# List of top-scoring protein chains for t2k-100-30-near-backbone-11-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 2ah5A 210 1.75e-03 1eexA 554 7.02e-01 1dioA c.1.19.3 29650 1r0dA 206 9.42e-01 a.216.1.1 104715 1dioA 554 9.47e-01 1dioA c.1.19.3 29656 1tjyA 316 1.30e+00 c.93.1.1 107062 1n7kA 234 1.55e+00 c.1.10.1 85374 1bd3A 243 1.86e+00 1bd3A c.61.1.1 34098 2aorA 223 1.86e+00 1lx8A 55 2.15e+00 a.6.1.7 84734 1tltA 319 2.27e+00 c.2.1.3,d.81.1.5 107135,107136 1rh6A 55 2.60e+00 a.6.1.7 104935 1pm6A 72 2.69e+00 a.6.1.7 94894 1sf8A 126 2.91e+00 d.271.1.1 105472 2go7A 207 2.94e+00 1vheA 373 2.98e+00 b.49.3.1,c.56.5.4 100669,100670 1uu1A 335 3.21e+00 c.67.1.1 99993 2grrB 170 3.23e+00 1cfe 135 3.48e+00 1cfe d.111.1.1 40913 1f8gA 384 4.14e+00 1sayA c.2.1.4,c.23.12.2 59695,59696 1a59 378 4.16e+00 1aj8A a.103.1.1 18902 1miwA 404 4.31e+00 a.173.1.1,d.218.1.4 79162,79163 1hyp 80 4.31e+00 1hyp a.52.1.1 17806 1q1vA 70 4.33e+00 a.159.4.1 104479 1z83A 196 4.46e+00 2bmjA 178 4.60e+00 1mumA 295 4.63e+00 c.1.12.7 85108 1bhdA 118 4.87e+00 1bkrA a.40.1.1 17398 1pu6A 218 4.99e+00 a.96.1.5 95123 1ezwA 349 5.25e+00 1ezwA c.1.16.3 29558 1yb5A 351 5.25e+00 1l7dA 384 5.26e+00 c.2.1.4,c.23.12.2 77774,77775 2abqA 306 5.41e+00 1nxuA 333 5.50e+00 c.122.1.1 86389 1dr8B 344 5.55e+00 1cnzA c.77.1.1 35052 1n82A 331 5.65e+00 c.1.8.3 91703 1oaoA 674 5.70e+00 e.26.1.2 86744 1qazA 351 5.72e+00 1qazA a.102.3.1 18848 1ipd 345 5.74e+00 1cnzA c.77.1.1 35038 1qsaA 618 5.80e+00 1qsaA a.118.5.1,d.2.1.6 19182,36988 1t5oA 351 6.02e+00 c.124.1.5 106459 1xaa 345 6.21e+00 1cnzA c.77.1.1 35033 1idm 343 6.38e+00 1cnzA c.77.1.1 35035 1sw5A 275 6.72e+00 c.94.1.1 106069 1sly 618 6.95e+00 1qsaA a.118.5.1,d.2.1.6 19184,36990 1wa3A 205 7.03e+00 1g6hA 257 7.07e+00 1gajA c.37.1.12 60318 1sw5B 275 7.14e+00 c.94.1.1 106070 2fhzB 108 7.35e+00 1bsg 266 7.58e+00 1btl e.3.1.1 42729 2bh1A 250 7.76e+00 2a8kA 108 8.12e+00 1hbnB 442 8.13e+00 1mroB a.89.1.1,d.58.31.2 60900,60901 1mroB 442 8.38e+00 1mroB a.89.1.1,d.58.31.2 18531,39449 1o0xA 262 8.53e+00 d.127.1.1 80755 1z67A 135 8.55e+00 1ujqA 305 8.88e+00 c.1.12.7 99463 1gajA 257 9.02e+00 1gajA c.37.1.12 60416 1b72B 87 9.20e+00 1akhA a.4.1.1 16001 1vlwA 217 9.32e+00 c.1.10.1 108868 1du6A 64 9.35e+00 1akhA a.4.1.1 16002 2f2eA 146 9.54e+00 1xg4A 295 1.01e+01 1pufB 73 1.03e+01 