# List of top-scoring protein chains for t06-100-30-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 1kmqA 184 8.91e-02 c.37.1.8 84412 1tqyB 415 9.91e-02 c.95.1.1,c.95.1.1 107247,107248 1mp9A 198 1.73e-01 d.129.1.1,d.129.1.1 91385,91386 1v1aA 309 4.90e-01 c.72.1.1 100249 1se0A 116 5.25e-01 g.52.1.1 98814 2bo9B 222 8.57e-01 1vljA 407 1.07e+00 e.22.1.2 108832 1ye8A 178 1.12e+00 1aqcA 172 1.18e+00 1x11A b.55.1.2 26983 1x0pA 143 1.33e+00 1vdnA 162 1.39e+00 1qo0D 196 1.58e+00 1qo0D c.23.1.3 31125 2fbhA 146 1.67e+00 1y51A 88 1.93e+00 2cw8A 537 1.93e+00 1ywmA 200 1.99e+00 1czaN 917 2.09e+00 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33463,33464,33465,33466 1tc1A 220 2.24e+00 1tc1A c.61.1.1 34083 1ra0A 430 2.29e+00 1ja1A 622 2.32e+00 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 2cnqA 306 2.34e+00 1o59A 355 2.42e+00 b.18.1.22,b.18.1.22 92495,92496 1v6tA 255 2.49e+00 1obdA 306 2.76e+00 d.143.1.1 86767 1lqtA 456 2.80e+00 c.3.1.1,c.4.1.1 74198,74199 2ftrA 108 2.82e+00 1rreA 200 3.09e+00 d.14.1.10 97791 2gmfA 127 3.38e+00 2gmfA a.26.1.2 16849 1ddwA 120 3.56e+00 1evhA b.55.1.4 27001 1wvfA 520 3.90e+00 1zx5A 300 3.93e+00 1y8oB 128 4.12e+00 1puiA 210 4.17e+00 c.37.1.8 88292 1t5iA 172 4.43e+00 c.37.1.19 106450 1e1oA 504 4.46e+00 1lylA b.40.4.1,d.104.1.1 25258,40714 1q2hA 69 4.77e+00 a.34.4.1 104498 1ppjA 446 4.85e+00 d.185.1.1,d.185.1.1 104252,104253 1s12A 94 5.35e+00 1r5lA 262 5.43e+00 a.5.3.1,c.13.1.1 97099,97100 451c 82 5.71e+00 451c a.3.1.1 15904 1sq5A 308 5.87e+00 c.37.1.6 105882 1vk8A 106 5.87e+00 d.58.48.1 108636 1nbwA 607 5.88e+00 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 2a2kA 175 5.90e+00 1h4vB 421 5.92e+00 1adjA c.51.1.1,d.104.1.1 60624,60625 1ru3A 732 6.30e+00 e.26.1.3 97835 2cfeA 162 6.36e+00 1j5sA 463 6.41e+00 c.1.9.8 71580 1wpoA 256 6.50e+00 1lay b.57.1.1 27012 1eluA 390 6.75e+00 1elqA c.67.1.3 34434 1mkmA 249 6.94e+00 a.4.5.33,d.110.2.2 79242,79243 1lxjA 104 7.39e+00 d.58.48.1 84736 1zj6A 187 7.42e+00 1wmdA 434 7.75e+00 b.18.1.20,c.41.1.1 109408,109409 1oaoC 729 7.94e+00 e.26.1.3 86746 1cvrA 435 8.07e+00 1cvrA b.1.18.12,c.17.1.2 21949,31006 1ss4A 153 8.11e+00 d.32.1.6 105976 1cs1A 386 8.12e+00 1ibjA c.67.1.3 34399 1jcfA 344 8.47e+00 c.55.1.1,c.55.1.1 62878,62879 2g2cA 167 8.84e+00 2b3yA 888 9.43e+00 1fp2A 352 9.53e+00 1fpxA a.4.5.29,c.66.1.12 59941,59942 2cx5A 158 9.64e+00 1x3lA 440 9.80e+00 1i0lA 221 9.84e+00 c.61.1.1 71096 1ymkA 175 9.94e+00 1m7bA 184 1.00e+01 c.37.1.8 