# List of top-scoring protein chains for t06-100-30-dssp-ehl2-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 2ghrA 302 1.45e-56 1wl8A 189 1.39e-26 1gpmA 525 1.15e-24 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1o1yA 239 3.15e-24 c.23.16.1 86554 1a9xB 379 1.63e-18 1c3oB c.8.3.1,c.23.16.1 30732,31409 1c30B 382 5.74e-18 c.8.3.1,c.23.16.1 30736,31413 1i1qB 192 6.16e-17 1qdlB c.23.16.1 61544 1vcoA 550 1.47e-15 c.23.16.1,c.37.1.10 108508,108509 1g2iA 166 1.50e-14 1g2iA c.23.16.2 31438 2abwA 227 2.23e-12 1l9xA 315 3.99e-12 c.23.16.1 73762 1ka9H 200 1.69e-11 c.23.16.1 77308 1t3tA 1303 3.14e-11 a.5.10.1,c.23.16.1,d.284.1.2,d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 106381,106382,106383,106384,106385,106386,106387 2fexA 188 7.51e-08 1p5fA 189 8.52e-07 c.23.16.2 94142 1u9cA 224 6.54e-06 1n57A 291 2.10e-05 c.23.16.2 85328 2ab0A 205 9.01e-05 1qvzA 237 1.31e-04 c.23.16.2 96453 1vhqA 232 1.34e-04 c.23.16.2 100696 1rw7A 243 1.66e-04 c.23.16.2 97963 1jixA 351 4.48e-03 1c3jA c.87.1.1 63081 1sy7A 715 1.45e-02 2ajrA 331 3.35e-02 2gd9A 189 4.82e-02 1hdoA 206 5.39e-02 1he2A c.2.1.2 60965 1mldA 314 7.35e-02 2cmd c.2.1.5,d.162.1.1 30122,42089 2gk3A 256 7.92e-02 1x7oA 287 8.58e-02 2gjlA 328 8.63e-02 1e1hA 287 1.40e-01 d.92.1.7 83167 2d0iA 333 1.42e-01 1yh3A 256 1.65e-01 1juvA 193 2.14e-01 c.71.1.1 90912 1fyeA 229 2.64e-01 1fyeA c.23.16.4 31477 1z15A 344 2.89e-01 8abp 306 3.02e-01 8abp c.93.1.1 35647 1t0bA 252 3.04e-01 c.23.16.6 106199 1t9bA 677 3.45e-01 1yqtA 538 3.86e-01 1iu8A 206 4.26e-01 c.56.4.1 71436 1p80A 753 4.38e-01 c.23.16.3,e.5.1.1 94337,94338 1mkzA 172 6.35e-01 c.57.1.1 84998 1im5A 180 6.82e-01 c.33.1.3 66211 1eluA 390 6.94e-01 1elqA c.67.1.3 34434 1sq5A 308 7.11e-01 c.37.1.6 105882 1tzfA 259 7.32e-01 c.68.1.13 107476 1uptA 171 8.59e-01 c.37.1.8 99767 1o7jA 327 8.93e-01 c.88.1.1 81140 1jg1A 235 9.07e-01 c.66.1.7 66661 2b9wA 424 9.28e-01 1i0vA 104 9.75e-01 9rnt d.1.1.4 36054 1php 394 9.92e-01 16pk c.86.1.1 35452 4pgaA 337 1.00e+00 4pgaA c.88.1.1 35565 1bu8A 452 1.09e+00 1gpl b.12.1.2,c.69.1.19 23647,34795 1yw4A 341 1.09e+00 1sc6A 404 1.12e+00 1mi3A 322 1.21e+00 c.1.7.1 91274 1om1A 332 1.24e+00 d.144.1.7 93347 1wraA 308 1.25e+00 1budA 197 1.28e+00 1atlA d.92.1.9 40328 1p32A 209 1.40e+00 1p32A d.25.1.1 38379 2fpqA 444 1.57e+00 2a7kA 250 1.66e+00 1xttA 216 1.67e+00 1iba 101 1.67e+00 1iba d.95.1.1 40567 1guzA 310 1.69e+00 c.2.1.5,d.162.1.1 65586,65587 