# List of top-scoring protein chains for t04-100-30-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 1debA 54 2.45e-01 1debA h.1.18.1 45660 1pb6A 212 3.31e-01 a.4.1.9,a.121.1.1 88017,88018 1kxu 333 4.13e-01 1jkw a.74.1.1,a.74.1.1 18358,18359 1yg2A 179 1.02e+00 2aucA 126 1.92e+00 1l8dA 112 2.60e+00 h.4.12.1 73687 1fmhA 33 2.88e+00 1fmhB k.6.1.1 46409 1nh1A 330 3.11e+00 e.45.1.1 91871 1ku1A 230 3.23e+00 a.118.3.1 72996 1xkqA 280 3.34e+00 1p4wA 99 4.17e+00 a.4.6.2 87783 1sesA 421 4.35e+00 1sesA a.2.7.1,d.104.1.1 15710,40710 1h99A 224 4.78e+00 a.142.1.1,a.142.1.1 60814,60815 2aaxA 275 5.08e+00 1pmi 440 5.29e+00 1pmi b.82.1.3 28114 1h4lD 147 5.71e+00 a.74.1.1 70873 1zw0A 66 5.81e+00 1syyA 346 6.70e+00 a.25.1.2 106126 1f45B 197 7.56e+00 1f45B a.26.1.1 59642 1h8lA 380 7.89e+00 b.3.2.1,c.56.5.1 65737,65738 1mwmA 320 7.93e+00 c.55.1.1,c.55.1.1 79580,79581 1p9iA 31 8.12e+00 h.1.10.1 94390 1d2vC 466 8.14e+00 1mhlC 1cxpC 466 8.23e+00 1mhlC 1f83A 425 8.58e+00 1f82A d.92.1.7 40306 1m12A 84 9.78e+00 a.64.1.1 84745 2g09A 297 9.82e+00 2cw9A 194 1.01e+01 1tmzA 32 1.01e+01 1tmzA k.1.1.1 46376 2az4A 429 1.02e+01 1vjxA 157 1.05e+01 a.25.1.1 100837 2bcjB 340 1.06e+01 1m4iA 181 1.07e+01 d.108.1.1 74457 1qgtA 149 1.08e+01 1qgtA a.62.1.1 18135 2bduA 297 1.14e+01 1ehyA 294 1.14e+01 1ehyA c.69.1.11 34693 1nfkA 325 1.16e+01 1a3qA b.1.18.1,b.2.5.3 21929,22444 2adoA 196 1.22e+01 1p65A 73 1.23e+01 d.254.1.1 94156 1qkmA 255 1.23e+01 3erdA a.123.1.1 19309 1unlD 208 1.24e+01 2a3qA 170 1.30e+01 1ymtA 246 1.32e+01 2fvhA 120 1.34e+01 2fggA 101 1.34e+01 1oqcA 125 1.35e+01 a.24.15.1 87264 1v3hA 495 1.42e+01 c.1.8.1 108303 1tikA 213 1.46e+01 c.23.5.3 107003 2b61A 377 1.48e+01 2ts1 419 1.48e+01 2ts1 c.26.1.1 31564 2cb5A 453 1.50e+01 3gcb d.3.1.1 37035 1fmhB 33 1.51e+01 1fmhB k.6.1.1 46410 2ftuA 118 1.55e+01 1gotB 340 1.55e+01 1tbgA b.69.4.1 27648 1qkkA 155 1.60e+01 1dbwA c.23.1.1 31104 2ztaA 34 1.63e+01 2ztaA h.1.3.1 45474 1hl9A 449 1.76e+01 b.71.1.3,c.1.8.11 90650,90651 1ns5A 155 1.79e+01 c.116.1.3 80705 1a48 306 1.82e+01 1a48 d.143.1.1 41590 2c8sA 172 1.84e+01 2occF 98 1.85e+01 2occF g.41.5.3 45256 1ummA 172 1.86e+01 a.3.1.1 107958 1tw9A 206 1.87e+01 a.45.1.1,c.47.1.5 107381,107382 1gwiA 411 1.88e+01 a.104.1.1 76364 1a8s 273 1.89e+01 1brt c.69.1.12 34710 1h2sA 225 1.91e+01 f.13.1.1 76578 2c1gA 431 1.92e+01 1v54F 98 1.93e+01 g.41.5.3 100327 2f6hX 419 1.99e+01 1q1gA 276 