# List of top-scoring protein chains for t04-100-40-40-str2+CB_burial_14_7-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 1jogA 146 4.05e-15 a.24.16.2 77142 1o3uA 135 4.54e-02 a.24.16.3 86615 1jdpA 441 6.74e-01 c.93.1.1 62906 1r4wA 226 1.28e+00 unknown_sccs -7447 1oj7A 408 1.48e+00 1q0gA 117 1.52e+00 1mw5A 187 1.56e+00 unknown_sccs -11213 1p3jA 217 1.73e+00 c.37.1.1 -6996 g.41.2.1 -12769 1i50B 1224 1.75e+00 e.29.1.1 61755 1nksA 194 1.80e+00 1nksA c.37.1.1 31886 1s7zA 117 2.19e+00 unknown_sccs -344 1oq9A 363 2.66e+00 a.25.1.2 87257 1m1nA 491 2.69e+00 c.92.2.3 78417 2cxbA 124 2.89e+00 1ycc a.3.1.1 15891 1mb3A 124 3.00e+00 c.23.1.1 78907 1knyA 253 3.06e+00 1knyA a.24.16.1 75896 d.218.1.1 75897 1lvaA 258 3.08e+00 a.4.5.35 74276 a.4.5.35 74277 a.4.5.35 74278 a.4.5.35 74279 1dk8A 147 3.23e+00 1agrE a.91.1.1 18548 1k04A 162 3.54e+00 a.24.14.1 67904 1fpoA 171 3.71e+00 1fpoA a.2.3.1 15693 a.23.1.1 16487 1oohA 126 3.89e+00 a.39.2.1 -884 4crxA 322 3.98e+00 4crxA a.60.9.1 18095 d.163.1.1 42155 1d8bA 81 4.23e+00 1d8bA a.60.8.1 18094 1lfb 99 4.44e+00 1lfb a.4.1.1 15989 1mp4A 292 4.51e+00 c.68.1.6 79376 1icrA 217 4.75e+00 1vfrA d.90.1.1 62274 1apyA 162 4.76e+00 1apyA d.153.1.5 42004 1h96A 182 4.81e+00 2fha a.25.1.1 60811 1khyA 148 4.95e+00 a.174.1.1 77410 1cxc 124 5.23e+00 1ycc a.3.1.1 15890 1t6uA 117 5.23e+00 1jipA 403 5.59e+00 a.104.1.1 66748 1lb3A 182 5.72e+00 a.25.1.1 77873 1hb6A 86 5.93e+00 a.11.1.1 70959 2pgd 482 6.11e+00 2pgd a.100.1.1 18778 c.2.1.6 30190 1iq8A 582 6.32e+00 b.122.1.1 83074 c.1.20.1 71270 d.17.6.1 83075 1ngvA 534 6.62e+00 c.111.1.2 85698 1ufbA 127 7.06e+00 a.24.16.3 -635 1qq5A 253 7.11e+00 1qq5A c.108.1.1 43327 1eexG 173 7.46e+00 1dioG a.23.2.1 16490 1gzsB 165 7.47e+00 a.168.1.1 76425 1l7mA 211 7.82e+00 c.108.1.4 73664 1vkeA 133 7.89e+00 1csn 298 7.94e+00 1csn d.144.1.7 41664 1i50A 1733 8.02e+00 e.29.1.2 61754 1di1A 300 8.23e+00 1di1A a.128.1.4 19446 1fmjA 351 8.29e+00 c.37.1.5 59879 1kkcA 221 8.41e+00 a.2.11.1 68660 d.44.1.1 68661 1rfzA 168 8.74e+00 unknown_sccs -1206 1rxqA 178 8.76e+00 1lis 136 9.02e+00 1lis a.19.1.1 16406 2lisA 136 9.28e+00 1lis a.19.1.1 16405 1ki1B 352 9.47e+00 a.87.1.1 72497 b.55.1.1 72498 1v25A 541 9.53e+00 1miwA 404 9.90e+00 a.173.1.1 79162 d.218.1.4 79163 8abp 306 1.01e+01 8abp c.93.1.1 35647 1o5hA 214 1.03e+01 unknown_sccs -1078 1e4yA 214 1.03e+01 1zin c.37.1.1 31901 g.41.2.1 45181 1ho8A 480 1.06e+01 1ho8A a.118.1.9 61107 1aua 296 1.08e+01 1aua a.5.3.1 16290 c.13.1.1 30882 1ozjA 144 1.13e+01 d.164.1.1 -11537 1l3lA 234 1.14e+01 a.4.6.2 