# 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 1debA 54 5.43e-01 1debA h.1.18.1 45660 1yg2A 179 9.20e-01 2aaxA 275 1.30e+00 1pb6A 212 1.80e+00 a.4.1.9,a.121.1.1 88017,88018 1kxu 333 2.10e+00 1jkw a.74.1.1,a.74.1.1 18358,18359 2occF 98 3.02e+00 2occF g.41.5.3 45256 1v54F 98 3.07e+00 g.41.5.3 100327 1sesA 421 3.39e+00 1sesA a.2.7.1,d.104.1.1 15710,40710 1l8dA 112 4.26e+00 h.4.12.1 73687 1p65A 73 4.29e+00 d.254.1.1 94156 1fmhA 33 4.92e+00 1fmhB k.6.1.1 46409 2aucA 126 5.23e+00 1ykhB 132 5.90e+00 1vjxA 157 6.42e+00 a.25.1.1 100837 1ns5A 155 6.43e+00 c.116.1.3 80705 1tmzA 32 6.88e+00 1tmzA k.1.1.1 46376 1t7rA 269 6.99e+00 a.123.1.1 106635 2cb5A 453 7.29e+00 3gcb d.3.1.1 37035 1zw0A 66 7.61e+00 1wmiB 67 8.20e+00 1zt2B 212 8.61e+00 1h99A 224 8.74e+00 a.142.1.1,a.142.1.1 60814,60815 1m12A 84 9.33e+00 a.64.1.1 84745 2fvhA 120 9.44e+00 1ku1A 230 9.52e+00 a.118.3.1 72996 1p4wA 99 9.55e+00 a.4.6.2 87783 4tmkA 213 9.68e+00 5tmpA c.37.1.1 31930 1y0uA 96 9.98e+00 1p9iA 31 1.01e+01 h.1.10.1 94390 1f45B 197 1.01e+01 1f45B a.26.1.1 59642 1nh1A 330 1.07e+01 e.45.1.1 91871 1k28A 584 1.07e+01 b.40.8.1,b.108.1.2,d.2.1.3 68049,68050,68051 1o6zA 303 1.11e+01 c.2.1.5,d.162.1.1 81107,81108 1pmi 440 1.11e+01 1pmi b.82.1.3 28114 1kdxA 81 1.14e+01 1kdxA a.12.1.1 16375 2ax6A 256 1.15e+01 1qgtA 149 1.16e+01 1qgtA a.62.1.1 18135 1xlyA 234 1.23e+01 1w6uA 302 1.25e+01 1m4iA 181 1.29e+01 d.108.1.1 74457 1unlD 208 1.30e+01 2ax9A 256 1.31e+01 1vkeA 133 1.32e+01 a.152.1.2 108650 1oqcA 125 1.42e+01 a.24.15.1 87264 1ihoA 283 1.48e+01 1ihoA c.26.1.4 62390 2ax8A 256 1.50e+01 1gwiA 411 1.51e+01 a.104.1.1 76364 1nfkA 325 1.52e+01 1a3qA b.1.18.1,b.2.5.3 21929,22444 1v3hA 495 1.55e+01 c.1.8.1 108303 2au5A 139 1.56e+01 1h8lA 380 1.59e+01 b.3.2.1,c.56.5.1 65737,65738 1wdpA 495 1.59e+01 1hl9A 449 1.64e+01 b.71.1.3,c.1.8.11 90650,90651 1byb 495 1.65e+01 1byb c.1.8.1 28790 1q6cA 495 1.65e+01 c.1.8.1 95970 1ummA 172 1.68e+01 a.3.1.1 107958 2c8sA 172 1.68e+01 1i37A 260 1.69e+01 1a28A a.123.1.1 61583 1fmhB 33 1.71e+01 1fmhB k.6.1.1 46410 2bcjB 340 1.73e+01 1gotB 340 1.74e+01 1tbgA b.69.4.1 27648 1e3dB 542 1.74e+01 1h2rL e.18.1.1 