# List of top-scoring protein chains for t04-100-30-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 2f8aA 208 1.71e-33 1gp1A 198 2.75e-33 1gp1A c.47.1.10 33059 1xzoA 174 2.69e-15 1st9A 143 2.95e-14 c.47.1.10 98987 2f9sA 151 8.66e-14 1jfuA 186 2.99e-12 c.47.1.10 62940 1kngA 156 2.56e-09 c.47.1.10 72777 2cvbA 188 5.67e-09 1z5yE 149 1.05e-08 1xvwA 160 2.93e-07 2b7kA 200 5.64e-07 1lu4A 136 5.79e-07 c.47.1.10 91124 1qk8A 146 8.22e-07 1ewxA c.47.1.10 33061 1o8xA 146 2.07e-06 c.47.1.10 86681 1i5gA 144 4.44e-06 1ewxA c.47.1.10 61784 2fy6A 143 1.88e-05 1t00A 112 2.44e-05 1zzoA 136 2.66e-05 1qmvA 197 4.82e-05 1qq2A c.47.1.10 33066 1thx 115 1.44e-04 1thx c.47.1.1 32732 1wmjA 130 3.93e-04 1aiu 105 4.63e-04 1erv c.47.1.1 32746 1erv 105 6.19e-04 1erv c.47.1.1 32743 2trxA 108 6.56e-04 1thx c.47.1.1 32719 1zyeA 220 9.74e-04 2a4vA 159 1.02e-03 1fb6A 105 2.57e-03 1thx c.47.1.1 32739 1w4vA 119 4.43e-03 1nw2A 105 4.50e-03 c.47.1.1 92215 1uvzA 119 6.23e-03 1nswA 105 6.73e-03 c.47.1.1 92097 2f51A 118 8.50e-03 1faaA 124 8.88e-03 1erv c.47.1.1 32738 1r26A 125 9.71e-03 c.47.1.1 96847 1v98A 140 1.06e-02 1xvqA 175 1.07e-02 1f9mA 112 1.21e-02 1erv c.47.1.1 32736 1erw 105 1.33e-02 1erv c.47.1.1 32745 1xccA 220 2.20e-02 1qxhA 167 3.49e-02 c.47.1.10 96528 1uf5A 303 8.81e-02 d.160.1.2 107808 1xhfA 123 9.38e-02 1erzA 303 1.05e-01 1erzA d.160.1.2 59498 1bzyA 217 1.28e-01 1qk3A c.61.1.1 34071 1n8jA 186 3.67e-01 c.47.1.10 85401 1z7gA 217 4.10e-01 1x0rA 249 4.20e-01 1bvoA 175 5.85e-01 1a3qA b.2.5.3 22457 1senA 164 6.48e-01 c.47.1.1 105465 1go2A 304 6.88e-01 b.43.4.2,c.25.1.1 76243,76244 2b5eA 504 8.07e-01 1que 303 9.45e-01 1fnc b.43.4.2,c.25.1.1 25647,31537 1ogiA 303 1.07e+00 b.43.4.2,c.25.1.1 92914,92915 1uc7A 125 1.24e+00 c.47.1.1 99163 1w34A 304 1.25e+00 1vhxA 150 1.26e+00 c.55.3.8 100712 1sxrA 183 1.39e+00 d.118.1.1 106101 2bsaA 303 1.49e+00 1fgs 428 1.51e+00 1fgs c.59.1.2,c.72.2.2 33959,34962 1eejA 216 1.51e+00 1eejA c.47.1.9,d.17.3.1 33057,38071 1qfmA 710 1.58e+00 1qfmA b.69.7.1,c.69.1.4 27673,34641 2akrA 285 1.64e+00 1cjbA 231 2.07e+00 1qk3A c.61.1.1 34079 1w7bA 339 2.12e+00 1h2wA 710 2.18e+00 