73541 d.110.5.1 73542 1vls 146 1.16e+01 1vls a.24.2.1 16532 1ee4A 423 1.17e+01 1ee4A a.118.1.1 19128 1oxkB 134 1.28e+01 c.23.1.1 -6411 1b43A 340 1.28e+01 1a76 a.60.7.1 18092 c.120.1.2 33362 1qq7A 253 1.31e+01 1qq5A c.108.1.1 43329 1tmy 120 1.32e+01 1dbwA c.23.1.1 31083 1jnyA 435 1.33e+01 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1ssqA 267 1.33e+01 1r5lA 262 1.34e+01 a.5.3.1 -360 c.13.1.1 -6215 1mvoA 136 1.37e+01 c.23.1.1 79513 1vin 268 1.37e+01 1vin a.74.1.1 18354 a.74.1.1 18355 1j97A 211 1.38e+01 1f5sA c.108.1.4 62753 1b8dA 164 1.40e+01 1cpcA a.1.1.3 15665 1xikA 375 1.50e+01 1xikA a.25.1.2 16784 1vicA 262 1.51e+01 c.68.1.13 -8252 1rcd 173 1.53e+01 2fha a.25.1.1 16687 1auiB 169 1.53e+01 1auiB a.39.1.5 17325 1wdcC 156 1.57e+01 1wdcC a.39.1.5 17317 1r03A 182 1.58e+01 1ur3M 319 1.59e+01 c.1.7.1 -5248 1k3yA 221 1.60e+01 a.45.1.1 77245 c.47.1.5 77246 1rkeA 262 1.60e+01 a.24.9.1 -582 a.24.9.1 -583 1g7oA 215 1.65e+01 1g7oA a.45.1.1 60332 c.47.1.5 60333 1oapA 109 1.71e+01 unknown_sccs -10428 1mojA 182 1.72e+01 a.25.1.1 -669 1fjgT 106 1.75e+01 1fjfT a.7.6.1 16338 1mxrA 375 1.78e+01 a.25.1.2 85197 1dpgA 485 1.82e+01 1dpgA c.2.1.3 30074 d.81.1.5 39989 1afrA 345 1.83e+01 1afrA a.25.1.2 16805 1pvaA 110 1.84e+01 1a75A a.39.1.4 17207 1f44A 324 1.87e+01 a.60.9.1 64982 d.163.1.1 64983 1j6zA 376 1.90e+01 1yagA c.55.1.1 62667 c.55.1.1 62668 1qz5A 375 1.90e+01 c.55.1.1 -7590 c.55.1.1 -7591 1qhlA 227 1.91e+01 1qhlA c.37.1.12 32382 1jj2I 145 1.98e+01 1ffkG c.21.1.1 63094 1ukkA 142 2.00e+01 d.227.1.1 -11206 1dat 174 2.01e+01 2fha a.25.1.1 16677 1kxpD 458 2.03e+01 a.126.1.1 73160 a.126.1.1 73161 a.126.1.1 73162 1ci4A 89 2.04e+01 1qckA a.60.5.1 17970 1qgiA 259 2.05e+01 1qgiA d.2.1.7 37001 1v4aA 440 2.08e+01 1cs8A 316 2.09e+01 1cs8A d.3.1.1 37065 1b5tA 275 2.09e+01 1b5tA c.1.23.1 29676 1ccwB 483 2.11e+01 1cb7B c.1.19.2 29646 1d4xA 375 2.15e+01 1yagA c.55.1.1 59107 c.55.1.1 59108 1usgA 346 2.16e+01 c.93.1.1 -8635 1m48A 133 2.23e+01 a.26.1.2 74443 1k8tA 510 2.32e+01 e.41.1.1 68316 1q5zA 177 2.35e+01 unknown_sccs -1215 2lbp 346 2.36e+01 2liv c.93.1.1 35709 1in4A 334 2.39e+01 1hqcA a.4.5.11 62597 c.37.1.20 62598 1ewqA 765 2.42e+01 1ewqA a.113.1.1 19069 c.37.1.12 32383 c.55.6.1 33740 d.75.2.1 39743 1gk9B 557 2.44e+01 2dtr 226 2.44e+01 1bi0 a.4.5.24 16193 a.76.1.1 18399 b.34.1.2 24450 1kl9A 182 2.46e+01 b.40.4.5 72681 1us6A 102 2.50e+01 1qhdA 398 2.57e+01 1qhdA a.115.1.2 63324 b.19.1.1 63325 1qusA 322 2.57e+01 1ltm d.2.1.6 36991 1ccwA 137 2.65e+01 1be1 c.23.6.1 31238 1nu7D 282 2.67e+01 