# List of top-scoring protein chains for t04-100-30-stride-ebghtl-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 2g03A 194 2.14e-18 2f6sA 201 4.18e-18 1nh1A 330 9.11e-02 e.45.1.1 91871 1w33A 181 1.99e-01 1exrA 148 5.76e-01 1cll a.39.1.5 17299 1z2nX 324 8.48e-01 1knyA 253 8.67e-01 1knyA a.24.16.1,d.218.1.1 75896,75897 2gh1A 301 9.80e-01 2b3oA 532 1.04e+00 1mxrA 375 1.20e+00 a.25.1.2 85197 1ggzA 148 1.29e+00 a.39.1.5 70176 1gt91 357 1.43e+00 1xikA 375 1.44e+00 1xikA a.25.1.2 16784 1t1gA 364 1.67e+00 c.41.1.2 106246 1u00A 227 1.75e+00 2bs3C 256 1.88e+00 1mc2A 122 1.91e+00 a.133.1.2 74622 1d0vA 356 1.95e+00 1d0vA c.39.1.1 32476 1l5oA 356 1.97e+00 c.39.1.1 77711 1ywfA 296 1.98e+00 2a14A 263 2.00e+00 1qlaC 256 2.04e+00 1qlaC f.21.2.1 43722 1uqtA 482 2.11e+00 c.87.1.6 99794 1u2kA 309 2.12e+00 1rtwA 220 2.36e+00 a.132.1.3 97823 1lj8A 493 2.47e+00 a.100.1.9,c.2.1.6 90392,90393 1g8lA 411 2.82e+00 1g8lA b.85.6.1,b.103.1.1,c.57.1.2 60365,60366,60367 1m5yA 408 3.05e+00 a.167.1.1,d.26.1.1,d.26.1.1 78664,78665,78666 1ux8A 132 3.18e+00 1swxA 209 3.56e+00 a.224.1.1 106075 1gegA 256 4.00e+00 1ybvA c.2.1.2 29888 1x0vA 354 4.14e+00 1g8iA 190 4.74e+00 1rec a.39.1.5 60363 2bzlA 325 5.49e+00 1wcgA 464 5.58e+00 2ivxA 257 5.69e+00 1u8xX 472 5.72e+00 c.2.1.5,d.162.1.2 107741,107742 1w7bA 339 5.76e+00 1di1A 300 5.80e+00 1di1A a.128.1.4 19446 2b7kA 200 5.94e+00 1yi8A 351 6.62e+00 2fug1 438 7.05e+00 1tq4A 413 7.10e+00 c.37.1.8 107201 1d5rA 324 7.13e+00 1d5rA b.7.1.1,c.45.1.1 23181,32697 1ytzT 107 7.17e+00 1u46A 291 7.41e+00 d.144.1.7 107656 2au3A 407 7.57e+00 1t5hX 504 7.95e+00 e.23.1.1 106449 1p0iA 529 8.04e+00 c.69.1.1 93867 1zx0A 236 8.16e+00 1xfxO 149 8.70e+00 2bjkA 516 8.81e+00 1ppjD 241 9.00e+00 a.3.1.3,f.23.11.1 104258,104259 2f3yA 148 9.11e+00 1na3A 91 9.73e+00 k.38.1.1 85481 1sxjE 354 9.73e+00 a.80.1.1,c.37.1.20 106089,106090 1g99A 408 1.00e+01 1g99A c.55.1.2,c.55.1.2 33457,33458 2db3A 434 1.01e+01 1wp1A 474 1.02e+01 1xclA 235 1.03e+01 1k3yA 221 1.03e+01 a.45.1.1,c.47.1.5 77245,77246 1yyvA 131 1.03e+01 1f5nA 592 1.04e+01 1dg3A a.114.1.1,c.37.1.8 19077,32152 1uzbA 516 1.10e+01 c.82.1.1 100220 1uh5A 329 1.12e+01 c.2.1.2 107840 2abqA 306 1.15e+01 1mldA 314 1.15e+01 2cmd c.2.1.5,d.162.1.1 30122,42089 1l1lA 739 1.15e+01 c.7.1.4 73470 1wbeA 209 1.18e+01 1z5zA 271 1.21e+01 1p1jA 533 1.21e+01 c.2.1.3,d.81.1.3 87687,87688 1zboA 210 1.26e+01 2cybA 323 1.29e+01 2fiyA 309 1.33e+01 1xsm 390 1.34e+01 