b.69.7.1,c.69.1.4 76596,76597 1j31A 262 2.23e+00 d.160.1.2 90808 1ufoA 238 2.27e+00 c.69.1.27 99344 1ofuA 320 2.89e+00 c.32.1.1,d.79.2.1 86972,86973 1rypJ 204 3.52e+00 d.153.1.4 41878 1pk1B 89 3.62e+00 2his 312 3.67e+00 1taxA c.1.8.3 28918 2f2lX 167 3.72e+00 1lh0A 213 3.98e+00 c.61.1.1 73896 1v6cA 441 4.50e+00 1up7A 417 4.77e+00 1z3eA 132 5.00e+00 1q0uA 219 5.06e+00 c.37.1.19 95512 1rz3A 201 5.07e+00 c.37.1.6 98132 1qfeA 252 5.63e+00 1qfeA c.1.10.1 29167 1y9zA 441 5.64e+00 2a4aA 281 5.65e+00 1vpqA 273 5.89e+00 1ezwA 349 5.98e+00 1ezwA c.1.16.3 29558 1f74A 293 6.08e+00 1nal3 c.1.10.1 29079 8rucI 123 6.12e+00 1rboC d.73.1.1 39629 1tm9A 137 6.35e+00 a.225.1.1 107150 1z5lA 285 6.61e+00 1a8l 226 6.72e+00 1a8l c.47.1.2,c.47.1.2 32777,32778 1eokA 290 6.73e+00 1eokA c.1.8.5 28991 1xk4C 113 7.16e+00 1tlqA 189 7.36e+00 a.195.1.1 107134 1ni3A 392 7.48e+00 c.37.1.8,d.15.10.2 80531,80532 1zj6A 187 7.56e+00 1kxu 333 7.56e+00 1jkw a.74.1.1,a.74.1.1 18358,18359 1srrA 124 8.19e+00 1dz3A c.23.1.1 31110 1zx5A 300 8.48e+00 1vjrA 271 8.63e+00 c.108.1.14 100832 2basA 431 8.96e+00 2plc 274 9.03e+00 2plc c.1.18.2 29614 1x42A 232 9.14e+00 1gqnA 252 9.55e+00 c.1.10.1 90514 1uptA 171 9.65e+00 c.37.1.8 99767 1wddS 128 9.74e+00 1nnwA 252 9.79e+00 d.159.1.5 80674 1sv0C 82 1.01e+01 a.60.1.1 106037 2bw0A 329 1.03e+01 5ukdA 194 1.04e+01 1zin c.37.1.1 31851 1oroA 213 1.04e+01 1opr c.61.1.1 34093 1q98A 165 1.05e+01 c.47.1.10 96253 1r9jA 673 1.09e+01 1r4aA 165 1.12e+01 c.37.1.8 96986 2bmaA 470 1.14e+01 1t71A 281 1.19e+01 1jae 471 1.20e+01 1smd b.71.1.1,c.1.8.1 27773,28760 1dk8A 147 1.25e+01 1agrE a.91.1.1 18548 1d4aA 273 1.26e+01 1d4aA c.23.5.3 31219 1qycA 308 1.26e+01 c.2.1.2 96581 1zcoA 262 1.29e+01 1up6A 416 1.30e+01 c.2.1.5,d.162.1.2 107976,107977 1rzjG 321 1.32e+01 d.172.1.1 98200 1lmb3 92 1.33e+01 1lmb3 2c5rA 67 1.37e+01 1b5qA 472 1.39e+01 1b37B c.3.1.2,d.16.1.5 30404,37968 2bznA 351 1.39e+01 2aa4A 289 1.40e+01 2fq4A 192 1.40e+01 1jj2R 84 1.40e+01 1ffkP d.12.1.1 63103 1yc7A 124 1.42e+01 1s72S 85 1.43e+01 d.12.1.1 105338 1bjx 110 1.44e+01 1bjx c.47.1.2 32774 1mb3A 124 1.46e+01 c.23.1.1 78907 2f2lA 167 1.47e+01 1keaA 