# List of top-scoring protein chains for t2k-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 1rtfB 252 2.06e-01 5ptp 1d8iA 311 2.45e+00 1d8iA d.63.1.1 39541 1fjrA 195 3.45e+00 1fjrA b.102.1.1 59855 1a5iA 265 4.17e+00 5ptp b.47.1.2 26331 1d8hA 311 4.23e+00 1d8iA d.63.1.1 39544 1smeA 329 5.02e+00 1smrA b.50.1.2 26885 1tu1A 148 6.49e+00 d.107.1.3 107316 1ly1A 181 6.63e+00 c.37.1.1 74334 1v8fA 276 7.03e+00 c.26.1.4 100503 1b65A 375 7.80e+00 1b65A d.154.1.1 42020 3mdeA 385 8.35e+00 3mdeA a.29.3.1,e.6.1.1 16594,42855 1o0sA 605 9.00e+00 c.2.1.7,c.58.1.3 86540,86541 1ebfA 358 9.19e+00 1ebuA c.2.1.3,d.81.1.2 30033,39948 1lf2A 331 9.46e+00 b.50.1.2 77914 1f5mA 180 1.02e+01 1f5mB d.110.2.1 40895 1f5mB 180 1.04e+01 1f5mB d.110.2.1 40896 1sxvA 172 1.11e+01 1kum 108 1.29e+01 1kum b.3.1.1 22525 1mwwA 128 1.30e+01 d.80.1.4 91483 2bjuA 453 1.37e+01 1ltqA 301 1.39e+01 c.108.1.9,c.37.1.1 78208,78209 1ebuA 358 1.51e+01 1ebuA c.2.1.3,d.81.1.2 30035,39950 2b18A 164 1.58e+01 1pms 136 1.61e+01 1awe b.55.1.1 26966 3proD 166 1.64e+01 3proC d.52.1.1,d.52.1.1 38814,38815 1bb9 115 1.68e+01 1bb9 b.34.2.1 24554 2cfxA 144 1.78e+01 3proC 166 1.78e+01 3proC d.52.1.1,d.52.1.1 38812,38813 1eriA 276 1.78e+01 1ckqA c.52.1.1 33231 1aym3 238 1.80e+01 1aym3 1fxoA 293 1.82e+01 1g0rA c.68.1.6 34524 1ckqA 276 1.87e+01 1ckqA c.52.1.1 33229 1vj0A 380 1.92e+01 b.35.1.2,c.2.1.1 100786,100787 1s31A 273 1.93e+01 1f28A 297 2.01e+01 1bkpA d.117.1.1 59608 1cl8A 276 2.04e+01 1ckqA c.52.1.1 33230 1ibvB 229 2.07e+01 3mddA 385 2.12e+01 3mdeA a.29.3.1,e.6.1.1 16592,42853 1x82A 190 2.14e+01 1ex7A 186 2.17e+01 1gky c.37.1.1 59537 1g0rA 293 2.19e+01 1g0rA c.68.1.6 34532 1qxrA 189 2.19e+01 b.82.1.7 96552 1gky 187 2.19e+01 1gky c.37.1.1 31839 1dmhA 311 2.32e+01 1dmhA b.3.6.1 22633 2b1xA 470 2.33e+01 1pyaB 228 2.43e+01 1pyaB 1y8oB 128 2.46e+01 1c8zA 265 2.49e+01 1c8zA d.23.1.1 38375 1g55A 343 2.50e+01 1g55A c.66.1.26 34247 1aj6 219 2.54e+01 1aj6 d.122.1.2 41106 1dkzA 219 2.58e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 1mrzA 293 2.60e+01 b.43.5.1,c.26.1.3 91452,91453 1dim 381 2.60e+01 3sil b.68.1.1 27544 1uch 230 2.64e+01 1uch d.3.1.6 37129 1b9wA 89 2.64e+01 1b9wA g.3.11.4,g.3.11.4 44334,44335 1ej9A 563 2.64e+01 1a36A d.163.1.2,e.15.1.1 42172,43265 3sil 379 2.65e+01 3sil b.68.1.1 27542 1ogiA 303 2.73e+01 b.43.4.2,c.25.1.1 92914,92915 2sil 381 2.75e+01 3sil b.68.1.1 27543 2bokA 241 