74572 1z0wA 207 1.08e+01 1lhpA 312 1.09e+01 c.72.1.5 77960 1tg7A 971 1.09e+01 2arhA 203 1.10e+01 1j58A 385 1.14e+01 b.82.1.2 71531 1bd3A 243 1.16e+01 1bd3A c.61.1.1 34098 1yrtA 364 1.21e+01 1f60B 94 1.21e+01 1b64 d.58.12.1 39307 1nox 205 1.24e+01 1nox d.90.1.1 40242 1aisA 182 1.27e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1vqqA 646 1.27e+01 1agjA 242 1.27e+01 1agjA b.47.1.1 25827 1ynfA 458 1.27e+01 2g0qA 173 1.30e+01 1sw6A 327 1.32e+01 1sw6A d.211.1.1 19176 1kkoA 413 1.32e+01 c.1.11.2,d.54.1.1 68675,68676 1n13A 52 1.33e+01 d.155.1.2 85248 1r2rA 248 1.33e+01 c.1.1.1 96875 1pu1A 94 1.33e+01 d.266.1.1 104307 1iwmA 186 1.34e+01 b.125.1.2 83758 1cznA 169 1.37e+01 1rcf c.23.5.1 31181 2gatA 66 1.38e+01 1gatA g.39.1.1 45102 1yckA 175 1.39e+01 1cdzA 96 1.42e+01 1cdzA c.15.1.1 30925 1tyjA 170 1.47e+01 1zejA 293 1.51e+01 1t9iA 163 1.55e+01 2fflA 756 1.57e+01 2d4pA 141 1.58e+01 1n6aA 259 1.58e+01 b.76.2.1,b.85.7.1 80121,80122 1t5rA 284 1.60e+01 f.6.1.1 106465 1dpsA 167 1.61e+01 1dpsA a.25.1.1 16716 1guzA 310 1.62e+01 c.2.1.5,d.162.1.1 65586,65587 1v8bA 479 1.64e+01 1b9oA 123 1.67e+01 3lzt d.2.1.2 36597 1ulrA 88 1.69e+01 1m7sA 484 1.72e+01 e.5.1.1 74574 1q42A 201 1.72e+01 d.17.4.2 95776 1x0rA 249 1.73e+01 1xeaA 323 1.76e+01 c.2.1.3,d.81.1.5 109572,109573 1d2zB 153 1.76e+01 1d2zB a.77.1.2 18439 1dqpA 230 1.76e+01 1dqnA c.61.1.1 34069 2bkyA 97 1.80e+01 1z3xA 238 1.84e+01 1ywfA 296 1.90e+01 1eexA 554 1.90e+01 1dioA c.1.19.3 29650 2go7A 207 1.92e+01 1qy6A 274 1.93e+01 b.47.1.1 96574 1lo6A 223 1.93e+01 b.47.1.2 74143 1vrmA 325 1.93e+01 1zin 217 1.94e+01 1zin c.37.1.1,g.41.2.1 31915,45178 2bmjA 178 1.96e+01 2fblA 153 1.96e+01 2f06A 144 1.97e+01 1gx1A 160 1.97e+01 d.79.5.1 70675 2f69A 261 1.98e+01 2axcA 264 1.99e+01 1wmhA 89 2.00e+01 1vyfA 135 2.03e+01 b.60.1.2 108902 1y81A 138 2.05e+01 1xfjA 261 2.09e+01 d.194.1.2 109585 1k8kA 418 2.13e+01 c.55.1.1,c.55.1.1 68305,68306 1i2mA 216 2.15e+01 1byuA c.37.1.8 61568 1e8aA 91 2.17e+01 1b4cA a.39.1.2 17188 1kicA 339 2.23e+01 c.70.1.1 72510 1zboA 210 2.24e+01 1i24A 404 2.25e+01 c.2.1.2 83663 1lc5A 364 2.30e+01 c.67.1.1 73827 2azpA 318 2.32e+01 1r5tA 142 2.35e+01 c.97.1.1 104812 2ptd 298 2.40e+01 2plc c.1.18.2 29605 1v8aA 265 2.44e+01 c.72.1.2 100494 1vplA 256 2.57e+01 1t6nA 220 2.60e+01 c.37.1.19 106576 2chhA 114 2.62e+01 1t6cA 315 2.64e+01 c.55.1.8,c.55.1.8 106558,106559 1mh1 186 2.66e+01 1eesA c.37.1.8 32002 2c8vA 288 2.69e+01 1ptf 88 2.71e+01 1ptf d.94.1.1 40549 