221 1.48e+01 a.96.1.2 68491 1mnaA 298 1.49e+01 c.69.1.22 79322 1ra6A 461 1.50e+01 e.8.1.4 104879 1q3eA 207 1.54e+01 b.82.3.2 95669 1o6dA 163 1.57e+01 c.116.1.3 92567 1xdnA 277 1.59e+01 1fh9A 312 1.64e+01 1taxA c.1.8.3 28913 1r7aA 504 1.65e+01 b.71.1.1,c.1.8.1 97192,97193 1g3qA 237 1.66e+01 1hyqA c.37.1.10 60237 2c6qA 351 1.66e+01 1vqoS 85 1.72e+01 2a9fA 398 1.73e+01 1kte 105 1.74e+01 1kte c.47.1.1 32771 1nfkA 325 1.75e+01 1a3qA b.1.18.1,b.2.5.3 21929,22444 1a53 247 1.76e+01 1a53 c.1.2.4 28564 1ju2A 536 1.76e+01 c.3.1.2,d.16.1.1 77169,77170 1i3zA 103 1.77e+01 d.93.1.1 83667 1igs 248 1.78e+01 1a53 c.1.2.4 28565 1a8y 367 1.78e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1b9mA 265 1.81e+01 1b9mA a.4.5.8,b.40.6.2,b.40.6.2 16118,58938,58939 1befA 181 1.84e+01 1befA b.47.1.3 26419 1a76 326 1.84e+01 1a76 a.60.7.1,c.120.1.2 18091,33361 1fhdA 312 1.84e+01 1taxA c.1.8.3 28915 2cybA 323 1.86e+01 2erbA 125 1.87e+01 1p3jA 217 1.89e+01 c.37.1.1,g.41.2.1 94022,94023 1zx0A 236 1.89e+01 1ye8A 178 1.89e+01 1yzfA 195 1.91e+01 2ahqA 76 2.01e+01 1h4lD 147 2.02e+01 a.74.1.1 70873 1xi7A 61 2.02e+01 1sfjA 238 2.03e+01 1fsgA 233 2.04e+01 1qk3A c.61.1.1 34029 1wmbA 260 2.06e+01 1bw0A 416 2.08e+01 1bw0A c.67.1.1 34385 1tv8A 340 2.10e+01 c.1.28.3 107352 2fomB 185 2.11e+01 1gpjA 404 2.14e+01 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1c75A 71 2.15e+01 451c a.3.1.1 15796 1ja1A 622 2.19e+01 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 2c3zA 222 2.20e+01 1tz9A 367 2.21e+01 c.1.15.6 107466 2b18A 164 2.22e+01 1xclA 235 2.25e+01 1w0mA 226 2.25e+01 c.1.1.1 109027 1hxhA 253 2.29e+01 c.2.1.2 76725 1ek0A 170 2.30e+01 1ctqA c.37.1.8 32076 1pwxA 254 2.32e+01 c.2.1.2 95262 1q3iA 214 2.32e+01 d.220.1.1 104524 1h9sA 140 2.33e+01 1b9mA b.40.6.2,b.40.6.2 60843,60844 1oixA 191 2.39e+01 1vl5A 260 2.41e+01 c.66.1.41 108720 1vk9A 151 2.43e+01 c.139.1.1 108640 1g9mG 321 2.47e+01 1gc1G d.172.1.1 42492 1qgdA 662 2.47e+01 c.36.1.6,c.36.1.10,c.48.1.1 88367,88368,88369 1vl8A 267 2.49e+01 c.2.1.2 108733 1enfA 212 2.50e+01 3seb b.40.2.2,d.15.6.1 25198,37787 1ls1A 295 2.51e+01 a.24.13.1,c.37.1.10 78170,78171 