# List of top-scoring protein chains for t06-100-30-near-backbone-11-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 1zpwX 90 1.98e-10 1uw1A 80 5.66e-02 k.42.1.1 100069 1m7bA 184 1.42e-01 c.37.1.8 74572 1vgjA 184 5.38e-01 1ta9A 450 6.95e-01 1qysA 106 7.14e-01 k.41.1.1 96603 1udh 244 1.06e+00 3eugA c.18.1.1 31015 1r2qA 170 1.08e+00 c.37.1.8 96874 1vl4A 447 1.29e+00 d.283.1.1 108718 1mngA 203 1.33e+00 1avmA a.2.11.1,d.44.1.1 15776,38701 1l6rA 227 1.70e+00 c.108.1.10 77768 1kafA 108 2.04e+00 d.199.1.1 68372 1v7zA 260 2.13e+00 c.125.1.1 100488 1n7vA 555 2.62e+00 b.126.1.1 85377 1aisA 182 2.66e+00 1ytbA d.129.1.1,d.129.1.1 41288,41289 1fmcA 255 2.75e+00 1cydA c.2.1.2 29856 2ge3A 170 2.92e+00 1t7lA 766 3.12e+00 1omoA 322 3.25e+00 c.2.1.13 104017 1akz 223 3.32e+00 3eugA c.18.1.1 31007 2bgsA 344 3.43e+00 1wnaA 131 3.70e+00 1xv5A 401 4.12e+00 2ae2A 260 4.18e+00 1bdb c.2.1.2 29945 2fq3A 104 4.45e+00 1oapA 109 4.45e+00 d.79.7.1 92706 1mjfA 281 4.75e+00 c.66.1.17 79198 1v72A 356 5.03e+00 1oz9A 150 5.16e+00 d.92.1.15 93808 1lkdA 297 5.41e+00 d.32.1.3,d.32.1.3 78059,78060 2booA 247 5.53e+00 1sqgA 429 5.61e+00 a.79.1.3,c.66.1.38 105912,105913 2afaA 425 5.64e+00 1vljA 407 5.81e+00 e.22.1.2 108832 1t6t1 118 5.85e+00 1z5bA 469 6.15e+00 2gf9A 189 6.57e+00 1z08A 170 6.62e+00 1gvdA 52 6.82e+00 a.4.1.3 83338 1iv3A 152 6.86e+00 d.79.5.1 76828 1ek0A 170 6.97e+00 1ctqA c.37.1.8 32076 1ohvA 472 6.99e+00 c.67.1.4 93031 1qsgA 265 7.36e+00 1eny c.2.1.2 29935 1l7aA 318 7.52e+00 c.69.1.25 77772 1mp9A 198 7.52e+00 d.129.1.1,d.129.1.1 91385,91386 2a5jA 191 8.22e+00 1mzhA 225 8.31e+00 c.1.10.1 79698 1owlA 484 8.85e+00 a.99.1.1,c.28.1.1 93647,93648 2b9eA 303 9.03e+00 1zaiA 363 9.40e+00 1gyxA 76 9.42e+00 d.80.1.1 76387 1iv8A 720 9.55e+00 b.71.1.1,c.1.8.1 76842,76843 1gefA 123 9.59e+00 1gefA c.52.1.18 60465 1q7hA 153 9.75e+00 b.122.1.1,d.17.6.2 96042,96043 1jh6A 189 9.83e+00 d.61.1.1 66707 1v5iB 76 1.05e+01 1sw5A 275 1.08e+01 c.94.1.1 106069 1m5wA 243 1.09e+01 c.1.24.1 84836 1nhkL 144 1.11e+01 1npk d.58.6.1 39142 1v4pA 157 1.11e+01 1jv1A 505 1.12e+01 c.68.1.5 71892 1w23A 360 1.13e+01 1v6zA 228 1.16e+01 1s9rA 410 1.17e+01 d.126.1.4 98758 