# List of top-scoring protein chains for t04-100-40-40-str2+CB_burial_14_7-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 1jpaA 312 9.22e-01 d.144.1.7 67011 1tbmA 326 1.29e+00 a.211.1.2 106744 1fpoA 171 1.82e+00 1fpoA a.2.3.1,a.23.1.1 15693,16487 1n3gA 113 2.12e+00 d.204.1.1 79962 2bbrA 195 2.62e+00 1zboA 210 2.79e+00 1q18A 332 3.45e+00 c.55.1.7,c.55.1.7 104470,104471 1sz2A 332 3.64e+00 1vgmA 378 3.98e+00 1m9xC 146 4.46e+00 a.73.1.1 84907 2end 138 5.49e+00 2end a.18.1.1 16400 2furA 209 6.19e+00 1vj5A 555 6.83e+00 c.108.1.2,c.69.1.11 100799,100800 2iu5A 195 7.19e+00 1jhgA 101 7.49e+00 1jhgA a.4.12.1 19009 1guxA 218 7.64e+00 1guxA a.74.1.3 18388 1xo0A 324 7.87e+00 1zd3A 555 8.29e+00 2occC 261 8.39e+00 1ocrC f.25.1.1 43520 2esnA 310 9.20e+00 2cblA 305 9.40e+00 2cblA a.39.1.7,a.48.1.1,d.93.1.1 17380,17774,40528 1mzbA 136 9.68e+00 a.4.5.42 91497 1bd8 156 9.88e+00 1bd8 d.211.1.1 19157 1v54C 261 1.00e+01 f.25.1.1 100324 1gewA 356 1.07e+01 1gewA c.67.1.1 60470 1q8cA 151 1.08e+01 a.79.1.2 96202 1sedA 117 1.10e+01 a.219.1.1 105449 1h2vC 771 1.12e+01 a.118.1.14,a.118.1.14,a.118.1.14 76592,76593,76594 1m6kA 251 1.15e+01 e.3.1.1 78695 2f1sA 186 1.22e+01 1yqyA 523 1.23e+01 1mw5A 187 1.23e+01 d.259.1.1 91477 1o8rA 94 1.24e+01 d.234.1.1 86677 1z8uA 102 1.26e+01 1amuA 563 1.29e+01 1amuA e.23.1.1 43351 1ugpA 203 1.31e+01 d.149.1.1 107831 1opjA 293 1.36e+01 d.144.1.7 87230 1fazA 122 1.44e+01 1fazA a.133.1.3 59757 1y01A 102 1.44e+01 1yvhA 329 1.53e+01 1ireA 204 1.54e+01 d.149.1.1 76769 1ha3A 405 1.58e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 1m7sA 484 1.68e+01 e.5.1.1 74574 1u7lA 392 1.74e+01 2fiyA 309 1.75e+01 1ax8 146 1.84e+01 1ax8 a.26.1.1 16844 1zjjA 263 1.87e+01 1zejA 293 1.88e+01 1ux5A 411 1.89e+01 a.207.1.1 100144 1esiA 262 1.90e+01 1skf e.3.1.1 42682 1yurA 98 1.91e+01 1h6hA 143 1.95e+01 d.189.1.1 65681 1lwbA 122 1.95e+01 a.133.1.3 84728 1exmA 405 1.99e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 2a6hA 315 2.01e+01 1c7nA 399 2.03e+01 1d2fA c.67.1.3 34413 1es5A 262 2.03e+01 1skf e.3.1.1 42679 1br1B 150 2.10e+01 1wdcC a.39.1.5 17309 1tzvA 142 2.20e+01 a.79.1.1 107526 1k2xA 177 2.21e+01 d.153.1.5 90929 1ei1A 391 2.21e+01 1aj6 d.14.1.3,d.122.1.2 37570,41104 1qo7A 394 2.25e+01 1qo7A c.69.1.11 34697 1obbA 480 2.26e+01 c.2.1.5,d.162.1.2 86760,86761 1f44A 324 2.26e+01 a.60.9.1,d.163.1.1 64982,64983 1li5A 461 2.28e+01 a.27.1.1,c.26.1.1 73912,73913 1t8kA 77 2.29e+01 