1z0sA 278 1.72e+00 1f89A 291 1.73e+00 d.160.1.1 64988 1yt5A 258 1.78e+00 1aqzA 149 1.82e+00 1aqzA d.1.1.3 36238 2b5eA 504 1.88e+00 1h0hB 214 1.89e+00 d.58.1.5 76437 1ohvA 472 1.96e+00 c.67.1.4 93031 2c6qA 351 2.08e+00 16pk 415 2.18e+00 16pk c.86.1.1 35454 1ktbA 405 2.26e+00 b.71.1.1,c.1.8.1 72960,72961 2c4wA 176 2.33e+00 1f06A 320 2.43e+00 1dapA c.2.1.3,d.81.1.3 59556,59557 1o4vA 183 2.60e+00 c.23.8.1 86628 1eiwA 111 2.65e+00 1eiwA c.23.3.1 31130 1uc2A 481 2.73e+00 d.261.1.1 99161 1e19A 314 2.74e+00 1b7bA c.73.1.1 34967 1yqzA 438 2.83e+00 1su8A 636 3.06e+00 e.26.1.2 98999 1zxxA 319 3.07e+00 1bdmA 327 3.19e+00 1bmdA c.2.1.5,d.162.1.1 30137,42104 1jr2A 286 3.21e+00 c.113.1.1 67111 1nsj 205 3.37e+00 1nsj c.1.2.4 28560 1fcqA 350 3.46e+00 c.1.8.9 65006 1l6wA 220 3.49e+00 c.1.10.1 73632 1vhrA 184 3.52e+00 1vhrA c.45.1.1 32651 1rvkA 382 3.56e+00 c.1.11.2,d.54.1.1 97928,97929 2cunA 410 3.65e+00 1ep3B 262 3.74e+00 1ep2B b.43.4.2,c.25.1.3 25664,31554 1usgA 346 3.89e+00 c.93.1.1 99864 1aisA 182 3.90e+00 1ytbA d.129.1.1,d.129.1.1 41288,41289 2bkxA 242 3.90e+00 1fus 106 3.98e+00 9rnt d.1.1.4 36050 1ym5A 300 4.00e+00 2cvjA 180 4.00e+00 2aeuA 374 4.03e+00 1d4oA 184 4.18e+00 1d4oA c.31.1.4 31748 1ii7A 333 4.32e+00 1ii7A d.159.1.4 62415 1eq2A 310 4.33e+00 1eq2A c.2.1.2 29814 1dp4A 435 4.34e+00 1dp4A c.93.1.1 35710 1nhs 447 4.39e+00 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1uehA 253 4.45e+00 c.101.1.1 99259 1a9xA 1058 4.60e+00 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 1l5aA 436 4.63e+00 c.43.1.2,c.43.1.2 75923,75924 1augA 215 4.92e+00 1a2zA c.56.4.1 33798 1d1gA 168 4.95e+00 1d1gA c.71.1.1 34889 1uanA 227 4.97e+00 c.134.1.1 99135 1fyhB 229 5.02e+00 1jrhI b.1.2.1,b.1.2.1 22055,22056 1nzjA 298 5.08e+00 c.26.1.1 92377 2afwA 329 5.41e+00 1o69A 394 5.45e+00 c.67.1.4 92560 1apyA 162 5.47e+00 1apyA d.153.1.5 42004 1din 236 5.58e+00 1din c.69.1.9 34682 1v0wA 506 5.60e+00 d.136.1.2,d.136.1.2 108220,108221 1p3dA 475 5.68e+00 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1w4xA 542 5.88e+00 c.3.1.5,c.3.1.5 109171,109172 2fnaA 357 5.89e+00 2gjsA 176 5.93e+00 1xq6A 253 5.97e+00 1cr1A 296 6.11e+00 1cr1A c.37.1.11 32286 1k8wA 327 6.13e+00 b.122.1.1,d.265.1.2 83094,90388 2gshA 414 6.29e+00 1pzgA 331 6.42e+00 c.2.1.5,d.162.1.1 95425,95426 1ykwA 435 6.50e+00 1wzuA 300 6.63e+00 2fvvA 194 6.73e+00 1mo9A 523 6.79e+00 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1a5t 