# List of top-scoring protein chains for t2k-100-30-dssp-ehl2-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 2g03A 194 4.70e-18 2f6sA 201 4.91e-17 1d5rA 324 2.60e-02 1d5rA b.7.1.1,c.45.1.1 23181,32697 1sxjE 354 9.88e-02 a.80.1.1,c.37.1.20 106089,106090 1f16A 192 2.21e+00 1f16A f.1.4.1 43400 1exrA 148 3.42e+00 1cll a.39.1.5 17299 1osa 148 4.42e+00 1cll a.39.1.5 17300 1gadO 330 5.56e+00 1dssG c.2.1.3,d.81.1.1 29950,39865 1a4sA 503 5.73e+00 1bpwA c.82.1.1 35361 2bgxA 261 5.75e+00 2bh7A 261 5.78e+00 1vjkA 98 6.27e+00 d.15.3.1 108631 1bgj 394 6.28e+00 1pbe c.3.1.2,d.16.1.2 30352,37883 1bpwA 503 6.73e+00 1bpwA c.82.1.1 35365 1ykjA 394 6.95e+00 1omwA 689 6.96e+00 a.91.1.1,b.55.1.1,d.144.1.7 87086,87087,87088 1pbe 394 7.35e+00 1pbe c.3.1.2,d.16.1.2 30338,37869 2phh 394 7.40e+00 1pbe c.3.1.2,d.16.1.2 30353,37884 1ku2A 241 7.51e+00 a.4.13.1,a.177.1.1 83096,83097 1u00A 227 8.59e+00 1xxqA 161 8.69e+00 1ggzA 148 8.76e+00 a.39.1.5 70176 1cj3A 392 1.02e+01 1pbe c.3.1.2,d.16.1.2 30347,37878 2d0sA 79 1.04e+01 1k0iA 394 1.11e+01 c.3.1.2,d.16.1.2 67942,67943 1nekA 588 1.30e+01 a.7.3.1,c.3.1.4,d.168.1.1 80426,80427,80428 1vkcA 158 1.31e+01 2g7jA 124 1.34e+01 2aynA 404 1.36e+01 1ap4 89 1.41e+01 1ncx a.39.1.5 17253 1jotA 133 1.42e+01 1jotA 1a16 440 1.49e+01 1az9 c.55.2.1,d.127.1.1 33548,41165 1az9 457 1.57e+01 1az9 c.55.2.1,d.127.1.1 33547,41164 1db1A 259 1.57e+01 1db1A a.123.1.1 19329 1p0iA 529 1.80e+01 c.69.1.1 93867 1gz6A 319 1.81e+01 c.2.1.2 76410 1avc 673 1.81e+01 1avc a.65.1.1,a.65.1.1 18178,18179 2fq3A 104 1.84e+01 2avpA 70 1.87e+01 2bwvA 440 1.88e+01 1h2rL 534 1.88e+01 1h2rL e.18.1.1 43298 1wl9A 440 1.88e+01 1ie9A 259 1.92e+01 1db1A a.123.1.1 62318 1wuiL 534 1.93e+01 1ubkL 534 1.94e+01 e.18.1.1 88422 1jacC 133 1.96e+01 1jotA 1ku8A 133 1.96e+01 1m26A 133 1.96e+01 1zbqA 327 1.96e+01 1uxtA 501 2.02e+01 c.82.1.1 108125 1jacA 133 2.05e+01 1jotA 1y71A 130 2.06e+01 2fjbA 643 2.09e+01 1p8xA 344 2.10e+01 d.109.1.1,d.109.1.1,d.109.1.1 94365,94366,94367 1y5eA 169 2.18e+01 1jnrA 643 2.19e+01 a.7.3.1,c.3.1.4,d.168.1.1 66966,66967,66968 1y1xA 191 2.21e+01 1vh6A 145 2.22e+01 a.24.19.1 100644 1h2aL 567 2.36e+01 1h2rL e.18.1.1 43299 