1vmaA 306 1.17e+01 a.24.13.1,c.37.1.10 108887,108888 2fafA 608 1.21e+01 1qbjA 81 1.24e+01 1qbjA a.4.5.19 16155 1tjvA 474 1.24e+01 a.127.1.1 107054 1pl4A 198 1.25e+01 a.2.11.1,d.44.1.1 94854,94855 2bmeA 186 1.26e+01 1v2zA 111 1.27e+01 a.186.1.1 108300 1k7wA 468 1.29e+01 a.127.1.1 72130 1dcs 311 1.33e+01 1dcs b.82.2.1 28124 1b3uA 588 1.34e+01 1b3uA a.118.1.2 19135 1jnyA 435 1.35e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 2aj6A 159 1.36e+01 2cx1A 187 1.41e+01 2f9dP 43 1.45e+01 1z0jA 170 1.50e+01 1ydwA 362 1.51e+01 1xviA 275 1.52e+01 1txnA 328 1.53e+01 1urvA 190 1.55e+01 2cdnA 201 1.60e+01 1y2qA 143 1.60e+01 2f15A 96 1.74e+01 2f9zC 159 1.76e+01 1mho 88 1.76e+01 1b4cA a.39.1.2 17171 1qf9A 194 1.79e+01 1zin c.37.1.1 31848 1eyqA 222 1.82e+01 1eypA d.36.1.1 38534 1wa3A 205 1.83e+01 1mb3A 124 1.83e+01 c.23.1.1 78907 2c07A 285 1.83e+01 2gboA 104 1.84e+01 1guzA 310 1.85e+01 c.2.1.5,d.162.1.1 65586,65587 1l2tA 235 1.88e+01 c.37.1.12 73514 1kq3A 376 1.92e+01 e.22.1.2 68790 1vkcA 158 1.94e+01 1vcvA 226 1.94e+01 1sw5B 275 1.95e+01 c.94.1.1 106070 1r4gA 53 1.96e+01 a.8.5.1 96996 1y14A 187 2.00e+01 1rqbA 539 2.01e+01 a.5.7.2,c.1.10.5 105057,105058 2afdA 88 2.01e+01 1d1gA 168 2.01e+01 1d1gA c.71.1.1 34889 1e5pA 151 2.02e+01 1bj7 b.60.1.1 59272 2g6bA 180 2.03e+01 1wveC 80 2.07e+01 1t8kA 77 2.08e+01 a.28.1.1 106666 2cmxA 118 2.09e+01 1gz2A 142 2.09e+01 d.169.1.1 83392 1wb4A 297 2.11e+01 1wqgA 185 2.12e+01 1qopA 268 2.18e+01 2tysA c.1.2.4 28570 1cs0A 1073 2.21e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18558,31487,31673,31674,41518,41519 2avyM 117 2.22e+01 1cczA 171 2.26e+01 1cczA b.1.1.1,b.1.1.3 19758,21683 2c1iA 431 2.31e+01 1isiA 265 2.40e+01 e.4.1.1 71394 1wxiA 275 2.43e+01 1h4vB 421 2.44e+01 1adjA c.51.1.1,d.104.1.1 60624,60625 1b00A 127 2.48e+01 3chy c.23.1.1 31122 2d1eA 248 2.50e+01 1ky3A 182 2.50e+01 c.37.1.8 73193 2fikA 287 2.52e+01 1nh8A 304 2.53e+01 c.94.1.1,d.58.5.3 80507,80508 1ej6D 418 2.54e+01 i.7.1.1 45970 1on0A 158 2.54e+01 d.108.1.1 87095 2g76A 335 2.55e+01 1x3sA 195 2.61e+01 1wijA 140 2.68e+01 2gpyA 233 2.70e+01 1nfvA 179 2.72e+01 a.25.1.1 85642 1ufwA 95 2.80e+01 d.58.7.1 99358 1k7kA 221 