59189 1iomA 377 1.75e+01 a.103.1.1 83698 2a3qA 170 1.75e+01 2ztaA 34 1.78e+01 2ztaA h.1.3.1 45474 1mwmA 320 1.78e+01 c.55.1.1,c.55.1.1 79580,79581 1ithA 141 1.79e+01 1ithA a.1.1.2 15623 1a48 306 1.80e+01 1a48 d.143.1.1 41590 1ffyA 917 1.81e+01 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 1bcpB 199 1.86e+01 1bcpB b.40.2.1,d.169.1.2 25120,42429 1mtyB 384 1.88e+01 1mtyB a.25.1.2 16740 2az4A 429 1.90e+01 1a8s 273 1.91e+01 1brt c.69.1.12 34710 1e5pA 151 1.93e+01 1bj7 b.60.1.1 59272 1q1gA 276 1.94e+01 c.56.2.1 95574 1q5dA 419 1.95e+01 a.104.1.1 95891 1xesA 413 2.12e+01 1n2eA 300 2.12e+01 c.26.1.4 85268 2a0jA 149 2.13e+01 1d2vC 466 2.13e+01 1mhlC 1cxpC 466 2.13e+01 1mhlC 1h4lD 147 2.19e+01 a.74.1.1 70873 3lynA 136 2.22e+01 1lis a.19.1.1 16413 2ajfA 597 2.23e+01 1lis 136 2.29e+01 1lis a.19.1.1 16406 2lisA 136 2.29e+01 1lis a.19.1.1 16405 1ehyA 294 2.32e+01 1ehyA c.69.1.11 34693 1zmtA 254 2.32e+01 1cpt 412 2.33e+01 1cpt a.104.1.1 18968 1qkkA 155 2.33e+01 1dbwA c.23.1.1 31104 1v9dA 340 2.38e+01 a.207.1.1 100535 1ad1A 266 2.40e+01 1aj2 c.1.21.1 29668 2a84A 300 2.43e+01 2c1iA 431 2.44e+01 1lj2A 110 2.51e+01 h.1.13.2 73926 2ts1 419 2.51e+01 2ts1 c.26.1.1 31564 1eq1A 166 2.56e+01 a.63.1.1 64910 1yxmA 303 2.59e+01 1h2sA 225 2.59e+01 f.13.1.1 76578 1q1vA 70 2.60e+01 a.159.4.1 104479 2etxA 209 2.67e+01 1lml 478 2.68e+01 1lml d.92.1.3 40295 1sedA 117 2.74e+01 a.219.1.1 105449 1tikA 213 2.78e+01 c.23.5.3 107003 1a6jA 163 2.81e+01 1a6jA d.112.1.1 40915 2adoA 196 2.83e+01 1bgc 174 2.90e+01 1bgc a.26.1.1 16822 1pea 385 2.90e+01 1pea c.93.1.1 35662 1kqqA 139 2.93e+01 a.4.3.1 72885 1zmbA 290 2.97e+01 2c1gA 431 2.97e+01 1sb0A 87 3.00e+01 a.12.1.1 98789 1tn4 159 3.00e+01 1ncx a.39.1.5 17248 2cw9A 194 3.01e+01 2eulA 156 3.04e+01 2ftuA 118 3.04e+01 1uvjA 664 3.05e+01 e.8.1.6 100045 1a04A 215 3.10e+01 1a04A a.4.6.2,c.23.1.1 16234,31089 1y8aA 332 3.12e+01 1pwxA 254 3.14e+01 c.2.1.2 95262 1dowA 205 3.16e+01 1dovA a.24.9.1 16626 2coiA 386 3.17e+01 1fxxA 482 3.21e+01 1fxxA c.55.3.5 33726 1chuA 540 3.28e+01 1chuA a.7.3.1,c.3.1.4,d.168.1.1 16325,30424,42307 351c 82 3.33e+01 451c a.3.1.1 15905 451c 82 3.33e+01 