# 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 2gvkA 317 4.05e-47 1omzA 293 1.81e-01 c.68.1.15 87093 1vggA 161 1.41e+00 1ag8A 499 1.55e+00 1bpwA c.82.1.1 35341 1o04A 500 1.82e+00 c.82.1.1 86508 1iq4A 179 1.96e+00 1iq4A d.77.1.1 62641 2gnpA 266 2.55e+00 1r6uA 437 2.68e+00 c.26.1.1 97163 2cb2A 318 3.14e+00 1lylA 504 3.46e+00 1lylA b.40.4.1,d.104.1.1 25261,40717 2c2aA 258 3.47e+00 1jeoA 180 3.73e+00 c.80.1.3 66611 1nriA 306 4.18e+00 c.80.1.3 86123 1inlA 296 4.93e+00 c.66.1.17 66220 1jq3A 296 5.32e+00 c.66.1.17 67079 1e1oA 504 5.38e+00 1lylA b.40.4.1,d.104.1.1 25258,40714 2chnA 716 6.02e+00 1nnhA 294 6.30e+00 d.104.1.1 92005 1tluA 130 6.73e+00 d.156.1.2 107139 1vr7A 142 6.98e+00 1z7gA 217 7.31e+00 1sc6A 404 7.81e+00 1vimA 200 7.86e+00 c.80.1.3 100758 1rlhA 173 8.42e+00 d.256.1.1 97646 1x7oA 287 8.47e+00 1zdzA 302 9.17e+00 1cxvA 164 9.20e+00 1ck7A d.92.1.11 40404 1fj2A 232 9.38e+00 1auoA c.69.1.14 34720 1ipaA 274 1.01e+01 c.116.1.1,d.79.3.3 71254,71255 1h8eG 272 1.06e+01 1e79G c.49.2.1 60756 2bl9A 238 1.08e+01 1wu7A 434 1.25e+01 1psdA 409 1.29e+01 1psdA c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 1b8yA 167 1.29e+01 1hfc d.92.1.11 40377 1sqiA 393 1.33e+01 d.32.1.3,d.32.1.3 105914,105915 2blcA 238 1.37e+01 1o12A 376 1.38e+01 b.92.1.5,c.1.9.10 80758,80759 1aurA 218 1.43e+01 1auoA c.69.1.14 34718 1x1nA 524 1.46e+01 1auoA 218 1.48e+01 1auoA c.69.1.14 34716 1hm5A 558 1.52e+01 c.80.1.2 76717 1m3sA 186 1.59e+01 c.80.1.3 78573 1umsA 174 1.63e+01 1hfc d.92.1.11 40368 2ki5A 366 1.64e+01 1qhiA c.37.1.1 31862 1xkpC 143 1.67e+01 1rwzA 245 1.69e+01 d.131.1.2,d.131.1.2 98005,98006 1hy7A 173 1.71e+01 d.92.1.11 65957 1wvqA 167 1.72e+01 2bkyX 89 1.76e+01 1atiA 505 1.93e+01 1atiA c.51.1.1,d.104.1.1 33196,40745 1t0tV 248 2.21e+01 d.58.4.10 106229 1fmaE 150 2.26e+01 1fmaE d.41.5.1 38630 2b25A 336 2.47e+01 1inp 400 2.49e+01 1inp e.7.1.1 42972 1jyhA 157 2.56e+01 d.60.1.3 71956 1ni4B 341 2.58e+01 c.36.1.7,c.48.1.2 85729,85730 1dqsA 393 2.61e+01 1dqsA e.22.1.1 43347 1atiB 505 2.63e+01 1atiA c.51.1.1,d.104.1.1 33197,40746 1w5fA 353 2.63e+01 1dapA 320 2.85e+01 1dapA c.2.1.3,d.81.1.3 30053,39968 1e2kA 331 2.88e+01 1qhiA c.37.1.1 31854 2blnA 305 2.90e+01 1adqA 206 3.00e+01 1igtB b.1.1.2,b.1.1.2 21518,21519 1tz0A 114 3.09e+01 d.58.4.5 107463 1kmvA 186 3.10e+01 c.71.1.1 72757 1b26A 