334 6.83e+00 1a5t a.80.1.1,c.37.1.20 18450,32423 1sw5A 275 6.93e+00 c.94.1.1 106069 1sgvA 316 7.05e+00 b.122.1.1,d.265.1.2 98858,98859 1mp9A 198 7.21e+00 d.129.1.1,d.129.1.1 91385,91386 2dg5B 190 7.33e+00 2b8nA 429 7.36e+00 2fs2A 151 7.78e+00 1jlyA 304 7.86e+00 1jlyA b.42.3.1,b.42.3.1 25587,25588 1lt8A 406 7.93e+00 c.1.26.1 78186 1hgxA 183 7.97e+00 1tc1A c.61.1.1 34027 1cnzA 363 8.00e+00 1cnzA c.77.1.1 35061 1eokA 290 8.00e+00 1eokA c.1.8.5 28991 1qgoA 264 8.16e+00 1qgoA c.92.1.2 35596 1o2dA 371 8.17e+00 e.22.1.2 86591 1mxgA 435 8.30e+00 b.71.1.1,c.1.8.1 85193,85194 2gdzA 267 8.30e+00 1n2zA 245 8.34e+00 c.92.2.2 79865 2cw6A 298 8.46e+00 1iq6A 134 8.49e+00 d.38.1.4 76755 2ew8A 249 8.61e+00 1zdrA 164 8.77e+00 2g6tA 306 8.83e+00 1ma3A 253 8.85e+00 c.31.1.5 78883 1aozA 552 8.94e+00 1aozA b.6.1.3,b.6.1.3,b.6.1.3 23124,23125,23126 1x88A 359 9.05e+00 1wzlA 585 9.22e+00 1qj4A 257 9.32e+00 1qj4A c.69.1.20 34796 1wxxA 382 9.74e+00 1v54B 227 9.75e+00 b.6.1.2,f.17.2.1 100322,100323 1feuA 206 9.76e+00 1feuA b.53.1.1 59801 1evlA 401 9.87e+00 1qf6A c.51.1.1,d.104.1.1 33202,40751 1uxjA 309 1.01e+01 c.2.1.5,d.162.1.1 108112,108113 2bibA 547 1.03e+01 2d1yA 256 1.03e+01 1mngA 203 1.04e+01 1avmA a.2.11.1,d.44.1.1 15776,38701 1yj7A 171 1.05e+01 1no5A 114 1.05e+01 d.218.1.5 92014 1pc6A 146 1.07e+01 d.262.1.1 94430 1x0rA 249 1.08e+01 1b25A 619 1.08e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 1zy9A 564 1.08e+01 1f7uA 607 1.09e+01 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 59673,59674,59675 1vpt 348 1.09e+01 3mag c.66.1.25 34207 1gp0A 143 1.10e+01 b.64.1.1 70300 1mx3A 347 1.11e+01 c.2.1.4,c.23.12.1 79638,79639 1dgfA 497 1.12e+01 1cf9A e.5.1.1 42782 1f60A 458 1.12e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1o4sA 389 1.12e+01 c.67.1.1 86620 1xxqA 161 1.13e+01 1fj2A 232 1.15e+01 1auoA c.69.1.14 34720 2pgd 482 1.15e+01 2pgd a.100.1.1,c.2.1.6 18778,30190 2c27A 315 1.16e+01 1ywfA 296 1.16e+01 1zd0A 150 1.17e+01 1ur1A 378 1.17e+01 c.1.8.3 99804 1vecA 206 1.17e+01 c.37.1.19 100575 2evrA 246 1.20e+01 1o98A 511 1.20e+01 c.105.1.1,c.76.1.3 86684,86685 1j98A 157 1.24e+01 1j98A d.185.1.2 62755 2bzgA 232 1.25e+01 1cruA 454 1.27e+01 1c9uA b.68.2.1 27617 1gnxA 479 1.29e+01 c.1.8.4 76241 1whsB 153 1.29e+01 1whtB 1uypA 432 1.29e+01 b.29.1.19,b.67.2.3 100176,100177 1v6sA 390 1.32e+01 c.86.1.1 100424 1yacA 208 1.33e+01 1yacA c.33.1.3 31757 1w2tA 432 1.34e+01 1j8mF 297 