# List of top-scoring protein chains for t04-100-30-n_sep-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 1tx4B 178 3.25e-01 1ctqA c.37.1.8 32045 1kmqA 184 4.61e-01 c.37.1.8 84412 1tqyB 415 5.03e-01 c.95.1.1,c.95.1.1 107247,107248 1mp9A 198 7.90e-01 d.129.1.1,d.129.1.1 91385,91386 1v1aA 309 1.86e+00 c.72.1.1 100249 1se0A 116 1.96e+00 g.52.1.1 98814 1b1cA 181 2.11e+00 1amoA c.23.5.2 31212 2bk7B 222 2.94e+00 2bo9B 222 2.94e+00 1vljA 407 3.52e+00 e.22.1.2 108832 1lylA 504 3.52e+00 1lylA b.40.4.1,d.104.1.1 25261,40717 1ye8A 178 3.68e+00 1aqcA 172 3.82e+00 1x11A b.55.1.2 26983 1x0pA 143 4.23e+00 1gtdA 85 4.30e+00 d.284.1.1 76344 1vdnA 162 4.38e+00 1qo0D 196 4.87e+00 1qo0D c.23.1.3 31125 2fbhA 146 5.11e+00 1y51A 88 5.76e+00 2cw8A 537 5.77e+00 1ywmA 200 5.90e+00 1czaN 917 6.17e+00 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33463,33464,33465,33466 1tc1A 220 6.52e+00 1tc1A c.61.1.1 34083 1jx2B 315 6.58e+00 c.37.1.8 67404 1ra0A 430 6.64e+00 1ja1A 622 6.71e+00 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 2cnqA 306 6.76e+00 1k6wA 426 6.77e+00 b.92.1.2,c.1.9.5 68236,68237 1o59A 355 6.96e+00 b.18.1.22,b.18.1.22 92495,92496 2a0jA 149 6.97e+00 1v6tA 255 7.12e+00 1a48 306 7.44e+00 1a48 d.143.1.1 41590 1obdA 306 7.77e+00 d.143.1.1 86767 1lqtA 456 7.85e+00 c.3.1.1,c.4.1.1 74198,74199 2ftrA 108 7.91e+00 1rreA 200 8.52e+00 d.14.1.10 97791 2gmfA 127 9.18e+00 2gmfA a.26.1.2 16849 1yruA 364 9.43e+00 1ddwA 120 9.60e+00 1evhA b.55.1.4 27001 1oj7A 408 9.80e+00 e.22.1.2 103971 1uohA 226 9.88e+00 d.211.1.1 99690 1wvfA 520 1.04e+01 1zx5A 300 1.04e+01 1y8oB 128 1.09e+01 1puiA 210 1.10e+01 c.37.1.8 88292 1c25 161 1.12e+01 1c25 c.46.1.1 32698 1t5iA 172 1.15e+01 c.37.1.19 106450 1e1oA 504 1.16e+01 1lylA b.40.4.1,d.104.1.1 25258,40714 1elqA 390 1.21e+01 1elqA c.67.1.3 34436 1q2hA 69 1.23e+01 a.34.4.1 104498 1ppjA 446 1.24e+01 d.185.1.1,d.185.1.1 104252,104253 1s12A 94 1.35e+01 1r5lA 262 1.37e+01 a.5.3.1,c.13.1.1 97099,97100 1zotA 358 1.38e+01 351c 82 1.43e+01 451c a.3.1.1 15905 451c 82 1.43e+01 451c a.3.1.1 15904 1sq5A 308 1.46e+01 c.37.1.6 105882 1vk8A 106 1.46e+01 d.58.48.1 108636 1nbwA 607 1.46e+01 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 2a2kA 175 1.47e+01 1h4vB 421 1.47e+01 1adjA c.51.1.1,d.104.1.1 60624,60625 1ru3A 732 1.55e+01 e.26.1.3 97835 2cfeA 162 1.56e+01 1j5sA 463 1.57e+01 c.1.9.8 71580 1wpoA 256 1.59e+01 1lay b.57.1.1 27012 1eluA 390 1.64e+01 1elqA c.67.1.3 34434 1mkmA 