1xsm a.25.1.2 16804 1y1xA 191 1.39e+01 1wu4A 396 1.40e+01 1gky 187 1.43e+01 1gky c.37.1.1 31839 1pv6A 417 1.43e+01 f.38.1.2 95151 1ex7A 186 1.43e+01 1gky c.37.1.1 59537 1tfjA 219 1.47e+01 1srqA 341 1.48e+01 e.55.1.1 105967 1kyqA 274 1.50e+01 c.2.1.11,e.37.1.1 73281,73282 2f6hX 419 1.52e+01 1w78A 422 1.57e+01 1mwvA 714 1.58e+01 a.93.1.3,a.93.1.3 85161,85162 1uxtA 501 1.60e+01 c.82.1.1 108125 1spjA 238 1.62e+01 2ng1 293 1.68e+01 1ng1 a.24.13.1,c.37.1.10 16962,32273 1fzoA 274 1.73e+01 1agdA b.1.1.2,d.19.1.1 60155,60156 1cm5A 759 1.75e+01 1cm5A c.7.1.1 30671 1jltB 122 1.76e+01 a.133.1.2 66868 1pfkA 320 1.77e+01 3pfk c.89.1.1 35575 2c5uA 375 1.79e+01 1m0wA 491 1.82e+01 c.30.1.4,d.142.1.6 78363,78364 1h16A 759 1.86e+01 c.7.1.1 76462 1q4mA 221 1.89e+01 a.132.1.3 95805 1bmtA 246 1.89e+01 1bmtA a.46.1.1,c.23.6.1 17757,31235 1tueA 212 1.95e+01 c.37.1.20 107323 1t06A 235 1.96e+01 a.118.1.17 106194 2a10A 125 1.97e+01 1vbuA 328 1.98e+01 1bupA 386 1.99e+01 1ba1 c.55.1.1,c.55.1.1 33377,33378 1jchA 551 1.99e+01 b.101.1.1,b.110.1.1,h.4.9.1 66491,66492,66493 1lk2A 274 2.00e+01 b.1.1.2,d.19.1.1 91056,91057 2fflA 756 2.02e+01 1y0vH 146 2.03e+01 2f2gA 221 2.05e+01 1hg4A 279 2.05e+01 1lbd a.123.1.1 19333 1hw1A 239 2.05e+01 1e2xA a.4.5.6,a.78.1.1 16111,18441 1n1cA 217 2.08e+01 a.184.1.1 85254 1w68A 390 2.08e+01 a.25.1.2 109216 2pfkA 320 2.09e+01 3pfk c.89.1.1 35577 1hqsA 423 2.11e+01 1iso c.77.1.1 61154 1n35A 1267 2.18e+01 e.8.1.4 79935 1z63A 500 2.20e+01 1r5yA 386 2.21e+01 c.1.20.1 97134 1kay 381 2.23e+01 1ba1 c.55.1.1,c.55.1.1 33385,33386 1h8dH 260 2.25e+01 5ptp 1t5oA 351 2.28e+01 c.124.1.5 106459 1ylmA 144 2.32e+01 1y4lA 121 2.32e+01 1sqzA 121 2.34e+01 a.133.1.2 98975 1tj9A 121 2.34e+01 a.133.1.2 107015 1tk4A 121 2.34e+01 a.133.1.2 107073 1zwpA 121 2.34e+01 2g58A 121 2.34e+01 1vhrA 184 2.35e+01 1vhrA c.45.1.1 32651 1k28A 584 2.39e+01 b.40.8.1,b.108.1.2,d.2.1.3 68049,68050,68051 2ftrA 108 2.39e+01 1ww9A 392 2.41e+01 1yuwA 554 2.47e+01 1aop 497 2.48e+01 2aop d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39501,39502,41425,41426 1ve0A 134 2.48e+01 1ui5A 215 2.48e+01 a.4.1.9,a.121.1.1 107856,107857 1aokB 122 2.52e+01 1poa a.133.1.2 19561 4pfk 319 2.53e+01 3pfk c.89.1.1 35582 1e0bA 68 2.55e+01 1e0bA b.34.13.2 37476 1z6aA 500 2.57e+01 1yqyA 523 2.70e+01 1u0mA 382 2.71e+01 c.95.1.2,c.95.1.2 107557,107558 1f0kA 364 2.71e+01 1f0kA c.87.1.2 35465 1cr1A 296 2.75e+01 1cr1A c.37.1.11 32286 1m7xA 617 