# 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 1i9sA 210 6.15e-01 1i9sA c.45.1.1 62099 2c46A 241 6.34e-01 1jr7A 311 1.00e+00 b.82.2.3 63255 1tx4B 178 1.19e+00 1ctqA c.37.1.8 32045 1x3xA 82 1.28e+00 1kmqA 184 1.37e+00 c.37.1.8 84412 1uvzA 119 1.57e+00 1w4vA 119 1.58e+00 1z08A 170 2.63e+00 1nd7A 374 4.08e+00 d.148.1.1 91817 1lkxA 697 4.47e+00 c.37.1.9 73981 1t00A 112 4.73e+00 1wv2A 265 5.09e+00 2sas 185 5.37e+00 2sas a.39.1.5 17258 1vj0A 380 5.91e+00 b.35.1.2,c.2.1.1 100786,100787 2b2nA 344 5.98e+00 1kebA 108 6.36e+00 c.47.1.1 77341 1gc5A 467 6.43e+00 1gc5A c.72.1.3 60429 2trxA 108 6.51e+00 1thx c.47.1.1 32719 1ll2A 333 7.33e+00 c.68.1.14 74005 1db1A 259 8.30e+00 1db1A a.123.1.1 19329 1yqfA 203 8.65e+00 1y60A 169 8.99e+00 1aszB 490 9.80e+00 1b8aA b.40.4.1,d.104.1.1 25241,40762 1fuoA 467 9.83e+00 1furA a.127.1.1 19411 1fuqA 472 9.87e+00 1furA a.127.1.1 19405 1mc2A 122 1.01e+01 a.133.1.2 74622 1furA 467 1.03e+01 1furA a.127.1.1 19403 1n6bA 473 1.12e+01 a.104.1.1 85359 1ypqA 135 1.14e+01 2c5qA 240 1.16e+01 1nr6A 473 1.19e+01 a.104.1.1 92085 1ie9A 259 1.20e+01 1db1A a.123.1.1 62318 1asyA 490 1.25e+01 1b8aA b.40.4.1,d.104.1.1 25242,40763 1ky3A 182 1.35e+01 c.37.1.8 73193 1g8jB 133 1.45e+01 1g8jB b.33.1.1 24439 1w6sA 599 1.46e+01 2atxA 194 1.48e+01 1m7bA 184 1.50e+01 c.37.1.8 74572 1f7zA 233 1.62e+01 5ptp b.47.1.2 59681 1gmuA 143 1.77e+01 b.107.1.1,d.58.38.1 65335,65336 1aipE 405 1.84e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25699,25739,32134 1aipA 405 1.84e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25697,25737,32132 1s8fA 177 1.95e+01 c.37.1.8 105370 1ha3A 405 1.99e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 1i7hA 111 1.99e+01 d.15.4.1 71122 2c78A 405 2.01e+01 1exmA 405 2.01e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 1s6cA 183 2.02e+01 a.39.1.5 98594 1ar72 272 2.10e+01 1aym2 1hxs2 272 2.18e+01 2ad6A 571 2.20e+01 2a5dA 175 2.21e+01 1oi2A 366 2.34e+01 c.119.1.2 103802 1gmwA 143 2.34e+01 b.107.1.1,d.58.38.1 65347,65348 1g72A 573 2.43e+01 4aahA b.70.1.1 27680 1g8kB 133 2.48e+01 1g8jB b.33.1.1 24435 1thx 115 2.50e+01 1thx c.47.1.1 32732 1t1vA 93 2.53e+01 c.47.1.14 106278 4aahA 571 2.55e+01 4aahA b.70.1.1 27678 1w9gA 104 2.66e+01 1wz7A 111 2.69e+01 1ukvY 206 2.75e+01 c.37.1.8 107918 1vfgA 390 2.81e+01 a.173.1.1,d.218.1.4 108570,108571 1xzoA 174 2.82e+01 2bcgY 206 2.84e+01 1v4pA 157 2.85e+01 1v7oA 165 2.86e+01 d.67.1.2 100480 1s9rA 410 2.89e+01 d.126.1.4 98758 1xxsA 122 2.90e+01 1lxyA 409 2.91e+01 d.126.1.4 91154 1y4lA 121 2.93e+01 1ppa 121 2.95e+01 1poa a.133.1.2 19550 1htoA 477 2.96e+01 d.15.9.1,d.128.1.1 70987,70988 2g0qA 173 2.98e+01 1efuA 385 3.07e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25682,25722,32115 2bvcA 486 3.16e+01 1vgjA 184 3.32e+01 1s8iA 121 3.35e+01 a.133.1.2 98735 3rabA 169 3.39e+01 1ctqA c.37.1.8 32018 1rsgA 516 3.46e+01 1wmsA 177 3.50e+01 c.37.1.8 109414 1e66A 543 3.50e+01 c.69.1.1 59291 1s1eA 224 3.50e+01 1vxrA 537 3.52e+01 2bce c.69.1.1 34595 1vpi 122 3.53e+01 1poa a.133.1.2 19559 2ganA 190 3.56e+01 1d3gA 367 3.66e+01 