# List of top-scoring protein chains for t04-100-30-dssp-ebghstl 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 1jogA 146 9.53e-27 a.24.16.2 77142 1dk8A 147 5.50e-02 1agrE a.91.1.1 18548 1b8dA 164 6.04e-02 1cpcA a.1.1.3 15665 1aua 296 7.16e-02 1aua a.5.3.1 16290 c.13.1.1 30882 1s7zA 117 1.39e-01 unknown_sccs -344 1i50B 1224 1.48e-01 e.29.1.1 61755 1rx0A 393 1.55e-01 a.29.3.1 -742 e.6.1.1 -11858 2cxbA 124 2.04e-01 1ycc a.3.1.1 15891 1cxc 124 2.05e-01 1ycc a.3.1.1 15890 1h16A 759 3.05e-01 c.7.1.1 76462 1o3uA 135 5.55e-01 a.24.16.3 86615 1cm5A 759 5.78e-01 1cm5A c.7.1.1 30671 1mb3A 124 7.40e-01 c.23.1.1 78907 1cxzB 86 7.94e-01 1cxzB a.2.6.1 15705 1iw7C 1119 8.01e-01 e.29.1.1 71474 1pa7A 130 8.13e-01 a.40.1.1 -896 1fjgD 209 8.31e-01 1c05A d.66.1.2 39553 1n3kA 130 8.48e-01 a.77.1.4 79965 1js8A 394 8.60e-01 a.86.1.1 67219 b.112.1.1 67220 1jjyA 636 1.14e+00 1jjyA 1su8A 636 1.14e+00 e.26.1.2 -12015 1q08A 99 1.22e+00 a.6.1.3 -381 1qq5A 253 1.29e+00 1qq5A c.108.1.1 43327 1mojA 182 1.32e+00 a.25.1.1 -669 1or7A 194 1.39e+00 a.4.13.2 87332 a.177.1.1 87333 1qq7A 253 1.58e+00 1qq5A c.108.1.1 43329 1icrA 217 1.60e+00 1vfrA d.90.1.1 62274 1rktA 205 1.98e+00 a.4.1.9 -210 a.121.1.1 -1663 1l3lA 234 2.02e+00 a.4.6.2 73541 d.110.5.1 73542 1e4yA 214 2.31e+00 1zin c.37.1.1 31901 g.41.2.1 45181 1e6yB 433 2.47e+00 1mroB a.89.1.1 18535 d.58.31.2 39453 1i8jA 323 2.48e+00 1b4kA c.1.10.3 61968 1qmyA 167 2.61e+00 1qmyA d.3.1.2 37094 1mp4A 292 2.73e+00 c.68.1.6 79376 1nksA 194 2.76e+00 1nksA c.37.1.1 31886 1buoA 121 2.77e+00 1buoA d.42.1.1 38631 1l6sA 323 2.80e+00 c.1.10.3 73627 1m1nA 491 2.90e+00 c.92.2.3 78417 1izmA 184 2.96e+00 unknown_sccs -1233 1k4nA 192 3.00e+00 d.32.1.5 72059 2occE 109 3.05e+00 2occE a.118.11.1 19224 1m6kA 251 3.21e+00 e.3.1.1 78695 1j09A 468 3.27e+00 a.97.1.1 77025 c.26.1.1 77026 1i58A 189 3.41e+00 1b3qA d.122.1.3 61773 1p9bA 442 3.44e+00 c.37.1.10 -7115 1v54E 109 3.52e+00 a.118.11.1 -1652 1fpoA 171 3.55e+00 1fpoA a.2.3.1 15693 a.23.1.1 16487 2a0b 125 3.57e+00 2a0b a.24.10.1 16630 1teaA 299 3.71e+00 1fmjA 351 3.75e+00 c.37.1.5 59879 1miwA 404 3.77e+00 a.173.1.1 79162 d.218.1.4 79163 1qh8A 478 3.84e+00 1qguA c.92.2.3 35633 1bhdA 118 4.06e+00 1bkrA a.40.1.1 17398 1dat 174 4.08e+00 2fha a.25.1.1 16677 2igd 61 4.10e+00 