1sqiA 393 2.72e+01 d.32.1.3,d.32.1.3 105914,105915 1qmvA 197 2.74e+01 1qq2A c.47.1.10 33066 1iseA 185 2.79e+01 d.67.3.1 90691 1pj5A 830 2.87e+01 b.44.2.1,c.3.1.2,d.16.1.5,d.250.1.1 94742,94743,94744,94745 1ts9A 102 2.94e+01 1tw7A 99 2.95e+01 1wvqA 167 2.95e+01 1rypA 243 2.96e+01 1pmaA d.153.1.4 41932 1tedA 393 3.01e+01 c.95.1.2 106807 7odcA 424 3.02e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 1utcA 363 3.02e+01 a.118.1.4,b.69.6.1 99914,99915 2bmfA 451 3.04e+01 1zb9A 143 3.05e+01 1g87A 614 3.12e+01 a.102.1.2,b.2.2.2 83275,83276 2gw6A 123 3.12e+01 2eu8A 216 3.13e+01 1qddA 144 3.14e+01 1qddA d.169.1.1 42324 1vcc 77 3.15e+01 1vcc d.121.1.1 41092 1oc0B 51 3.20e+01 g.64.1.1 86791 1xtoA 311 3.24e+01 3fapB 94 3.26e+01 1nsgB a.24.7.1 16612 2cvjA 180 3.33e+01 1cjcA 460 3.36e+01 1cjcA c.3.1.1,c.4.1.1 30319,30604 1uarA 285 3.37e+01 c.46.1.2,c.46.1.2 107762,107763 1o7iA 119 3.38e+01 b.40.4.3 86642 1tf1A 198 3.40e+01 d.110.2.2 106826 1qfjA 232 3.40e+01 1qfjA b.43.4.2,c.25.1.1 25655,31545 1gsa 316 3.43e+01 1gsa c.30.1.3,d.142.1.1 31718,41477 1l7aA 318 3.44e+01 c.69.1.25 77772 1qvcA 145 3.50e+01 3ullA b.40.4.3 25284 1nh1A 330 3.53e+01 e.45.1.1 91871 1n83A 270 3.54e+01 a.123.1.1 80276 1vr4A 103 3.55e+01 1d4xG 126 3.57e+01 1d0nA d.109.1.1 59109 2bjvA 265 3.65e+01 1xk4C 113 3.66e+01 1tc5A 194 3.67e+01 c.110.1.1 106752 1me4A 215 3.69e+01 d.3.1.1 79023 1r45A 204 3.69e+01 1u9cA 224 3.73e+01 1hfeL 421 3.79e+01 1fehA c.96.1.1,d.58.1.5 36018,39001 1zavA 180 3.80e+01 2f22A 144 3.84e+01 1hxrA 115 3.91e+01 1fwqA b.88.1.1 28392 1mo0A 275 3.91e+01 c.1.1.1 79329 1n0qA 93 3.95e+01 k.37.1.1 79754 1amuA 563 3.99e+01 1amuA e.23.1.1 43351 2d00A 109 4.01e+01 1womA 271 4.20e+01 2cuaA 135 4.27e+01 2cuaA b.6.1.2 23039 2gvhA 288 4.30e+01 1wzlA 585 4.34e+01 1nh0A 99 4.36e+01 b.50.1.1 91869 1jkxA 212 4.37e+01 c.65.1.1 66813 1lnwA 147 4.37e+01 a.4.5.28 78104 2f05A 105 4.48e+01 1qkkA 155 4.53e+01 1dbwA c.23.1.1 31104 1alu 186 4.56e+01 1alu a.26.1.1 16826 2bycA 137 4.57e+01 1zkeA 83 4.59e+01 1t44G 147 4.72e+01 d.109.1.1 106395 1ez0A 510 4.79e+01 1eyyA c.82.1.1 35385 1dmlA 319 4.80e+01 1dmlA d.131.1.2,d.131.1.2 41380,41381 1s99A 200 4.80e+01 2cg4A 152 4.80e+01 2a61A 145 4.81e+01 1w2iA 91 4.82e+01 d.58.10.1 109127 1qf9A 194 4.83e+01 1zin c.37.1.1 31848 2fgtA 417 4.84e+01 1fzqA 181 4.84e+01 1hurA c.37.1.8 32060 2av5A 120 4.86e+01 1yy7A 213 4.90e+01 1xrkA 124 4.97e+01 1umkA 275 4.97e+01 1f5mA 180 5.00e+01 1f5mB d.110.2.1 40895 1mugA 168 5.06e+01 