2.80e+01 2amg 415 2.81e+01 1jdc b.71.1.1,c.1.8.1 27796,28783 4rhv3 236 2.97e+01 1aym3 1dkxA 219 2.99e+01 1dkzA a.8.4.1,b.130.1.1 90339,90340 1b2rA 304 3.05e+01 1fnc b.43.4.2,c.25.1.1 25648,31538 1que 303 3.07e+01 1fnc b.43.4.2,c.25.1.1 25647,31537 1xw2A 405 3.08e+01 1go2A 304 3.13e+01 b.43.4.2,c.25.1.1 76243,76244 1a31A 538 3.14e+01 1a36A d.163.1.2,e.15.1.1 42170,43263 1awe 130 3.18e+01 1awe b.55.1.1 26968 1ocxA 182 3.22e+01 b.81.1.3 86814 2bsaA 303 3.30e+01 1w34A 304 3.31e+01 1l6sA 323 3.33e+01 c.1.10.3 73627 1dp4A 435 3.45e+01 1dp4A c.93.1.1 35710 1xwtA 405 3.47e+01 2cyeA 133 3.50e+01 1qh0A 295 3.56e+01 b.43.4.2,c.25.1.1 68891,68892 1a35A 538 3.73e+01 1a36A d.163.1.2,e.15.1.1 42171,43264 2b20A 403 3.74e+01 1a36A 592 3.80e+01 1a36A a.2.8.1,d.163.1.2,e.15.1.1 15715,42173,43266 1k4tA 592 3.81e+01 a.2.8.1,d.163.1.2,e.15.1.1 77263,77264,77265 2f1lA 187 3.92e+01 1b4eA 323 3.95e+01 1b4kA c.1.10.3 29186 1gdvA 85 3.97e+01 1ctj a.3.1.1 60458 1qg0A 308 3.99e+01 1fnc b.43.4.2,c.25.1.1 25639,31529 1jltB 122 4.00e+01 a.133.1.2 66868 1g2lA 235 4.07e+01 b.47.1.2 65112 2b5oA 402 4.11e+01 1kdj 102 4.18e+01 1plc b.6.1.1 22864 1aokB 122 4.22e+01 1poa a.133.1.2 19561 1rliA 184 4.47e+01 c.23.5.6 97647 1pvc3 238 4.67e+01 1aym3 1sskA 158 4.89e+01 b.148.1.1 105986 1q9jA 422 5.04e+01 c.43.1.2,c.43.1.2 104590,104591 2axyA 73 5.05e+01 1bcpC 199 5.16e+01 1bcpB b.40.2.1,d.169.1.2 25121,42430 1ak9 275 5.19e+01 1gci c.41.1.1 32517 1w2lA 99 5.20e+01 1ermA 263 5.22e+01 1btl e.3.1.1 42690 1fuiA 591 5.24e+01 1fuiA b.43.2.1,c.85.1.1 25674,35444 1xhbA 472 5.29e+01 1fqgA 263 5.30e+01 1btl e.3.1.1 42699 1h59B 54 5.32e+01 g.3.9.1 70881 1qpsA 261 5.34e+01 1ckqA c.52.1.1 33234 1iw7C 1119 5.35e+01 e.29.1.1 71474 2bkrA 212 5.37e+01 1xd3A 230 5.42e+01 1m40A 263 5.53e+01 e.3.1.1 74437 1ei1A 391 5.54e+01 1aj6 d.14.1.3,d.122.1.2 37570,41104 1eo9B 241 5.55e+01 3pchM b.3.6.1 22826 1ret 43 5.69e+01 1ret a.4.1.2 16024 1n99A 166 5.69e+01 b.36.1.1,b.36.1.1 85459,85460 1btl 263 5.73e+01 1btl e.3.1.1 42691 1cf2O 337 5.88e+01 1b7gO c.2.1.3,d.81.1.1 29994,39909 1tmxA 293 5.88e+01 1fnc 314 6.02e+01 1fnc b.43.4.2,c.25.1.1 25627,31517 2cz2A 223 6.05e+01 1u1zA 168 6.07e+01 d.38.1.6 107602 1o1yA 239 6.16e+01 c.23.16.1 86554 3pchA 200 6.20e+01 3pchA b.3.6.1 22653 1res 43 6.20e+01 1ret a.4.1.2 16023 1hylA 230 6.24e+01 5ptp b.47.1.2 26076 1xl3C 92 6.31e+01 1bx1A 314 6.38e+01 1fnc b.43.4.2,c.25.1.1 