1gvdA 52 2.52e+01 a.4.1.3 83338 1lba 146 2.52e+01 1lba d.118.1.1 41062 1zin 217 2.60e+01 1zin c.37.1.1,g.41.2.1 31915,45178 1e4fT 419 2.64e+01 1e4fT c.55.1.1,c.55.1.1 33453,33454 1wvqA 167 2.65e+01 2czrA 226 2.67e+01 1ve3A 227 2.68e+01 1zip 217 2.69e+01 1zin c.37.1.1,g.41.2.1 31916,45179 1hskA 326 2.70e+01 2mbr d.145.1.2,d.146.1.1 61241,61242 1nu0A 138 2.71e+01 c.55.3.8 92165 1j08A 226 2.75e+01 c.47.1.2,c.47.1.2 83855,83856 1uekA 275 2.76e+01 d.14.1.5,d.58.26.5 88483,88484 1yeyA 444 2.78e+01 1sk4A 163 2.83e+01 d.118.1.1 105664 1lm4A 194 2.87e+01 d.167.1.1 84626 1rcf 169 2.89e+01 1rcf c.23.5.1 31170 2b0cA 206 2.89e+01 1qbgA 272 2.91e+01 1d4aA c.23.5.3 31227 2a8aA 439 3.01e+01 1mq4A 272 3.04e+01 d.144.1.7 91391 1q87A 221 3.07e+01 e.47.1.1 96192 1a0rP 245 3.09e+01 1b9yC c.47.1.6 33054 1wh5A 80 3.15e+01 1te6A 439 3.15e+01 c.1.11.1,d.54.1.1 106797,106798 1opr 213 3.17e+01 1opr c.61.1.1 34091 1tjyA 316 3.18e+01 c.93.1.1 107062 1h05A 146 3.22e+01 c.23.13.1 76433 2akzA 439 3.24e+01 1yckA 175 3.26e+01 1xklA 273 3.29e+01 1iuhA 198 3.30e+01 d.61.1.2 83711 1r85A 379 3.32e+01 c.1.8.3 104839 1zq1A 438 3.32e+01 1h2rL 534 3.38e+01 1h2rL e.18.1.1 43298 1upvA 257 3.42e+01 1bl3A 160 3.47e+01 1b9dA c.55.3.2 33655 1itg 166 3.50e+01 1b9dA c.55.3.2 33661 1pdz 434 3.52e+01 4enl c.1.11.1,d.54.1.1 29215,38859 1wuiL 534 3.55e+01 1oz7A 131 3.55e+01 d.169.1.1 93806 1pmhX 185 3.62e+01 b.18.1.18 104193 2a97A 439 3.65e+01 1ylmA 144 3.67e+01 2aucA 126 3.68e+01 1wosA 364 3.68e+01 b.44.2.1,d.250.1.1 109468,109469 2bnkA 67 3.73e+01 1pq9A 253 3.73e+01 a.123.1.1 95004 2f5tX 233 3.73e+01 1wvhA 134 3.75e+01 2afdA 88 3.88e+01 1kw4A 89 3.88e+01 a.60.1.2 73077 1hd2A 161 3.88e+01 c.47.1.10 60962 1n82A 331 3.89e+01 c.1.8.3 91703 2ptd 298 3.90e+01 2plc c.1.18.2 29605 1qf9A 194 3.92e+01 1zin c.37.1.1 31848 1ubkL 534 3.96e+01 e.18.1.1 88422 1cvrA 435 3.96e+01 1cvrA b.1.18.12,c.17.1.2 21949,31006 2essA 248 3.99e+01 1iq4A 179 4.02e+01 1iq4A d.77.1.1 62641 2trcP 217 4.04e+01 1b9yC c.47.1.6 33051 2cokA 113 4.25e+01 2ac2A 309 4.31e+01 2f9lA 199 4.33e+01 2cwkA 160 4.47e+01 1lm8V 160 4.57e+01 b.3.3.1 74035 1xw8A 252 4.59e+01 1bu7A 455 