2.76e+01 b.1.18.2,b.71.1.1,c.1.8.1 78749,78750,78751 1dw0A 112 2.76e+01 1dw0A a.3.1.1 15911 1yiiA 320 2.79e+01 1ihoA 283 2.81e+01 1ihoA c.26.1.4 62390 1vlgA 176 2.83e+01 a.25.1.1 108816 1ca1 370 2.83e+01 1ca1 a.124.1.1,b.12.1.3 19340,23648 1umvX 122 2.88e+01 a.133.1.2 99630 1w6vA 141 2.89e+01 1pu1A 94 2.91e+01 d.266.1.1 104307 1q18A 332 2.94e+01 c.55.1.7,c.55.1.7 104470,104471 2g3aA 152 2.94e+01 1zq7A 207 2.96e+01 1o2dA 371 3.00e+01 e.22.1.2 86591 1m0kA 262 3.01e+01 f.13.1.1 78344 1h0oA 390 3.06e+01 a.25.1.2 70845 1xmaA 145 3.09e+01 1auiB 169 3.12e+01 1auiB a.39.1.5 17325 1eg3A 261 3.13e+01 1eg3A a.39.1.7,a.39.1.7,b.72.1.1 17376,17377,27805 2fm9A 215 3.16e+01 1tueB 218 3.17e+01 b.91.1.1 107324 1c24A 263 3.25e+01 1c24A d.127.1.1 41148 1r2rA 248 3.29e+01 c.1.1.1 96875 2avpA 70 3.32e+01 2gauA 232 3.32e+01 1dvkA 173 3.32e+01 1dvkA a.72.1.1 18319 1u6zA 513 3.35e+01 2bikB 313 3.38e+01 1o17A 345 3.38e+01 a.46.2.1,c.27.1.1 80765,80766 1v4eA 299 3.40e+01 a.128.1.1 100296 1va6A 518 3.48e+01 2anwA 241 3.50e+01 1o5kA 306 3.51e+01 c.1.10.1 92504 1wy9A 147 3.52e+01 1zlbA 122 3.55e+01 1qwiA 143 3.58e+01 d.227.1.1 96474 1kdj 102 3.60e+01 1plc b.6.1.1 22864 1enp 312 3.61e+01 1enp c.2.1.2 29906 1wvcA 259 3.61e+01 1lis 136 3.64e+01 1lis a.19.1.1 16406 2lisA 136 3.64e+01 1lis a.19.1.1 16405 1dboA 506 3.65e+01 1dbgA b.80.1.4 28034 1ezvD 245 3.65e+01 1be3D a.3.1.3,f.23.11.1 59546,59547 1vf1A 229 3.66e+01 1zvkA 358 3.66e+01 1dbgA 506 3.66e+01 1dbgA b.80.1.4 28033 1d7oA 297 3.67e+01 1enp c.2.1.2 29907 1xwsA 313 3.69e+01 2af4C 333 3.70e+01 1ls1A 295 3.72e+01 a.24.13.1,c.37.1.10 78170,78171 1m0uA 249 3.72e+01 a.45.1.1,c.47.1.5 78359,78360 2cwcA 303 3.73e+01 1b43A 340 3.76e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 2gfoA 396 3.78e+01 1lvaA 258 3.79e+01 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 1xxsA 122 3.82e+01 1kb9D 246 3.84e+01 a.3.1.3,f.23.11.1 77317,77318 1w6kA 732 3.88e+01 1nzoA 363 3.90e+01 b.105.1.1,e.3.1.1 92383,92384 2d1eA 248 3.92e+01 1zq9A 285 3.92e+01 1tn4 159 3.94e+01 1ncx a.39.1.5 17248 1aisB 200 4.01e+01 1aisB a.74.1.2,a.74.1.2 18384,18385 1n1fA 159 4.06e+01 a.26.1.3 79803 1omwA 689 4.07e+01 a.91.1.1,b.55.1.1,d.144.1.7 87086,87087,87088 2b3yA 888 4.10e+01 1t46A 313 4.10e+01 d.144.1.7 106397 1fs1B 141 4.12e+01 1vcbB a.157.1.1,d.42.1.1 19252,38664 2cbiA 594 4.22e+01 2fe8A 315 4.25e+01 1ovnA 248 4.30e+01 a.71.1.1,c.47.1.7 93602,93603 1xnzA 264 4.31e+01 2ccjA 205 