1t01A 255 2.37e+01 a.24.9.1,a.24.9.1 106188,106189 1fds 327 2.43e+01 1fds c.2.1.2 29838 1ugxA 133 2.44e+01 1u46A 291 2.53e+01 d.144.1.7 107656 1zwwA 256 2.56e+01 1o04A 500 2.60e+01 c.82.1.1 86508 1zvzA 279 2.61e+01 1tueA 212 2.64e+01 c.37.1.20 107323 1ag8A 499 2.70e+01 1bpwA c.82.1.1 35341 1gt91 357 2.73e+01 2bifA 469 2.74e+01 1bif c.37.1.7,c.60.1.4 31963,34009 1t1gA 364 2.75e+01 c.41.1.2 106246 2he7A 283 2.77e+01 1bpb 248 2.78e+01 1bpyA a.60.12.1,d.218.1.2 75811,75812 2di4A 238 2.81e+01 1grj 158 2.84e+01 1grj a.2.1.1,d.26.1.2 15691,38433 1bpyA 335 2.84e+01 1bpyA a.60.6.1,a.60.12.1,d.218.1.2 17980,75819,75820 3bifA 468 2.86e+01 1bif c.37.1.7,c.60.1.4 31962,34008 1e2aA 105 2.89e+01 1e2aA a.7.2.1 16322 1z6oA 212 2.96e+01 2rusB 490 2.97e+01 1burA c.1.14.1,d.58.9.1 29385,39291 1f7uA 607 3.04e+01 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 59673,59674,59675 1vqzA 341 3.04e+01 1gqyA 475 3.11e+01 c.5.1.1,c.59.1.1,c.72.2.1 83305,83306,83307 5rubA 490 3.19e+01 1burA c.1.14.1,d.58.9.1 29382,39288 2ffuA 501 3.26e+01 1rpl 251 3.26e+01 1bpyA a.60.12.1,d.218.1.2 75933,75934 1bif 469 3.27e+01 1bif c.37.1.7,c.60.1.4 31961,34003 2f1nA 262 3.37e+01 1oglA 283 3.49e+01 a.204.1.1 92922 2g38A 99 3.50e+01 1rkeA 262 3.63e+01 a.24.9.1,a.24.9.1 97608,97609 1avsA 90 3.64e+01 1cll a.39.1.5 17226 1d0iA 156 3.67e+01 2dhqA c.23.13.1 31383 1tv9A 335 3.71e+01 1gtzA 156 3.85e+01 c.23.13.1 70539 1ywfA 296 3.92e+01 1sqzA 121 3.97e+01 a.133.1.2 98975 1tk4A 121 3.97e+01 a.133.1.2 107073 1tj9A 121 4.06e+01 a.133.1.2 107015 1rusA 490 4.07e+01 1burA c.1.14.1,d.58.9.1 29388,39294 1zwpA 121 4.09e+01 2g58A 121 4.09e+01 1ireB 228 4.09e+01 b.34.4.4 76770 1ugpB 226 4.09e+01 b.34.4.4 107832 1fv0A 121 4.12e+01 a.133.1.2 70147 1kpmA 121 4.12e+01 a.133.1.2 72844 1wdcB 156 4.13e+01 1wdcB a.39.1.5 17302 2fmpA 335 4.15e+01 2b7kA 200 4.15e+01 1zs3A 182 4.33e+01 1iugA 352 4.38e+01 c.67.1.3 90699 1fqvJ 149 4.41e+01 1fqvD a.157.1.1,d.42.1.1 19266,38670 1yiiA 320 4.45e+01 1mioA 534 4.57e+01 1qguA c.92.2.3 35601 1fjeB 175 4.58e+01 1fj7A d.58.7.1,d.58.7.1 39210,39211 2fcfA 103 4.64e+01 1fqvD 149 4.65e+01 1fqvD a.157.1.1,d.42.1.1 19263,38667 1vprA 374 4.65e+01 1a8l 