,39352 1d3bA 75 2.79e+01 1d3bA b.38.1.1 24798 1dhkB 223 2.80e+01 1led b.29.1.1 24157 1xfjA 261 2.81e+01 d.194.1.2 109585 2a40B 260 2.81e+01 1d2gA 292 2.84e+01 1xvaA c.66.1.5 34187 1a7cA 379 2.84e+01 1sek e.1.1.1 42660 1hpm 386 3.05e+01 1ba1 c.55.1.1,c.55.1.1 33381,33382 1kay 381 3.05e+01 1ba1 c.55.1.1,c.55.1.1 33385,33386 1ba1 386 3.05e+01 1ba1 c.55.1.1,c.55.1.1 33387,33388 1bupA 386 3.06e+01 1ba1 c.55.1.1,c.55.1.1 33377,33378 1qg0A 308 3.07e+01 1fnc b.43.4.2,c.25.1.1 25639,31529 2gc9A 179 3.07e+01 1l5jA 865 3.10e+01 a.118.15.1,c.8.2.1,c.83.1.1 73592,73593,73594 1xvaA 292 3.15e+01 1xvaA c.66.1.5 34183 1js8A 394 3.19e+01 a.86.1.1,b.112.1.1 67219,67220 2bvlA 543 3.21e+01 2g6tA 306 3.39e+01 1pzsA 208 3.47e+01 b.1.8.1 104397 1v7wA 807 3.47e+01 a.102.1.4,b.30.5.3 108411,108412 1smxA 96 3.49e+01 b.40.4.5 105772 2ch4A 320 3.53e+01 1exnA 290 3.57e+01 1exnA a.60.7.1,c.120.1.2 18088,33358 1cwvA 492 3.57e+01 1cwvA b.1.14.1,b.1.14.1,b.1.14.1,b.1.14.1,d.169.1.3 22373,22374,22375,22376,42442 1ut8A 291 3.60e+01 a.60.7.1,c.120.1.2 99908,99909 1uj2A 252 3.60e+01 c.37.1.6 99452 2g30A 258 3.67e+01 1iq6A 134 3.67e+01 d.38.1.4 76755 1r7lA 110 3.68e+01 d.277.1.1 104837 1lmhA 184 3.71e+01 d.167.1.1 74036 1exnB 290 3.72e+01 1exnA a.60.7.1,c.120.1.2 18089,33359 2b5oA 402 3.75e+01 1tuhA 156 3.77e+01 d.17.4.11 107345 2bgiA 272 3.89e+01 1rz3A 201 3.92e+01 c.37.1.6 98132 1ax0 239 3.92e+01 1led b.29.1.1 24042 2fomB 185 3.95e+01 1wgoA 123 3.99e+01 2aieP 203 4.01e+01 1xo1A 291 4.03e+01 1exnA a.60.7.1,c.120.1.2 18086,33356 1bhjA 292 4.14e+01 1xvaA c.66.1.5 34189 1qwyA 291 4.20e+01 b.84.3.2 96509 1kk1A 410 4.32e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1led 243 4.36e+01 1led b.29.1.1 24039 1orrA 347 4.40e+01 c.2.1.2 93460 1o0wA 252 4.40e+01 a.149.1.1,d.50.1.1 80751,80752 1l1nA 183 4.46e+01 b.47.1.4 73476 1ov3A 138 4.48e+01 b.34.2.1,b.34.2.1 87451,87452 2cxkA 95 4.55e+01 1uheA 97 4.56e+01 1xoyA 161 4.57e+01 2cyeA 133 4.60e+01 1ww7A 160 4.66e+01 1budA 197 4.80e+01 1atlA d.92.1.9 40328 1zynA 202 4.81e+01 2bjqA 345 4.85e+01 1gyvA 120 4.98e+01 b.1.10.2 70790 1nvmB 312 5.01e+01 c.2.1.3,d.81.1.1 86251,86252 1viwB 198 5.14e+01 1led b.29.1.1 24170 4sli 679 5.20e+01 2sli b.29.1.9,b.68.1.1 24275,27612 1ym5A 300 5.22e+01 2sli 679 5.22e+01 2sli b.29.1.9,b.68.1.1 24274,27611 1fjjA 159 5.25e+01 1fjjA b.17.1.2 59852 1y0gA 191 5.25e+01 1ng2A 193 5.32e+01 b.34.2.1,b.34.2.1 85660,85661 1jjuA 489 5.33e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 66774,66775,66776,66777,66778 