4.35e+01 1ykuA 136 4.38e+01 2g5cA 281 4.38e+01 2c27A 315 4.45e+01 1kid 203 4.50e+01 1derA c.8.5.1 30771 1tbxA 99 4.52e+01 a.4.5.48 106748 1unlD 208 4.53e+01 1vkcA 158 4.55e+01 1zrzA 364 4.56e+01 1z6gA 218 4.58e+01 2btvA 901 4.62e+01 2btvA e.28.1.1 43376 2anyA 241 4.65e+01 1c3wA 222 4.66e+01 1c3wA f.13.1.1 43405 1ckiA 317 4.70e+01 1csn d.144.1.7 41660 1a8b 318 4.79e+01 1avc a.65.1.1 18171 1tph1 247 4.80e+01 1amk 1ah7 245 4.82e+01 1ah7 a.124.1.1 19339 1x1tA 260 4.83e+01 1s1hM 132 4.87e+01 i.1.1.1 105165 1euvA 221 4.90e+01 1euvA d.3.1.7 37133 5rubA 490 4.90e+01 1burA c.1.14.1,d.58.9.1 29382,39288 2hgsA 474 4.93e+01 2hgsA c.30.1.4,d.142.1.6 31722,75997 1g4yR 148 4.94e+01 1cll a.39.1.5 60252 1kb9B 352 5.00e+01 d.185.1.1,d.185.1.1 77313,77314 1tzvA 142 5.01e+01 a.79.1.1 107526 1z6fA 363 5.02e+01 1mbxC 106 5.03e+01 d.45.1.2 78929 1ppjF 110 5.07e+01 f.27.1.1 104262 2fulA 178 5.13e+01 1im8A 244 5.17e+01 c.66.1.14 66212 1pq1A 196 5.22e+01 f.1.4.1 94986 1zsqA 528 5.23e+01 1v61A 132 5.23e+01 b.55.1.1 108389 2f1nA 262 5.23e+01 1pba 81 5.25e+01 1pytA d.58.3.1 39067 2gh0A 213 5.26e+01 1ve6A 582 5.29e+01 1pud 386 5.30e+01 1pud c.1.20.1 29658 1pbgA 468 5.31e+01 1e70M c.1.8.4 28946 1p4oA 322 5.34e+01 d.144.1.7 87775 1kqfB 294 5.36e+01 d.58.1.5,f.23.22.1 75900,75901 1jg8A 347 5.40e+01 1jg8A c.67.1.1 62946 1m6sA 347 5.40e+01 c.67.1.1 78701 1y88A 199 5.42e+01 1wkuA 254 5.43e+01 2occC 261 5.45e+01 1ocrC f.25.1.1 43520 1t4aA 84 5.49e+01 d.284.1.1 106404 1s2xA 206 5.49e+01 a.47.3.1 105229 1nznA 126 5.49e+01 a.118.8.1 92382 1b68A 191 5.53e+01 1nfn a.24.1.1 59076 1uvjA 664 5.55e+01 e.8.1.6 100045 1maz 221 5.58e+01 1maz f.1.4.1 43393 1hhsA 664 5.59e+01 1hi0P e.8.1.6 61045 1ui7A 638 5.62e+01 b.30.2.1,d.17.2.1,d.17.2.1 99413,99414,99415 1oheA 348 5.68e+01 c.45.1.1,c.45.1.1 87013,87014 2g39A 497 5.70e+01 1v54C 261 5.73e+01 f.25.1.1 100324 1vjqA 79 5.75e+01 k.43.1.1 100830 1k04A 162 5.79e+01 a.24.14.1 67904 2fwtA 125 5.80e+01 1hr6A 475 5.80e+01 1hr6A d.185.1.1,d.185.1.1 61164,61165 2cmwA 310 5.80e+01 2fk8A 318 5.81e+01 2et1A 201 5.87e+01 1sz2A 332 5.89e+01 1v2dA 381 5.89e+01 c.67.1.1 108281 1nj4A 363 5.91e+01 b.105.1.1,e.3.1.1 80545,80546 1g2nA 264 5.92e+01 1lbd a.123.1.1 60227 1quqA 129 5.95e+01 1quqA b.40.4.3 25303 1nlwB 76 5.96e+01 a.38.1.1 80634 2es4D 332 5.99e+01 1oohA 126 5.99e+01 a.39.2.1 93383 1cvrA 435 6.00e+01 1cvrA b.1.18.12,c.17.1.2 21949,31006 1lrzA 426 6.01e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1rcwA 