2.81e+01 c.51.4.1 72104 1w5qA 337 2.82e+01 1j0hA 588 2.86e+01 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 1zj8A 566 2.88e+01 1v84A 253 2.88e+01 c.68.1.7 108419 1ovnA 248 2.92e+01 a.71.1.1,c.47.1.7 93602,93603 2gvkA 317 2.92e+01 1s5jA 847 2.92e+01 1sxvA 172 2.98e+01 2aexA 346 2.98e+01 1ignA 246 3.02e+01 1ignA a.4.1.6,a.4.1.6 16048,16049 1g73C 121 3.05e+01 1g3fA g.52.1.1 45375 2hddA 61 3.06e+01 2hddA a.4.1.1 15971 1zavA 180 3.09e+01 1vr6A 350 3.09e+01 1z3eB 73 3.11e+01 1dmgA 225 3.12e+01 1dmgA c.22.1.1 31036 1f7sA 139 3.14e+01 1cof d.109.1.2 40857 1q4rA 112 3.16e+01 d.58.4.4 95823 1g1tA 157 3.16e+01 d.169.1.1,g.3.11.1 65104,65105 2fywA 267 3.18e+01 2arhA 203 3.18e+01 1vmeA 410 3.21e+01 c.23.5.1,d.157.1.3 108893,108894 2absA 383 3.22e+01 2cs2A 134 3.23e+01 1v38A 78 3.24e+01 a.60.1.2 100280 4tmkA 213 3.25e+01 5tmpA c.37.1.1 31930 1b8oA 284 3.26e+01 1b8oA c.56.2.1 33762 1v30A 124 3.27e+01 2dc3A 193 3.28e+01 1uu1A 335 3.30e+01 c.67.1.1 99993 1v9vA 114 3.34e+01 2bl9A 238 3.37e+01 1yzqA 170 3.38e+01 1ny1A 240 3.40e+01 c.6.2.3 86395 2g5cA 281 3.41e+01 1w33A 181 3.41e+01 1j8mF 297 3.43e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1tvlA 454 3.44e+01 c.1.16.4 107366 2f3yA 148 3.44e+01 1b8dA 164 3.46e+01 1cpcA a.1.1.3 15665 1kfcA 268 3.48e+01 c.1.2.4 77371 1oxjA 173 3.49e+01 a.60.1.2,a.118.1.13 87517,87518 1y88A 199 3.51e+01 1n7kA 234 3.58e+01 c.1.10.1 85374 1dqpA 230 3.60e+01 1dqnA c.61.1.1 34069 1ob8A 135 3.70e+01 1seiA 130 3.71e+01 1seiA d.140.1.1 41463 1a9xA 1058 3.71e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18550,31479,31657,31658,41502,41503 2be4A 272 3.73e+01 1r44A 202 3.74e+01 d.65.1.4 104787 2acvA 463 3.75e+01 2c1xA 456 3.84e+01 1yozA 116 3.87e+01 1hh1A 143 3.90e+01 1gefA c.52.1.18 61036 1px5A 349 3.91e+01 a.160.1.2,d.218.1.6 95277,95278 1sgwA 214 3.91e+01 c.37.1.12 105541 2fcjA 119 3.95e+01 1khbA 625 3.95e+01 c.91.1.1,c.109.1.1 68606,68607 1tvdA 116 3.96e+01 1tvdA b.1.1.1 20650 1jq5A 370 3.98e+01 e.22.1.2 67084 1q87A 221 4.04e+01 e.47.1.1 96192 1vkmA 297 4.04e+01 c.138.1.1 108670 1go3F 107 4.07e+01 a.60.8.2 65407 1khyA 148 4.07e+01 a.174.1.1 77410 1v77A 212 4.09e+01 c.6.3.2 108402 