1atr 386 5.34e+01 1ba1 c.55.1.1,c.55.1.1 33421,33422 1qi9A 556 5.41e+01 1qhbA a.111.1.2 19053 1hynP 379 5.49e+01 1hynP d.112.1.2 61408 1ewqA 765 5.54e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 1lqwA 183 5.62e+01 d.167.1.1 74210 1xuvA 178 5.69e+01 1dzoA 123 5.75e+01 1dzoA d.24.1.1 38378 1db2A 377 5.86e+01 1sek e.1.1.1 42672 1qmyA 167 5.91e+01 1qmyA d.3.1.2 37094 1ccr 112 5.98e+01 1ycc a.3.1.1 15877 2ewrA 170 6.01e+01 2fclA 169 6.02e+01 1g7tA 594 6.19e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25714,25715,31033,32148 1wa5C 960 6.20e+01 1ac5 483 6.24e+01 1ac5 c.69.1.5 34653 1q8iA 783 6.27e+01 c.55.3.5,e.8.1.1 96208,96209 2fggA 101 6.36e+01 1v58A 241 6.38e+01 c.47.1.9,d.17.3.1 108371,108372 1fnuA 221 6.57e+01 3seb b.40.2.2,d.15.6.1 25212,37801 1r3eA 309 6.70e+01 b.122.1.1,d.265.1.2 96907,96908 1voqa 90 6.80e+01 1y43A 39 6.83e+01 1lqbC 162 6.84e+01 b.3.3.1 74186 1l4sA 112 6.86e+01 d.204.1.1 77693 1otgA 125 6.91e+01 1otgA d.80.1.2 39831 1w34A 304 7.05e+01 1lm6A 215 7.09e+01 d.167.1.1 84628 1go2A 304 7.09e+01 b.43.4.2,c.25.1.1 76243,76244 1ciy 590 7.12e+01 1ciy b.18.1.3,b.77.2.1,f.1.3.1 23720,27977,43392 1fuxA 166 7.12e+01 1fjjA b.17.1.2 60034 2bsaA 303 7.13e+01 1nc5A 373 7.15e+01 a.102.1.6 85548 1avbA 226 7.27e+01 1led b.29.1.1 24158 2f2hA 773 7.30e+01 2bz1A 196 7.43e+01 1u2hA 99 7.43e+01 1zotA 358 7.48e+01 1atnD 260 7.49e+01 3dni d.151.1.1 41793 1hxmD 242 7.55e+01 b.1.1.1,b.1.1.2 61373,61374 1ogiA 303 7.56e+01 b.43.4.2,c.25.1.1 92914,92915 2amhA 207 7.67e+01 1ftrA 296 7.70e+01 1ftrA d.58.33.1,d.58.33.1 39485,39486 1b2rA 304 7.74e+01 1fnc b.43.4.2,c.25.1.1 25648,31538 2aqjA 538 7.75e+01 2a74A 643 7.76e+01 2fsjA 346 7.80e+01 2a7bA 120 7.82e+01 1vcbC 160 7.83e+01 1vcbC b.3.3.1 22535 1c1bB 440 7.94e+01 1rthA e.8.1.2 43077 1prxA 224 7.96e+01 1prxA c.47.1.10 33076 1n9lA 109 7.99e+01 d.110.3.6 85468 1kf6B 243 8.14e+01 a.1.2.1,d.15.4.2 72397,72398 1lf6A 684 8.15e+01 a.102.1.5,b.30.5.5 77918,77919 1svcP 365 8.21e+01 1a3qA b.1.18.1,b.2.5.3 21924,22443 1z7wA 322 8.21e+01 1kn0A 212 8.21e+01 d.50.1.3 77444 1zn6A 227 8.36e+01 1n9pA 207 8.38e+01 b.1.18.16 80343 1uisA 231 8.46e+01 d.22.1.1 99431 1g7rA 594 8.55e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25716,25717,31034,32149 1h98A 78 8.61e+01 d.58.1.2 65743 1kn9A 249 8.63e+01 b.87.1.2 68699 2d7vA 162 8.67e+01 1e4eA 343 8.69e+01 1iow c.30.1.2,d.142.1.1 59221,59222 1kbvA 327 8.72e+01 b.6.1.3,b.6.1.3 68395,68396 1lm8V 160 8.85e+01 b.3.3.1 74035 1ap8 213 8.85e+01 1ap8 d.86.1.1 40151