# List of top-scoring protein chains for t2k-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 1a8s 273 2.30e+00 1brt c.69.1.12 34710 1vk1A 242 2.85e+00 d.268.1.2 108634 1ekfA 365 4.07e+00 1ekfA e.17.1.1 59445 1sayA 361 4.13e+00 1sayA c.2.1.4,c.23.12.2 30102,31362 1kt8A 365 5.18e+00 e.17.1.1 77531 2a1hA 365 5.43e+00 1ktaA 365 5.95e+00 e.17.1.1 77533 1raxA 115 6.36e+00 1lfdA d.15.1.5 37626 1gw5S 142 6.46e+00 d.110.4.2 70633 1lw7A 365 8.18e+00 c.26.1.3,c.37.1.1 74295,74296 1qysA 106 8.88e+00 k.41.1.1 96603 1exqA 154 9.21e+00 1b9dA c.55.3.2 33646 1pjcA 361 9.39e+00 1sayA c.2.1.4,c.23.12.2 30101,31361 1b9dA 163 1.03e+01 1b9dA c.55.3.2 33649 1va4A 279 1.09e+01 c.69.1.12 108458 1hyvA 166 1.09e+01 1b9dA c.55.3.2 61424 1z5rA 306 1.12e+01 1i1dA 161 1.15e+01 1i21A d.108.1.1 61526 1o89A 345 1.17e+01 b.35.1.2,c.2.1.1 92644,92645 1pjbA 361 1.29e+01 1sayA c.2.1.4,c.23.12.2 30103,31363 2fg9A 178 1.35e+01 1i12A 160 1.38e+01 1i21A d.108.1.1 61515 1innA 166 1.43e+01 1j98A d.185.1.2 62608 2coiA 386 1.44e+01 1vjeA 166 1.44e+01 d.185.1.2 100807 2rgf 97 1.52e+01 1lfdA d.15.1.5 37627 1tfr 305 1.66e+01 1tfr a.60.7.1,c.120.1.2 18081,33351 1itg 166 1.80e+01 1b9dA c.55.3.2 33661 1sviA 195 1.86e+01 c.37.1.8 106048 2avnA 260 1.86e+01 1oj4A 283 2.03e+01 d.14.1.5,d.58.26.5 93083,93084 1mfa 247 2.10e+01 1mfa b.1.1.1,b.1.1.1 19888,19889 1lssA 140 2.13e+01 c.2.1.9 74246 1lxdA 100 2.17e+01 1lfdA d.15.1.5 37624 2arzA 247 2.19e+01 1vybA 238 2.20e+01 d.151.1.1 108897 1taq 832 2.27e+01 1taq a.60.7.1,c.120.1.2,c.55.3.5,e.8.1.1 18082,33352,33698,42991 1ift 263 2.31e+01 1mrj d.165.1.1 42211 1wyzA 242 2.33e+01 1ki9A 192 2.39e+01 c.37.1.1 84404 2dddA 225 2.40e+01 1vhmA 195 2.49e+01 d.110.2.1 100691 1i21A 159 2.55e+01 1i21A d.108.1.1 61549 1j24A 143 2.60e+01 c.52.1.20 84008 2fz4A 237 2.63e+01 2itg 163 2.68e+01 1b9dA c.55.3.2 33669 1id1A 153 2.71e+01 1id1A c.2.1.9 62286 1li5B 461 2.79e+01 a.27.1.1,c.26.1.1 73914,73915 2pspA 106 2.80e+01 2pspA g.16.1.1,g.16.1.1 44730,44731 1c4oA 664 2.91e+01 1d2mA c.37.1.19,c.37.1.19 32415,32416 1bl3A 160 2.93e+01 1b9dA c.55.3.2 33655 1ep3A 311 2.96e+01 2dorA c.1.4.1 28597 1a0k 131 3.02e+01 3nul d.110.1.1 40892 1n6zA 105 3.05e+01 d.263.1.1 85369 1ecpA 238 3.06e+01 1ecpA c.56.2.1 33775 1pz7A 204 3.10e+01 b.29.1.4 95405 1tfuA 157 3.10e+01 c.26.1.3 106859 1cqa 133 3.13e+01 3nul d.110.1.1 40890 1xiyA 182 3.14e+01 1rz3A 201 3.15e+01 c.37.1.6 98132 1m1cA 680 3.16e+01 e.42.1.1 78395 1e5dA 402 3.18e+01 1e5dA c.23.5.1,d.157.1.3 31208,42061 1hruA 188 3.23e+01 1hruA d.115.1.1 40926 1tt7A 330 3.34e+01 1eexB 224 3.38e+01 1dioB c.51.3.1 33213 2bifA 469 3.38e+01 1bif c.37.1.7,c.60.1.4 31963,34009 1a3lH 218 3.40e+01 1mfa b.1.1.1,b.1.1.2 20241,21253 2bsyA 278 3.40e+01 3nul 130 3.46e+01 3nul d.110.1.1 40891 1xssA 