1d3gA c.1.4.1 28600 1acj 537 3.69e+01 2bce c.69.1.1 34588 1x8gA 227 3.70e+01 1d3hA 367 3.71e+01 1d3gA c.1.4.1 28601 1ofzA 312 3.73e+01 b.68.8.1 86978 2b0mA 393 3.74e+01 1ponB 36 3.77e+01 1ponB 1rh9A 373 3.87e+01 1htqA 477 3.89e+01 d.15.9.1,d.128.1.1 71035,71036 2ffqA 171 3.98e+01 2iu4A 336 4.16e+01 1zkiA 133 4.21e+01 1anb 223 4.22e+01 5ptp b.47.1.2 25998 1je5A 206 4.22e+01 1je5A b.40.4.7 62909 2c2hA 192 4.24e+01 1anc 223 4.27e+01 5ptp b.47.1.2 25982 1cwxA 44 4.32e+01 1cwxA j.54.1.1 46338 1x8hA 228 4.32e+01 1jltA 122 4.35e+01 a.133.1.2 66867 1mnd 762 4.39e+01 1lvk b.34.3.1,c.37.1.9 24591,32188 1amhA 223 4.40e+01 5ptp b.47.1.2 25994 3pviA 157 4.45e+01 3pviA c.52.1.6 33300 1j0fA 100 4.48e+01 c.47.1.14 90739 1up8A 598 4.49e+01 a.111.1.2 99710 1dw9A 156 4.55e+01 1dw9A a.35.1.4,d.72.1.1 17065,39596 1dwkA 156 4.55e+01 1dw9A a.35.1.4,d.72.1.1 17075,39606 1t3yA 141 4.58e+01 1ie5A 107 4.63e+01 b.1.1.4 62312 1eyuA 157 4.69e+01 3pviA c.52.1.6 33304 2au3A 407 4.69e+01 1uumA 372 4.70e+01 c.1.4.1 100010 1lvk 762 4.77e+01 1lvk b.34.3.1,c.37.1.9 24576,32173 2pviA 157 4.77e+01 3pviA c.52.1.6 33302 1qhbA 596 5.05e+01 1qhbA a.111.1.2 19055 1vfqA 143 5.09e+01 1q4uA 151 5.11e+01 d.38.1.5 95828 1poiA 317 5.15e+01 1poiA c.124.1.2 34153 1v58A 241 5.18e+01 c.47.1.9,d.17.3.1 108371,108372 1an0A 190 5.34e+01 1ctqA c.37.1.8 32066 1a4rA 191 5.40e+01 1ctqA c.37.1.8 32063 1t2lA 141 5.59e+01 1efcA 393 5.61e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25680,25720,32113 1p0hA 318 5.66e+01 d.108.1.1 93866 1ua4A 455 5.85e+01 c.72.1.3 99128 1am4D 177 6.13e+01 1ctqA c.37.1.8 32068 1j96A 323 6.15e+01 c.1.7.1 71616 1ucpA 91 6.32e+01 a.77.1.5 99186 1z2aA 168 6.64e+01 4ptp 223 6.65e+01 5ptp 223 6.65e+01 5ptp b.47.1.2 25831 1nf3A 195 6.67e+01 c.37.1.8 85594 1dpo 223 6.69e+01 5ptp b.47.1.2 25975 1and 223 6.72e+01 5ptp b.47.1.2 25985 1d0yA 761 6.96e+01 1lvk b.34.3.1,c.37.1.9 24581,32178 2d0iA 333 6.98e+01 1aqcA 172 6.99e+01 1x11A b.55.1.2 26983 1fcbA 511 7.09e+01 1gox c.1.4.1,d.120.1.1 28620,41087 1yzqA 170 7.15e+01 1fouA 309 7.31e+01 1fouA e.27.1.1 43364 1vom 762 7.35e+01 1lvk b.34.3.1,c.37.1.9 24577,32174 1lxnA 99 7.36e+01 d.58.48.1 84737 1hj9A 226 7.44e+01 b.47.1.2 65845 2abk 211 7.47e+01 2abk a.96.1.1 18743 1ovnA 248 7.47e+01 a.71.1.1,c.47.1.7 93602,93603 1dt6A 473 7.53e+01 1dt6A a.104.1.1 18977 1qlaB 239 7.58e+01 1qlaB a.1.2.1,d.15.4.2 15679,37707 2c27A 315 7.58e+01 1bvzA 585 7.66e+01 1bvzA b.1.18.2,b.71.1.1,c.1.8.1 21856,27783,28770 1x3aA 100 7.66e+01 1bvoA 175 7.94e+01 1a3qA b.2.5.3 22457 1b1xA 689 7.99e+01 1cb6A c.94.1.2,c.94.1.2 35865,35866 1pvuA 154 8.00e+01 3pviA c.52.1.6 33306 3rp2A 224 8.03e+01 1a7s b.47.1.2 26298 1eft 405 8.09e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25688,25728,32123 1s1pA 331 8.15e+01 c.1.7.1 98350 1qidA 537 8.24e+01 2bce c.69.1.1 34593 1sqhA 312 8.40e+01 d.108.1.5 98966 1zvdA 380 8.41e+01 1q7lB 88 8.44e+01 1jnrB 150 8.50e+01 d.58.1.5 66969 1ea5A 537 8.52e+01 2bce c.69.1.1 34592 1pvtA 238 8.56e+01 c.74.1.1 95189 1b37B 472 8.71e+01 1b37B c.3.1.2,d.16.1.5 30390,37954 1yy5B 513 8.74e+01