# List of top-scoring protein chains for T0341.t2k-w0.5 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 1zjjA 263 9.27e-33 1yv9A 264 2.87e-32 1ys9A 254 9.69e-32 1wviA 257 2.91e-31 1vjrA 271 4.10e-31 c.108.1.14 100832 1ydfA 257 4.32e-31 1pw5A 253 1.68e-30 c.108.1.14 95199 2c4nA 250 1.44e-29 2gfhA 260 3.62e-25 1x42A 232 1.84e-22 2ah5A 210 6.74e-19 2go7A 207 7.40e-16 2b0cA 206 8.43e-16 1jud 232 1.73e-15 1qq5A c.108.1.1 43325 2fdrA 229 1.87e-15 1zrn 232 2.79e-15 1qq5A c.108.1.1 43323 1te2A 226 8.06e-15 c.108.1.6 106792 1o08A 221 1.79e-14 c.108.1.6 86525 1zd3A 555 5.78e-14 1aq6A 253 1.60e-13 1qq5A c.108.1.1 43331 1qq5A 253 1.64e-13 1qq5A c.108.1.1 43327 1cr6A 554 3.77e-13 1cr6B c.69.1.11,c.108.1.2 34687,43337 1qq7A 253 7.73e-13 1qq5A c.108.1.1 43329 2fi1A 190 1.32e-12 1rqlA 267 1.13e-11 c.108.1.3 97750 1fezA 256 1.32e-11 1fezA c.108.1.3 43343 1rdfA 267 1.48e-11 c.108.1.3 104884 1qyiA 384 3.63e-11 c.108.1.13 96595 1swvA 267 8.44e-11 1l7mA 211 7.95e-09 c.108.1.4 73664 1j97A 211 4.33e-08 1f5sA c.108.1.4 62753 1l7pA 211 6.99e-08 c.108.1.4 73670 1wr8A 231 3.34e-07 1u7pA 164 3.47e-05 1k1eA 180 4.22e-05 c.108.1.5 67995 1rkqA 282 4.97e-05 c.108.1.10 97621 1nnlA 225 5.19e-05 c.108.1.4 85906 1l8lA 225 5.82e-05 c.108.1.4 84562 2g80A 253 7.38e-05 1nf2A 268 7.51e-05 c.108.1.10 91849 1yj5A 383 3.24e-04 2b8eA 273 5.07e-04 2feaA 236 7.04e-04 1ymqA 261 1.16e-03 2bdeA 470 1.63e-03 1rlmA 271 2.48e-03 2b30A 301 5.67e-03 1xviA 275 5.97e-03 1rloA 271 2.10e-02 1zs9A 261 2.16e-02 1nrwA 288 2.52e-02 c.108.1.10 86128 1ltqA 301 2.65e-02 c.108.1.9,c.37.1.1 78208,78209 1z88A 214 3.18e-01 1z5gA 214 3.73e-01 1xbtA 193 4.52e-01 1wzcA 249 4.65e-01 2b82A 211 4.73e-01 1rmtA 212 4.77e-01 1w4rA 195 5.21e-01 1ly1A 181 5.53e-01 c.37.1.1 74334 1xpjA 126 5.75e-01 1jzdA 220 6.82e-01 c.47.1.9,d.17.3.1 84257,84258 1pz1A 333 6.85e-01 c.1.7.1 95390 1jzoA 216 6.85e-01 c.47.1.9,d.17.3.1 84267,84268 1eejA 216 7.18e-01 1eejA c.47.1.9,d.17.3.1 33057,38071 2gseA 501 9.54e-01 1sauA 115 1.04e+00 1hg3A 225 1.23e+00 1hg3A c.1.1.1 61025 2briA 225 1.26e+00 2bmuA 226 1.28e+00 1x0lA 333 1.92e+00 2fueA 262 1.94e+00 1gs5A 258 1.95e+00 c.73.1.2 70395 2brxA 244 2.08e+00 2b8tA 223 2.18e+00 2amyA 246 2.25e+00 1xmrA 243 2.40e+00 1q92A 197 2.43e+00 c.108.1.8 96250 1r4vA 171 2.44e+00 a.197.1.1 97049 1moq 368 3.66e+00 1moq c.80.1.1 35302 2gbp 309 3.83e+00 1gca c.93.1.1 35657 1ea6A 364 3.98e+00 