451c a.3.1.1 15904 1jmtB 28 3.41e+01 1w4xA 542 3.44e+01 c.3.1.5,c.3.1.5 109171,109172 2f6hX 419 3.44e+01 1qo7A 394 3.45e+01 1qo7A c.69.1.11 34697 1r3dA 264 3.46e+01 2b61A 377 3.53e+01 1obdA 306 3.56e+01 d.143.1.1 86767 2bskB 90 3.57e+01 1zdc 35 3.61e+01 1fc2C k.13.1.1 46434 1mc2A 122 3.68e+01 a.133.1.2 74622 1ofwA 296 3.72e+01 a.138.1.1 92850 1uuqA 440 3.72e+01 c.1.8.3 100015 1j8bA 112 3.74e+01 d.222.1.1 77101 1xeqA 103 3.74e+01 2aplA 157 3.75e+01 1l6xB 34 3.78e+01 k.13.1.1 73644 1itcA 516 3.82e+01 b.3.1.1,c.1.8.1 83705,83706 1s14A 194 3.83e+01 d.122.1.2 98329 1yf2A 425 3.88e+01 2cc0A 195 3.89e+01 1p80A 753 3.89e+01 c.23.16.3,e.5.1.1 94337,94338 2bzsA 236 3.99e+01 1a88A 275 4.02e+01 1brt c.69.1.12 34707 1vemA 516 4.02e+01 2basA 431 4.03e+01 2fpqA 444 4.04e+01 1scfA 273 4.07e+01 1exzA a.26.1.2 16873 1o3uA 135 4.07e+01 a.24.16.3 86615 1xkyA 301 4.08e+01 1ybxA 143 4.14e+01 2cybA 323 4.15e+01 1egwA 77 4.16e+01 1mnmA d.88.1.1 40234 1cf9A 753 4.18e+01 1cf9A c.23.16.3,e.5.1.1 31441,42815 1yovA 537 4.19e+01 1dofA 403 4.22e+01 1c3cA a.127.1.1 19429 1enh 54 4.24e+01 2hddA a.4.1.1 15973 2hddA 61 4.25e+01 2hddA a.4.1.1 15971 1ls9A 91 4.26e+01 a.3.1.1 78177 1a8q 274 4.28e+01 1brt c.69.1.12 34702 1hhsA 664 4.29e+01 1hi0P e.8.1.6 61045 1f83A 425 4.30e+01 1f82A d.92.1.7 40306 1bf6A 291 4.31e+01 1pscA c.1.9.3 29065 1y10A 407 4.32e+01 1f1zA 273 4.33e+01 1f1zA a.4.5.27,c.52.1.16 16081,33334 1vrbA 342 4.38e+01 1qwoA 442 4.43e+01 c.60.1.2 104620 1ad4A 266 4.45e+01 1aj2 c.1.21.1 29670 2fggA 101 4.45e+01 1vhnA 318 4.48e+01 c.1.4.1 100693 2f4wA 187 4.51e+01 1n1jB 97 4.52e+01 a.22.1.3 79814 1ireA 204 4.54e+01 d.149.1.1 76769 1rkeA 262 4.59e+01 a.24.9.1,a.24.9.1 97608,97609 1qkmA 255 4.62e+01 3erdA a.123.1.1 19309 1cb8A 678 4.66e+01 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 1hleA 345 4.70e+01 1ovaA e.1.1.1 42618 1ugpA 203 4.71e+01 d.149.1.1 107831 1ihjA 98 4.76e+01 1pdr b.36.1.1 62382 1jsxA 207 4.76e+01 c.66.1.20 71846 1f5vA 240 4.77e+01 1bkjA d.90.1.1 40255 1pu6A 218 4.79e+01 a.96.1.5 95123 1sg6A 393 4.81e+01 e.22.1.1 105522 1ldjA 760 4.85e+01 a.4.5.34,a.118.17.1,e.40.1.1 73847,73848,73849 