a.28.1.1 106666 4crxA 322 2.32e+01 4crxA a.60.9.1,d.163.1.1 18095,42155 1v4eA 299 2.35e+01 a.128.1.1 100296 1ggzA 148 2.45e+01 a.39.1.5 70176 1kblA 873 2.47e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 2bzlA 325 2.50e+01 1b4pA 217 2.69e+01 a.45.1.1,c.47.1.5 83158,83159 1au1A 166 2.70e+01 1ifa a.26.1.3 16889 1fhuA 320 2.73e+01 1fhuA c.1.11.2,d.54.1.1 29234,38878 1qkkA 155 2.74e+01 1dbwA c.23.1.1 31104 2d2sA 235 2.80e+01 2gsfA 373 2.82e+01 2aamA 309 2.83e+01 1n3kA 130 2.83e+01 a.77.1.4 79965 1v9dA 340 2.91e+01 a.207.1.1 100535 1li5B 461 2.91e+01 a.27.1.1,c.26.1.1 73914,73915 1uekA 275 3.00e+01 d.14.1.5,d.58.26.5 88483,88484 1iyhA 198 3.05e+01 a.45.1.1,c.47.1.5 83790,83791 1e6iA 121 3.07e+01 1b91A a.29.2.1 16969 1w2fA 276 3.09e+01 d.143.1.3 109125 1o9rA 162 3.19e+01 a.25.1.1 86706 2fu4A 83 3.22e+01 1h6zA 913 3.42e+01 c.1.12.2,c.8.1.1,d.142.1.5 70906,70907,70908 1k8kF 168 3.44e+01 d.198.2.1 68312 1vjrA 271 3.45e+01 c.108.1.14 100832 1di6A 195 3.50e+01 1di6A c.57.1.1 33863 1w2wA 211 3.65e+01 c.124.1.5 109130 2aheA 267 3.78e+01 1zt2B 212 3.96e+01 1umgA 362 3.96e+01 d.280.1.1 107956 1ulyA 192 3.96e+01 1o6dA 163 4.01e+01 c.116.1.3 92567 1fg7A 356 4.03e+01 1gewA c.67.1.1 59819 1gcqC 70 4.03e+01 1gcpA b.34.2.1 60436 1yvrA 538 4.07e+01 2b7aA 293 4.08e+01 1ajsA 412 4.09e+01 1ajsA c.67.1.1 34276 1k6kA 143 4.12e+01 a.174.1.1 77274 1u59A 287 4.25e+01 d.144.1.7 107681 1zv1A 65 4.31e+01 1wa8A 99 4.41e+01 1l0iA 78 4.41e+01 a.28.1.1 77643 1alvA 173 4.47e+01 1alvA a.39.1.8 17370 1l6sA 323 4.50e+01 c.1.10.3 73627 1knyA 253 4.53e+01 1knyA a.24.16.1,d.218.1.1 75896,75897 1sqgA 429 4.53e+01 a.79.1.3,c.66.1.38 105912,105913 1w0bA 102 4.57e+01 a.7.11.1 108985 2ctoA 93 4.59e+01 1b5eA 246 4.60e+01 1b5eA d.117.1.1 41056 2a6nA 292 4.80e+01 1jhdA 396 4.81e+01 b.122.1.3,c.26.1.5 66712,66713 1keyA 235 4.82e+01 a.118.16.1 72389 1hx1B 114 4.89e+01 1hx1B a.7.7.1 61350 1o5kA 306 4.90e+01 c.1.10.1 92504 1zczA 464 4.92e+01 1ylmA 144 4.95e+01 2ethA 154 5.01e+01 1vekA 84 5.03e+01 1eumA 165 5.08e+01 1eumA a.25.1.1 59507 1wwuA 99 5.10e+01 1i8jA 323 5.13e+01 1b4kA c.1.10.3 61968 1rfzA 168 5.24e+01 a.195.1.1 97411 2occE 109 5.31e+01 2occE a.118.11.1 19224 2cvdA 198 5.34e+01 2azeA 155 5.37e+01 1x9zA 188 5.38e+01 1jeyA 609 5.40e+01 1jeqA b.131.1.1,c.62.1.3 90370,90371 1eu8A 409 5.43e+01 1eu8A c.94.1.1 59502 1f3iA 481 5.44e+01 1b7eA 1t0cA 31 5.60e+01 1px5A 349 5.60e+01 a.160.1.2,d.218.1.6 95277,95278 1n7hA 381 