1.99e+01 c.56.2.1 95574 1wmiB 67 2.01e+01 1eq1A 166 2.02e+01 a.63.1.1 64910 2etxA 209 2.05e+01 2fcwA 109 2.08e+01 1q1vA 70 2.16e+01 a.159.4.1 104479 2bo4A 397 2.17e+01 351c 82 2.20e+01 451c a.3.1.1 15905 451c 82 2.20e+01 451c a.3.1.1 15904 1y0uA 96 2.22e+01 1o4sA 389 2.33e+01 c.67.1.1 86620 1w4xA 542 2.34e+01 c.3.1.5,c.3.1.5 109171,109172 1ykhB 132 2.34e+01 1obdA 306 2.35e+01 d.143.1.1 86767 2ajfA 597 2.36e+01 1zmbA 290 2.41e+01 2c1iA 431 2.42e+01 1e5pA 151 2.45e+01 1bj7 b.60.1.1 59272 1ffyA 917 2.46e+01 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 1yhnB 65 2.47e+01 2cybA 323 2.51e+01 1t6sA 162 2.55e+01 1ad1A 266 2.59e+01 1aj2 c.1.21.1 29668 2eulA 156 2.66e+01 1y10A 407 2.66e+01 1ihjA 98 2.66e+01 1pdr b.36.1.1 62382 1zdc 35 2.66e+01 1fc2C k.13.1.1 46434 1gm5A 780 2.68e+01 a.24.21.1,b.40.4.9,c.37.1.19,c.37.1.19 65298,65299,65300,65301 2bl0B 145 2.71e+01 1lj2A 110 2.78e+01 h.1.13.2 73926 1vjlA 164 2.80e+01 d.257.1.1 100822 1sauA 115 2.82e+01 1jihA 531 2.85e+01 d.240.1.1,e.8.1.7 90374,90375 4tmkA 213 2.85e+01 5tmpA c.37.1.1 31930 2a0jA 149 2.86e+01 2au5A 139 2.87e+01 1o6zA 303 2.93e+01 c.2.1.5,d.162.1.1 81107,81108 1pveA 72 2.95e+01 a.189.1.1 104322 1wdpA 495 2.97e+01 1q6cA 495 3.03e+01 c.1.8.1 95970 1bw0A 416 3.06e+01 1bw0A c.67.1.1 34385 1nd9A 49 3.08e+01 a.6.1.6 85575 1k28A 584 3.12e+01 b.40.8.1,b.108.1.2,d.2.1.3 68049,68050,68051 1m0wA 491 3.18e+01 c.30.1.4,d.142.1.6 78363,78364 1oj6A 151 3.22e+01 a.1.1.2 93088 1wn0A 145 3.30e+01 1sg0A 230 3.36e+01 1byb 495 3.37e+01 1byb c.1.8.1 28790 1ug7A 128 3.39e+01 a.24.24.1 107824 1txjA 171 3.39e+01 b.88.1.2 107424 2vsgA 358 3.40e+01 2vsgA h.4.1.1 45780 2bzsA 236 3.47e+01 1vemA 516 3.55e+01 1kqqA 139 3.57e+01 a.4.3.1 72885 1xlyA 234 3.65e+01 1a6jA 163 3.74e+01 1a6jA d.112.1.1 40915 1lm4A 194 3.74e+01 d.167.1.1 84626 1mc2A 122 3.77e+01 a.133.1.2 74622 1o3uA 135 3.80e+01 a.24.16.3 86615 1gotG 73 3.80e+01 1tbgE a.137.3.1 19629 1f1eA 154 3.81e+01 a.22.1.2 64927 1rkeA 262 3.82e+01 a.24.9.1,a.24.9.1 97608,97609 1itcA 516 3.82e+01 b.3.1.1,c.1.8.1 83705,83706 2a6cA 83 3.84e+01 1dowA 205 3.86e+01 1dovA a.24.9.1 16626 1foeA 377 3.89e+01 1foeA a.87.1.1,b.55.1.1 18517,26969 1quuA 250 3.94e+01 1quuA a.7.1.1,a.7.1.1 16320,16321 1jmuB 666 3.97e+01 1yviA 149 3.97e+01 1iomA 377 4.02e+01 a.103.1.1 83698 1t7rA 269 4.06e+01 a.123.1.1 106635 1azsA 220 4.07e+01 1azsA d.58.29.1 39416 2sas 185 4.07e+01 2sas