d.14.1.3,d.122.1.2 64871,64872 1h7sA 365 4.01e+00 d.14.1.3,d.122.1.2 65705,65706 1o1zA 234 4.32e+00 c.1.18.3 86555 3gbp 307 4.56e+00 1gca c.93.1.1 35661 1gca 309 4.58e+00 1gca c.93.1.1 35659 2bpjA 608 4.60e+00 2bplA 608 4.67e+00 1rkuA 206 4.81e+00 c.108.1.11 97627 1j3nA 408 4.99e+00 c.95.1.1,c.95.1.1 84074,84075 2anuA 255 5.05e+00 1kfiA 572 5.70e+00 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 68555,68556,68557,68558 1qv9A 283 6.40e+00 c.127.1.1 96356 1tjyA 316 6.54e+00 c.93.1.1 107062 1u02A 239 6.66e+00 c.108.1.15 107538 2g09A 297 7.44e+00 1mlwA 301 7.67e+00 d.178.1.1 79289 1ndaA 491 7.68e+00 3grs c.3.1.5,c.3.1.5,d.87.1.1 30525,30526,40194 1ewkA 490 7.99e+00 1ewkA c.93.1.1 35712 1ynpA 317 8.07e+00 1l6rA 227 8.42e+00 c.108.1.10 77768 1xx6A 191 8.47e+00 1s2oA 244 8.71e+00 1bzlA 486 9.57e+00 3grs c.3.1.5,c.3.1.5,d.87.1.1 30521,30522,40192 1aogA 485 9.60e+00 3grs c.3.1.5,c.3.1.5,d.87.1.1 30517,30518,40190 1gxfA 492 9.71e+00 c.3.1.5,c.3.1.5,d.87.1.1 90527,90528,90529 1w7pD 566 9.85e+00 1n3kA 130 1.02e+01 a.77.1.4 79965 1vzwA 244 1.05e+01 1ng1 294 1.11e+01 1ng1 a.24.13.1,c.37.1.10 16961,32272 1ls1A 295 1.12e+01 a.24.13.1,c.37.1.10 78170,78171 1jpnA 296 1.12e+01 a.24.13.1,c.37.1.10 67039,67040 1o87A 297 1.13e+01 a.24.13.1,c.37.1.10 92640,92641 1k7cA 233 1.18e+01 c.23.10.4 68267 1wv2A 265 1.21e+01 2g07A 297 1.26e+01 1pyfA 312 1.30e+01 c.1.7.1 95334 2ng1 293 1.35e+01 1ng1 a.24.13.1,c.37.1.10 16962,32273 1ffh 294 1.36e+01 1ng1 a.24.13.1,c.37.1.10 16960,32271 1rj9B 300 1.38e+01 a.24.13.1,c.37.1.10 97555,97556 1vpe 398 1.47e+01 16pk c.86.1.1 35453 1l9aA 87 1.71e+01 d.201.1.1 73710 2g3mA 693 1.74e+01 1p32A 209 1.78e+01 1p32A d.25.1.1 38379 1xlmA 394 1.78e+01 4xis c.1.15.3 29441 1xlaA 394 1.82e+01 4xis c.1.15.3 29445 1wndA 495 1.88e+01 1whnA 128 1.89e+01 4xiaA 393 1.89e+01 4xis c.1.15.3 29439 1jr6A 142 2.01e+01 c.37.1.14 71821 1uekA 275 2.01e+01 d.14.1.5,d.58.26.5 88483,88484 1m5yA 408 2.18e+01 a.167.1.1,d.26.1.1,d.26.1.1 78664,78665,78666 1zuoA 186 2.22e+01 1wpgA 994 2.23e+01 1v4vA 376 2.26e+01 c.87.1.3 100313 1wqaA 455 2.34e+01 1vyhC 410 2.40e+01 1lngA 87 2.41e+01 d.201.1.1 74045 1nriA 306 2.48e+01 c.80.1.3 86123 1cfzA 162 2.52e+01 1cfzA c.56.1.1 33754 1k78A 149 2.53e+01 a.4.1.5,a.4.1.5 68255,68256 1q7zA 566 2.63e+01 c.1.21.2,c.1.26.1 96090,96091 2cvjA 180 2.68e+01 1vbjA 281 2.93e+01 2fviA 301 2.95e+01 2bogX 286 2.96e+01 