1.36e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1xzoA 174 1.40e+01 1xmzA 241 1.44e+01 1uz5A 402 1.45e+01 b.85.6.1,b.103.1.1,c.57.1.2 100217,100218,100219 1us0A 316 1.45e+01 c.1.7.1 99850 1whzA 70 1.47e+01 1hyeA 313 1.49e+01 2cmd c.2.1.5,d.162.1.1 61400,61401 2ch4A 320 1.49e+01 1ehs 48 1.50e+01 1ehs g.2.1.1 43998 1eceA 358 1.52e+01 1eceA c.1.8.3 28813 1vemA 516 1.56e+01 1dq3A 454 1.56e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1cs0A 1073 1.57e+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 1gteA 1025 1.58e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 1szoA 257 1.58e+01 c.14.1.3 106164 1jysA 242 1.61e+01 c.56.2.1 77216 1odzA 386 1.61e+01 c.1.8.3 86889 1wkyA 464 1.62e+01 1lw7A 365 1.65e+01 c.26.1.3,c.37.1.1 74295,74296 1hkhA 279 1.67e+01 c.69.1.12 90628 2bl9A 238 1.68e+01 1pg4A 652 1.69e+01 e.23.1.1 88067 1jkmB 361 1.71e+01 1jkmA c.69.1.2 34634 2b99A 156 1.71e+01 1x82A 190 1.71e+01 1vhcA 224 1.73e+01 c.1.10.1 100661 6ldh 330 1.74e+01 3ldh c.2.1.5,d.162.1.1 30161,42128 1rrmA 386 1.74e+01 e.22.1.2 105081 1bbzA 58 1.74e+01 1bbzA b.34.2.1 24477 1hl9A 449 1.76e+01 b.71.1.3,c.1.8.11 90650,90651 1bvyF 191 1.78e+01 1bvyF c.23.5.1 31207 1wcgA 464 1.78e+01 1e0tA 470 1.79e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1xfjA 261 1.80e+01 d.194.1.2 109585 1wekA 217 1.81e+01 1p4cA 380 1.87e+01 c.1.4.1 94100 1dxeA 256 1.87e+01 1dxeA c.1.12.5 29310 2bs3A 656 1.88e+01 1fjhA 257 1.88e+01 1fjhB c.2.1.2 29870 1xv5A 401 1.90e+01 1zbsA 291 1.91e+01 1suwA 249 1.96e+01 e.52.1.1 106027 2gasA 307 1.97e+01 1v8aA 265 1.99e+01 c.72.1.2 100494 1c3mA 147 2.01e+01 1jotA b.77.3.1 27983 1gegA 256 2.08e+01 1ybvA c.2.1.2 29888 2a5lA 200 2.08e+01 2ga9A 297 2.09e+01 2acvA 463 2.10e+01 1qlpA 394 2.12e+01 1ovaA e.1.1.1 42628 1yixA 265 2.13e+01 2fy7A 287 2.14e+01 1nxmA 197 2.14e+01 b.82.1.1 86385 1moq 368 2.17e+01 1moq c.80.1.1 35302 1fsgA 233 2.19e+01 1qk3A c.61.1.1 34029 2f5gA 133 2.28e+01 2a5hA 416 2.30e+01 1mtzA 293 2.30e+01 c.69.1.7 79467 1trb 320 2.32e+01 1trb c.3.1.5,c.3.1.5 30529,30530 1hl2A 297 2.35e+01 c.1.10.1 83581 1xffA 240 2.42e+01 d.153.1.1 109580 1lucB 324 2.47e+01 1lucA c.1.16.1 29548 1ualA 274 2.48e+01 c.116.1.4 88383 1lldA 319 2.52e+01 3ldh c.2.1.5,d.162.1.1 30177,42144 1xgsA 295 2.52e+01 1bn5 a.4.5.25,d.127.1.1 16216,41153 2a5zA 262 2.53e+01 2gnxA 365 2.53e+01 1orc 71 2.54e+01 1orc a.35.1.2 17054 1fvuB 125 2.56e+01 1ixxB d.169.1.1 42346 1ad1A 266 