# List of top-scoring protein chains for t06-100-30-bys-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 1sdjA 310 1.20e-01 d.21.1.2,d.21.1.2 98807,98808 1qyaA 307 1.96e-01 d.21.1.2,d.21.1.2 104653,104654 2gkeA 274 2.13e-01 1gqzA 274 2.46e-01 d.21.1.1,d.21.1.1 83311,83312 1k3bB 164 1.53e+00 d.3.1.1 72015 1omrA 201 1.53e+00 a.39.1.5 93349 1bupA 386 2.08e+00 1ba1 c.55.1.1,c.55.1.1 33377,33378 1orrA 347 2.31e+00 c.2.1.2 93460 1dlwA 116 3.25e+00 1dlyA a.1.1.1 14982 1u84A 90 3.40e+00 1szwA 379 3.86e+00 d.265.1.4 99047 1v58A 241 3.98e+00 c.47.1.9,d.17.3.1 108371,108372 1r7lA 110 4.25e+00 d.277.1.1 104837 1oc2A 348 4.59e+00 c.2.1.2 92765 1bqsA 209 4.97e+00 1bqsA b.1.1.4,b.1.1.4 21704,21705 2ckiA 262 4.98e+00 4fiv 113 6.12e+00 1fmb b.50.1.1 26762 1vrmA 325 6.71e+00 1rzl 91 7.51e+00 1rzl a.52.1.1 17817 1qhkA 47 7.70e+00 1qhkA d.100.1.2 40694 1mqoA 227 7.88e+00 d.157.1.1 103846 1lj5A 379 8.59e+00 e.1.1.1 73928 2sli 679 9.26e+00 2sli b.29.1.9,b.68.1.1 24274,27611 1x6zA 123 9.97e+00 1qfhA 212 1.02e+01 1qfhA b.1.18.10,b.1.18.10 21893,21894 1pylA 97 1.03e+01 d.1.1.2 104391 1qo0D 196 1.10e+01 1qo0D c.23.1.3 31125 1ooyA 481 1.14e+01 c.124.1.3,c.124.1.2 93388,93389 1g8iA 190 1.16e+01 1rec a.39.1.5 60363 1sc6A 404 1.20e+01 1nzjA 298 1.22e+01 c.26.1.1 92377 1m3yA 413 1.27e+01 b.121.2.3,b.121.2.3 78579,78580 1j75A 67 1.31e+01 a.4.5.19 62673 1x99A 145 1.40e+01 1rb9 53 1.42e+01 1rb9 g.41.5.1 45214 1uwkA 557 1.46e+01 e.51.1.1 108065 1sr8A 298 1.46e+01 e.54.1.1 105959 1gci 269 1.48e+01 1gci c.41.1.1 32503 1j1nA 492 1.49e+01 c.94.1.1 83978 1owcA 427 1.52e+01 a.103.1.1 104039 1otgA 125 1.53e+01 1otgA d.80.1.2 39831 1fe0A 68 1.53e+01 1cc8A d.58.17.1 39345 1hf2A 210 1.70e+01 1hf2A b.80.3.1,c.102.1.1 60992,60993 1tt8A 164 1.72e+01 1obdA 306 1.83e+01 d.143.1.1 86767 1f9yA 158 1.84e+01 d.58.30.1 83249 1i2aA 219 1.87e+01 e.24.1.1 90660 1i2sA 282 1.92e+01 e.3.1.1 71104 1qi9A 556 2.02e+01 1qhbA a.111.1.2 19053 1tukA 67 2.04e+01 1qopB 396 2.07e+01 2tysB c.79.1.1 35270 1m1eB 81 2.08e+01 a.161.1.1 78400 1fo8A 343 2.11e+01 1foaA c.68.1.10 59927 1odmA 331 2.14e+01 b.82.2.1 86875 1ta8A 332 2.18e+01 1kxgA 152 2.21e+01 b.22.1.1 73145 1js8A 394 2.28e+01 a.86.1.1,b.112.1.1 67219,67220 1i8aA 189 2.28e+01 1i82A b.1.9.2 61951 1ak0 270 2.29e+01 1ak0 a.124.1.2 19345 1mo9A 523 