4.63e+01 1bu7A a.104.1.1 18937 1vicA 262 4.64e+01 c.68.1.13 100756 4enl 436 4.68e+01 4enl c.1.11.1,d.54.1.1 29202,38846 1p1cA 199 4.78e+01 c.66.1.16 87669 1zemA 262 4.82e+01 1m98A 317 4.84e+01 a.175.1.1,d.17.4.6 78866,78867 1j1uA 306 4.92e+01 c.26.1.1 83980 1ofcX 304 4.96e+01 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 2ng1 293 5.06e+01 1ng1 a.24.13.1,c.37.1.10 16962,32273 1sg0A 230 5.11e+01 1xedA 117 5.13e+01 2axoA 270 5.14e+01 1kshA 186 5.15e+01 c.37.1.8 72914 1rw7A 243 5.16e+01 c.23.16.2 97963 1oihA 301 5.24e+01 b.82.2.5 93051 1xjvA 294 5.24e+01 1zx1A 231 5.29e+01 1kdoA 227 5.36e+01 c.37.1.1 68478 1sxjE 354 5.39e+01 a.80.1.1,c.37.1.20 106089,106090 1jflA 228 5.44e+01 c.78.2.1,c.78.2.1 71656,71657 1y81A 138 5.48e+01 2bleA 367 5.48e+01 1ccwA 137 5.55e+01 1be1 c.23.6.1 31238 1tpfA 250 5.55e+01 1amk c.1.1.1 28467 1xqwA 293 5.55e+01 1vig 71 5.57e+01 1vih d.51.1.1 38806 2f3yA 148 5.58e+01 1qusA 322 5.60e+01 1ltm d.2.1.6 36991 1vgyA 393 5.63e+01 c.56.5.4,d.58.19.1 100620,100621 2bkfA 87 5.65e+01 2g40A 224 5.70e+01 1nal1 297 5.71e+01 1nal3 1jmmA 377 5.72e+01 b.30.6.1 71749 1s0uA 408 5.75e+01 b.43.3.1,b.44.1.1,c.37.1.8 98302,98303,98304 2afbA 351 5.81e+01 1n55A 251 5.90e+01 c.1.1.1 80007 1o98A 511 5.93e+01 c.105.1.1,c.76.1.3 86684,86685 2dhqA 146 5.94e+01 2dhqA c.23.13.1 31382 1f4pA 147 5.94e+01 5nul c.23.5.1 59651 1t7lA 766 5.96e+01 1mn8A 100 5.98e+01 a.61.1.6 79318 1afp 51 6.04e+01 1afp g.26.1.1 44947 2a4hA 126 6.13e+01 1t95A 240 6.15e+01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 1amk 251 6.19e+01 1amk c.1.1.1 28503 2bzsA 236 6.21e+01 1f3mC 297 6.25e+01 1hcl d.144.1.7 41677 1vs0A 310 6.31e+01 1oz9A 150 6.33e+01 d.92.1.15 93808 1eqjA 511 6.39e+01 1ejjA c.105.1.1,c.76.1.3 59495,59496 1zmaA 118 6.42e+01 1kv5A 250 6.42e+01 c.1.1.1 73052 1zmtA 254 6.44e+01 1tqhA 247 6.46e+01 c.69.1.29 107225 1t3bA 211 6.48e+01 c.47.1.9,d.17.3.1 106341,106342 1vsrA 136 6.57e+01 1vsrA c.52.1.15 33332 1uqvA 85 6.68e+01 a.60.1.2 99798 1g0oA 283 6.69e+01 1ybvA c.2.1.2 60181 1unlD 208 6.73e+01 1vkeA 133 6.75e+01 a.152.1.2 108650 1lw7A 365 6.76e+01 c.26.1.3,c.37.1.1 74295,74296 2dri 271 