1mugA c.18.1.2 31030 1qnxA 209 5.09e+01 1qnxA d.111.1.1 40914 1vkyA 347 5.13e+01 e.53.1.1 108696 1bvyF 191 5.14e+01 1bvyF c.23.5.1 31207 2avuE 192 5.18e+01 3psg 370 5.21e+01 1smrA b.50.1.2 26841 1rzhL 281 5.21e+01 f.26.1.1 98164 1wwzA 159 5.21e+01 2bwrA 401 5.22e+01 1dmhA 311 5.23e+01 1dmhA b.3.6.1 22633 1n7vA 555 5.23e+01 b.126.1.1 85377 1tn6A 382 5.24e+01 1tr9A 341 5.25e+01 2al6A 375 5.30e+01 1wzuA 300 5.31e+01 1ukkA 142 5.33e+01 d.227.1.1 99491 1nrzA 164 5.34e+01 c.38.1.1 86131 4tsvA 150 5.37e+01 2tnfA b.22.1.1 23860 1ydlA 79 5.39e+01 1zkdA 387 5.46e+01 1w66A 232 5.52e+01 1ztpA 251 5.52e+01 1rypB 250 5.53e+01 1rypB d.153.1.4 41933 1bbhA 131 5.56e+01 1bbhA a.24.3.2 16546 1u1sA 82 5.62e+01 1q77A 138 5.64e+01 c.26.2.4 96023 2b34A 199 5.64e+01 1u1tA 82 5.66e+01 2f1rA 171 5.68e+01 2fgqX 332 5.69e+01 1lw7A 365 5.71e+01 c.26.1.3,c.37.1.1 74295,74296 1ufiA 64 5.74e+01 a.30.4.1 99336 1hyhA 309 5.79e+01 1hyhA c.2.1.5,d.162.1.1 30150,42117 1qhdA 398 5.83e+01 1qhdA a.115.1.2,b.19.1.1 63324,63325 1qouA 181 5.91e+01 1qouA b.17.1.1 23707 1tueB 218 5.94e+01 b.91.1.1 107324 1as4B 37 5.95e+01 1as4B 2fb0A 94 5.97e+01 2as9A 210 5.97e+01 1ej8A 140 6.05e+01 1qupA b.1.8.1 22300 1xmkA 79 6.09e+01 1jb9A 316 6.12e+01 1fnc b.43.4.2,c.25.1.1 62840,62841 1l9xA 315 6.14e+01 c.23.16.1 73762 1b4bA 71 6.16e+01 1b4aA d.74.2.1 39718 1go4A 205 6.18e+01 d.135.1.1 70292 1e8cA 498 6.20e+01 c.98.1.1,c.59.1.1,c.72.2.1 59377,59378,59379 1lv3A 68 6.22e+01 g.39.1.9 78231 1q40B 219 6.23e+01 d.17.4.2 95771 1tfzA 424 6.26e+01 d.32.1.3,d.32.1.3 106886,106887 1oheA 348 6.28e+01 c.45.1.1,c.45.1.1 87013,87014 1vm9A 111 6.34e+01 b.33.1.1 108886 1j27A 102 6.34e+01 d.58.50.1 90778 1v71A 323 6.39e+01 1a8y 367 6.39e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1nriA 306 6.40e+01 c.80.1.3 86123 1wmxA 205 6.41e+01 b.18.1.24 109418 2atzA 180 6.42e+01 5cytR 104 6.45e+01 1ycc a.3.1.1 15878 1vqsA 116 6.48e+01 1k5kA 87 6.48e+01 j.40.1.1 72077 1qwgA 251 6.49e+01 c.1.27.1 96473 1u79A 129 6.50e+01 d.26.1.1 107714 1g1cA 99 6.58e+01 b.1.1.4 65078 1jsdA 319 6.64e+01 b.19.1.2 63258 1wcv1 257 6.68e+01 1id0A 152 6.76e+01 d.122.1.3 66111 1vj7A 393 6.77e+01 a.211.1.1,d.218.1.8 100801,100802 1zvpA 133 6.89e+01 1qynA 153 6.89e+01 d.33.1.1 96597 2d1eA 248 6.89e+01 1b79A 119 6.91e+01 1b79A a.81.1.1 18451 1y0hA 105 6.93e+01 2bnuA 203 7.02e+01 1mgtA 174 7.04e+01 1mgtA a.4.2.1,c.55.7.1 16078,33753 2gb7A 305 7.04e+01 1bn8A 420 7.08e+01 1pcl b.80.1.1 28022 2bmoA 447 7.14e+01 