unknown_sccs -433 unknown_sccs -434 1eqjA 511 2.68e+01 1ejjA c.105.1.1 59495 c.76.1.3 59496 1nox 205 2.72e+01 1nox d.90.1.1 40242 1t7pA 698 2.73e+01 1t7pA c.55.3.5 33712 e.8.1.1 43005 1o98A 511 2.73e+01 c.105.1.1 86684 c.76.1.3 86685 1a53 247 2.74e+01 1a53 c.1.2.4 28564 1ezfA 340 2.76e+01 1ezfA a.128.1.2 19440 1ukz 203 2.77e+01 1zin c.37.1.1 31840 1o4wA 147 2.80e+01 c.120.1.1 86629 1fzoA 274 2.88e+01 1agdA b.1.1.2 60155 d.19.1.1 60156 1myt 146 2.91e+01 1a6m a.1.1.2 15207 1sqsA 242 2.94e+01 unknown_sccs -6433 1lvwA 295 2.94e+01 c.68.1.6 84723 1oktA 211 2.95e+01 a.45.1.1 -942 c.47.1.5 -7467 1w0bA 102 2.96e+01 1tdhA 364 2.99e+01 1i1nA 226 3.04e+01 c.66.1.7 71102 1az9 457 3.04e+01 1az9 c.55.2.1 33547 d.127.1.1 41164 1ah7 245 3.05e+01 1ah7 a.124.1.1 19339 1ho1A 242 3.06e+01 1ho1A c.1.24.1 61097 1in6A 334 3.12e+01 1hqcA a.4.5.11 62601 c.37.1.20 62602 1ggzA 148 3.17e+01 a.39.1.5 70176 1rcb 129 3.19e+01 1rcb a.26.1.2 16854 1rxxA 421 3.22e+01 unknown_sccs -10982 1jboB 172 3.23e+01 a.1.1.3 84151 1im8A 244 3.23e+01 c.66.1.14 66212 1amf 233 3.24e+01 1wod c.94.1.1 35833 1dvoA 152 3.24e+01 1dvoA a.136.1.1 19623 1g4yR 148 3.30e+01 1cll a.39.1.5 60252 6gsvA 217 3.37e+01 1b8xA a.45.1.1 17633 c.47.1.5 32925 1g3mA 294 3.39e+01 c.37.1.5 83268 1pea 385 3.41e+01 1pea c.93.1.1 35662 1rx0A 393 3.44e+01 a.29.3.1 -742 e.6.1.1 -11858 1dlyA 164 3.46e+01 1dlyA a.1.1.1 14983 1ui7A 638 3.47e+01 b.30.2.1 -3523 d.17.2.1 -9268 d.17.2.1 -9269 1nz6A 101 3.51e+01 a.2.3.1 86441 1bqbA 301 3.52e+01 1hyt d.92.1.2 58962 1ui8A 638 3.54e+01 b.30.2.1 -3525 d.17.2.1 -9272 d.17.2.1 -9273 1v93A 296 3.54e+01 c.1.23.1 -5654 1pa7A 130 3.55e+01 a.40.1.1 -896 1j6rA 214 3.56e+01 d.173.1.2 71598 1ufyA 122 3.56e+01 d.79.1.2 88489 1eupA 403 3.60e+01 1rom a.104.1.1 18967 1kqpA 271 3.63e+01 c.26.2.1 72883 1dljA 402 3.66e+01 1dliA a.100.1.4 18808 c.2.1.6 30212 c.26.3.1 31621 1bykA 255 3.66e+01 1bykA c.93.1.1 35706 1n3kA 130 3.66e+01 a.77.1.4 79965 1uqvA 85 3.66e+01 a.60.1.2 -1010 1o08A 221 3.69e+01 c.108.1.6 86525 1sig 339 3.69e+01 1sig a.177.1.1 19068 1jbwA 428 3.72e+01 c.59.1.2 62860 c.72.2.2 62861 1fqiA 147 3.73e+01 1agrE a.91.1.1 18542 1i8oA 114 3.74e+01 1ycc a.3.1.1 61979 1sqgA 429 3.74e+01 1dgfA 497 3.74e+01 1cf9A e.5.1.1 42782 1fezA 256 3.75e+01 1fezA c.108.1.3 43343 1uj6A 227 3.80e+01 1q7bA 244 3.83e+01 c.2.1.2 -5826 1l3pA 102 3.86e+01 a.24.17.1 84520 1o6uA 403 3.89e+01 a.5.3.1 -366 unknown_sccs -3048 c.13.1.1 -6221 1riqA 465 3.90e+01 unknown_sccs -1295 d.104.1.1 -10769 1s6yA 450 3.94e+01 1au1A 166 3.99e+01 1ifa a.26.1.3 16889