1em9A 154 4.10e+01 1d1dA a.73.1.1 18333 2fueA 262 4.11e+01 2gu3A 136 4.13e+01 1gdeA 389 4.13e+01 c.67.1.1 60456 1xcrA 316 4.16e+01 1rtu 114 4.21e+01 9rnt d.1.1.4 36139 1dlyA 164 4.23e+01 1dlyA a.1.1.1 14983 1vmbA 140 4.25e+01 1u6zA 513 4.28e+01 1f20A 435 4.29e+01 b.43.4.1,c.25.1.4 64932,64933 2bt9A 90 4.32e+01 1jkoC 52 4.33e+01 a.4.1.2 66809 1ov9A 50 4.34e+01 a.155.1.1 93591 1ptf 88 4.38e+01 1ptf d.94.1.1 40549 1puc 105 4.41e+01 1puc d.97.1.1 40675 1e58A 249 4.43e+01 1qhfA c.60.1.1 59262 1h65A 270 4.46e+01 c.37.1.8 65640 1ucpA 91 4.49e+01 a.77.1.5 99186 2fcwA 109 4.53e+01 1ub0A 258 4.56e+01 c.72.1.2 88394 1r7aA 504 4.60e+01 b.71.1.1,c.1.8.1 97192,97193 1rlmA 271 4.62e+01 1vkiA 181 4.63e+01 d.116.1.1 108664 2axiA 115 4.64e+01 1ec7A 446 4.65e+01 1bqg c.1.11.2,d.54.1.1 29218,38862 1gd0A 122 4.66e+01 1dptA d.80.1.3 39834 1mla 309 4.69e+01 1mla c.19.1.1,d.58.23.1 31031,39383 1c0pA 363 4.70e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 1geeA 261 4.70e+01 c.2.1.2 90509 1jjvA 206 4.70e+01 c.37.1.1 71698 2f9lA 199 4.74e+01 1kw3B 292 4.82e+01 d.32.1.3,d.32.1.3 77549,77550 1ppjA 446 4.83e+01 d.185.1.1,d.185.1.1 104252,104253 1rz3A 201 4.87e+01 c.37.1.6 98132 1wyzA 242 4.89e+01 2g8yA 385 4.90e+01 2cujA 108 4.91e+01 1z7xW 461 4.92e+01 1xkyA 301 4.96e+01 2g7jA 124 4.98e+01 1a53 247 4.99e+01 1a53 c.1.2.4 28564 1mw7A 240 4.99e+01 e.39.1.1 79557 1q9uA 130 5.04e+01 d.129.7.1 96314 1j96A 323 5.04e+01 c.1.7.1 71616 1obbA 480 5.05e+01 c.2.1.5,d.162.1.2 86760,86761 2cc0A 195 5.16e+01 1wvfA 520 5.23e+01 1kdoA 227 5.28e+01 c.37.1.1 68478 1nf9A 207 5.28e+01 c.33.1.3 85631 4eugA 229 5.29e+01 3eugA c.18.1.1 31019 1ru0A 105 5.30e+01 1qwgA 251 5.35e+01 c.1.27.1 96473 2fuqA 747 5.36e+01 1pufA 77 5.36e+01 a.4.1.1 95131 1oc7A 364 5.40e+01 c.6.1.1 86794 2a1vA 144 5.41e+01 1v2dA 381 5.46e+01 c.67.1.1 108281 1xqoA 256 5.47e+01 1h8eD 482 5.51e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 60747,60748,60749 1zd0A 150 5.52e+01 1z5zA 271 5.54e+01 1vdmA 153 5.59e+01 1rifA 282 5.61e+01 c.37.1.23 97507 1cdzA 96 5.66e+01 1cdzA c.15.1.1 30925 2ah5A 210 5.71e+01 1wzcA 249 5.75e+01 1uslA 170 5.76e+01 c.121.1.1 99871 1xxaA 78 5.77e+01 1xxaA