249 1.68e+01 a.4.5.33,d.110.2.2 79242,79243 1esmA 316 1.76e+01 1esmA c.37.1.6 31953 1lxjA 104 1.77e+01 d.58.48.1 84736 1zj6A 187 1.78e+01 1l0lA 446 1.80e+01 d.185.1.1,d.185.1.1 84482,84483 1xfxO 149 1.85e+01 1wmdA 434 1.85e+01 b.18.1.20,c.41.1.1 109408,109409 1n2fA 142 1.85e+01 d.227.1.1 79853 1oaoC 729 1.88e+01 e.26.1.3 86746 1cvrA 435 1.91e+01 1cvrA b.1.18.12,c.17.1.2 21949,31006 1ss4A 153 1.92e+01 d.32.1.6 105976 1cs1A 386 1.92e+01 1ibjA c.67.1.3 34399 1jcfA 344 1.99e+01 c.55.1.1,c.55.1.1 62878,62879 2g2cA 167 2.06e+01 2b3yA 888 2.18e+01 1fp2A 352 2.20e+01 1fpxA a.4.5.29,c.66.1.12 59941,59942 2cx5A 158 2.22e+01 1x3lA 440 2.25e+01 1i0lA 221 2.26e+01 c.61.1.1 71096 1ymkA 175 2.28e+01 1m7bA 184 2.29e+01 c.37.1.8 74572 1z0wA 207 2.45e+01 1lhpA 312 2.46e+01 c.72.1.5 77960 1tg7A 971 2.47e+01 2arhA 203 2.47e+01 1j0aA 325 2.54e+01 c.79.1.1 83871 1j58A 385 2.56e+01 b.82.1.2 71531 1bd3A 243 2.60e+01 1bd3A c.61.1.1 34098 1qoiA 177 2.61e+01 2cpl b.62.1.1 27490 1yrtA 364 2.70e+01 1f60B 94 2.70e+01 1b64 d.58.12.1 39307 1nox 205 2.74e+01 1nox d.90.1.1 40242 1aisA 182 2.80e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1vqqA 646 2.80e+01 1agjA 242 2.81e+01 1agjA b.47.1.1 25827 1ynfA 458 2.81e+01 2g0qA 173 2.87e+01 1sw6A 327 2.90e+01 1sw6A d.211.1.1 19176 1kkoA 413 2.91e+01 c.1.11.2,d.54.1.1 68675,68676 1n13A 52 2.92e+01 d.155.1.2 85248 1r2rA 248 2.92e+01 c.1.1.1 96875 1pu1A 94 2.92e+01 d.266.1.1 104307 1sfnA 246 2.93e+01 b.82.1.11 105496 1od5A 492 2.94e+01 b.82.1.2,b.82.1.2 86832,86833 1iwmA 186 2.94e+01 b.125.1.2 83758 1cznA 169 3.00e+01 1rcf c.23.5.1 31181 2gatA 66 3.00e+01 1gatA g.39.1.1 45102 1yckA 175 3.03e+01 1cdzA 96 3.08e+01 1cdzA c.15.1.1 30925 2c2hA 192 3.14e+01 1tyjA 170 3.17e+01 1zejA 293 3.25e+01 1t9iA 163 3.33e+01 2fflA 756 3.36e+01 2d4pA 141 3.37e+01 1n6aA 259 3.38e+01 b.76.2.1,b.85.7.1 80121,80122 1t5rA 284 3.42e+01 f.6.1.1 106465 1dpsA 167 3.43e+01 1dpsA a.25.1.1 16716 1guzA 310 3.44e+01 c.2.1.5,d.162.1.1 65586,65587 1edzA 320 3.47e+01 1ee9A c.2.1.7,c.58.1.2 30287,33935 1v8bA 479 3.49e+01 1h0xA 100 3.52e+01 d.68.6.1 76451 1b9oA 123 3.53e+01 3lzt d.2.1.2 36597 1ulrA 88 3.58e+01 1qrrA 394 3.63e+01 1qrrA c.2.1.2 29824 1m7sA 484 3.63e+01 e.5.1.1 74574 1q42A 201 3.63e+01 d.17.4.2 95776 1x0rA 249 3.65e+01 1xeaA 323 3.70e+01 c.2.1.3,d.81.1.5 109572,109573 1d2zB 153 3.71e+01 1d2zB a.77.1.2 18439 1dqpA 230 3.71e+01 1dqnA c.61.1.1 34069 2bkyA 97 3.77e+01 1ef1A 294 3.77e+01 1ef1A