225 3.46e+01 1i7qB 193 3.53e+01 1qdlB c.23.16.1 61902 1ebuA 358 3.54e+01 1ebuA c.2.1.3,d.81.1.2 30035,39950 3bifA 468 3.54e+01 1bif c.37.1.7,c.60.1.4 31962,34008 1v37A 177 3.59e+01 2bodX 286 3.64e+01 2ghpA 292 3.75e+01 1li5A 461 3.77e+01 a.27.1.1,c.26.1.1 73912,73913 1v9sA 208 3.79e+01 1q67A 231 3.81e+01 b.55.1.7 95960 1k3fA 253 4.09e+01 c.56.2.1 68105 1ebfA 358 4.09e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 1hxhA 253 4.10e+01 c.2.1.2 76725 1zbfA 142 4.12e+01 1y1uA 585 4.14e+01 1h6zA 913 4.16e+01 c.1.12.2,c.8.1.1,d.142.1.5 70906,70907,70908 1z5nA 242 4.18e+01 1h2bA 359 4.26e+01 b.35.1.2,c.2.1.1 90543,90544 1ihcA 188 4.29e+01 1di6A c.57.1.1 62379 1jljA 189 4.29e+01 c.57.1.1 63169 1dioB 224 4.35e+01 1dioB c.51.3.1 33219 1ufkA 254 4.37e+01 c.66.1.39 99340 1rurH 218 4.45e+01 b.1.1.1,b.1.1.2 97879,97880 1cliA 345 4.48e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 2d4pA 141 4.60e+01 1ukfA 188 4.63e+01 d.3.1.10 99488 2h1nA 567 4.64e+01 1z5oA 242 4.68e+01 1onrA 316 4.69e+01 1onrA c.1.10.1 29169 1j6wA 175 4.73e+01 1j98A d.185.1.2 62663 1yqhA 109 4.77e+01 1khyA 148 4.79e+01 a.174.1.1 77410 1xo7A 166 4.82e+01 1iy8A 267 4.87e+01 c.2.1.2 83774 1yvkA 163 4.88e+01 1bif 469 4.95e+01 1bif c.37.1.7,c.60.1.4 31961,34003 1qo7A 394 4.96e+01 1qo7A c.69.1.11 34697 1jysA 242 4.99e+01 c.56.2.1 77216 1aod 289 5.07e+01 2plc c.1.18.2 29615 2plc 274 5.14e+01 2plc c.1.18.2 29614 1zvdA 380 5.14e+01 2a1iA 146 5.15e+01 2d1yA 256 5.16e+01 2fox 138 5.19e+01 5nul c.23.5.1 31197 1pkp 150 5.21e+01 1pkp d.14.1.1,d.50.1.2 37551,38787 1j98A 157 5.21e+01 1j98A d.185.1.2 62755 1okjA 251 5.22e+01 c.55.1.9,c.55.1.9 103998,103999 1y7pA 223 5.27e+01 1ezm 301 5.42e+01 1hyt d.92.1.2 58980 1r5jA 337 5.49e+01 c.77.1.5 97097 1p4cA 380 5.56e+01 c.1.4.1 94100 1huvA 380 5.56e+01 c.1.4.1 61277 1xewX 182 5.63e+01 1kjvB 100 5.71e+01 b.1.1.2 77423 2c3zA 222 5.71e+01 1lfdA 87 5.72e+01 1lfdA d.15.1.5 37622 1q8iA 783 5.74e+01 c.55.3.5,e.8.1.1 96208,96209 1yt3A 375 5.81e+01 1wnaA 131 5.81e+01 1rxyA 253 5.84e+01 c.56.2.1 98065 2a2nA 176 5.86e+01 2es7A 142 5.88e+01 1i2oA 316 5.98e+01 1onrA c.1.10.1 61574 1e79G 272 6.00e+01 1e79G c.49.2.1 33158 1wy1A 172 6.01e+01 1fsu 492 6.01e+01 1auk c.76.1.2 35032 1agdB 99 6.04e+01 1agdB b.1.1.2 20742 1hsbB 99 6.04e+01 1agdB b.1.1.2 20737 1mh3A 421 6.06e+01 a.4.1.1,c.94.1.1 79112,79113 1duzB 100 6.06e+01 1agdB b.1.1.2 20671 1i4fB 100 6.06e+01 1agdB b.1.1.2 61689 1k5nB 100 6.06e+01 b.1.1.2 77268 1mbyA 88 6.12e+01 d.223.1.1 78931 1eb0A 147 6.13e+01 b.107.1.1,d.58.38.1 64890,64891 1q0sA 259 6.13e+01 c.66.1.28 95509 1qdlB 195 6.14e+01 1qdlB c.23.16.1 31437 1earA 147 6.19e+01 b.107.1.1,d.58.38.1 64875,64876 1nksA 194 6.21e+01 1nksA c.37.1.1 31886 1lx7A 253 6.28e+01 c.56.2.1 74329 1l6wA 220 6.29e+01 