# List of top-scoring protein chains for t2k-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 1rtfB 252 4.69e-01 5ptp 1fjrA 195 2.37e+00 1fjrA b.102.1.1 59855 1d8hA 311 2.39e+00 1d8iA d.63.1.1 39544 1d8iA 311 3.07e+00 1d8iA d.63.1.1 39541 1tu1A 148 3.39e+00 d.107.1.3 107316 1ebfA 358 5.79e+00 1ebuA c.2.1.3,d.81.1.2 30033,39948 2bjuA 453 7.16e+00 1lf2A 331 7.38e+00 b.50.1.2 77914 1smeA 329 7.66e+00 1smrA b.50.1.2 26885 1a5iA 265 9.68e+00 5ptp b.47.1.2 26331 1pms 136 9.82e+00 1awe b.55.1.1 26966 1ly1A 181 1.27e+01 c.37.1.1 74334 1ltqA 301 1.28e+01 c.108.1.9,c.37.1.1 78208,78209 1vj0A 380 1.40e+01 b.35.1.2,c.2.1.1 100786,100787 1mwwA 128 1.67e+01 d.80.1.4 91483 1vj2A 126 1.75e+01 b.82.1.10 100796 1dmhA 311 1.77e+01 1dmhA b.3.6.1 22633 1aj6 219 1.93e+01 1aj6 d.122.1.2 41106 2b18A 164 1.98e+01 3proD 166 2.02e+01 3proC d.52.1.1,d.52.1.1 38814,38815 1g55A 343 2.15e+01 1g55A c.66.1.26 34247 1y8oB 128 2.18e+01 1jltB 122 2.20e+01 a.133.1.2 66868 1f5mA 180 2.26e+01 1f5mB d.110.2.1 40895 1f5mB 180 2.26e+01 1f5mB d.110.2.1 40896 1dkzA 219 2.30e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 1dp4A 435 2.42e+01 1dp4A c.93.1.1 35710 1a35A 538 2.44e+01 1a36A d.163.1.2,e.15.1.1 42171,43264 1twuA 139 2.47e+01 d.32.1.8 107413 1qxrA 189 2.58e+01 b.82.1.7 96552 1sxvA 172 2.60e+01 1b9wA 89 2.61e+01 1b9wA g.3.11.4,g.3.11.4 44334,44335 1ckqA 276 2.62e+01 1ckqA c.52.1.1 33229 1bpr 191 2.65e+01 1dkzA b.130.1.1 43319 1x82A 190 2.65e+01 3proC 166 2.74e+01 3proC d.52.1.1,d.52.1.1 38812,38813 1dkxA 219 2.76e+01 1dkzA a.8.4.1,b.130.1.1 90339,90340 1eriA 276 2.78e+01 1ckqA c.52.1.1 33231 1ebuA 358 2.93e+01 1ebuA c.2.1.3,d.81.1.2 30035,39950 1mrzA 293 2.94e+01 b.43.5.1,c.26.1.3 91452,91453 1k4tA 592 2.99e+01 a.2.8.1,d.163.1.2,e.15.1.1 77263,77264,77265 1cl8A 276 3.01e+01 1ckqA c.52.1.1 33230 1iw7C 1119 3.10e+01 e.29.1.1 71474 1qg0A 308 3.16e+01 1fnc b.43.4.2,c.25.1.1 25639,31529 2b20A 403 3.23e+01 1g2qA 187 3.42e+01 c.61.1.1 65117 1fxoA 293 3.43e+01 1g0rA c.68.1.6 34524 1g0rA 293 3.44e+01 1g0rA c.68.1.6 34532 1s31A 273 3.68e+01 1ej9A 563 3.78e+01 1a36A d.163.1.2,e.15.1.1 42172,43265 1dim 381 3.89e+01 3sil b.68.1.1 27544 3sil 379 3.89e+01 