416 3.13e+01 1hwyA c.2.1.7,c.58.1.1 30232,33880 1a6r 471 3.16e+01 3gcb d.3.1.1 37033 1us5A 314 3.24e+01 c.94.1.1 99856 1z08A 170 3.25e+01 1xnaA 183 3.27e+01 1xnaA b.18.1.8 23773 1ri7A 171 3.35e+01 a.4.5.32,d.58.4.2 97504,97505 1o97D 320 3.35e+01 c.26.2.3,c.31.1.2 81233,81234 1dqrA 557 3.36e+01 1dqrA c.80.1.2 35305 1wxxA 382 3.36e+01 2ftrA 108 3.38e+01 1lcyA 325 3.48e+01 b.36.1.4,b.47.1.1 73834,73835 2govA 195 3.56e+01 1o7qA 289 3.67e+01 c.68.1.9 92626 1fm0E 150 3.67e+01 1fmaE d.41.5.1 38629 1zwtA 158 3.78e+01 1zid 268 3.81e+01 1eny c.2.1.2 29911 1nw3A 416 3.81e+01 c.66.1.31 86288 1toaA 313 4.02e+01 1toaA c.92.2.2 35598 1gggA 226 4.12e+01 1lst c.94.1.1 35817 1kimA 366 4.14e+01 1qhiA c.37.1.1 31864 1eny 268 4.15e+01 1eny c.2.1.2 29910 1gkkA 297 4.16e+01 c.69.1.2 65248 1wb4A 297 4.17e+01 3gcb 470 4.18e+01 3gcb d.3.1.1 37032 1t6cA 315 4.22e+01 c.55.1.8,c.55.1.8 106558,106559 1t4hA 290 4.26e+01 d.144.1.7 106420 1i1qA 520 4.26e+01 1qdlA d.161.1.1 61543 1je5A 206 4.28e+01 1je5A b.40.4.7 62909 2dri 271 4.30e+01 2dri c.93.1.1 35637 1f4pA 147 4.33e+01 5nul c.23.5.1 59651 1fpqA 372 4.33e+01 1fpqA a.4.5.29,c.66.1.12 59947,59948 1sg6A 393 4.34e+01 e.22.1.1 105522 1gpc 218 4.34e+01 1gpc b.40.4.7 25393 1v64A 108 4.36e+01 a.21.1.1 108392 2f1rA 171 4.41e+01 1kv7A 488 4.42e+01 b.6.1.3,b.6.1.3,b.6.1.3 68873,68874,68875 1rv9A 259 4.50e+01 d.194.1.2 105105 1vddA 228 4.52e+01 e.49.1.1 108519 1p1lA 102 4.57e+01 d.58.5.2 87695 1g3uA 214 4.62e+01 c.37.1.1 65132 2cg4A 152 4.65e+01 1e9lA 377 4.69e+01 1e9lA c.1.8.5,d.26.3.1 59395,59396 1ap8 213 4.73e+01 1ap8 d.86.1.1 40151 1gsoA 431 4.82e+01 1gsoA b.84.2.1,c.30.1.1,d.142.1.2 28240,31647,41492 1gklA 297 4.88e+01 c.69.1.2 65250 1r8gA 372 4.90e+01 d.128.1.3 104845 1ibsA 317 4.95e+01 c.61.1.2,c.61.1.2 66107,66108 2aq8A 269 4.96e+01 1a0qH 217 4.97e+01 1mfa b.1.1.1,b.1.1.2 20287,21279 1f06A 320 5.09e+01 1dapA c.2.1.3,d.81.1.3 59556,59557 1j5uA 136 5.11e+01 d.208.1.1 71584 1hfs 160 5.12e+01 1hfc d.92.1.11 40370 1ug1A 92 5.22e+01 b.34.2.1 99360 1bzyA 217 5.31e+01 1qk3A c.61.1.1 34071 1v7zA 260 5.33e+01 c.125.1.1 100488 1iatA 557 5.33e+01 1dqrA c.80.1.2 62123 1v4sA 455 5.39e+01 c.55.1.3,c.55.1.3 100309,100310 2ts1 419 5.46e+01 2ts1 c.26.1.1 31564 1kinA 366 5.46e+01 1pch 88 5.53e+01 1ptf d.94.1.1 40564 1buhB 79 5.59e+01 1puc d.97.1.1 40686 2bvfA 459 