a.39.1.5 17258 1lox 662 4.09e+01 1lox a.119.1.2,b.12.1.1 19238,23638 1cf9A 753 4.09e+01 1cf9A c.23.16.3,e.5.1.1 31441,42815 1jgjA 217 4.10e+01 1c3wA f.13.1.1 62952 1cq3A 233 4.12e+01 1cq3A b.27.1.1 23923 1vl6A 388 4.14e+01 c.2.1.7,c.58.1.3 108724,108725 2ax9A 256 4.14e+01 1z5rA 306 4.17e+01 1uuqA 440 4.18e+01 c.1.8.3 100015 1aj8A 371 4.26e+01 1aj8A a.103.1.1 18900 1zvzA 279 4.28e+01 1p80A 753 4.32e+01 c.23.16.3,e.5.1.1 94337,94338 1l6xB 34 4.33e+01 k.13.1.1 73644 1z72A 225 4.35e+01 2mtaC 147 4.37e+01 2mtaC a.3.1.1 15908 1iv8A 720 4.39e+01 b.71.1.1,c.1.8.1 76842,76843 1bgc 174 4.43e+01 1bgc a.26.1.1 16822 2fpqA 444 4.45e+01 1j79A 347 4.46e+01 1j79A c.1.9.4 62675 1k32A 1045 4.46e+01 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 68068,68069,68070,68071 1jmtB 28 4.53e+01 1dc1A 323 4.54e+01 1dc1A c.52.1.11 33321 1z2iA 358 4.54e+01 1lml 478 4.57e+01 1lml d.92.1.3 40295 1itxA 419 4.59e+01 c.1.8.5,d.26.3.1 71425,71426 1vkeA 133 4.60e+01 a.152.1.2 108650 2ax8A 256 4.60e+01 1jsxA 207 4.63e+01 c.66.1.20 71846 1yovA 537 4.64e+01 1v9dA 340 4.66e+01 a.207.1.1 100535 1wb0A 445 4.67e+01 1mg2D 155 4.67e+01 a.3.1.1 79062 1td6A 306 4.72e+01 1ny6A 267 4.74e+01 c.37.1.20 92321 1t3iA 420 4.75e+01 c.67.1.3 106354 1s14A 194 4.76e+01 d.122.1.2 98329 1egwA 77 4.77e+01 1mnmA d.88.1.1 40234 1tbfA 347 4.83e+01 a.211.1.2 106743 1yf2A 425 4.88e+01 1i37A 260 4.90e+01 1a28A a.123.1.1 61583 2ax6A 256 4.96e+01 6paxA 133 4.98e+01 6paxA a.4.1.5,a.4.1.5 64758,64759 1a88A 275 5.00e+01 1brt c.69.1.12 34707 1zx1A 231 5.00e+01 2fdrA 229 5.02e+01 1ybxA 143 5.04e+01 1jj2U 70 5.09e+01 1ffkS a.2.2.1 63106 1llnA 262 5.12e+01 d.165.1.1 84625 1gakA 141 5.13e+01 1gakA a.19.1.1 16415 2coiA 386 5.14e+01 2gq1A 332 5.17e+01 1kdxA 81 5.17e+01 1kdxA a.12.1.1 16375 1s72V 71 5.20e+01 a.2.2.1 105341 1khyA 148 5.27e+01 a.174.1.1 77410 1yj7A 171 5.29e+01 1j8bA 112 5.34e+01 d.222.1.1 77101 2plc 274 5.38e+01 2plc c.1.18.2 29614 1mbe 53 5.44e+01 1mbe a.4.1.3 16038 1h21A 247 5.46e+01 a.138.1.3 76510 1fnuA 221 5.55e+01 3seb b.40.2.2,d.15.6.1 25212,37801 1jgsA 138 5.63e+01 a.4.5.28 66683 2fk4A 75 5.64e+01 1x75A 132 5.68e+01 1vqoV 71 5.69e+01 1r3dA 264 5.77e+01 1pea 385 5.80e+01 1pea c.93.1.1 35662 2au3A 407 5.83e+01 1w6uA 302 5.84e+01 1t01A 255 5.85e+01 a.24.9.1,a.24.9.1 106188,106189 1wrdA 103 5.91e+01 1ldjA 760 5.93e+01 a.4.5.34,a.118.17.1,e.40.1.1 73847,73848,73849 1msk 331 5.99e+01 1msk d.173.1.1 