226 4.80e+01 1a8l c.47.1.2,c.47.1.2 32777,32778 1rypD 241 4.83e+01 1rypD d.153.1.4 41935 1o1zA 234 4.84e+01 c.1.18.3 86555 3cln 148 4.95e+01 1cll a.39.1.5 17286 1fj7A 101 5.00e+01 1fj7A d.58.7.1 39209 2d28C 149 5.09e+01 1sr4B 261 5.09e+01 d.151.1.1 105949 1s9pA 227 5.11e+01 a.123.1.1 105384 1zq7A 207 5.12e+01 2e2aA 105 5.18e+01 a.7.2.1 88499 3proC 166 5.19e+01 3proC d.52.1.1,d.52.1.1 38812,38813 1arv 344 5.19e+01 1arv a.93.1.1 18590 1aru 344 5.19e+01 1arv a.93.1.1 18589 1mc2A 122 5.20e+01 a.133.1.2 74622 1hsr 344 5.21e+01 1arv a.93.1.1 18592 1ovnA 248 5.29e+01 a.71.1.1,c.47.1.7 93602,93603 1x0rA 249 5.32e+01 2f3yA 148 5.32e+01 1z6fA 363 5.35e+01 1nzoA 363 5.37e+01 b.105.1.1,e.3.1.1 92383,92384 1kk8B 139 5.41e+01 a.39.1.5 77430 1v7bA 185 5.55e+01 2cwcA 303 5.60e+01 1wm5A 208 5.67e+01 1zthA 258 5.74e+01 1oheA 348 5.75e+01 c.45.1.1,c.45.1.1 87013,87014 1w53A 84 5.75e+01 a.186.1.2 109175 1fgyA 127 5.78e+01 1faoA b.55.1.1 26976 1p3dA 475 5.79e+01 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1n0uA 842 5.83e+01 b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1,d.58.11.1 79757,79758,79759,79760,79761 1lycA 343 5.86e+01 a.93.1.1 74344 1hh8A 213 5.88e+01 1e96B a.118.8.1 61042 1fpoA 171 5.92e+01 1fpoA a.2.3.1,a.23.1.1 15693,16487 1dfoA 417 5.93e+01 1bj4A c.67.1.4 34480 1e96B 203 5.95e+01 1e96B a.118.8.1 19211 1uddA 226 5.96e+01 a.132.1.3 107776 1s9rA 410 6.14e+01 d.126.1.4 98758 1tq4A 413 6.14e+01 c.37.1.8 107201 1j08A 226 6.14e+01 c.47.1.2,c.47.1.2 83855,83856 1nj4A 363 6.16e+01 b.105.1.1,e.3.1.1 80545,80546 1qhbA 596 6.16e+01 1qhbA a.111.1.2 19055 3thiA 371 6.21e+01 2thiA c.94.1.1 35792 1ytzT 107 6.24e+01 1n1bA 549 6.26e+01 a.102.4.1,a.128.1.3 79799,79800 1r26A 125 6.30e+01 c.47.1.1 96847 1jeqB 565 6.40e+01 1jeqB b.131.1.2,c.62.1.4 90368,90369 1ydiA 263 6.44e+01 2thiA 379 6.48e+01 2thiA c.94.1.1 35794 2cw9A 194 6.50e+01 1m5yA 408 6.53e+01 a.167.1.1,d.26.1.1,d.26.1.1 78664,78665,78666 1y60A 169 6.56e+01 1ala 321 6.59e+01 1avc a.65.1.1 18153 1ea2A 131 6.70e+01 d.17.4.3 64860 3proD 166 6.76e+01 3proC d.52.1.1,d.52.1.1 38814,38815 5abp 306 6.84e+01 8abp c.93.1.1 35651 1cjaA 342 6.97e+01 1cjaA d.144.1.3 41708 