231 6.01e+01 a.132.1.4 97299 1qhtA 775 6.03e+01 1tgoA c.55.3.5,e.8.1.1 33722,43011 1vhnA 318 6.04e+01 c.1.4.1 100693 1el5A 389 6.10e+01 1b3mA c.3.1.2,d.16.1.3 30369,37937 1yksA 440 6.17e+01 1x0lA 333 6.18e+01 1ihcA 188 6.22e+01 1di6A c.57.1.1 62379 1wy7A 207 6.24e+01 1jljA 189 6.27e+01 c.57.1.1 63169 1s9uA 207 6.29e+01 a.184.1.1 105390 1txuA 273 6.33e+01 a.222.1.1 107439 1af3 196 6.34e+01 1maz f.1.4.1 43397 1yruB 74 6.35e+01 1sxvA 172 6.40e+01 1y10A 407 6.41e+01 1j30A 144 6.58e+01 a.25.1.1 90806 1gjwA 637 6.59e+01 b.71.1.1,c.1.8.1 60582,60583 1bt3A 345 6.69e+01 1bt3A a.86.1.2 18507 1r6oC 106 6.70e+01 1a91 79 6.70e+01 1a91 f.17.1.1 43635 2ran 316 6.72e+01 1avc a.65.1.1 18170 1iso 416 6.73e+01 1iso c.77.1.1 35065 1z23A 163 6.75e+01 1zd3A 555 6.75e+01 1wmbA 260 6.85e+01 1x13A 401 6.97e+01 1sedA 117 6.97e+01 a.219.1.1 105449 1x3zB 72 7.10e+01 1p0hA 318 7.18e+01 d.108.1.1 93866 1vjeA 166 7.19e+01 d.185.1.2 100807 1tmy 120 7.22e+01 1dbwA c.23.1.1 31083 1vj7A 393 7.22e+01 a.211.1.1,d.218.1.8 100801,100802 1bgp 309 7.28e+01 1bgp a.93.1.1 18690 2b6eA 146 7.30e+01 2afbA 351 7.31e+01 2h1rA 299 7.31e+01 1neiA 60 7.33e+01 d.253.1.1 91843 1b5pA 385 7.35e+01 c.67.1.1 90403 1innA 166 7.43e+01 1j98A d.185.1.2 62608 1dvoA 152 7.45e+01 1dvoA a.136.1.1 19623 2cxxA 190 7.47e+01 1josA 128 7.51e+01 d.52.7.1 84191 1k07A 263 7.59e+01 d.157.1.1 77218 2gp5A 349 7.65e+01 1exqA 154 7.67e+01 1b9dA c.55.3.2 33646 1yr0A 175 7.68e+01 1y8qB 640 7.74e+01 1bc5A 269 7.76e+01 1af7 a.58.1.1,c.66.1.8 17929,34204 1wpuA 147 7.79e+01 1td6A 306 7.86e+01 1a59 378 7.88e+01 1aj8A a.103.1.1 18902 1p68A 102 7.88e+01 k.8.1.1 94158 1bif 469 7.89e+01 1bif c.37.1.7,c.60.1.4 31961,34003 1qbkB 890 7.89e+01 1qbkB a.118.1.1 19127 1ie9A 259 7.90e+01 1db1A a.123.1.1 62318 1bl3A 160 7.94e+01 1b9dA c.55.3.2 33655 2ar9A 278 7.96e+01 1sc3B 88 7.96e+01 1vzqH 250 7.96e+01 1oflA 481 8.02e+01 b.80.1.4 103934 1l6eA 46 8.02e+01 a.31.1.1 73607 1nkpB 83 8.02e+01 a.38.1.1 80574 2aqjA 538 8.03e+01 1vraB 215 8.07e+01 1fi2A 201 8.10e+01 1fi2A b.82.1.2 59845 2bszA 278 8.10e+01 2amxA 376 8.25e+01 2cf8H 257 8.25e+01 1qqrA 138 8.27e+01 1bmlC d.15.5.1 37721 2b99A 156 8.29e+01 1ru8A 232 8.29e+01 c.26.2.1 97849 1aq0A 306 8.31e+01 1aq0A c.1.8.3 28842 1ayl 541 8.34e+01 1ayl c.91.1.1,c.109.1.1 64718,64719 1t4hA 290 8.35e+01 d.144.1.7 106420 1o0iA 138 8.35e+01 d.38.1.5 86532 1n8vA 112 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