a.11.2.1,b.55.1.5,d.15.1.4 16368,27003,37611 1z3xA 238 3.84e+01 1ywfA 296 3.94e+01 1eexA 554 3.94e+01 1dioA c.1.19.3 29650 1adjA 421 3.97e+01 1adjA c.51.1.1,d.104.1.1 33188,40737 2go7A 207 3.99e+01 1qy6A 274 4.00e+01 b.47.1.1 96574 1lo6A 223 4.00e+01 b.47.1.2 74143 1vrmA 325 4.01e+01 1zin 217 4.01e+01 1zin c.37.1.1,g.41.2.1 31915,45178 2bmjA 178 4.05e+01 2fblA 153 4.06e+01 2f06A 144 4.07e+01 1gx1A 160 4.08e+01 d.79.5.1 70675 2f69A 261 4.09e+01 2axcA 264 4.11e+01 1wmhA 89 4.13e+01 1vyfA 135 4.18e+01 b.60.1.2 108902 1y81A 138 4.21e+01 1qb0A 211 4.27e+01 1c25 c.46.1.1 32699 2liv 344 4.29e+01 2liv c.93.1.1 35708 1xfjA 261 4.29e+01 d.194.1.2 109585 1oy3D 282 4.30e+01 d.211.1.1 87554 1k8kA 418 4.36e+01 c.55.1.1,c.55.1.1 68305,68306 1i2mA 216 4.38e+01 1byuA c.37.1.8 61568 1shsA 147 4.41e+01 1shsA b.15.1.1 23675 1e8aA 91 4.43e+01 1b4cA a.39.1.2 17188 1kicA 339 4.53e+01 c.70.1.1 72510 1zboA 210 4.54e+01 1i24A 404 4.57e+01 c.2.1.2 83663 1dqnA 230 4.57e+01 1dqnA c.61.1.1 34067 1lc5A 364 4.66e+01 c.67.1.1 73827 2azpA 318 4.68e+01 1r5tA 142 4.73e+01 c.97.1.1 104812 1tm0A 350 4.79e+01 d.21.1.3 107147 1uqxA 113 4.80e+01 b.115.1.1 99801 1ri7A 171 4.81e+01 a.4.5.32,d.58.4.2 97504,97505 2ptd 298 4.82e+01 2plc c.1.18.2 29605 1jv2A 957 4.88e+01 b.1.15.1,b.1.15.1,b.1.15.1,b.69.8.1 67334,67335,67336,67337 1v8aA 265 4.89e+01 c.72.1.2 100494 1vplA 256 5.11e+01 1vyyA 113 5.13e+01 1t6nA 220 5.16e+01 c.37.1.19 106576 1xtnA 120 5.17e+01 2chhA 114 5.19e+01 1wnhA 225 5.21e+01 1t6cA 315 5.23e+01 c.55.1.8,c.55.1.8 106558,106559 1mh1 186 5.26e+01 1eesA c.37.1.8 32002 1s6yA 450 5.29e+01 c.2.1.5,d.162.1.2 105314,105315 2c8vA 288 5.31e+01 1ptf 88 5.35e+01 1ptf d.94.1.1 40549 1sqiA 393 5.37e+01 d.32.1.3,d.32.1.3 105914,105915 1qmvA 197 5.40e+01 1qq2A c.47.1.10 33066 1iseA 185 5.49e+01 d.67.3.1 90691 1pj5A 830 5.62e+01 b.44.2.1,c.3.1.2,d.16.1.5,d.250.1.1 94742,94743,94744,94745 2bznA 351 5.70e+01 1ts9A 102 5.73e+01 1tw7A 99 5.75e+01 1wvqA 167 5.75e+01 1rypA 243 5.77e+01 1pmaA d.153.1.4 41932 1tedA 393 5.85e+01 c.95.1.2 106807 7odcA 424 5.88e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 1utcA 363 5.88e+01 a.118.1.4,b.69.6.1 99914,99915 2bmfA 451 5.90e+01 1zb9A 143 5.91e+01 1g87A 614 6.04e+01 a.102.1.2,b.2.2.2 83275,83276 2gw6A 123 6.04e+01 2eu8A 216 6.05e+01 1qddA 144 6.08e+01 1qddA d.169.1.1 42324 1vcc 77 6.09e+01 1vcc d.121.1.1 41092 1sxjE 354 6.15e+01 a.80.1.1,c.37.1.20 106089,106090 1oc0B 51 6.17e+01 g.64.1.1 86791 