2igd d.15.7.1 37821 1k6wA 426 4.18e+00 b.92.1.2 68236 c.1.9.5 68237 1mvoA 136 4.21e+00 c.23.1.1 79513 2gdm 153 4.23e+00 2gdm a.1.1.2 15212 1rxqA 178 4.43e+00 1k04A 162 4.44e+00 a.24.14.1 67904 4crxA 322 4.89e+00 4crxA a.60.9.1 18095 d.163.1.1 42155 1hrkA 359 4.96e+00 1hrkA c.92.1.1 61228 1dcs 311 5.00e+00 1dcs b.82.2.1 28124 1sqsA 242 5.06e+00 unknown_sccs -6433 1q5zA 177 5.12e+00 unknown_sccs -1215 1lvaA 258 5.20e+00 a.4.5.35 74276 a.4.5.35 74277 a.4.5.35 74278 a.4.5.35 74279 1f74A 293 5.40e+00 1nal3 c.1.10.1 29079 1ir6A 424 5.59e+00 c.107.1.2 71342 7a3hA 303 5.64e+00 7a3hA c.1.8.3 28817 1au1A 166 5.83e+00 1ifa a.26.1.3 16889 1dgfA 497 5.89e+00 1cf9A e.5.1.1 42782 1r8iA 213 6.07e+00 unknown_sccs -411 1dwkA 156 6.28e+00 1dw9A a.35.1.4 17075 d.72.1.1 39606 1b5tA 275 6.31e+00 1b5tA c.1.23.1 29676 1ail 73 6.38e+00 1ail a.16.1.1 16381 1a6m 151 6.47e+00 1a6m a.1.1.2 15018 1ciy 590 6.49e+00 1ciy b.18.1.3 23720 b.77.2.1 27977 f.1.3.1 43392 1n40A 396 6.49e+00 a.104.1.1 79977 1w2wA 211 6.52e+00 1nznA 126 6.53e+00 a.118.8.1 -1616 1jnyA 435 6.61e+00 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1ki1B 352 6.79e+00 a.87.1.1 72497 b.55.1.1 72498 1mi3A 322 7.18e+00 c.1.7.1 -5257 2tct 207 7.28e+00 2tct a.4.1.9 16063 a.121.1.1 19240 1gln 468 7.66e+00 1gln a.97.1.1 18752 c.26.1.1 31588 1amf 233 7.72e+00 1wod c.94.1.1 35833 1v4vA 376 7.93e+00 c.87.1.3 -8583 1knqA 175 8.00e+00 c.37.1.17 72786 1o5hA 214 8.13e+00 unknown_sccs -1078 1jj2L 194 8.23e+00 1ffkI d.12.1.2 63097 1ah7 245 8.25e+00 1ah7 a.124.1.1 19339 1q6hA 224 8.31e+00 d.26.1.1 -9487 1oxkB 134 8.47e+00 c.23.1.1 -6411 1l3pA 102 8.58e+00 a.24.17.1 84520 1rkpA 326 8.72e+00 a.125.1.1 -1729 1q0qA 406 8.80e+00 1cjcA 460 8.93e+00 1cjcA c.3.1.1 30319 c.4.1.1 30604 1d1qA 161 9.07e+00 1dg9A c.44.1.1 32642 1jvsA 400 9.35e+00 a.69.3.1 77187 c.2.1.3 77188 d.81.1.3 77189 3lynA 136 9.56e+00 1lis a.19.1.1 16413 1vhnA 318 9.59e+00 c.1.4.1 -5209 1r6rA 100 9.62e+00 unknown_sccs -1071 1uqvA 85 9.70e+00 a.60.1.2 -1010 1a32 88 1.01e+01 1a32 a.16.1.2 16384 1mjhA 162 1.02e+01 1mjhA c.26.2.4 31639 1hf8A 289 1.05e+01 1hg5A unknown_sccs -399 unknown_sccs -1628 1k8tA 510 1.05e+01 e.41.1.1 68316 1no7A 604 1.10e+01 unknown_sccs -12043 1f44A 324 1.15e+01 a.60.9.1 64982 d.163.1.1 64983 1ockA 412 1.15e+01 