2.29e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1e6yB 433 2.30e+01 1mroB a.89.1.1,d.58.31.2 18535,39453 1f00I 282 2.33e+01 1f00I b.1.14.1,b.1.14.1,d.169.1.3 22368,22369,42439 1ngkA 128 2.35e+01 a.1.1.1 85673 1hynP 379 2.44e+01 1hynP d.112.1.2 61408 1i60A 278 2.46e+01 c.1.15.4 71118 1w4xA 542 2.47e+01 c.3.1.5,c.3.1.5 109171,109172 1k7jA 206 2.61e+01 d.115.1.1 72103 1ogiA 303 2.64e+01 b.43.4.2,c.25.1.1 92914,92915 1prxA 224 2.71e+01 1prxA c.47.1.10 33076 1brfA 53 2.73e+01 1rb9 g.41.5.1 45236 1pdkB 157 2.81e+01 1pdkB b.2.3.2 22427 1idrA 136 2.82e+01 1dlyA a.1.1.1 62301 1o5zA 442 2.91e+01 c.59.1.2,c.72.2.2 92530,92531 1c7kA 132 2.95e+01 1kuh d.92.1.1 59078 2sak 121 3.03e+01 2sak d.15.5.1 37711 1cex 214 3.05e+01 1cex c.69.1.30 31285 1budA 197 3.07e+01 1atlA d.92.1.9 40328 1gpiA 431 3.10e+01 b.29.1.10 65450 1hbnB 442 3.13e+01 1mroB a.89.1.1,d.58.31.2 60900,60901 2ck3G 272 3.14e+01 1l0sA 90 3.16e+01 b.81.2.1 73408 1iq9A 61 3.23e+01 g.7.1.1 90669 1n7fA 97 3.33e+01 b.36.1.1 91692 1g79A 218 3.35e+01 1ci0A b.45.1.1 25752 1oh4A 179 3.35e+01 b.18.1.18 92978 2gf9A 189 3.36e+01 1fk5A 93 3.38e+01 1rzl a.52.1.1 59866 1i58A 189 3.40e+01 1b3qA d.122.1.3 61773 1tq5A 242 3.41e+01 1byrA 155 3.41e+01 1byrA d.136.1.1 41450 1h21A 247 3.47e+01 a.138.1.3 76510 1n7eA 97 3.48e+01 b.36.1.1 91691 1h30A 422 3.49e+01 b.29.1.4,b.29.1.4 76604,76605 1jjtA 228 3.49e+01 1a7tA d.157.1.1 63139 1pxfA 111 3.53e+01 b.40.4.4 88341 1avyA 74 3.58e+01 1avyB h.1.17.1 45656 1dkzA 219 3.74e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 1hmt 132 3.86e+01 1hmt b.60.1.2 27169 1xubA 298 3.88e+01 1mgrA 99 3.98e+01 d.1.1.2 79106 1gjwA 637 3.98e+01 b.71.1.1,c.1.8.1 60582,60583 12asA 330 4.00e+01 12asA d.104.1.1 40783 1jz8A 1023 4.15e+01 b.1.4.1,b.1.4.1,b.18.1.5,b.30.5.1,c.1.8.3 67830,67831,67832,67833,67834 1xjvA 294 4.20e+01 1b9oA 123 4.23e+01 3lzt d.2.1.2 36597 1on2A 142 4.25e+01 a.4.5.24,a.76.1.1 87103,87104 1ouoA 210 4.29e+01 d.4.1.6 93554 1ttwA 138 4.34e+01 d.198.1.1 107308 1r6dA 337 4.43e+01 c.2.1.2 97148 1gz8A 299 4.50e+01 d.144.1.7 83405 1w6sA 599 4.55e+01 2ciaA 102 4.56e+01 1mi3A 322 4.63e+01 c.1.7.1 91274 1oacA 727 4.67e+01 1oacA b.30.2.1,d.17.2.1,d.17.2.1,d.82.1.1 24390,38007,38008,40003 1aym2 261 4.67e+01 1aym2 1lkkA 105 4.68e+01 1lckA d.93.1.1 40412 1atzA 189 4.76e+01 1atzA c.62.1.1 34132 