1azwA 313 6.17e+01 1qtrA c.69.1.7 34658 1f2aA 215 6.19e+01 1cs8A d.3.1.1 37040 1xtoA 311 6.24e+01 3fapB 94 6.27e+01 1nsgB a.24.7.1 16612 2cvjA 180 6.38e+01 1cjcA 460 6.43e+01 1cjcA c.3.1.1,c.4.1.1 30319,30604 1uarA 285 6.45e+01 c.46.1.2,c.46.1.2 107762,107763 1o7iA 119 6.48e+01 b.40.4.3 86642 1tf1A 198 6.49e+01 d.110.2.2 106826 1zip 217 6.50e+01 1zin c.37.1.1,g.41.2.1 31916,45179 1z6gA 218 6.50e+01 1qfjA 232 6.51e+01 1qfjA b.43.4.2,c.25.1.1 25655,31545 1gsa 316 6.55e+01 1gsa c.30.1.3,d.142.1.1 31718,41477 1p3jA 217 6.57e+01 c.37.1.1,g.41.2.1 94022,94023 1l7aA 318 6.57e+01 c.69.1.25 77772 1qvcA 145 6.67e+01 3ullA b.40.4.3 25284 1nh1A 330 6.71e+01 e.45.1.1 91871 1n83A 270 6.72e+01 a.123.1.1 80276 1xrhA 351 6.75e+01 1vr4A 103 6.75e+01 1d4xG 126 6.78e+01 1d0nA d.109.1.1 59109 1vdeA 454 6.87e+01 1vdeA b.86.1.2,d.95.2.2,d.95.2.2 28378,40581,40582 2bjvA 265 6.91e+01 1xk4C 113 6.92e+01 1tc5A 194 6.93e+01 c.110.1.1 106752 1me4A 215 6.97e+01 d.3.1.1 79023 1r45A 204 6.97e+01 1u9cA 224 7.05e+01 1hfeL 421 7.13e+01 1fehA c.96.1.1,d.58.1.5 36018,39001 1zavA 180 7.15e+01 2f22A 144 7.22e+01 1olsB 342 7.30e+01 c.36.1.7,c.48.1.2 93332,93333 1hxrA 115 7.34e+01 1fwqA b.88.1.1 28392 1mo0A 275 7.34e+01 c.1.1.1 79329 1n0qA 93 7.40e+01 k.37.1.1 79754 1zyeA 220 7.43e+01 1amuA 563 7.46e+01 1amuA e.23.1.1 43351 2d00A 109 7.48e+01 1nm1G 125 7.60e+01 d.109.1.1 80653 2atxA 194 7.63e+01 1womA 271 7.80e+01 1v8gA 329 7.83e+01 a.46.2.1,c.27.1.1 100505,100506 1tph1 247 7.90e+01 1amk 2cuaA 135 7.91e+01 2cuaA b.6.1.2 23039 2gvhA 288 7.96e+01 1wzlA 585 8.03e+01 1nh0A 99 8.05e+01 b.50.1.1 91869 1jkxA 212 8.07e+01 c.65.1.1 66813 1lnwA 147 8.07e+01 a.4.5.28 78104 1s7hA 200 8.11e+01 d.58.48.2 105349 2f05A 105 8.24e+01 1qkkA 155 8.32e+01 1dbwA c.23.1.1 31104 1alu 186 8.37e+01 1alu a.26.1.1 16826 1iuhA 198 8.38e+01 d.61.1.2 83711 2bycA 137 8.39e+01 1zkeA 83 8.41e+01 1tw4A 125 8.53e+01 1de4C 640 8.58e+01 1cx8B a.48.2.1,c.8.4.1,c.56.5.5 17779,30760,33848 1t44G 147 8.63e+01 d.109.1.1 106395 1vjtA 483 8.66e+01 c.2.1.5,d.162.1.2 100833,100834 2bijA 305 8.70e+01 1ez0A 510 8.74e+01 1eyyA c.82.1.1 35385 1dmlA 319 8.75e+01 1dmlA d.131.1.2,d.131.1.2 41380,41381 1s99A 200 8.75e+01 2cg4A 152 8.75e+01 2a61A 145 8.77e+01 1w2iA 91 8.79e+01 d.58.10.1 109127 1qf9A 194 8.79e+01 1zin c.37.1.1 31848 2fgtA 417 8.80e+01 1fzqA 181 8.81e+01 1hurA c.37.1.8 32060 1difA 99 8.84e+01 1fmb b.50.1.1 26503 2av5A 120 8.84e+01 1yy7A 213 8.91e+01 2aujD 309 8.93e+01