5.68e+01 c.2.1.2 80250 1i0aA 466 5.75e+01 1auwA a.127.1.1 61479 1v54G 85 5.76e+01 f.23.2.1 100328 1v9mA 323 5.76e+01 f.40.1.1 100543 1musA 477 5.87e+01 c.55.3.4 79494 1yxcA 292 5.90e+01 1xwl 580 5.91e+01 1xwl c.55.3.5,e.8.1.1 33708,43001 1pq1A 196 5.93e+01 f.1.4.1 94986 1ufzA 83 5.98e+01 a.5.9.1 107821 1ihp 438 6.01e+01 1ihp c.60.1.2 33993 1w9iA 770 6.04e+01 1r6wA 322 6.04e+01 c.1.11.2,d.54.1.1 97165,97166 2f3yA 148 6.04e+01 2a6lA 292 6.04e+01 1y3nA 490 6.04e+01 1i1rB 181 6.11e+01 1i1rB a.26.1.1 61548 1hdiA 413 6.17e+01 16pk c.86.1.1 60964 2agaA 190 6.19e+01 1sq5A 308 6.23e+01 c.37.1.6 105882 2a3qA 170 6.25e+01 1fp3A 402 6.26e+01 1fp3A a.102.1.3 18842 2c4jA 218 6.33e+01 1mp8A 281 6.45e+01 d.144.1.7 91384 1zs3A 182 6.47e+01 2gsvA 80 6.52e+01 1dlyA 164 6.52e+01 1dlyA a.1.1.1 14983 2c5rA 67 6.61e+01 2astA 159 6.63e+01 1exrA 148 6.73e+01 1cll a.39.1.5 17299 1fc4A 401 6.83e+01 1bs0A c.67.1.4 59760 1pa7A 130 6.84e+01 a.40.1.1 94410 2fpmA 322 6.93e+01 1u6rA 380 7.01e+01 1qczA 169 7.04e+01 1qczA c.23.8.1 31276 2bv5A 282 7.17e+01 1gdeA 389 7.18e+01 c.67.1.1 60456 1iieA 75 7.21e+01 1iieA a.109.1.1 19039 6gsvA 217 7.29e+01 1b8xA a.45.1.1,c.47.1.5 17633,32925 2fj6A 82 7.31e+01 1pd21 199 7.32e+01 1pd21 2fb5A 205 7.34e+01 2afdA 88 7.34e+01 1wmaA 276 7.37e+01 1y82A 157 7.43e+01 2ew2A 316 7.46e+01 2b1xA 470 7.55e+01 1igwA 434 7.58e+01 c.1.12.7 62370 1v54E 109 7.63e+01 a.118.11.1 100326 1y1xA 191 7.74e+01 1n1bA 549 7.81e+01 a.102.4.1,a.128.1.3 79799,79800 2c78A 405 7.89e+01 1d2eA 397 7.97e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25701,25741,32136 1h6kA 757 7.98e+01 a.118.1.14,a.118.1.14,a.118.1.14 60675,60676,60677 2culA 232 8.02e+01 1fm2A 169 8.07e+01 1fm2A d.153.1.2 59877 2occG 84 8.08e+01 2occG f.23.2.1 43522 1y8qB 640 8.09e+01 1rzhL 281 8.13e+01 f.26.1.1 98164 2a6hE 99 8.19e+01 2gdjA 264 8.22e+01 1dhpA 292 8.25e+01 1dhpA c.1.10.1 29097 1zybA 232 8.37e+01 1o65A 246 8.39e+01 b.58.1.2 92544 1su0B 159 8.42e+01 d.224.1.2 106015 1xw5A 217 8.46e+01 1g4yR 148 8.59e+01 1cll a.39.1.5 60252 1or0A 160 8.61e+01 d.153.1.2 93445 1v88A 130 8.70e+01 b.55.1.1 108423 1nk4A 580 8.71e+01 c.55.3.5,e.8.1.1 91923,91924 1no1A 126 8.72e+01 a.179.1.1 85913 2c31A 568 8.76e+01 1s5dA 240 8.80e+01 d.166.1.1 98541 1jogA 146 8.82e+01 a.24.16.2 77142 1v2xA 194 8.89e+01 c.116.1.1 100274 2b3oA 532 8.95e+01 1zhxA 438 8.95e+01 1r0kA 388 8.95e+01 a.69.3.1,c.2.1.3,d.81.1.3 104723,104724,104725 1u5dA 108 8.98e+01