d.74.2.1 39700 1vqoP 149 5.78e+01 1m15A 357 5.80e+01 a.83.1.1,d.128.1.2 78368,78369 1aua 296 5.80e+01 1aua a.5.3.1,c.13.1.1 16290,30882 2coeA 120 5.83e+01 3tmkA 216 5.86e+01 3tmkA c.37.1.1 31920 1whzA 70 5.89e+01 1w8iA 156 5.90e+01 1at3A 247 5.94e+01 1at3A b.57.1.1 27021 1p90A 145 5.94e+01 c.55.5.2 94377 1c3cA 429 5.95e+01 1c3cA a.127.1.1 19425 2cwkA 160 5.97e+01 1b0b 142 6.03e+01 2fal a.1.1.2 15010 2cvjA 180 6.06e+01 1ucnA 152 6.16e+01 d.58.6.1 99183 1mxiA 160 6.21e+01 c.116.1.1 79646 2bbrA 195 6.27e+01 4cpv 109 6.28e+01 1a75A a.39.1.4 17198 1ub3A 220 6.28e+01 c.1.10.1 88395 1xhcA 367 6.31e+01 1o4sA 389 6.33e+01 c.67.1.1 86620 2bmfA 451 6.39e+01 1mg4A 113 6.39e+01 d.15.11.1 84953 1j2mA 99 6.39e+01 a.165.1.1 84018 1ja9A 274 6.39e+01 c.2.1.2 62817 1n4kA 381 6.39e+01 a.118.22.1,b.42.6.1 79992,79993 1ijbA 202 6.51e+01 c.62.1.1 71229 5nul 138 6.52e+01 5nul c.23.5.1 31191 1h70A 255 6.56e+01 1h70A d.126.1.3 60711 1up7A 417 6.57e+01 2a1xA 308 6.60e+01 2gqrA 237 6.61e+01 1hl2A 297 6.62e+01 c.1.10.1 83581 1d2fA 390 6.68e+01 1d2fA c.67.1.3 34411 2bh1A 250 6.72e+01 1zlmA 58 6.78e+01 1cqmA 101 6.78e+01 1ris d.58.14.1 39321 1m32A 366 6.89e+01 c.67.1.3 78508 1wwkA 307 6.91e+01 2fmpA 335 6.93e+01 2a9uA 144 6.97e+01 1rz4A 226 6.98e+01 a.4.5.53,a.118.1.18 105131,105132 2fi0A 81 6.99e+01 1bif 469 7.02e+01 1bif c.37.1.7,c.60.1.4 31961,34003 1aihA 170 7.02e+01 1aihA d.163.1.1 42149 1g4fA 86 7.05e+01 1qubA g.18.1.1 44873 1ccwA 137 7.08e+01 1be1 c.23.6.1 31238 1nu7D 282 7.08e+01 a.8.6.1,a.8.6.1 92191,92192 1us0A 316 7.12e+01 c.1.7.1 99850 1te2A 226 7.14e+01 c.108.1.6 106792 1wchA 315 7.16e+01 1p5zB 263 7.17e+01 c.37.1.1 87815 1cjxA 357 7.18e+01 1cjxA d.32.1.3,d.32.1.3 38516,38517 1fukA 165 7.18e+01 1fukA c.37.1.19 32409 2gjsA 176 7.23e+01 1bh9B 89 7.23e+01 1bh9B a.22.1.3 16485 1a73A 163 7.25e+01 1a73A d.4.1.3 37145 2f94F 350 7.34e+01 3htsB 102 7.40e+01 2hts a.4.5.22 16175 1guqA 348 7.41e+01 1guqA d.13.1.2,d.13.1.2 37522,37523 2bx6A 350 7.45e+01 1jhdA 396 7.47e+01 b.122.1.3,c.26.1.5 66712,66713 1f6bA 198 7.47e+01 c.37.1.8 64986 1zxq 192 7.48e+01 1zxq b.1.1.3,b.1.1.4 21657,21693 1u7eB 154 7.48e+01 1ek9A 428 7.52e+01 1ek9A f.5.1.1 