# List of top-scoring protein chains for t04-100-30-dssp-ebghstl-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 2fe5A 94 4.58e-17 2fneA 117 8.67e-17 2fcfA 103 8.85e-17 1tp5A 119 1.57e-16 1be9A 119 2.07e-16 1pdr b.36.1.1 24774 1g9oA 91 2.09e-16 1pdr b.36.1.1 60400 1qavA 90 2.99e-16 1qauA b.36.1.1 24777 2h2bA 107 1.54e-15 1q3oA 109 4.56e-15 b.36.1.1 95700 1n7eA 97 6.09e-15 b.36.1.1 91691 1ihjA 98 1.31e-14 1pdr b.36.1.1 62382 1n7fA 97 1.91e-14 b.36.1.1 91692 1l6oA 95 3.06e-14 b.36.1.1 84534 1kwaA 88 6.31e-14 1kwaA b.36.1.1 24772 2f0aA 98 1.03e-13 1qauA 112 1.31e-13 1qauA b.36.1.1 24779 1nf3C 128 1.69e-13 b.36.1.1 85596 2h3lA 103 3.37e-13 1mfgA 95 4.06e-13 b.36.1.1 79043 1wf7A 103 5.14e-13 2f5yA 91 1.37e-12 1v5lA 103 3.21e-12 b.36.1.1 108378 1nteA 82 9.48e-12 b.36.1.1 86163 1r6jA 82 1.93e-11 b.36.1.1 97151 1fc6A 388 2.03e-07 1fc6A b.36.1.3,c.14.1.2 64738,64739 1lcyA 325 1.25e-06 b.36.1.4,b.47.1.1 73834,73835 1te0A 318 5.24e-06 1y8tA 324 7.50e-05 1sotA 320 3.78e-03 b.36.1.4,b.47.1.1 105852,105853 1zn8A 180 4.44e-03 1qb7A 236 1.21e-01 1qb7A c.61.1.1 34087 1fxlA 167 3.49e-01 1b7fA d.58.7.1,d.58.7.1 39183,39184 1g2qA 187 5.83e-01 c.61.1.1 65117 1q52A 314 1.02e+00 c.14.1.3 95846 1w30A 201 1.13e+00 1o6dA 163 1.14e+00 c.116.1.3 92567 1n6aA 259 1.51e+00 b.76.2.1,b.85.7.1 80121,80122 1t6t1 118 1.58e+00 1cliA 345 1.72e+00 1cliA d.79.4.1,d.139.1.1 39816,41459 2f69A 261 1.74e+00 1se8A 301 1.91e+00 b.40.4.3 105448 1un8A 552 1.98e+00 c.119.1.2,a.208.1.1 103806,99661 1db3A 372 2.00e+00 1db3A c.2.1.2 29813 1mkmA 249 2.01e+00 a.4.5.33,d.110.2.2 79242,79243 1fr3A 67 2.03e+00 1fr3A b.40.6.1 25436 1h72C 296 2.24e+00 d.14.1.5,d.58.26.1 60712,60713 1fwkA 296 2.45e+00 1fwkA d.14.1.5,d.58.26.1 37576,39398 1vdmA 153 2.46e+00 1h3gA 601 2.82e+00 b.1.18.2,b.71.1.1,c.1.8.1 90594,90595,90596 1xx6A 191 2.96e+00 1y0bA 197 3.04e+00 1fsgA 233 3.06e+00 1qk3A c.61.1.1 34029 1ad3A 452 3.13e+00 1ad3A c.82.1.1 35335 1r13A 148 3.33e+00 d.169.1.1,h.1.1.1 96782,96783 1bx4A 345 4.08e+00 1bx4A c.72.1.1 34935 1ecfA 504 4.10e+00 1ecfB c.61.1.1,d.153.1.1 34053,41820 1cq3A 233 4.14e+00 1cq3A b.27.1.1 23923 2aamA 309 4.14e+00 2bsyA 278 4.18e+00 1l1qA 186 4.21e+00 c.61.1.1 77653 2fvgA 340 4.30e+00 1x3mA 415 4.43e+00 1rl2A 137 4.48e+00 1rl2A b.34.5.3,b.40.4.5 24610,25342 