3sil b.68.1.1 27542 1kdj 102 4.07e+01 1plc b.6.1.1 22864 2b5oA 402 4.07e+01 3nodB 423 4.07e+01 1nseA d.174.1.1 42513 2sil 381 4.12e+01 3sil b.68.1.1 27543 1gdvA 85 4.13e+01 1ctj a.3.1.1 60458 2cyeA 133 4.17e+01 1qh0A 295 4.18e+01 b.43.4.2,c.25.1.1 68891,68892 1ogiA 303 4.24e+01 b.43.4.2,c.25.1.1 92914,92915 1epbA 164 4.28e+01 1epaA b.60.1.1 27126 1que 303 4.33e+01 1fnc b.43.4.2,c.25.1.1 25647,31537 1xg8A 111 4.36e+01 1aokB 122 4.37e+01 1poa a.133.1.2 19561 1prxA 224 4.37e+01 1prxA c.47.1.10 33076 1b2rA 304 4.38e+01 1fnc b.43.4.2,c.25.1.1 25648,31538 1y5eA 169 4.46e+01 2bvfA 459 4.51e+01 1b65A 375 4.51e+01 1b65A d.154.1.1 42020 1o0sA 605 4.56e+01 c.2.1.7,c.58.1.3 86540,86541 1bcpC 199 4.65e+01 1bcpB b.40.2.1,d.169.1.2 25121,42430 2bsaA 303 4.65e+01 1a31A 538 4.65e+01 1a36A d.163.1.2,e.15.1.1 42170,43263 2cwsA 237 4.68e+01 1w34A 304 4.73e+01 1xl3C 92 4.91e+01 1ret 43 5.13e+01 1ret a.4.1.2 16024 1a36A 592 5.14e+01 1a36A a.2.8.1,d.163.1.2,e.15.1.1 15715,42173,43266 1jxcA 68 5.22e+01 g.3.7.5 77201 1nmmB 286 5.23e+01 c.68.1.2 80662 1u1zA 168 5.32e+01 d.38.1.6 107602 1i8jA 323 5.33e+01 1b4kA c.1.10.3 61968 1b4eA 323 5.35e+01 1b4kA c.1.10.3 29186 1qhbA 596 5.36e+01 1qhbA a.111.1.2 19055 2b1xA 470 5.36e+01 1yroB 286 5.38e+01 1l6sA 323 5.39e+01 c.1.10.3 73627 1fnb 314 5.41e+01 1fnc b.43.4.2,c.25.1.1 25628,31518 1qs8A 329 5.44e+01 1smrA b.50.1.2 26887 1go2A 304 5.47e+01 b.43.4.2,c.25.1.1 76243,76244 1e4eA 343 5.49e+01 1iow c.30.1.2,d.142.1.1 59221,59222 1bawA 105 5.50e+01 1plc b.6.1.1 22868 1awe 130 5.53e+01 1awe b.55.1.1 26968 1udb 338 5.54e+01 1xel c.2.1.2 29787 1uj6A 227 5.58e+01 c.124.1.4,d.58.40.1 107898,107899 2gdnA 267 5.71e+01 1ghr 306 5.72e+01 1aq0A c.1.8.3 28844 1a9y 338 5.72e+01 1xel c.2.1.2 29789 1a9z 338 5.73e+01 1xel c.2.1.2 29795 1o0iA 138 5.75e+01 d.38.1.5 86532 1xhbA 472 5.85e+01 1e79H 146 5.96e+01 1e79H a.2.10.1,b.93.1.1 15721,28438 1xewY 172 6.02e+01 1w2lA 99 6.09e+01 1kvs 338 6.11e+01 1xel c.2.1.2 29799 1bb9 115 6.13e+01 1bb9 b.34.2.1 24554 1udc 338 6.14e+01 1xel c.2.1.2 29785 1aym3 238 6.15e+01 1aym3 1xel 338 6.16e+01 1xel c.2.1.2 29786 1nf5B 286 6.24e+01 c.68.1.2 80454 2blkA 122 6.29e+01 4rhv3 236 6.42e+01 