1lldA 319 4.86e+01 3ldh c.2.1.5,d.162.1.1 30177,42144 1hm6A 346 4.88e+01 1avc a.65.1.1 18147 1wn0A 145 4.92e+01 2bbsA 290 4.95e+01 1o4sA 389 4.96e+01 c.67.1.1 86620 2mtaC 147 5.01e+01 2mtaC a.3.1.1 15908 1s5lU 134 5.06e+01 1lw9A 164 5.13e+01 d.2.1.3 84727 1p36A 164 5.15e+01 d.2.1.3 93978 1tbmA 326 5.15e+01 a.211.1.2 106744 1tq4A 413 5.24e+01 c.37.1.8 107201 1yhnB 65 5.26e+01 1gotG 73 5.29e+01 1tbgE a.137.3.1 19629 1cq3A 233 5.31e+01 1cq3A b.27.1.1 23923 2givA 295 5.33e+01 1a8rA 221 5.43e+01 1a8rA d.96.1.1 40587 1z2iA 358 5.46e+01 2bykB 128 5.57e+01 119l 164 5.64e+01 1l92 d.2.1.3 36622 1ihp 438 5.75e+01 1ihp c.60.1.2 33993 1mtpA 323 5.76e+01 e.1.1.1 85107 1f1eA 154 5.77e+01 a.22.1.2 64927 1ubkL 534 5.80e+01 e.18.1.1 88422 2es4D 332 5.80e+01 1x4tA 92 5.91e+01 1wrdA 103 5.95e+01 2f4mB 61 5.96e+01 1wuiL 534 5.97e+01 1jdlA 121 5.97e+01 a.3.1.1 66557 1bw0A 416 6.02e+01 1bw0A c.67.1.1 34385 1h2rL 534 6.05e+01 1h2rL e.18.1.1 43298 2gq1A 332 6.10e+01 1lm4A 194 6.10e+01 d.167.1.1 84626 2plc 274 6.11e+01 2plc c.1.18.2 29614 2pvaA 345 6.13e+01 3pvaA d.153.1.3 41850 1m4rA 151 6.15e+01 a.26.1.3 84799 1yspA 181 6.20e+01 1jgjA 217 6.21e+01 1c3wA f.13.1.1 62952 1t01A 255 6.25e+01 a.24.9.1,a.24.9.1 106188,106189 1mg2D 155 6.26e+01 a.3.1.1 79062 1r0wA 286 6.29e+01 c.37.1.12 96754 1pveA 72 6.31e+01 a.189.1.1 104322 1ljoA 77 6.34e+01 b.38.1.1 73941 1euhA 475 6.38e+01 1euhA c.82.1.1 35369 1utuA 108 6.46e+01 1t3uA 104 6.47e+01 d.244.1.1 99120 1jq5A 370 6.48e+01 e.22.1.2 67084 1zx1A 231 6.49e+01 2a6cA 83 6.51e+01 1td6A 306 6.56e+01 2bjfA 329 6.60e+01 2bo4A 397 6.61e+01 1w6sB 74 6.62e+01 1b9hA 388 6.62e+01 1b9hA c.67.1.4 34488 2fk4A 75 6.65e+01 2b1fA 34 6.65e+01 1swyA 164 6.67e+01 1sx7A 164 6.67e+01 1reqB 637 6.67e+01 1reqB c.1.19.1,c.23.6.1 29621,31248 1oe8A 211 6.70e+01 a.45.1.1,c.47.1.5 86905,86906 1mbe 53 6.70e+01 1mbe a.4.1.3 16038 1jqgA 433 6.74e+01 c.56.5.1,d.58.3.1 71791,71792 1n1jA 93 6.79e+01 a.22.1.3 79813 1r4gA 53 6.81e+01 a.8.5.1 96996 1v54M 46 6.87e+01 f.23.7.1 100334 2b3gB 28 6.91e+01 1qnxA 209 6.93e+01 1qnxA d.111.1.1 40914 1u61A 138 6.99e+01 a.149.1.1 107696 2occM 46 7.04e+01 2occM f.23.7.1 