1nonA 179 4.63e+00 c.61.1.1 103868 2fxqA 264 4.75e+00 1fm0E 150 5.71e+00 1fmaE d.41.5.1 38629 1vchA 175 5.87e+00 1vpqA 273 6.12e+00 1yg9A 330 6.16e+00 1ti6A 875 6.32e+00 b.52.2.2,c.81.1.1 106974,106975 1q3iA 214 6.35e+00 d.220.1.1 104524 1o57A 291 6.55e+00 a.4.5.40,c.61.1.1 92483,92484 1xznA 179 6.72e+00 2cwaA 263 7.44e+00 1xmrA 243 7.81e+00 2f9dA 125 7.94e+00 2bnjA 303 7.95e+00 1ukvG 453 8.43e+00 c.3.1.3,c.3.1.3,d.16.1.6 107915,107916,107917 1zh5A 195 8.69e+00 1uc2A 481 8.79e+00 d.261.1.1 99161 1r31A 428 8.99e+00 d.58.20.1,d.179.1.1 96897,96898 2cu5A 129 9.22e+00 1rutX 188 9.30e+00 1l0bA 229 1.01e+01 c.15.1.3,c.15.1.3 73391,73392 1rpxA 230 1.01e+01 1rpxA c.1.2.2 28536 1g57A 217 1.07e+01 1g57A d.115.1.2 60253 2b8tA 223 1.13e+01 1u9yA 284 1.14e+01 1yjmA 110 1.19e+01 1a8y 367 1.22e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1kw4A 89 1.23e+01 a.60.1.2 73077 1vheA 373 1.25e+01 b.49.3.1,c.56.5.4 100669,100670 1rypB 250 1.28e+01 1rypB d.153.1.4 41933 1zsyA 357 1.29e+01 2gm5A 139 1.29e+01 1poiA 317 1.39e+01 1poiA c.124.1.2 34153 2c1lA 358 1.44e+01 1opr 213 1.44e+01 1opr c.61.1.1 34091 1y791 680 1.46e+01 1lh0A 213 1.50e+01 c.61.1.1 73896 1wd5A 208 1.51e+01 1jmuB 666 1.55e+01 1w94A 156 1.58e+01 2c5qA 240 1.60e+01 1iw7C 1119 1.62e+01 e.29.1.1 71474 1lw6I 64 1.68e+01 d.40.1.1 74294 3aprE 325 1.69e+01 2er7E b.50.1.2 26820 1a8vA 121 1.69e+01 1a62 a.140.3.1,b.40.4.5 64712,64713 2b4aA 138 1.69e+01 2bsjA 133 1.69e+01 1wnfA 328 1.70e+01 1i1wA 303 1.73e+01 c.1.8.3 76732 2bcgG 453 1.74e+01 1vqqA 646 1.76e+01 2bhoA 130 1.76e+01 1wlsA 328 1.77e+01 2ghpA 292 1.78e+01 2d4pA 141 1.81e+01 1hgxA 183 1.82e+01 1tc1A c.61.1.1 34027 1yloA 348 1.86e+01 2bw3A 534 1.89e+01 1htrB 329 1.90e+01 1smrA 2f4wA 187 1.91e+01 1zq9A 285 1.95e+01 1zkkA 167 1.96e+01 1uh5A 329 2.06e+01 c.2.1.2 107840 1ltlA 279 2.07e+01 b.40.4.11 84701 2bshA 125 2.08e+01 2iu4A 336 2.11e+01 1jv2B 692 2.15e+01 b.1.15.1,c.62.1.1,d.200.1.1,g.3.11.6,g.3.11.6 67338,67339,67340,67341,67342 1to2I 64 2.16e+01 1fxrA 64 2.18e+01 1fxd d.58.1.4 38993 1cozA 129 2.18e+01 1cozA c.26.1.2 31598 1hw7A 255 2.20e+01 1i7fA d.193.1.1 61297 2bh8A 101 2.25e+01 2cq2A 114 2.25e+01 1zkpA 268 2.27e+01 1a62 130 2.29e+01 1a62 a.140.3.1,b.40.4.5 64708,64709 2apr 325 2.30e+01 2er7E b.50.1.2 26819 1xtmA 