5.66e+01 1dlfL 113 5.69e+01 8fabA b.1.1.1 20382 1gcb 454 5.74e+01 3gcb d.3.1.1 37034 1hr6A 475 5.81e+01 1hr6A d.185.1.1,d.185.1.1 61164,61165 1g8oA 310 5.84e+01 1g8oA c.68.1.9 60375 1jm6A 407 5.86e+01 a.29.5.1,d.122.1.4 66876,66877 2bgiA 272 5.91e+01 1zejA 293 5.98e+01 1qhiA 366 6.11e+01 1qhiA c.37.1.1 31860 1i1gA 141 6.18e+01 a.4.5.32,d.58.4.2 65982,65983 1qznA 173 6.23e+01 b.2.2.2 104669 2b34A 199 6.24e+01 1b76A 442 6.25e+01 1atiA c.51.1.1,d.104.1.1 33198,40747 2ganA 190 6.29e+01 2cxnA 557 6.33e+01 1ireA 204 6.36e+01 d.149.1.1 76769 1z9bA 135 6.37e+01 2fnjB 118 6.47e+01 1gggB 226 6.53e+01 1lst c.94.1.1 35818 1u0fA 564 6.54e+01 1b8aA 438 6.56e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1fp1D 372 6.59e+01 1fpqA a.4.5.29,c.66.1.12 59939,59940 1j27A 102 6.64e+01 d.58.50.1 90778 1j2rA 199 6.71e+01 c.33.1.3 90788 1l3iA 192 6.73e+01 c.66.1.22 77676 3dapA 320 6.83e+01 1dapA c.2.1.3,d.81.1.3 30051,39966 1q3kA 259 6.88e+01 c.125.1.1 95693 1w9yA 319 6.98e+01 1souA 194 7.09e+01 c.124.1.6 105858 1rcf 169 7.24e+01 1rcf c.23.5.1 31170 4ts1A 319 7.25e+01 2ts1 c.26.1.1 31565 1xdzA 240 7.27e+01 1dkuA 317 7.38e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1bhjA 292 7.42e+01 1xvaA c.66.1.5 34189 1vkwA 218 7.55e+01 d.90.1.2 108695 1oboA 169 7.64e+01 c.23.5.1 86776 1x0pA 143 7.64e+01 1efdN 266 7.65e+01 1efdN c.92.2.1 35597 1vg8A 207 7.65e+01 c.37.1.8 108606 1f1uA 323 7.69e+01 d.32.1.3,d.32.1.3 83200,83201 1gtvA 214 7.71e+01 c.37.1.1 70537 1wvfA 520 7.76e+01 1a6jA 163 7.84e+01 1a6jA d.112.1.1 40915 1v8bA 479 7.92e+01 1id0A 152 7.98e+01 d.122.1.3 66111 1jh2A 99 8.01e+01 1ea7A 310 8.02e+01 c.41.1.1 70086 1jg1A 235 8.12e+01 c.66.1.7 66661 2faoA 309 8.14e+01 1mak 113 8.28e+01 8fabA b.1.1.1 19825 1xrjA 261 8.32e+01 1j58A 385 8.42e+01 b.82.1.2 71531 3bamB 213 8.53e+01 1bam c.52.1.3 33289 1rcy 151 8.58e+01 1rcy b.6.1.1 23018 1dgwA 178 8.62e+01 1dgwA b.82.1.2 28090 1nbwA 607 8.65e+01 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 1ruwA 69 8.69e+01 1xwnA 174 8.70e+01 1a3z 155 8.73e+01 1rcy b.6.1.1 23019 1wruA 379 8.74e+01 1tf4A 605 8.75e+01 1tf4A a.102.1.2,b.2.2.2 18827,22393 1b3bA 415 8.85e+01 1hwyA c.2.1.7,c.58.1.1 30244,33892 1ys4A 354 8.86e+01 1asyA 490 8.86e+01 1b8aA b.40.4.1,d.104.1.1 25242,40763 1tbd 134 8.93e+01 2tbd d.89.1.1 40240 1l6wA 220 8.98e+01 c.1.10.1 73632