1rdg 53 4.79e+01 1rb9 g.41.5.1 45221 1jtdB 273 4.81e+01 b.69.5.2 67265 1f5jA 199 4.82e+01 1axkA b.29.1.11 24342 1vmbA 140 4.84e+01 1tns 76 4.88e+01 1qpmA a.6.1.7 16228 1qbjA 81 4.90e+01 1qbjA a.4.5.19 16155 1sffA 426 4.97e+01 c.67.1.4 105482 1iz6A 138 5.04e+01 b.34.5.2,b.40.4.5 76976,76977 1hfeL 421 5.04e+01 1fehA c.96.1.1,d.58.1.5 36018,39001 1lniA 96 5.09e+01 d.1.1.2 74046 1h8eG 272 5.10e+01 1e79G c.49.2.1 60756 1gsa 316 5.12e+01 1gsa c.30.1.3,d.142.1.1 31718,41477 1f15A 218 5.12e+01 1f15B b.121.4.5 23320 1j2jB 45 5.33e+01 a.7.8.1 84017 1jjfA 268 5.40e+01 c.69.1.2 66765 1p7gA 222 5.43e+01 a.2.11.1,d.44.1.1 94223,94224 1dzfA 215 5.45e+01 1dzfA c.52.3.1,d.78.1.1 33344,39753 1gvfA 286 5.45e+01 c.1.10.2 70599 1npyA 271 5.53e+01 c.2.1.7,c.58.1.5 85995,85996 1h09A 338 5.62e+01 b.109.1.1,c.1.8.8 83420,83421 1pjxA 314 5.65e+01 b.68.6.1 104167 1a12A 413 5.66e+01 1a12A b.69.5.1 27663 1vk1A 242 5.68e+01 d.268.1.2 108634 1mkiA 330 5.75e+01 e.3.1.2 84994 1h98A 78 5.92e+01 d.58.1.2 65743 1grj 158 5.92e+01 1grj a.2.1.1,d.26.1.2 15691,38433 1rl4A 188 5.97e+01 d.167.1.1 97636 1k3iA 656 5.97e+01 b.1.18.2,b.18.1.1,b.69.1.1 68113,68114,68115 1dun 134 5.97e+01 1dun b.85.4.1 28371 1e8gA 560 6.00e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1m2xA 223 6.11e+01 d.157.1.1 84764 1mw9X 592 6.12e+01 e.10.1.1 91480 1aba 87 6.12e+01 1aba c.47.1.1 32760 1fjgT 106 6.13e+01 1fjfT a.7.6.1 16338 1jyoA 130 6.14e+01 d.198.1.1 67483 1gg4A 452 6.18e+01 1gg4A c.59.1.1,c.98.1.1,c.72.2.1 33957,58985,58986 1h9dB 134 6.18e+01 2jhbA b.54.1.1 60822 1sd4A 126 6.21e+01 a.4.5.39 105428 1es5A 262 6.21e+01 1skf e.3.1.1 42679 1dmhA 311 6.27e+01 1dmhA b.3.6.1 22633 1ty9A 222 6.31e+01 1lm4A 194 6.34e+01 d.167.1.1 84626 1mr7A 209 6.35e+01 b.81.1.3 91430 1mixA 206 6.37e+01 a.11.2.1,b.55.1.5 79166,79167 1swxA 209 6.38e+01 a.224.1.1 106075 1nzyA 269 6.40e+01 1nzyA c.14.1.3 30903 1sdsA 117 6.42e+01 d.79.3.1 105439 1pz4A 116 6.46e+01 d.106.1.1 95400 1kqfA 1015 6.50e+01 b.52.2.2,c.81.1.1 72871,72872 1iq6A 134 6.58e+01 d.38.1.4 76755 1u60A 310 6.62e+01 e.3.1.2 107692 1ayj 51 6.62e+01 1ayj g.3.7.5 44177 1n67A 359 6.63e+01 b.2.3.4,b.2.3.4 85354,85355 1cmcA 104 6.63e+01 1cmbA a.43.1.5 17462 1lzlA 323 6.69e+01 c.69.1.2 78306 1ppfE 218 6.70e+01 1a7s b.47.1.2 26234 2bhuA 602 6.74e+01 1e42A 258 6.84e+01 