175 2.32e+01 2brfA 110 2.36e+01 1qzzA 374 2.39e+01 a.4.5.29,c.66.1.12 96719,96720 1w78A 422 2.39e+01 1yb3A 175 2.39e+01 1bg4 302 2.43e+01 1taxA c.1.8.3 28806 1ta3B 303 2.49e+01 c.1.8.3 106732 1hvyA 288 2.52e+01 1bkpA d.117.1.1 41049 1yy6A 155 2.56e+01 1xv5A 401 2.59e+01 1kk1A 410 2.62e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1ycoA 279 2.65e+01 1mvwB 145 2.67e+01 i.15.1.1 79524 1s29A 92 2.69e+01 a.4.5.46 98373 2abwA 227 2.75e+01 1dmgA 225 2.82e+01 1dmgA c.22.1.1 31036 1bzyA 217 2.86e+01 1qk3A c.61.1.1 34071 1vj0A 380 2.87e+01 b.35.1.2,c.2.1.1 100786,100787 1ypcI 64 2.93e+01 2sniI d.40.1.1 38570 1eyqA 222 2.99e+01 1eypA d.36.1.1 38534 2f6rA 281 3.01e+01 1xtlA 175 3.02e+01 1iscA 192 3.05e+01 1avmA a.2.11.1,d.44.1.1 15733,38726 1vraB 215 3.06e+01 2adcA 229 3.08e+01 1sv6A 269 3.12e+01 d.177.1.1 106043 2fojA 155 3.13e+01 1xdnA 277 3.14e+01 1u3oA 82 3.22e+01 1wvqA 167 3.25e+01 1yezA 68 3.28e+01 2cw8A 537 3.29e+01 1wkyA 464 3.29e+01 4gcr 174 3.40e+01 1amm b.11.1.1,b.11.1.1 23589,23590 1u6bA 98 3.43e+01 d.58.7.1 107703 1urnA 97 3.47e+01 1urnA d.58.7.1 39153 1yqfA 203 3.54e+01 2f51A 118 3.54e+01 1amm 174 3.58e+01 1amm b.11.1.1,b.11.1.1 23587,23588 1tzfA 259 3.58e+01 c.68.1.13 107476 1gg6B 131 3.63e+01 5ptp 1evfA 264 3.66e+01 1bkpA d.117.1.1 40932 2g8oA 264 3.71e+01 2fe7A 166 3.71e+01 1s4iA 175 3.81e+01 1jalA 363 3.82e+01 c.37.1.8,d.15.10.2 84138,84139 1qqqA 264 3.85e+01 1bkpA d.117.1.1 40931 2g8mA 264 3.86e+01 2ptd 298 3.88e+01 2plc c.1.18.2 29605 1oi7A 288 3.90e+01 c.2.1.8,c.23.4.1 87049,87050 1wvhA 134 3.94e+01 1rypH 205 3.98e+01 d.153.1.4 41876 1ifyA 49 3.99e+01 a.5.2.1 71207 1tif 78 4.05e+01 1tif d.15.8.1 37836 1o63A 219 4.06e+01 c.94.1.1 92540 1l5aA 436 4.11e+01 c.43.1.2,c.43.1.2 75923,75924 1npuA 117 4.23e+01 b.1.1.1 92038 1ftkA 279 4.24e+01 1gr2A c.94.1.1 35819 1xebA 150 4.31e+01 1d4oA 184 4.33e+01 1d4oA c.31.1.4 31748 1l7bA 92 4.33e+01 c.15.1.2 91053 1cl1A 395 4.34e+01 1cl2A c.67.1.3 34395 2fb5A 205 4.40e+01 1pz7A 204 4.44e+01 b.29.1.4 95405 1uzcA 71 4.53e+01 a.159.2.1 100222 1earA 147 4.54e+01 b.107.1.1,d.58.38.1 64875,64876 1xfoA 357 4.57e+01 1wyzA 242 4.57e+01 1e0tA 470 4.59e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1g7sA 594 4.59e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 1yioA 208 