1aym3 1res 43 6.46e+01 1ret a.4.1.2 16023 2b6nA 278 6.48e+01 1sh8A 154 6.53e+01 d.38.1.5 105549 1ibvB 229 6.54e+01 1pztA 286 6.55e+01 c.68.1.2 95470 1m7vA 363 6.57e+01 d.174.1.1 78748 1fnc 314 6.58e+01 1fnc b.43.4.2,c.25.1.1 25627,31517 1fnd 314 6.62e+01 1fnc b.43.4.2,c.25.1.1 25626,31516 1c8zA 265 6.64e+01 1c8zA d.23.1.1 38375 1vm6A 228 6.65e+01 c.2.1.3,d.81.1.3 108876,108877 1kum 108 6.71e+01 1kum b.3.1.1 22525 2udpA 338 6.74e+01 1xel c.2.1.2 29791 1bx1A 314 6.75e+01 1fnc b.43.4.2,c.25.1.1 25629,31519 2bokA 241 6.79e+01 1vh4A 435 6.80e+01 b.80.6.1 100640 1wxxA 382 6.81e+01 1j8wB 273 6.85e+01 1f28A 297 6.85e+01 1bkpA d.117.1.1 59608 1xa1A 255 6.88e+01 e.3.1.1 109529 1kutA 230 6.93e+01 d.143.1.1 73017 1eo9B 241 6.98e+01 3pchM b.3.6.1 22826 1qc9A 276 7.00e+01 1ckqA c.52.1.1 33235 1y8qB 640 7.05e+01 1m0wA 491 7.13e+01 c.30.1.4,d.142.1.6 78363,78364 2cz2A 223 7.13e+01 1uch 230 7.22e+01 1uch d.3.1.6 37129 1kao 167 7.28e+01 1ctqA c.37.1.8 32014 1xd3A 230 7.32e+01 1uyrA 737 7.32e+01 c.14.1.4,c.14.1.4 100188,100189 1cf2O 337 7.33e+01 1b7gO c.2.1.3,d.81.1.1 29994,39909 1pyaB 228 7.40e+01 1pyaB 1cp2A 269 7.42e+01 1cp2A c.37.1.10 32269 1gg3A 279 7.49e+01 1ef1A a.11.2.1,b.55.1.5,d.15.1.4 16372,27007,37615 1q9jA 422 7.56e+01 c.43.1.2,c.43.1.2 104590,104591 1qpsA 261 7.72e+01 1ckqA c.52.1.1 33234 2b4wA 315 7.76e+01 1ryoA 327 7.84e+01 c.94.1.2 98108 1e19A 314 7.87e+01 1b7bA c.73.1.1 34967 1d3kA 329 7.95e+01 1nnt c.94.1.2 35889 1ocxA 182 7.99e+01 b.81.1.3 86814 1tvdA 116 8.09e+01 1tvdA b.1.1.1 20650 1aq0A 306 8.29e+01 1aq0A c.1.8.3 28842 1gppA 237 8.35e+01 b.86.1.2 76262 1ik6A 369 8.36e+01 c.36.1.7,c.48.1.2 66174,66175 1epaA 164 8.40e+01 1epaA b.60.1.1 27128 2ervA 150 8.40e+01 1fgxA 288 8.48e+01 1fgxA c.68.1.2 34508 2axyA 73 8.49e+01 1ex7A 186 8.49e+01 1gky c.37.1.1 59537 1gky 187 8.51e+01 1gky c.37.1.1 31839 1jae 471 8.51e+01 1smd b.71.1.1,c.1.8.1 27773,28760 1bix 287 8.56e+01 1bix d.151.1.1 41781 1t46A 313 8.57e+01 d.144.1.7 106397 1lybA 97 8.59e+01 1smrA b.50.1.2 26857 2apr 325 8.66e+01 2er7E b.50.1.2 26819 2c52B 59 8.67e+01 1b4aA 149 8.75e+01 1b4aA a.4.5.3,d.74.2.1 16088,39721 1ei1A 391 8.81e+01 1aj6 d.14.1.3,d.122.1.2 37570,41104