c.117.1.1 86802 1fftC 204 1.16e+01 1fftC f.25.1.1 43629 1v4eA 299 1.17e+01 a.128.1.1 -1781 1gxyA 226 1.17e+01 d.166.1.3 76380 1ee4A 423 1.20e+01 1ee4A a.118.1.1 19128 1ccwA 137 1.21e+01 1be1 c.23.6.1 31238 1keaA 221 1.21e+01 a.96.1.2 68491 1b0b 142 1.22e+01 2fal a.1.1.2 15010 1ov2A 99 1.23e+01 a.13.1.1 -457 1wod 233 1.24e+01 1wod c.94.1.1 35832 1o98A 511 1.25e+01 c.105.1.1 86684 c.76.1.3 86685 1jigA 146 1.26e+01 a.25.1.1 71685 1eqjA 511 1.28e+01 1ejjA c.105.1.1 59495 c.76.1.3 59496 1tmy 120 1.29e+01 1dbwA c.23.1.1 31083 1oj7A 408 1.29e+01 1p3jA 217 1.29e+01 c.37.1.1 -6996 g.41.2.1 -12769 1g03A 134 1.30e+01 1qrjB a.73.1.1 60162 1anv 356 1.32e+01 1anv a.54.1.1 17890 g.51.1.1 45365 g.51.1.1 45371 1im8A 244 1.35e+01 c.66.1.14 66212 1uzbA 516 1.37e+01 c.82.1.1 -8552 1jsxA 207 1.38e+01 c.66.1.20 71846 2gsq 202 1.38e+01 1pd21 a.45.1.1 17715 c.47.1.5 33009 1pq9A 253 1.38e+01 a.123.1.1 -1687 1k3yA 221 1.41e+01 a.45.1.1 77245 c.47.1.5 77246 1ngvA 534 1.41e+01 c.111.1.2 85698 1jipA 403 1.44e+01 a.104.1.1 66748 1cpcA 162 1.44e+01 1cpcA a.1.1.3 15643 1vkeA 133 1.44e+01 1m32A 366 1.45e+01 c.67.1.3 78508 1q02A 52 1.47e+01 a.5.2.1 -351 1j4nA 271 1.49e+01 f.19.1.1 71510 1r7aA 504 1.49e+01 b.71.1.1 -4664 c.1.8.1 -5283 1ireB 228 1.52e+01 b.34.4.4 76770 1ugpB 226 1.52e+01 1q0gA 117 1.57e+01 1o26A 232 1.60e+01 d.207.1.1 86566 1g60A 260 1.62e+01 c.66.1.11 70151 1kl7A 514 1.65e+01 c.79.1.1 72678 1rkeA 262 1.67e+01 a.24.9.1 -582 a.24.9.1 -583 1kpsB 171 1.67e+01 a.118.12.1 68787 1ls1A 295 1.69e+01 a.24.13.1 78170 c.37.1.10 78171 1oaiA 59 1.70e+01 a.5.2.3 81255 1iapA 211 1.71e+01 a.91.1.1 62119 1r5lA 262 1.71e+01 a.5.3.1 -360 c.13.1.1 -6215 1o4sA 389 1.72e+01 c.67.1.1 86620 1i7wA 538 1.76e+01 3bct a.118.1.1 61909 1umdA 367 1.77e+01 c.36.1.11 -6969 1brwA 433 1.78e+01 1brwA a.46.2.1 17764 c.27.1.1 31628 d.41.3.1 38626 1e7uA 961 1.78e+01 1e8xA a.118.1.6 19147 b.7.1.1 23182 d.15.1.5 37630 d.144.1.4 41710 1wdgA 94 1.79e+01 1c02A 166 1.80e+01 1qspA a.24.10.2 16633 1at3A 247 1.81e+01 1at3A b.57.1.1 27021 1ui8A 638 1.83e+01 b.30.2.1 -3525 d.17.2.1 -9272 d.17.2.1 -9273 1qgoA 264 1.86e+01 1qgoA c.92.1.2 35596 1nu7D 282 1.89e+01 unknown_sccs -433 unknown_sccs -434 1apyA 162 1.91e+01 1apyA d.153.1.5 42004 2nacA 393 1.91e+01 2nadA c.2.1.4 30088 c.23.12.1 