4.70e+01 1o5oA 221 4.71e+01 c.61.1.1 92509 1wexA 104 4.71e+01 1koe 172 4.71e+01 1koe d.169.1.5 42448 1r62A 160 4.72e+01 d.122.1.3 104816 1e87A 118 4.79e+01 1b6e d.169.1.1 42327 2a6hC 1119 4.80e+01 2ckiA 262 4.85e+01 1sw5A 275 4.88e+01 c.94.1.1 106069 1r7lA 110 4.94e+01 d.277.1.1 104837 1jhfA 202 4.95e+01 a.4.5.2,b.87.1.1 63057,63058 1txvB 440 4.96e+01 1j9qA 341 4.97e+01 1nif b.6.1.3,b.6.1.3 62765,62766 1z47A 355 5.00e+01 1xo3A 101 5.01e+01 1ypvA 313 5.27e+01 1z8gA 372 5.39e+01 1py5A 326 5.43e+01 d.144.1.7 104389 1m8jA 181 5.44e+01 c.26.1.3 84875 1fdr 248 5.45e+01 1fdr b.43.4.2,c.25.1.1 25653,31543 1sflA 238 5.46e+01 1w99A 558 5.51e+01 2fa1A 160 5.56e+01 1dg6A 191 5.56e+01 1d4vB b.22.1.1 23883 1wrvA 308 5.57e+01 1cjbA 231 5.77e+01 1qk3A c.61.1.1 34079 1br9 194 5.78e+01 1br9 b.40.3.1 25235 2bs3A 656 5.79e+01 1uurA 473 5.80e+01 a.47.1.1,b.2.5.5,d.93.1.1 100016,100017,100018 1y0yA 353 5.81e+01 1zn6A 227 5.84e+01 1eaxA 241 5.87e+01 b.47.1.2 64889 2f6uA 234 5.91e+01 1hh1A 143 5.94e+01 1gefA c.52.1.18 61036 2anuA 255 5.94e+01 1xm7A 195 5.94e+01 1qlaA 656 6.00e+01 1qlaA a.7.3.1,c.3.1.4,d.168.1.1 16328,30427,42310 1st0A 337 6.00e+01 d.13.1.3,d.246.1.1 98979,98980 2rslA 140 6.02e+01 2rslA c.53.1.1 33345 1ojhA 65 6.04e+01 a.214.1.1 103976 2f1wA 158 6.12e+01 1igs 248 6.17e+01 1a53 c.1.2.4 28565 1mk4A 157 6.18e+01 d.108.1.1 84979 1id2A 106 6.20e+01 1aac b.6.1.1 62288 1oiaA 95 6.20e+01 d.58.7.1 87051 2bkfA 87 6.23e+01 2cu1A 103 6.24e+01 1g6sA 427 6.26e+01 1eps d.68.2.2 39584 1e5xA 486 6.27e+01 c.79.1.1 59283 2c3zA 222 6.28e+01 1ej2A 181 6.32e+01 1f9aA c.26.1.3 59414 2f9fA 177 6.35e+01 1h65A 270 6.36e+01 c.37.1.8 65640 1zq1C 633 6.36e+01 2cc0A 195 6.41e+01 1ef8A 261 6.44e+01 1ef8A c.14.1.3 30921 1o8bA 219 6.45e+01 c.124.1.4,d.58.40.1 81180,81181 1f6fB 210 6.48e+01 1axiB b.1.2.1,b.1.2.1 22033,22034 1aac 105 6.49e+01 1aac b.6.1.1 22838 1c9oA 66 6.54e+01 1mjc b.40.4.5 25325 1y7lA 316 6.57e+01 2az4A 429 6.59e+01 1a53 247 6.65e+01 1a53 c.1.2.4 28564 1dekA 241 6.79e+01 1dekA c.37.1.1 31842 2ahqA 76 6.79e+01 1sfdA 105 6.82e+01 b.6.1.1 105480 1m65A 245 6.84e+01 c.6.3.1 84847 1gv3A 248 6.85e+01 a.2.11.1,d.44.1.1 70585,70586 1ako 268 6.87e+01 1ako d.151.1.1 41779 1mjc 69 6.89e+01 1mjc b.40.4.5 25319 1bxaA 105 6.89e+01 1aac b.6.1.1 22839 1e5eA 404 