2fkcA 247 7.18e+01 5rubA 490 7.19e+01 1burA c.1.14.1,d.58.9.1 29382,39288 1ugmA 125 7.20e+01 d.15.1.3 107827 1io2A 213 7.27e+01 1ekeA c.55.3.1 62612 1jmtA 104 7.30e+01 d.58.7.3 63180 1neeA 138 7.31e+01 d.241.1.1,g.59.1.1 91841,91842 1whzA 70 7.33e+01 2a65A 519 7.33e+01 1yqtA 538 7.33e+01 1q4uA 151 7.35e+01 d.38.1.5 95828 2awkA 228 7.36e+01 1xg8A 111 7.37e+01 1dzkA 157 7.38e+01 1obpA b.60.1.1 27096 2fswA 107 7.40e+01 2bv5A 282 7.40e+01 1wucA 250 7.40e+01 1pyoA 167 7.41e+01 c.17.1.1 95370 1jy1A 464 7.43e+01 d.136.1.3,d.136.1.3 67438,67439 2czvC 120 7.43e+01 1ofdA 1520 7.44e+01 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 1jh6A 189 7.47e+01 d.61.1.1 66707 1psrA 100 7.48e+01 1psrA a.39.1.2 17180 1quuA 250 7.53e+01 1quuA a.7.1.1,a.7.1.1 16320,16321 1kjnA 157 7.55e+01 c.115.1.1 72614 1h7zA 194 7.66e+01 1qhvA b.21.1.1 60733 2bj7A 138 7.74e+01 1lb3A 182 7.78e+01 a.25.1.1 77873 1s5jA 847 7.79e+01 1qr0A 228 7.80e+01 1qr0A d.150.1.1,d.150.1.1 59038,59039 1fuxA 166 7.80e+01 1fjjA b.17.1.2 60034 1ta3A 274 7.80e+01 c.1.8.5 106731 1yn9A 169 7.82e+01 1j0sA 157 7.90e+01 b.42.1.2 90747 1gox 370 7.94e+01 1gox c.1.4.1 28607 1xknA 355 7.94e+01 1yyaA 250 7.98e+01 2b8tA 223 7.99e+01 1g7nA 131 8.00e+01 b.60.1.2 83274 1li4A 432 8.05e+01 c.2.1.4,c.23.12.3 84616,84617 1zetA 388 8.06e+01 2cy2A 174 8.07e+01 2c4nA 250 8.12e+01 2cxvA 219 8.15e+01 1ofzA 312 8.16e+01 b.68.8.1 86978 1pch 88 8.17e+01 1ptf d.94.1.1 40564 1dfmA 223 8.18e+01 1d2iA c.52.1.5 33295 2bemA 170 8.18e+01 1jf9A 408 8.22e+01 1c0nA c.67.1.3 62931 1tjyA 316 8.23e+01 c.93.1.1 107062 2c5aA 379 8.25e+01 1bli 483 8.29e+01 1bli b.71.1.1,c.1.8.1 27715,28702 2cxxA 190 8.30e+01 1h1dA 221 8.32e+01 c.66.1.1 83452 1i36A 264 8.32e+01 a.100.1.8,c.2.1.6 71108,71109 2b7kA 200 8.32e+01 2hvm 273 8.32e+01 1cnv c.1.8.5 28985 1z15A 344 8.36e+01 1k7kA 221 8.43e+01 c.51.4.1 72104 1ko3A 230 8.49e+01 d.157.1.1 90974 1js3A 486 8.51e+01 c.67.1.6 67215 1kqqA 139 8.51e+01 a.4.3.1 72885 1v72A 356 8.52e+01 1jkmB 361 8.60e+01 1jkmA c.69.1.2 34634 1mwvA 714 8.72e+01 a.93.1.3,a.93.1.3 85161,85162 2a5jA 191 8.74e+01 1n8vA 112 8.76e+01 a.118.21.1 85457 1s2wA 295 8.80e+01 c.1.12.7 98407 1tbd 134 8.80e+01 2tbd d.89.1.1 40240 2fb1A 226 8.83e+01 1x58A 62 8.84e+01 1jznA 135 8.88e+01 d.169.1.1 84262 2ayuA 417 8.91e+01 2a7kA 250 8.92e+01 2chgA 226 8.94e+01 1m7vA 363 8.95e+01 d.174.1.1 78748 1vecA 206 8.95e+01 c.37.1.19 100575 2h17A 181 8.95e+01 1oshA 232 8.98e+01 a.123.1.1 93496 2d0oA 610 8.98e+01