31348 1ebmA 317 1.94e+01 1ebmA a.96.1.3 18751 d.129.1.2 41300 1q1aA 289 1.94e+01 c.31.1.5 -6781 1qlaA 656 1.96e+01 1qlaA a.7.3.1 16328 c.3.1.4 30427 d.168.1.1 42310 1dg9A 157 1.99e+01 1dg9A c.44.1.1 32637 1ui7A 638 2.00e+01 b.30.2.1 -3523 d.17.2.1 -9268 d.17.2.1 -9269 1k38A 254 2.03e+01 e.3.1.1 84303 1ib3A 349 2.05e+01 1ib2A 1pvyA 227 2.05e+01 d.115.1.2 -10937 1uxoA 192 2.08e+01 2fokA 579 2.09e+01 2fokA a.4.5.12 16131 a.4.5.12 16132 a.4.5.12 16133 c.52.1.12 33323 1o9rA 162 2.11e+01 a.25.1.1 86706 1oshA 232 2.11e+01 a.123.1.1 -1697 1dqsA 393 2.11e+01 1dqsA e.22.1.1 43347 1jdhA 529 2.11e+01 a.118.1.1 66549 1fzyA 149 2.12e+01 d.20.1.1 65072 2abk 211 2.18e+01 2abk a.96.1.1 18743 1i39A 225 2.21e+01 1ekeA c.55.3.1 61585 1bykA 255 2.21e+01 1bykA c.93.1.1 35706 1i1nA 226 2.22e+01 c.66.1.7 71102 1iqyA 638 2.24e+01 b.30.2.1 76763 d.17.2.1 76764 d.17.2.1 76765 1f8mA 429 2.24e+01 1dquA c.1.12.7 29315 1f61A 429 2.29e+01 1dquA c.1.12.7 29319 1mo0A 275 2.32e+01 c.1.1.1 79329 1p32A 209 2.35e+01 1p32A d.25.1.1 38379 1rfzA 168 2.35e+01 unknown_sccs -1206 1ls6A 295 2.37e+01 c.37.1.5 -7026 1eupA 403 2.38e+01 1rom a.104.1.1 18967 1h4lD 147 2.38e+01 a.74.1.1 70873 1jalA 363 2.38e+01 c.37.1.8 84138 d.15.10.2 84139 1n1fA 159 2.39e+01 a.26.1.3 79803 1fjgT 106 2.40e+01 1fjfT a.7.6.1 16338 1t7pA 698 2.42e+01 1t7pA c.55.3.5 33712 e.8.1.1 43005 1ib2A 349 2.43e+01 1ib2A a.118.1.8 62141 1gk9B 557 2.45e+01 1r5zA 323 2.45e+01 unknown_sccs -12289 1v9mA 323 2.48e+01 unknown_sccs -12292 1viuA 203 2.52e+01 d.113.1.1 -10889 1allA 160 2.57e+01 1qgwC a.1.1.3 15647 1j8yF 297 2.57e+01 1ng1 a.24.13.1 62747 c.37.1.10 62748 1eexA 554 2.59e+01 1dioA c.1.19.3 29650 1vls 146 2.59e+01 1vls a.24.2.1 16532 1qflA 389 2.61e+01 1afwA c.95.1.1 35908 c.95.1.1 35909 1gvnA 90 2.61e+01 a.8.2.1 76353 2ng1 293 2.65e+01 1ng1 a.24.13.1 16962 c.37.1.10 32273 1ukz 203 2.66e+01 1zin c.37.1.1 31840 1nw1A 429 2.68e+01 d.144.1.8 86286 1kk8B 139 2.69e+01 a.39.1.5 77430 1ho8A 480 2.73e+01 1ho8A a.118.1.9 61107 1jdpA 441 2.73e+01 c.93.1.1 62906 1a0p 290 2.77e+01 1a0p a.60.9.1 18105 d.163.1.1 42165 1vh4A 435 2.78e+01 unknown_sccs -4794 1qwgA 251 2.81e+01 unknown_sccs -5678 1iybA 208 2.82e+01 d.124.1.1 -10977 1gjnA 153 2.84e+01 a.1.1.2 70191 1m3kA 392 2.89e+01 c.95.1.1 78565 c.95.1.1 