1e42A b.1.10.1,d.105.1.1 22316,40792 1dbqA 289 6.87e+01 1qpzA c.93.1.1 35666 1pbyA 489 6.88e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 94417,94418,94419,94420,94421 1je8A 82 6.92e+01 a.4.6.2 77108 1eu1A 780 7.07e+01 1dmr b.52.2.2,c.81.1.1 26903,35311 1f02T 66 7.07e+01 1f02T j.67.1.1 46360 1sr9A 644 7.14e+01 a.5.7.1,c.1.10.5,d.270.1.1 105960,105961,105962 1tmxA 293 7.19e+01 1jhsA 188 7.19e+01 d.107.1.1 84172 1fx2A 235 7.29e+01 1fx2A d.58.29.1 39430 1j8fA 323 7.31e+01 1j8fA c.31.1.5 62738 1njrA 284 7.34e+01 c.50.1.2 103858 1krhA 338 7.34e+01 b.43.4.2,c.25.1.2,d.15.4.2 72891,72892,72893 1w53A 84 7.35e+01 a.186.1.2 109175 1pzsA 208 7.38e+01 b.1.8.1 104397 1hfoA 113 7.39e+01 d.80.1.3 61006 1bsmA 201 7.52e+01 1avmA a.2.11.1,d.44.1.1 15780,38743 1fyhB 229 7.53e+01 1jrhI b.1.2.1,b.1.2.1 22055,22056 1oe1A 336 7.54e+01 b.6.1.3,b.6.1.3 86891,86892 1nznA 126 7.56e+01 a.118.8.1 92382 1d2sA 170 7.60e+01 1d2sA b.29.1.4 24221 1gl4B 98 7.73e+01 b.1.1.4 65288 1nkiA 135 7.80e+01 d.32.1.2 91941 1d02A 202 7.97e+01 1d02A c.52.1.8 33313 1oe4A 247 8.04e+01 c.18.1.3 86895 1d3bA 75 8.05e+01 1d3bA b.38.1.1 24798 1nu7D 282 8.06e+01 a.8.6.1,a.8.6.1 92191,92192 1s5dA 240 8.12e+01 d.166.1.1 98541 1p8xA 344 8.15e+01 d.109.1.1,d.109.1.1,d.109.1.1 94365,94366,94367 1e30A 155 8.16e+01 1rcy b.6.1.1 23016 1i88A 389 8.16e+01 c.95.1.2,c.95.1.2 66070,66071 1em8B 112 8.30e+01 c.126.1.1 90458 1sgwA 214 8.32e+01 c.37.1.12 105541 1a8y 367 8.33e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1f7sA 139 8.37e+01 1cof d.109.1.2 40857 1mh1 186 8.40e+01 1eesA c.37.1.8 32002 1a6jA 163 8.41e+01 1a6jA d.112.1.1 40915 1uuqA 440 8.42e+01 c.1.8.3 100015 1gx1A 160 8.52e+01 d.79.5.1 70675 1b12A 248 8.56e+01 1b12A b.87.1.2 28388 1pme 380 8.68e+01 1hcl d.144.1.7 41653 1reqB 637 8.68e+01 1reqB c.1.19.1,c.23.6.1 29621,31248 1kkeA 210 8.69e+01 b.21.1.2,b.83.1.2 68669,68670 1dpjA 329 8.72e+01 1smrA b.50.1.2 26828 1ok0A 74 8.76e+01 b.5.1.1 93191 1dj7B 75 8.77e+01 1dj7B b.34.4.3 24598 1gsmA 210 8.82e+01 b.1.1.4,b.1.1.4 65535,65536 1o98A 511 8.83e+01 c.105.1.1,c.76.1.3 86684,86685 1mba 147 8.85e+01 2fal a.1.1.2 15149 1jb3A 131 8.87e+01 1jc7A b.40.3.2 62833 1cp2A 269 8.87e+01 1cp2A c.37.1.10 32269 1zjjA 263 8.87e+01 1lc5A 364 8.90e+01 c.67.1.1 73827 1r64A 481 8.90e+01 b.18.1.20,c.41.1.1 97140,97141