42495 1rfeA 162 6.03e+01 1bf6A 291 6.06e+01 1pscA c.1.9.3 29065 1mtpA 323 6.13e+01 e.1.1.1 85107 1ydiA 263 6.20e+01 2bjfA 329 6.26e+01 1vom 762 6.34e+01 1lvk b.34.3.1,c.37.1.9 24577,32174 1y8aA 332 6.35e+01 1agt 38 6.40e+01 1sco g.3.7.2 44156 1q5dA 419 6.42e+01 a.104.1.1 95891 2pvbA 107 6.46e+01 1a75A a.39.1.4 17205 1ni5A 433 6.52e+01 c.26.2.5,d.229.1.1 80533,80534 2audA 257 6.53e+01 1e3dB 542 6.56e+01 1h2rL e.18.1.1 59189 2f4mB 61 6.66e+01 1x4tA 92 6.71e+01 1xesA 413 6.73e+01 1rylA 167 6.83e+01 d.276.1.1 105124 1f5vA 240 6.90e+01 1bkjA d.90.1.1 40255 1ovlA 271 6.96e+01 a.123.1.1 87455 1jq5A 370 7.03e+01 e.22.1.2 67084 2awiA 317 7.07e+01 1y7qA 98 7.10e+01 1m93A 55 7.10e+01 e.1.1.1 91235 1kd8A 36 7.18e+01 h.1.3.1 68460 1scfA 273 7.18e+01 1exzA a.26.1.2 16873 1iatA 557 7.19e+01 1dqrA c.80.1.2 62123 1m4rA 151 7.22e+01 a.26.1.3 84799 1sflA 238 7.28e+01 1otfA 62 7.30e+01 1otfA d.80.1.1 39820 1rkpA 326 7.31e+01 a.211.1.2 97620 1xl7A 612 7.39e+01 1ggzA 148 7.45e+01 a.39.1.5 70176 1qamA 244 7.53e+01 2ercA c.66.1.24 34220 1t6fA 37 7.55e+01 h.1.28.1 106565 1nfvA 179 7.60e+01 a.25.1.1 85642 1sedA 117 7.67e+01 a.219.1.1 105449 1ui5A 215 7.67e+01 a.4.1.9,a.121.1.1 107856,107857 1wzdA 215 7.67e+01 1qwgA 251 7.67e+01 c.1.27.1 96473 1ofwA 296 7.74e+01 a.138.1.1 92850 1yzxA 226 7.74e+01 1iw0A 215 7.75e+01 a.132.1.1 83720 1hkkA 364 7.77e+01 c.1.8.5,d.26.3.1 90634,90635 1a93B 34 7.77e+01 1a93B h.1.3.1 45545 2c2xA 281 7.80e+01 1lldA 319 7.85e+01 3ldh c.2.1.5,d.162.1.1 30177,42144 2gkpA 167 7.88e+01 1yqyA 523 7.90e+01 1fn9A 365 7.95e+01 1fn9A d.196.1.1 59894 1j1iA 296 7.96e+01 c.69.1.10 83977 1zt2B 212 8.05e+01 1lam 484 8.08e+01 1lam c.50.1.1,c.56.5.3 33166,33829 2bce 581 8.08e+01 2bce c.69.1.1 34625 1xioA 261 8.14e+01 1eexA 554 8.19e+01 1dioA c.1.19.3 29650 1jdlA 121 8.23e+01 a.3.1.1 66557 1s9pA 227 8.28e+01 a.123.1.1 105384 1vp7A 100 8.31e+01 1qf8A 182 8.39e+01 1qf8A g.41.4.1 45212 2basA 431 8.40e+01 1qnxA 209 8.48e+01 1qnxA d.111.1.1 40914 1lvk 762 8.49e+01 1lvk b.34.3.1,c.37.1.9 24576,32173 1ljoA 77 8.49e+01 b.38.1.1 73941 1hm6A 346 8.54e+01 1avc a.65.1.1 18147 1ad4A 266 8.58e+01 1aj2 c.1.21.1 29670 1kicA 339 8.59e+01 c.70.1.1 72510 1dm0A 287 8.64e+01 1dm0A d.165.1.2 42227 1ij2A 34 8.67e+01 h.1.3.1 62474 1w7jB 151 8.74e+01 2fbqA 235 8.75e+01 1swvA 267 8.76e+01 1oy3D 282 8.83e+01 d.211.1.1 87554 1itg 166 8.84e+01 1b9dA c.55.3.2 33661 2fbyA 205 8.94e+01