a.4.1.1 95132 1mq4A 272 1.07e+01 d.144.1.7 91391 2bnlA 136 1.07e+01 2gx9A 129 1.08e+01 2au5A 139 1.08e+01 1aoy 78 1.08e+01 1aoy a.4.5.3 16087 1j57A 143 1.11e+01 d.221.1.1 77079 1fseA 74 1.11e+01 1fseA a.4.6.2 60000 1vhqA 232 1.12e+01 c.23.16.2 100696 1k8qA 377 1.14e+01 c.69.1.6 72177 1kriA 186 1.18e+01 b.29.1.14 72897 1r6wA 322 1.21e+01 c.1.11.2,d.54.1.1 97165,97166 1ls9A 91 1.22e+01 a.3.1.1 78177 1oy1A 228 1.33e+01 c.23.16.2 87548 1stzA 338 1.34e+01 a.4.5.51,d.110.2.3 106009,106010 1fn9A 365 1.39e+01 1fn9A d.196.1.1 59894 1ea3A 164 1.41e+01 1aa7A a.95.1.1 59398 2gk3A 256 1.43e+01 1fhvA 323 1.45e+01 1fhuA c.1.11.2,d.54.1.1 29235,38879 2g7sA 194 1.47e+01 1b2vA 188 1.48e+01 1b2vA d.35.1.1 38532 1b8iB 63 1.50e+01 1akhA a.4.1.1 16011 1ut9A 609 1.55e+01 a.102.1.2,b.1.18.2 99912,99913 1f16A 192 1.55e+01 1f16A f.1.4.1 43400 1pgvA 197 1.56e+01 c.10.1.1 88073 1h1nA 305 1.56e+01 c.1.8.3 70855 1myo 118 1.57e+01 2myo d.211.1.1 19174 1t4bA 367 1.59e+01 c.2.1.3,d.81.1.1 106406,106407 1dt4A 73 1.62e+01 1dt4A d.51.1.1 38799 2myo 118 1.63e+01 2myo d.211.1.1 19175 1b7yA 350 1.63e+01 1pysA d.104.1.1 40776 1azwA 313 1.63e+01 1qtrA c.69.1.7 34658 1wteA 272 1.64e+01 1pysA 350 1.67e+01 1pysA d.104.1.1 40775 2g7lA 243 1.68e+01 1smbA 154 1.69e+01 d.111.1.1 105756 1dk0A 188 1.71e+01 1b2vA d.35.1.1 38530 1jwwA 80 1.72e+01 d.58.17.1 71919 1aa7A 158 1.73e+01 1aa7A a.95.1.1 18741 1qagA 226 1.73e+01 1qagA a.40.1.1,a.40.1.1 17400,17401 2fbqA 235 1.74e+01 1fqvJ 149 1.83e+01 1fqvD a.157.1.1,d.42.1.1 19266,38670 1fqvD 149 1.85e+01 1fqvD a.157.1.1,d.42.1.1 19263,38667 1q6aA 107 1.96e+01 a.186.1.1 95966 1syxB 86 1.99e+01 1w4xA 542 2.02e+01 c.3.1.5,c.3.1.5 109171,109172 1phnA 162 2.07e+01 1cpcA a.1.1.3 15641 1v32A 101 2.07e+01 a.42.1.1 100277 7icd 416 2.08e+01 1iso c.77.1.1 35072 1kr7A 110 2.10e+01 a.1.1.4 72890 2fnaA 357 2.15e+01 2fdrA 229 2.15e+01 1dtjA 76 2.15e+01 1dt4A d.51.1.1 38800 1vpbA 451 2.16e+01 1wveC 80 2.18e+01 1odkA 235 2.20e+01 c.56.2.1 86863 1g8fA 511 2.20e+01 1g8fA b.122.1.3,c.26.1.5,c.37.1.15 60348,60349,60350 1hqsA 423 2.23e+01 1iso c.77.1.1 61154 1b5tA 275 2.26e+01 1b5tA c.1.23.1 29676 1sqwA 188 2.26e+01 1nq6A 302 2.27e+01 c.1.8.3 92046 1fhuA 320 2.35e+01 1fhuA c.1.11.2,d.54.1.1 29234,38878 1yviA 149 2.35e+01 1kekA 1231 2.35e+01 c.36.1.8,c.36.1.12,c.48.1.3,c.64.1.1,d.58.1.5 