1ukhA 369 2.99e+01 d.144.1.7 107913 1x18X 292 3.02e+01 1egaA 301 3.04e+01 1egaA c.37.1.8,d.52.3.1 32150,38836 1jw1A 689 3.09e+01 c.94.1.2,c.94.1.2 84234,84235 1w78A 422 3.10e+01 1smqA 399 3.12e+01 a.25.1.2 105766 2aamA 309 3.13e+01 1jk0A 419 3.14e+01 a.25.1.2 63142 1itzA 675 3.19e+01 c.36.1.10,c.36.1.6,c.48.1.1 76797,76798,76799 2bodX 286 3.25e+01 1gsoA 431 3.59e+01 1gsoA b.84.2.1,c.30.1.1,d.142.1.2 28240,31647,41492 2ctzA 421 3.62e+01 1vc2A 331 3.87e+01 c.2.1.3,d.81.1.1 100555,100556 1vp8A 201 3.97e+01 1bw0A 416 3.98e+01 1bw0A c.67.1.1 34385 1erjA 393 4.06e+01 1erjA b.69.4.1 27660 2fliA 220 4.13e+01 1tuoA 464 4.22e+01 1mhsA 920 4.32e+01 i.18.1.1 79130 1jjfA 268 4.39e+01 c.69.1.2 66765 1xzpA 482 4.40e+01 1nzjA 298 4.66e+01 c.26.1.1 92377 1xrlA 293 4.69e+01 1jt2A 268 4.72e+01 c.69.1.2 71858 1b1xA 689 4.98e+01 1cb6A c.94.1.2,c.94.1.2 35865,35866 1m6dA 214 5.01e+01 d.3.1.1 84849 1o9hA 250 5.04e+01 c.66.1.29 86693 1b3qA 379 5.04e+01 1b3qA a.30.2.1,b.40.7.1,d.122.1.3 16993,25454,41112 1rxwA 336 5.08e+01 a.60.7.1,c.120.1.2 98059,98060 1hna 217 5.10e+01 1b8xA a.45.1.1,c.47.1.5 17604,32898 2c4jA 218 5.11e+01 1xw5A 217 5.13e+01 1ktdB 215 5.18e+01 b.1.1.2,d.19.1.1 72966,72967 2ctqA 112 5.34e+01 1o9gA 250 5.34e+01 c.66.1.29 86692 1hjkA 449 5.36e+01 1b8jA c.76.1.1 35006 1fngB 224 5.38e+01 1iakB b.1.1.2,d.19.1.1 59906,59907 1fneB 224 5.41e+01 1iakB b.1.1.2,d.19.1.1 59898,59899 1j5wA 298 5.41e+01 d.104.1.1 71589 1ieaB 228 5.42e+01 1iakB b.1.1.2,d.19.1.1 21632,38206 1ass 159 5.56e+01 1a6dA c.8.5.2 30818 1xqvA 293 5.56e+01 1nowA 507 5.57e+01 c.1.8.6,d.92.2.1 85936,85937 1o7aA 515 5.57e+01 c.1.8.6,d.92.2.1 92608,92609 2b4qA 276 5.57e+01 2gk1B 503 5.57e+01 1z4mA 197 5.62e+01 1xrrA 293 5.63e+01 1c9wA 315 5.67e+01 1frb c.1.7.1 28699 1rniA 216 5.70e+01 d.264.1.2 97663 2anhA 446 5.73e+01 1b8jA c.76.1.1 35004 1xroA 293 5.78e+01 1aliA 449 5.78e+01 1b8jA c.76.1.1 34996 1mtzA 293 5.80e+01 c.69.1.7 79467 1y6vA 449 5.81e+01 1uraA 446 5.81e+01 1b8jA c.76.1.1 35002 1kkeA 210 5.83e+01 b.21.1.2,b.83.1.2 68669,68670 1elxA 449 5.86e+01 1b8jA c.76.1.1 35026 1ajaA 449 5.86e+01 1b8jA c.76.1.1 35010 1elzA 449 5.90e+01 1b8jA c.76.1.1 35022 1elyA 449 5.90e+01 1b8jA c.76.1.1 35028 1ao5A 237 5.93e+01 5ptp b.47.1.2 26334 1xq6A 253 5.94e+01 1mvoA 136 5.96e+01 c.23.1.1 79513 1alkA 449 5.98e+01 1b8jA c.76.1.1 34994 1hqaA 449 5.98e+01 1b8jA c.76.1.1 34998 2fx0A 201 6.11e+01 