2.57e+01 1aj2 c.1.21.1 29668 2crvA 120 2.59e+01 1r0rE 274 2.59e+01 c.41.1.1 96735 1b93A 152 2.62e+01 1b93A c.24.1.2 31507 1tq4A 413 2.65e+01 c.37.1.8 107201 1hzdA 272 2.67e+01 c.14.1.3 65969 2c31A 568 2.67e+01 1h5bA 113 2.68e+01 1tvdA b.1.1.1 60638 2b0aA 186 2.70e+01 1ir6A 424 2.74e+01 c.107.1.2 71342 1d2fA 390 2.75e+01 1d2fA c.67.1.3 34411 1sw5B 275 2.76e+01 c.94.1.1 106070 1jflA 228 2.76e+01 c.78.2.1,c.78.2.1 71656,71657 1im8A 244 2.78e+01 c.66.1.14 66212 2fp7B 172 2.78e+01 1ct9A 553 2.80e+01 1ct9A c.26.2.1,d.153.1.1 31616,41834 2a97A 439 2.81e+01 1vljA 407 2.85e+01 e.22.1.2 108832 1j93A 353 2.86e+01 c.1.22.1 66454 1y81A 138 2.92e+01 1inlA 296 2.92e+01 c.66.1.17 66220 3pviA 157 2.94e+01 3pviA c.52.1.6 33300 1qf9A 194 2.94e+01 1zin c.37.1.1 31848 1vmeA 410 2.95e+01 c.23.5.1,d.157.1.3 108893,108894 1g61A 228 2.97e+01 1g61A d.126.1.1 41126 1xqwA 293 2.98e+01 1zuwA 272 2.99e+01 1lvmA 229 3.00e+01 b.47.1.3 78243 1fxlA 167 3.00e+01 1b7fA d.58.7.1,d.58.7.1 39183,39184 2f6uA 234 3.01e+01 1vzoA 355 3.03e+01 d.144.1.7 108971 1lucA 355 3.04e+01 1lucA c.1.16.1 29547 1rtu 114 3.06e+01 9rnt d.1.1.4 36139 1ytlA 174 3.07e+01 1owfA 99 3.09e+01 a.55.1.1 87487 1yzfA 195 3.09e+01 2bllA 345 3.09e+01 1nzyA 269 3.12e+01 1nzyA c.14.1.3 30903 1yf3A 259 3.13e+01 1wy5A 317 3.13e+01 1scfA 273 3.14e+01 1exzA a.26.1.2 16873 1kwgA 645 3.18e+01 b.71.1.1,c.1.8.1,c.23.16.5 77561,77562,77563 1vjeA 166 3.18e+01 d.185.1.2 100807 2fmlA 273 3.19e+01 1xvqA 175 3.20e+01 1j0hA 588 3.21e+01 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 1ejxA 100 3.23e+01 d.8.1.1 83182 1n2aA 201 3.25e+01 a.45.1.1,c.47.1.5 91553,91554 1hdiA 413 3.27e+01 16pk c.86.1.1 60964 1aym1 285 3.30e+01 1aym1 1bykA 255 3.31e+01 1bykA c.93.1.1 35706 1yoeA 322 3.32e+01 1ua4A 455 3.34e+01 c.72.1.3 99128 1ydmA 187 3.34e+01 2ex4A 241 3.35e+01 1fzqA 181 3.35e+01 1hurA c.37.1.8 32060 1j1iA 296 3.37e+01 c.69.1.10 83977 2dri 271 3.40e+01 2dri c.93.1.1 35637 1lj8A 493 3.47e+01 a.100.1.9,c.2.1.6 90392,90393 1yp2A 451 3.48e+01 1i9zA 347 3.49e+01 1i9yA d.151.1.2 62102 1t7vA 278 3.53e+01 1u7nA 336 3.56e+01 c.77.1.4 107726 1k5nA 276 3.57e+01 b.1.1.2,d.19.1.1 77266,77267 4eugA 229 3.61e+01 3eugA c.18.1.1 31019 1uk8A 282 3.62e+01 c.69.1.10 107907 2bc4A 211 3.64e+01 1q0rA 298 3.67e+01 c.69.1.28 95508 1r53A 382 3.67e+01 d.258.1.1 97063 1wwkA 307 3.68e+01 1dciA 275 3.77e+01 1dciA c.14.1.3 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