68524,68525,68526,68527,68528 1zp4A 304 2.42e+01 1z00B 84 2.44e+01 1nwmX 142 2.45e+01 a.7.8.1 86301 1mp1A 111 2.48e+01 a.188.1.1 91382 1x3lA 440 2.50e+01 1big 37 2.50e+01 1sco g.3.7.2 44145 2b7nA 273 2.51e+01 1rh5A 436 2.58e+01 f.41.1.1 97464 1pb1A 416 2.60e+01 c.77.1.1 88014 1brmA 367 2.61e+01 1brmA c.2.1.3,d.81.1.1 30030,39945 2gtsA 86 2.62e+01 1v2zA 111 2.63e+01 a.186.1.1 108300 1txoA 237 2.64e+01 1yrkA 126 2.71e+01 1ku1A 230 2.73e+01 a.118.3.1 72996 1dvkA 173 2.75e+01 1dvkA a.72.1.1 18319 1a8uA 277 2.79e+01 1brt c.69.1.12 34703 1t5yA 190 2.80e+01 b.122.1.1,d.17.6.3 106495,106496 1iso 416 2.88e+01 1iso c.77.1.1 35065 2abbA 364 2.93e+01 2cx5A 158 2.94e+01 1i58A 189 3.01e+01 1b3qA d.122.1.3 61773 2b61A 377 3.02e+01 1pyfA 312 3.04e+01 c.1.7.1 95334 1n62A 166 3.06e+01 a.56.1.1,d.15.4.2 80090,80091 1c75A 71 3.06e+01 451c a.3.1.1 15796 2c3mA 1231 3.15e+01 1n9lA 109 3.15e+01 d.110.3.6 85468 2genA 197 3.15e+01 1diiC 80 3.24e+01 1diiC a.3.1.1 15925 1j5kA 89 3.24e+01 d.51.1.1 71565 1h6zA 913 3.27e+01 c.1.12.2,c.8.1.1,d.142.1.5 70906,70907,70908 1yf5L 254 3.32e+01 1gvoA 364 3.36e+01 c.1.4.1 76357 1v7rA 186 3.38e+01 c.51.4.1 100482 1cg2A 393 3.43e+01 1cg2A c.56.5.4,d.58.19.1 33844,39360 1bdyA 123 3.48e+01 1bdyA b.7.1.1 23190 1lfpA 249 3.48e+01 e.39.1.1 73885 1oeyA 83 3.51e+01 d.15.2.2 92800 1vypX 364 3.53e+01 c.1.4.1 108905 1vyrA 364 3.56e+01 c.1.4.1 108906 1k8kA 418 3.57e+01 c.55.1.1,c.55.1.1 68305,68306 1oz9A 150 3.62e+01 d.92.1.15 93808 1ihoA 283 3.64e+01 1ihoA c.26.1.4 62390 1o2dA 371 3.68e+01 e.22.1.2 86591 1cxyA 90 3.72e+01 1cyo d.120.1.1 41085 1hnr 47 3.74e+01 1hnr a.155.1.1 17896 1brt 277 3.75e+01 1brt c.69.1.12 34699 1dlyA 164 3.77e+01 1dlyA a.1.1.1 14983 1cyi 90 3.77e+01 1ctj a.3.1.1 15804 1fs1B 141 3.78e+01 1vcbB a.157.1.1,d.42.1.1 19252,38664 1h61A 364 3.82e+01 1oyc c.1.4.1 60657 1gln 468 3.84e+01 1gln a.97.1.1,c.26.1.1 18752,31588 1jjyA 636 3.86e+01 1jjyA 2b3hA 329 3.96e+01 1r0mA 375 4.01e+01 c.1.11.2,d.54.1.1 104747,104748 1cb0A 283 4.01e+01 1cb0A c.56.2.1 33790 1kpsB 171 4.02e+01 a.118.12.1 68787 3adk 195 4.06e+01 1zin c.37.1.1 31885 1o7xD 377 4.06e+01 a.103.1.1 81174 2b5rC 165 4.12e+01 1dw0A 112 4.15e+01 1dw0A a.3.1.1 15911 1qf5A 431 4.19e+01 1adeA c.37.1.10 32212 1wn0A 145 4.21e+01 1ym3A 215 4.24e+01 1w5tA 412 4.26e+01 4crxA 322 4.31e+01 4crxA