1rm4A 337 7.04e+01 c.2.1.3,d.81.1.1 105000,105001 1zac 90 7.05e+01 1ncx a.39.1.5 17236 1dw0A 112 7.06e+01 1dw0A a.3.1.1 15911 1lxyA 409 7.10e+01 d.126.1.4 91154 1y0kA 209 7.12e+01 1s9aA 257 7.15e+01 b.3.6.1 105379 2awdA 323 7.17e+01 1n62A 166 7.28e+01 a.56.1.1,d.15.4.2 80090,80091 1b3rA 431 7.30e+01 1b3rA c.2.1.4,c.23.12.3 30106,31366 1pu6A 218 7.33e+01 a.96.1.5 95123 1nom 248 7.37e+01 1bpyA a.60.12.1,d.218.1.2 75929,75930 2g39A 497 7.38e+01 1nq7A 244 7.38e+01 a.123.1.1 92047 2hbtA 247 7.40e+01 1p5tA 127 7.42e+01 b.55.1.2 94148 1w2wA 211 7.53e+01 c.124.1.5 109130 1cll 148 7.67e+01 1cll a.39.1.5 17263 1xwfA 431 7.67e+01 2c5kT 95 7.70e+01 1qadA 111 7.70e+01 1qadA d.93.1.1 40498 1c3d 294 7.71e+01 1c3d a.102.4.4 18874 3pflA 759 7.74e+01 1cm5A c.7.1.1 30673 1hwxA 501 7.75e+01 1hwyA c.2.1.7,c.58.1.1 30250,33898 1cm5A 759 7.79e+01 1cm5A c.7.1.1 30671 1na3A 91 7.80e+01 k.38.1.1 85481 1glaG 501 7.80e+01 1glcG c.55.1.4,c.55.1.4 33507,33508 2aabL 218 7.82e+01 1d4fA 431 7.85e+01 1b3rA c.2.1.4,c.23.12.3 30110,31370 1rkxA 357 7.94e+01 c.2.1.2 97631 2ge3A 170 7.94e+01 1wmiB 67 7.99e+01 1xdzA 240 8.01e+01 2f02A 323 8.01e+01 1h9oA 112 8.04e+01 1qadA d.93.1.1 60837 1bpe 335 8.07e+01 1bpyA a.60.6.1,a.60.12.1,d.218.1.2 18076,75815,75816 1pba 81 8.10e+01 1pytA d.58.3.1 39067 1vjrA 271 8.16e+01 c.108.1.14 100832 1jthA 82 8.23e+01 h.1.15.1 67270 2pflA 759 8.23e+01 1cm5A c.7.1.1 30675 1bfd 528 8.25e+01 1bfd c.31.1.3,c.36.1.5,c.36.1.9 31745,31801,31802 1g8iA 190 8.27e+01 1rec a.39.1.5 60363 1k4wA 252 8.43e+01 a.123.1.1 72068 1fxlA 167 8.45e+01 1b7fA d.58.7.1,d.58.7.1 39183,39184 1h2vC 771 8.49e+01 a.118.1.14,a.118.1.14,a.118.1.14 76592,76593,76594 1vp6A 138 8.49e+01 1au1A 166 8.54e+01 1ifa a.26.1.3 16889 1ayg 80 8.55e+01 451c a.3.1.1 15831 1wy7A 207 8.55e+01 1igwA 434 8.65e+01 c.1.12.7 62370 1bouB 302 8.68e+01 1bouB c.56.6.1 33859 1lghB 45 8.71e+01 1lghB f.3.1.1 43734 1ck7A 631 8.79e+01 1ck7A b.66.1.1,g.14.1.2,g.14.1.2,g.14.1.2,a.20.1.2,d.92.1.11 27538,44674,44675,44676,58969,58970 1rr7A 129 8.87e+01 a.4.1.14 105075 1h16A 759 8.90e+01 c.7.1.1 76462 1cr0A 296 8.98e+01 1cr1A c.37.1.11 32287 1uc8A 280 8.99e+01 c.30.1.6,d.142.1.7 99165,99166