c.1.10.1 73632 2bogX 286 6.33e+01 1ws6A 171 6.49e+01 1xkqA 280 6.54e+01 1mjuH 227 6.54e+01 b.1.1.1,b.1.1.2 91302,91303 1iieA 75 6.62e+01 1iieA a.109.1.1 19039 1obs 267 6.62e+01 1mrj d.165.1.1 42213 1ao7B 100 6.63e+01 1agdB b.1.1.2 20697 1aw5 326 6.72e+01 1b4kA c.1.10.3 29181 1hw7A 255 6.73e+01 1i7fA d.193.1.1 61297 2bhuA 602 6.73e+01 1laxA 370 6.73e+01 c.94.1.1 84576 1a53 247 6.78e+01 1a53 c.1.2.4 28564 2f5xA 312 6.79e+01 2bl1A 172 6.82e+01 1ryiA 382 6.87e+01 2arkA 188 6.87e+01 2bsxA 253 6.92e+01 1qlmA 316 7.08e+01 1qlmA d.147.1.1 41765 1z4rA 168 7.09e+01 1wrvA 308 7.10e+01 1yx0A 159 7.11e+01 1ug6A 431 7.16e+01 c.1.8.4 88490 1ne2A 200 7.17e+01 c.66.1.32 85586 2bh1X 96 7.19e+01 1keiA 316 7.21e+01 d.92.1.2 77349 1jvbA 347 7.22e+01 b.35.1.2,c.2.1.1 77181,77182 1v74B 87 7.30e+01 a.24.20.1 100443 1iloA 77 7.33e+01 c.47.1.1 66205 1u4gA 301 7.41e+01 d.92.1.2 107670 1ng4A 390 7.41e+01 c.3.1.2,d.16.1.3 85666,85667 1mhcB 99 7.44e+01 1agdB b.1.1.2 20832 1hnoA 280 7.47e+01 1hnoA c.14.1.3 61095 1ve5A 311 7.48e+01 1i1qB 192 7.52e+01 1qdlB c.23.16.1 61544 1t94A 459 7.57e+01 d.240.1.1,e.8.1.7 106701,106702 2gd9A 189 7.59e+01 1fwkA 296 7.61e+01 1fwkA d.14.1.5,d.58.26.1 37576,39398 1ml8A 134 7.62e+01 d.227.1.2 85013 1khtA 192 7.63e+01 c.37.1.1 84401 1i7fA 292 7.67e+01 1i7fA d.193.1.1 61888 1tp9A 162 7.68e+01 1k8kB 394 7.71e+01 c.55.1.1 68307 1pk9A 237 7.79e+01 c.56.2.1 94823 1a41 234 7.81e+01 1a41 d.163.1.2 42174 2ftxA 90 7.81e+01 1jykA 254 7.82e+01 c.68.1.13 67458 1b3jA 274 7.85e+01 1agdA b.1.1.2,d.19.1.1 20855,38319 1pvgA 418 7.85e+01 d.14.1.3,d.122.1.2 95161,95162 1p3dA 475 7.96e+01 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1t6aA 126 8.01e+01 d.129.8.1 106555 1a14H 120 8.02e+01 1mfa b.1.1.1 20061 1ouoA 210 8.03e+01 d.4.1.6 93554 1gqyA 475 8.05e+01 c.5.1.1,c.59.1.1,c.72.2.1 83305,83306,83307 1ypfA 336 8.08e+01 1hnuA 280 8.19e+01 1hnoA c.14.1.3 61096 1zu4A 320 8.22e+01 1y1pA 342 8.25e+01 1o0xA 262 8.30e+01 d.127.1.1 80755 1a9nA 176 8.31e+01 1a9nA c.10.2.4 30875 1i4wA 353 8.34e+01 c.66.1.24 66028 1h5vA 304 8.34e+01 c.1.8.3 70898 1q6zA 528 8.37e+01 1up7A 417 8.38e+01 2a6tA 271 8.40e+01 1yqdA 366 8.41e+01 1tvnA 293 8.46e+01 1v77A 212 8.47e+01 c.6.3.2 108402 1ujmA 342 8.54e+01 1h75A 81 8.58e+01 1h75A c.47.1.1 60716 1g4uS 383 8.62e+01 1g4uS a.24.11.1,c.45.1.2 16643,32691 2bleA 367 8.65e+01 1bfd 528 8.67e+01 1bfd c.31.1.3,c.36.1.5,c.36.1.9 31745,31801,31802 1gp4A 356 8.68e+01 b.82.2.1 65439 1tqzA 133 8.73e+01 1pjhA 280 8.76e+01 c.14.1.3 94761 1kllA 130 8.87e+01 d.32.1.2 72720 1skyE 473 8.95e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 18314,26479,32359 1h72C 296 8.95e+01 d.14.1.5,d.58.26.1 60712,60713 2f1wA 158 8.98e+01 1ktgA 138 8.98e+01 d.113.1.1 72972 1hqsA 423 9.00e+01 1iso c.77.1.1 61154