a.60.9.1,d.163.1.1 18095,42155 1s72P 149 4.31e+01 a.94.1.1 105335 1f07A 321 4.32e+01 1ezwA c.1.16.3 59560 1nynA 131 4.36e+01 d.235.1.1 86410 1omhA 293 4.36e+01 d.89.1.5 93348 1sgt 223 4.40e+01 5ptp b.47.1.1 25814 2cvbA 188 4.41e+01 1jnyA 435 4.44e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1bomA 20 4.47e+01 1i6aA 219 4.48e+01 c.94.1.1 61827 1ugiA 84 4.52e+01 1ugiA d.17.5.1 38125 1kv4A 42 4.54e+01 j.4.1.3 73051 1jj2O 148 4.62e+01 1ffkM a.94.1.1 63100 1aa2 108 4.63e+01 1bkrA a.40.1.1 17395 1mioB 458 4.64e+01 1qguB c.92.2.3 35602 1jhdA 396 4.72e+01 b.122.1.3,c.26.1.5 66712,66713 1ukz 203 4.74e+01 1zin c.37.1.1 31840 2b49A 287 4.77e+01 1o7xB 377 4.79e+01 a.103.1.1 81172 1x79A 98 4.85e+01 1o7xC 377 4.88e+01 a.103.1.1 81173 1crxA 322 4.90e+01 4crxA a.60.9.1,d.163.1.1 18097,42157 1qj2A 166 4.96e+01 1qj2A 1gdvA 85 5.05e+01 1ctj a.3.1.1 60458 1j09A 468 5.05e+01 a.97.1.1,c.26.1.1 77025,77026 1jtgB 165 5.09e+01 d.98.1.1 67267 1broA 277 5.12e+01 1brt c.69.1.12 34700 1c4xA 285 5.13e+01 1c4xA c.69.1.10 34684 1a8p 258 5.16e+01 1fdr b.43.4.2,c.25.1.1 25654,31544 1vjvA 415 5.18e+01 d.3.1.9 108632 1i69A 219 5.21e+01 c.94.1.1 61825 1ryp1 222 5.22e+01 1ryp1 1gks 78 5.27e+01 1cc5 a.3.1.1 15909 1os8A 223 5.29e+01 b.47.1.1 93481 1kqrA 179 5.32e+01 b.29.1.14 72886 1gvfA 286 5.45e+01 c.1.10.2 70599 1o5kA 306 5.47e+01 c.1.10.1 92504 1ljoA 77 5.47e+01 b.38.1.1 73941 2a5vA 213 5.54e+01 1i1sA 96 5.56e+01 1bjaA a.4.5.9 16124 1g0uL 241 5.61e+01 d.153.1.4 41894 1c52 131 5.64e+01 1c52 a.3.1.1 15810 1allB 161 5.66e+01 1qgwC a.1.1.3 15648 2aenA 164 5.68e+01 1pbv 195 5.84e+01 1pbv a.118.3.1 19179 1uv7A 110 5.86e+01 d.67.4.1 100040 1e5mA 416 5.96e+01 1dd8A c.95.1.1,c.95.1.1 58973,58974 2aebA 322 6.04e+01 1hskA 326 6.06e+01 2mbr d.145.1.2,d.146.1.1 61241,61242 1vzsA 76 6.08e+01 f.45.1.1 108972 2bfgA 503 6.14e+01 1adeA 431 6.14e+01 1adeA c.37.1.10 32213 1qycA 308 6.26e+01 c.2.1.2 96581 1q3oA 109 6.27e+01 b.36.1.1 95700 1o08A 221 6.37e+01 c.108.1.6 86525 1cpcL 172 6.39e+01 1qgwC a.1.1.3 15646 1xkpA 246 6.39e+01 2cosA 54 6.47e+01 1bjaA 95 6.48e+01 1bjaA a.4.5.9 16122 1lrrA 131 6.49e+01 d.228.1.1 78165 1i6uA 130 6.49e+01 d.140.1.1 61850 1umgA 362 6.55e+01 d.280.1.1 107956 1tqyB 415 6.57e+01 c.95.1.1,c.95.1.1 107247,107248 1zzkA 82 6.69e+01 1aj4 161 6.73e+01 1ncx a.39.1.5 17244 1bkrA 109 6.75e+01 