25629,31519 1vj2A 126 6.43e+01 b.82.1.10 100796 1dtgA 334 6.44e+01 1nnt c.94.1.2 35896 1jxcA 68 6.44e+01 g.3.7.5 77201 1ifrA 121 6.46e+01 b.1.16.1 71203 1xa1A 255 6.48e+01 e.3.1.1 109529 1d3kA 329 6.55e+01 1nnt c.94.1.2 35889 1qc9A 276 6.66e+01 1ckqA c.52.1.1 33235 1wd3A 482 6.66e+01 b.29.1.21,b.42.8.1 109233,109234 1boeA 47 6.68e+01 1boeA g.3.9.1 44187 1y5eA 169 6.70e+01 1zgoA 223 6.74e+01 1ctj 89 6.74e+01 1ctj a.3.1.1 15798 1xneA 113 6.75e+01 1ggxA 223 6.77e+01 1ggxA d.22.1.1 38367 1xkzA 255 6.80e+01 2blkA 122 6.81e+01 1ryoA 327 6.89e+01 c.94.1.2 98108 1hleA 345 6.89e+01 1ovaA e.1.1.1 42618 1fnb 314 6.91e+01 1fnc b.43.4.2,c.25.1.1 25628,31518 3pcgA 200 6.93e+01 3pchA b.3.6.1 22647 1vm6A 228 7.02e+01 c.2.1.3,d.81.1.3 108876,108877 1zq4A 693 7.11e+01 1ik6A 369 7.12e+01 c.36.1.7,c.48.1.2 66174,66175 1ac0 108 7.26e+01 1kum b.3.1.1 22526 1e79H 146 7.34e+01 1e79H a.2.10.1,b.93.1.1 15721,28438 1aq0A 306 7.42e+01 1aq0A c.1.8.3 28842 1prxB 224 7.43e+01 1prxA c.47.1.10 33077 3pcnA 200 7.45e+01 3pchA b.3.6.1 22725 1a2q 275 7.52e+01 1gci c.41.1.1 32512 1xg8A 111 7.55e+01 1fnd 314 7.57e+01 1fnc b.43.4.2,c.25.1.1 25626,31516 1fadA 99 7.57e+01 1fadA a.77.1.2 18428 1acz 108 7.62e+01 1kum b.3.1.1 22524 1bix 287 7.67e+01 1bix d.151.1.1 41781 1jqfA 334 7.67e+01 c.94.1.2 67086 1qs8A 329 7.70e+01 1smrA b.50.1.2 26887 1fjcA 96 7.89e+01 1fjcA d.58.7.1 39212 1bpr 191 7.91e+01 1dkzA b.130.1.1 43319 1h12A 405 7.94e+01 a.102.1.2 83447 1e19A 314 7.97e+01 1b7bA c.73.1.1 34967 1t46A 313 8.00e+01 d.144.1.7 106397 1hxs3 237 8.01e+01 1fu1A 203 8.07e+01 1fu1B b.59.1.1,h.1.11.1 27076,45630 1a9z 338 8.09e+01 1xel c.2.1.2 29795 1jdc 429 8.09e+01 1jdc b.71.1.1,c.1.8.1 27789,28776 1c9uA 454 8.19e+01 1c9uA b.68.2.1 27623 1aqn 275 8.19e+01 1gci c.41.1.1 32514 1qp8A 303 8.29e+01 1qp8A c.2.1.4,c.23.12.1 30092,31352 1xt9A 212 8.33e+01 1a9y 338 8.34e+01 1xel c.2.1.2 29789 1y8qB 640 8.36e+01 2ffcA 353 8.41e+01 1qu5A 182 8.49e+01 1qu5A b.26.1.2 23922 1j7xA 302 8.54e+01 c.14.1.2 66425 1kvs 338 8.56e+01 1xel c.2.1.2 29799 1a8e 329 8.57e+01 1cb6A c.94.1.2 35888 1gdoB 240 8.62e+01 1gdoA 1udb 338 8.66e+01 1xel c.2.1.2 29787 2bkqA 212 8.70e+01 1xel 338 8.70e+01 1xel c.2.1.2 29786 2aw5A 541 8.70e+01 1ghr 306 8.75e+01 1aq0A c.1.8.3 28844 1pfxC 235 8.75e+01 5ptp b.47.1.2 26353 1vh4A 435 8.77e+01 b.80.6.1 100640 1udc 338 8.80e+01 1xel c.2.1.2 29785 1bawA 105 8.91e+01 1plc b.6.1.1 22868