78566 1ofnA 205 2.90e+01 b.82.1.1 -4830 1oi6A 205 2.90e+01 1lddA 74 2.92e+01 a.4.5.34 73841 1fcjA 322 2.94e+01 1oasA c.79.1.1 35289 1snnA 227 2.94e+01 1vhzA 198 2.96e+01 d.113.1.1 -10897 1m4tA 392 2.97e+01 c.95.1.1 78617 c.95.1.1 78618 1uzcA 71 2.98e+01 a.159.2.1 -339 1j8mF 297 3.00e+01 1ng1 a.24.13.1 62742 c.37.1.10 62743 1ks9A 291 3.08e+01 a.100.1.7 68857 c.2.1.6 68858 1wdcB 156 3.09e+01 1wdcB a.39.1.5 17302 1ozjA 144 3.10e+01 d.164.1.1 -11537 1dwtA 153 3.10e+01 1a6m a.1.1.2 15190 1eexG 173 3.13e+01 1dioG a.23.2.1 16490 1qgtA 149 3.13e+01 1qgtA a.62.1.1 18135 1e8yA 966 3.16e+01 1e8xA a.118.1.6 19152 b.7.1.1 23187 d.15.1.5 37635 d.144.1.4 41715 1c0eA 157 3.17e+01 1dg9A c.44.1.1 32638 1mx3A 347 3.17e+01 c.2.1.4 79638 c.23.12.1 79639 1q06A 135 3.20e+01 a.6.1.3 -375 1hlvA 131 3.20e+01 a.4.1.7 65854 a.4.1.7 65855 1rwhA 757 3.20e+01 a.102.3.2 -1340 b.24.1.1 -3300 b.30.5.2 -3508 1kn1B 161 3.21e+01 a.1.1.3 77456 1q18A 332 3.24e+01 1us6A 102 3.24e+01 1oksA 56 3.24e+01 unknown_sccs -426 1udxA 416 3.30e+01 b.117.1.1 -3546 c.37.1.8 -7101 unknown_sccs -9009 1h6pA 203 3.31e+01 a.146.1.1 60690 1is1A 185 3.31e+01 d.67.3.1 83704 1ntyA 311 3.37e+01 1oniA 137 3.38e+01 d.79.1.1 87144 1qhlA 227 3.42e+01 1qhlA c.37.1.12 32382 1qgrA 876 3.47e+01 1qgrA a.118.1.1 19119 1oi7A 288 3.48e+01 c.2.1.8 87049 c.23.4.1 87050 1i2oA 316 3.51e+01 1onrA c.1.10.1 61574 1rvgA 305 3.51e+01 c.1.10.2 -5500 1avk 638 3.53e+01 1a2vA b.30.2.1 24410 d.17.2.1 38047 d.17.2.1 38048 1mn8A 100 3.54e+01 a.61.1.6 79318 2lbp 346 3.54e+01 2liv c.93.1.1 35709 1rlr 761 3.59e+01 1rlr a.98.1.1 18753 c.7.1.2 30679 1sqgA 429 3.59e+01 1epuA 591 3.63e+01 1dn1A e.25.1.1 43358 1ej2A 181 3.66e+01 1f9aA c.26.1.3 59414 1itcA 516 3.69e+01 b.3.1.1 83705 c.1.8.1 83706 1hwxA 501 3.74e+01 1hwyA c.2.1.7 30250 c.58.1.1 33898 1mijA 152 3.74e+01 a.4.1.1 79150 1ax4A 467 3.80e+01 1ax4A c.67.1.2 34391 1j77A 209 3.81e+01 1j77A a.132.1.2 62674 1lis 136 3.82e+01 1lis a.19.1.1 16406 2lisA 136 3.82e+01 1lis a.19.1.1 16405 1ufiA 64 3.83e+01 unknown_sccs -773 1ezfA 340 3.88e+01 1ezfA a.128.1.2 19440 2ahjA 206 3.89e+01 2ahjA d.149.1.1 41772 1bh9B 89 3.91e+01 1bh9B a.22.1.3 16485 1lw9A 164 3.92e+01 d.2.1.3 84727 1i8oA 114 3.97e+01 1ycc a.3.1.1 61979 1hw1A 239 4.00e+01 1e2xA a.4.5.6 16111 a.78.1.1 18441