1bkrA a.40.1.1 17394 1eqcA 394 6.76e+01 1cz1A c.1.8.3 28811 1z7aA 308 6.79e+01 1khxA 227 6.79e+01 b.26.1.1 68631 1lkyA 77 6.83e+01 a.60.1.1 73985 1kbvA 327 6.86e+01 b.6.1.3,b.6.1.3 68395,68396 1qpoA 284 6.86e+01 1qpoA c.1.17.1,d.41.2.1 29561,38597 1g59A 468 6.86e+01 a.97.1.1,c.26.1.1 60257,60258 1vqoP 149 6.88e+01 1rtxA 123 6.90e+01 a.1.1.1 97827 1f1oA 431 6.92e+01 1f1oA a.127.1.1 19433 1b0pA 1231 6.99e+01 c.36.1.8,c.36.1.12,c.48.1.3,c.64.1.1,d.58.1.5 31831,31832,33104,34157,39003 2aq4A 434 7.01e+01 1y6vA 449 7.07e+01 1y2mA 716 7.09e+01 1i2sA 282 7.16e+01 e.3.1.1 71104 1p4oA 322 7.22e+01 d.144.1.7 87775 1hx0A 496 7.23e+01 b.71.1.1,c.1.8.1 61346,61347 1d3uB 201 7.24e+01 1aisB a.74.1.2,a.74.1.2 18386,18387 1vsgA 364 7.26e+01 1vsgA h.4.1.1 45782 1cz1A 394 7.29e+01 1cz1A c.1.8.3 28839 1jzxK 205 7.31e+01 i.1.1.2 67885 1qcrG 70 7.37e+01 1be3G f.23.13.1 43677 1kw4A 89 7.50e+01 a.60.1.2 73077 1raxA 115 7.52e+01 1lfdA d.15.1.5 37626 1hrhA 136 7.53e+01 1rthA c.55.3.1 33577 1fjeB 175 7.54e+01 1fj7A d.58.7.1,d.58.7.1 39210,39211 1te2A 226 7.60e+01 c.108.1.6 106792 1a8q 274 7.63e+01 1brt c.69.1.12 34702 1l1sA 113 7.64e+01 c.114.1.1 73484 1v6fA 151 7.73e+01 d.109.1.2 108395 2f7tA 227 7.73e+01 1olrA 224 7.73e+01 b.29.1.11 93330 1zdrA 164 7.73e+01 1cyj 90 7.76e+01 1ctj a.3.1.1 15805 1id1A 153 7.92e+01 1id1A c.2.1.9 62286 1v9yA 167 7.93e+01 d.110.3.2 108454 1wq3A 322 7.98e+01 1q1fA 151 8.07e+01 a.1.1.2 104476 1uhnA 189 8.08e+01 a.39.1.5 99399 1hlgA 371 8.11e+01 1hlgA c.69.1.6 34656 2c71A 216 8.11e+01 2cwcA 303 8.13e+01 1g63A 181 8.16e+01 1g5qA c.34.1.1 60299 1sw6A 327 8.17e+01 1sw6A d.211.1.1 19176 1bqv 110 8.18e+01 1bqv a.60.1.1 17932 1latA 82 8.20e+01 2nllB g.39.1.2 45122 2a6aA 218 8.20e+01 2coiA 386 8.20e+01 1a4mA 349 8.28e+01 1a4mA c.1.9.1 29014 1qf9A 194 8.36e+01 1zin c.37.1.1 31848 1elyA 449 8.36e+01 1b8jA c.76.1.1 35028 1su8A 636 8.44e+01 e.26.1.2 98999 1udsA 255 8.48e+01 d.14.1.4,d.101.1.1 99219,99220 2gdnA 267 8.57e+01 1lxdA 100 8.57e+01 1lfdA d.15.1.5 37624 1hvc 203 8.58e+01 1hvc b.50.1.1 26614 1kezA 300 8.64e+01 c.69.1.22 68546 1focA 132 8.72e+01 1c52 a.3.1.1 15812 1e1hB 174 8.82e+01 1lqxA 82 8.82e+01 d.120.1.1 78153 1aorA 605 8.84e+01 1b25A a.110.1.1,d.152.1.1 19042,41794 1jqhA 308 8.85e+01 d.144.1.7 71793 1ykwA 435 8.89e+01 1s69A 124 8.91e+01 a.1.1.1 105305