6paxA 133 6.37e+01 6paxA a.4.1.5,a.4.1.5 64758,64759 1zzmA 259 6.40e+01 1kt2B 213 6.41e+01 b.1.1.2,d.19.1.1 72953,72954 1b74A 254 6.42e+01 1b74A c.78.2.1,c.78.2.1 35264,35265 1izmA 184 6.44e+01 a.199.1.1 90725 1ck1A 239 6.45e+01 b.40.2.2,d.15.6.1 70067,70068 1alhA 446 6.45e+01 1b8jA c.76.1.1 35016 1tygA 253 6.48e+01 c.1.31.1 107454 2ffhA 425 6.48e+01 1ng1 a.24.13.1,a.36.1.1,c.37.1.10 16965,17122,32276 2bryA 497 6.57e+01 1by8A 314 6.62e+01 1cs8A d.3.1.1 37083 1xm3A 264 6.65e+01 1y7aA 449 6.66e+01 1xg4A 295 6.67e+01 1mumA 295 6.77e+01 c.1.12.7 85108 2gsfA 373 6.79e+01 1ghhA 81 6.87e+01 1ghhA d.57.1.1 38940 1tqjA 230 6.90e+01 c.1.2.2 107228 1kvs 338 6.90e+01 1xel c.2.1.2 29799 1a1vA 476 6.98e+01 1heiA c.37.1.14,c.37.1.14 32467,32468 1vpzA 73 7.01e+01 1ddzA 496 7.07e+01 1ddzA c.53.2.1,c.53.2.1 33372,33373 1iebB 227 7.07e+01 1iakB b.1.1.2,d.19.1.1 21636,38210 1yfzA 205 7.12e+01 1vl8A 267 7.13e+01 c.2.1.2 108733 1szzA 177 7.14e+01 1ujqA 305 7.15e+01 c.1.12.7 99463 1jk0B 345 7.16e+01 a.25.1.2 63143 1az1 315 7.23e+01 1frb c.1.7.1 28677 1tk9A 188 7.28e+01 c.80.1.3 107082 1m0sA 219 7.30e+01 c.124.1.4,d.58.40.1 78351,78352 1y6hA 177 7.34e+01 1itvA 195 7.44e+01 b.66.1.1 76791 1a6dA 545 7.44e+01 1a6dA a.129.1.2,c.8.5.2,d.56.1.2 19488,30819,38936 2cw1A 65 7.53e+01 1f8yA 157 7.56e+01 1f8xA c.23.14.1 31395 1us7B 265 7.56e+01 a.205.1.1 99858 1aniA 446 7.81e+01 1b8jA c.76.1.1 35018 1udlA 98 7.81e+01 b.34.2.1 99212 1ro2A 216 7.87e+01 d.264.1.2 97665 1anjA 446 7.87e+01 1b8jA c.76.1.1 35008 1sjpA 504 8.06e+01 1rreA 200 8.07e+01 d.14.1.10 97791 1p6bA 336 8.08e+01 c.1.9.3 94163 1o8uA 257 8.14e+01 c.14.1.3 81194 1t9zA 197 8.24e+01 c.108.1.16 106728 1urhA 280 8.25e+01 c.46.1.2,c.46.1.2 99829,99830 1qe3A 489 8.26e+01 2bce c.69.1.1 34630 2agtA 319 8.27e+01 2braA 484 8.29e+01 1z3nA 319 8.33e+01 1xgdA 315 8.34e+01 1xqwA 293 8.34e+01 1b5pA 385 8.35e+01 c.67.1.1 90403 1ufhA 180 8.41e+01 d.108.1.1 88485 5bj3A 385 8.42e+01 c.67.1.1 100871 1el3A 316 8.43e+01 1frb c.1.7.1 28672 1abn 315 8.44e+01 1frb c.1.7.1 28683 1us0A 316 8.44e+01 c.1.7.1 99850 1ads 315 8.46e+01 1frb c.1.7.1 28671 5bj4A 385 8.50e+01 c.67.1.1 100875 1b5oA 385 8.52e+01 c.67.1.1 90401 1x0mA 403 8.67e+01 1crm 260 8.70e+01 2cba b.74.1.1 27816 2cab 261 8.71e+01 2cba b.74.1.1 27906 1ovyA 120 8.76e+01 c.55.4.1 93624 1p4sA 181 8.81e+01 c.37.1.1 94117 1r5vB 185 8.90e+01 b.1.1.2,d.19.1.1 97118,97119