43809 1s8nA 205 7.53e+01 c.23.1.1 105374 1o65A 246 7.54e+01 b.58.1.2 92544 2d8rA 99 7.56e+01 1kxlA 199 7.57e+01 b.40.4.3 73155 1vjoA 393 7.59e+01 c.67.1.3 100827 1wkaA 147 7.60e+01 1sqwA 188 7.63e+01 1wl8A 189 7.66e+01 1s1pA 331 7.70e+01 c.1.7.1 98350 1f2tB 148 7.71e+01 1f2tB 1jmsA 381 7.72e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1jmkC 230 7.74e+01 c.69.1.22 71747 2bcgY 206 7.76e+01 1uujA 88 7.78e+01 a.221.1.1 108046 1xu9A 286 7.79e+01 1dl5A 317 7.82e+01 1dl5A c.66.1.7,d.197.1.1 64720,64721 1ugpA 203 7.82e+01 d.149.1.1 107831 1mdoA 393 7.86e+01 c.67.1.4 79013 1zm7A 230 7.87e+01 2h1rA 299 7.91e+01 1w9cA 321 7.94e+01 1hb6A 86 7.96e+01 a.11.1.1 70959 1dptA 117 7.96e+01 1dptA d.80.1.3 39862 1mqeA 207 7.97e+01 d.113.1.1 91394 1ujnA 348 8.02e+01 e.22.1.1 99460 1uv7A 110 8.07e+01 d.67.4.1 100040 1w1oA 534 8.11e+01 d.58.32.4,d.145.1.1 109071,109072 1ty0A 211 8.14e+01 b.40.2.2,d.15.6.1 107440,107441 1b5pA 385 8.15e+01 c.67.1.1 90403 1wznA 252 8.17e+01 1regX 122 8.18e+01 1regX d.58.27.1 39406 2a2cA 478 8.19e+01 1tr0A 108 8.21e+01 d.58.4.4 107261 2etgA 296 8.21e+01 1ss9A 311 8.22e+01 c.68.1.4 105978 1f8mA 429 8.29e+01 1dquA c.1.12.7 29315 1mjnA 179 8.31e+01 c.62.1.1 79210 1jyeA 349 8.33e+01 c.93.1.1 67455 1gca 309 8.35e+01 1gca c.93.1.1 35659 1bywA 110 8.35e+01 1bywA d.110.3.6 40912 2dfkA 402 8.36e+01 1ib8A 164 8.37e+01 b.38.2.1,d.52.4.1 71168,71169 1o20A 427 8.37e+01 c.82.1.1 86556 1jggA 60 8.39e+01 2hddA a.4.1.1 62950 1ngkA 128 8.45e+01 a.1.1.1 85673 1f4pA 147 8.52e+01 5nul c.23.5.1 59651 1jflA 228 8.55e+01 c.78.2.1,c.78.2.1 71656,71657 2cdqA 510 8.58e+01 1xc3A 302 8.62e+01 1j5sA 463 8.63e+01 c.1.9.8 71580 1xeoA 168 8.64e+01 1uwsA 489 8.64e+01 c.1.8.4 108073 1id1A 153 8.66e+01 1id1A c.2.1.9 62286 1ylhA 560 8.66e+01 2g6fX 59 8.70e+01 1p2xA 159 8.74e+01 a.40.1.1 104062 1zchA 255 8.74e+01 1gxqA 106 8.74e+01 a.4.6.1 70721 1z2mA 155 8.78e+01 2axcA 264 8.80e+01 1exbA 332 8.81e+01 1qrqA c.1.7.1 28666 1vh4A 435 8.87e+01 b.80.6.1 100640 1wwiA 148 8.88e+01 1v76A 96 8.89e+01 1ykiA 217 8.94e+01 1im5A 180 8.95e+01 c.33.1.3 66211 1h4xA 117 8.97e+01 1auz c.13.2.1 60626 1vi4A 174 8.99e+01 c.8.7.1 100731 1ymqA 261 8.99e+01