6.79e+01 2dri c.93.1.1 35637 1bdb 277 6.82e+01 1bdb c.2.1.2 29874 2fikA 287 6.82e+01 1ks9A 291 6.82e+01 a.100.1.7,c.2.1.6 68857,68858 1px5A 349 6.85e+01 a.160.1.2,d.218.1.6 95277,95278 1vjhA 122 6.86e+01 d.129.3.1 100811 1qb7A 236 6.93e+01 1qb7A c.61.1.1 34087 1ytlA 174 7.01e+01 1sflA 238 7.10e+01 1m7jA 484 7.12e+01 b.92.1.6,b.92.1.6,c.1.9.11 78732,78733,78734 1txlA 215 7.13e+01 b.60.1.4 107429 1gcoA 261 7.20e+01 1ybvA c.2.1.2 29884 1qzmA 94 7.23e+01 c.37.1.20 96651 1rie 129 7.24e+01 1rie b.33.1.1 24427 1vd2A 89 7.28e+01 d.15.2.2 108517 1geeA 261 7.36e+01 c.2.1.2 90509 1f5nA 592 7.37e+01 1dg3A a.114.1.1,c.37.1.8 19077,32152 1fdr 248 7.40e+01 1fdr b.43.4.2,c.25.1.1 25653,31543 1dbgA 506 7.43e+01 1dbgA b.80.1.4 28033 1adr 76 7.47e+01 1r69 a.35.1.2 17042 1ag9A 175 7.56e+01 1rcf c.23.5.1 31178 1xm7A 195 7.59e+01 2al2A 436 7.66e+01 2pfkA 320 7.69e+01 3pfk c.89.1.1 35577 2cdnA 201 7.71e+01 1ukz 203 7.72e+01 1zin c.37.1.1 31840 1qvzA 237 7.72e+01 c.23.16.2 96453 1wznA 252 7.73e+01 1adoA 363 7.74e+01 1fbaA c.1.10.1 29124 2gupA 292 7.78e+01 1ugmA 125 7.80e+01 d.15.1.3 107827 1ijqA 316 7.81e+01 1ijqA b.68.5.1,g.3.11.1 62506,62507 2fazA 78 7.87e+01 1ivyA 452 7.90e+01 1ivyA c.69.1.5 34654 1vl6A 388 8.04e+01 c.2.1.7,c.58.1.3 108724,108725 1rypH 205 8.05e+01 d.153.1.4 41876 1v1rA 400 8.06e+01 c.36.1.11 108272 2fnaA 357 8.08e+01 2amxA 376 8.10e+01 1jihA 531 8.10e+01 d.240.1.1,e.8.1.7 90374,90375 1r1dA 247 8.12e+01 c.69.1.29 96813 1rlhA 173 8.19e+01 d.256.1.1 97646 1dboA 506 8.21e+01 1dbgA b.80.1.4 28034 2a5dA 175 8.21e+01 1zaiA 363 8.23e+01 1tikA 213 8.27e+01 c.23.5.3 107003 1gci 269 8.32e+01 1gci c.41.1.1 32503 1v9wA 130 8.57e+01 c.47.1.16 108453 1rk6A 496 8.58e+01 b.92.1.6,b.92.1.6,c.1.9.11 97599,97600,97601 1x1tA 260 8.59e+01 1bx1A 314 8.61e+01 1fnc b.43.4.2,c.25.1.1 25629,31519 1bykA 255 8.62e+01 1bykA c.93.1.1 35706 1gzsB 165 8.66e+01 a.168.1.1 76425 2gf6A 135 8.72e+01 1jbwA 428 8.73e+01 c.59.1.2,c.72.2.2 62860,62861 1xu6A 80 8.73e+01 1wy7A 207 8.75e+01 1gz2A 142 8.76e+01 d.169.1.1 83392 1ggzA 148 8.78e+01 a.39.1.5 70176 1lyxA 248 8.85e+01 c.1.1.1 78304 1qsgA 265 8.95e+01 1eny c.2.1.2 29935