6.91e+01 1ibjA c.67.1.3 59265 1zdnA 158 6.98e+01 1eceA 358 6.99e+01 1eceA c.1.8.3 28813 1f3z 161 7.05e+01 1gpr b.84.3.1 28273 1j5pA 253 7.08e+01 d.81.1.3,c.2.1.3 71577,83092 1yz7A 188 7.17e+01 1aozA 552 7.19e+01 1aozA b.6.1.3,b.6.1.3,b.6.1.3 23124,23125,23126 1e2wA 251 7.24e+01 1hcz b.2.6.1,b.84.2.2 22466,28252 2cb4A 291 7.26e+01 1yemA 179 7.27e+01 1tllA 688 7.28e+01 b.43.4.1,c.23.5.2,c.25.1.4 107128,107129,107130 1vzoA 355 7.31e+01 d.144.1.7 108971 1uzvA 114 7.35e+01 1p7tA 731 7.35e+01 c.1.13.1 94319 1gztA 115 7.36e+01 b.115.1.1 76428 2c9wA 169 7.42e+01 1od6A 160 7.44e+01 c.26.1.3 86836 1w9gA 104 7.44e+01 2agcA 162 7.45e+01 1nbwA 607 7.47e+01 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 1oxcA 114 7.47e+01 b.115.1.1 93683 3gcb 470 7.52e+01 3gcb d.3.1.1 37032 1aop 497 7.52e+01 2aop d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39501,39502,41425,41426 1wkvA 389 7.56e+01 1gvhA 396 7.59e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1p2fA 220 7.66e+01 a.4.6.1,c.23.1.1 87720,87721 1mqiA 263 7.68e+01 c.94.1.1 91398 1i7qB 193 7.74e+01 1qdlB c.23.16.1 61902 1gg4A 452 7.75e+01 1gg4A c.59.1.1,c.98.1.1,c.72.2.1 33957,58985,58986 1u09A 476 7.75e+01 e.8.1.4 107545 1r1qA 100 7.77e+01 d.93.1.1 104763 1mjhA 162 7.86e+01 1mjhA c.26.2.4 31639 1f20A 435 7.87e+01 b.43.4.1,c.25.1.4 64932,64933 1h70A 255 7.87e+01 1h70A d.126.1.3 60711 1xtoA 311 7.89e+01 2bb3A 221 7.89e+01 1zybA 232 7.99e+01 1mb3A 124 8.01e+01 c.23.1.1 78907 1x65A 89 8.06e+01 1rxdA 159 8.09e+01 1odkA 235 8.11e+01 c.56.2.1 86863 1jvnA 555 8.16e+01 c.1.2.1,c.23.16.1 67355,67356 1sfjA 238 8.19e+01 1rcqA 357 8.20e+01 b.49.2.2,c.1.6.1 104882,104883 2gwnA 452 8.27e+01 1l1dA 152 8.30e+01 b.88.1.3 73452 1bb9 115 8.31e+01 1bb9 b.34.2.1 24554 2d8aA 348 8.42e+01 1g8aA 227 8.44e+01 c.66.1.3 90506 1tul 108 8.48e+01 1tul b.85.5.1 28373 2g7jA 124 8.50e+01 1in6A 334 8.53e+01 1hqcA a.4.5.11,c.37.1.20 62601,62602 2fnjA 226 8.65e+01 1bxvA 91 8.66e+01 1aac b.6.1.1 22875 1shsA 147 8.70e+01 1shsA b.15.1.1 23675 1nulA 152 8.76e+01 1nulA c.61.1.1 34011 1air 353 8.79e+01 1air b.80.1.1 28018 1n0qA 93 8.81e+01 k.37.1.1 79754 2cxaA 256 8.86e+01 1nwaA 203 8.91e+01 d.58.28.1 86295 1vkmA 297 8.95e+01 c.138.1.1 108670 1nm1G 125 8.97e+01 d.109.1.1 80653 1hzdA 272 8.98e+01 c.14.1.3 65969