43527 1bouA 139 7.06e+01 1bouA a.88.1.1 18521 1vjzA 341 7.13e+01 c.1.8.3 100838 1vk5A 157 7.15e+01 a.220.1.1 108635 2fxaA 207 7.19e+01 1m93A 55 7.20e+01 e.1.1.1 91235 2fbyA 205 7.21e+01 1sr7A 259 7.24e+01 a.123.1.1 105957 1lox 662 7.25e+01 1lox a.119.1.2,b.12.1.1 19238,23638 1dlwA 116 7.26e+01 1dlyA a.1.1.1 14982 2ilk 160 7.31e+01 2ilk a.26.1.3 16885 1yzbA 182 7.33e+01 1sgwA 214 7.33e+01 c.37.1.12 105541 1iw7C 1119 7.43e+01 e.29.1.1 71474 1sh0A 510 7.47e+01 e.8.1.4 98876 1t0fA 276 7.51e+01 1uz3A 102 7.51e+01 1ug6A 431 7.73e+01 c.1.8.4 88490 1a93B 34 7.73e+01 1a93B h.1.3.1 45545 1q3eA 207 7.76e+01 b.82.3.2 95669 1aj8A 371 7.80e+01 1aj8A a.103.1.1 18900 3pvaA 335 7.81e+01 3pvaA d.153.1.3 41854 1o7jA 327 7.87e+01 c.88.1.1 81140 1y7qA 98 7.92e+01 1uedA 406 7.93e+01 a.104.1.1 99256 2bu3A 254 7.96e+01 2ck3A 510 7.98e+01 1ru0A 105 8.05e+01 2bce 581 8.08e+01 2bce c.69.1.1 34625 1oxxK 353 8.09e+01 b.40.6.3,c.37.1.12 93715,93716 1mhyB 395 8.10e+01 1mtyB a.25.1.2 16781 2gf4A 100 8.12e+01 1t3iA 420 8.23e+01 c.67.1.3 106354 1ydiA 263 8.23e+01 1e79A 510 8.27e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18269,26434,32314 1yakA 263 8.31e+01 1e1hA 287 8.34e+01 d.92.1.7 83167 2fcwA 109 8.36e+01 1tp4A 97 8.37e+01 a.189.1.1 107183 1t2bA 397 8.38e+01 1wijA 140 8.38e+01 1xmiA 291 8.39e+01 1f0cA 305 8.40e+01 1c8oA e.1.1.1 42676 1qyiA 384 8.45e+01 c.108.1.13 96595 1w1iE 357 8.55e+01 c.1.9.1 109051 1a3aA 148 8.58e+01 1a3aA d.112.1.1 40917 1ovnA 248 8.59e+01 a.71.1.1,c.47.1.7 93602,93603 1y6nL 145 8.59e+01 1k0dA 260 8.59e+01 a.45.1.1,c.47.1.5 67930,67931 1bl3A 160 8.61e+01 1b9dA c.55.3.2 33655 1eijA 80 8.63e+01 1eijA a.5.6.1 16298 1pueE 89 8.69e+01 1awcA a.4.5.21 16165 1s9rA 410 8.70e+01 d.126.1.4 98758 1yt3A 375 8.70e+01 1l1zA 274 8.72e+01 a.156.1.2,b.113.1.1,g.39.1.8 75911,75912,75913 1a28A 256 8.73e+01 1a28A a.123.1.1 19290 2pvbA 107 8.80e+01 1a75A a.39.1.4 17205 2cruA 118 8.82e+01 1nfvA 179 8.84e+01 a.25.1.1 85642 2cwlA 302 8.86e+01 1g55A 343 8.88e+01 1g55A c.66.1.26 34247 1otfA 62 8.88e+01 1otfA d.80.1.1 39820 1u6zA 513 8.90e+01 1h8eA 510 8.94e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740